Citrus Sinensis ID: 041424

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------15
Protein Sequence
MKTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFCAIKVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVKVLLTIRDLFCTGMKLKDCKTLACYGVKDDRGVACFISDIC
Secondary Structure (PSIPRED)
ccEEEEEEEccccHHHHHHHHHHHccccccccEEEEcccccccccccccccccccccccccccEEEEEEEEEEEcEEEEccccccEEEEEEEEEEEEEEEEEEEHHHccccccEEEEEccEEEcccccccccccccccEEEEEEcccc
Secondary Structure Prediction (SSPRO)
ccEEEEEcccccEHHHHHHHHHHHHcccHHHEEEEEccEEcccccEcccccccHHHcccccccEEEEEEEcccccccccccccccccccccEEEEEEccccEEEEEEccccHHHHHHHccccccccccccHcccccccEEEEEEcccc
Coil and Loop (DISEMBL)
MKTVTLNVEKSETIKNLKGmvhekegtseDIQDLFFAGdrlmngrlidyedmalaspnvkresTMQLLFCAIKVLSisvkapsddiLKLKVKIFVKMLTEEIVKLKVKVLLTIRDLFCtgmklkdcktlacygvkddrgvaCFISDIC
Flexible Loop (DISEMBL)
mktvtlnveksetiknlkgmvhekegtseDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFCAIKVLsisvkapsddiLKLKVKIFVKMLTEEIVKLKVKVLLTIRDLFctgmklkdcktlacygvkddrgVACFISDIC
Low Complexity Region (SEG)
MKTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFCAIKVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVKVLLTIRDLFCTGMKLKDCKTLACYGVKDDRGVACFISDIC
Disordered region (IsUnstruct)
******************************IQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFCAIKVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVKVLLTIRDLFCTGMKLKDCKTLACYGVKDDRGVACFISD**
Disordered Region (DISOPRED)
MKTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFCAIKVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVKVLLTIRDLFCTGMKLKDCKTLACYGVKDDRGVACFISDIC
Disordered Region (DISEMBL)
MKTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFCAIKVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVKVLLTIRDLFCTGMKLKDCKTLACYGVKDDRGVACFISDIC
Disordered Region (DISPRO)
*KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFCAIKVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVKVLLTIRDLFCTGMKLKDCKTLACYGVKDDRGVACFISDIC
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MKTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFCAIKVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVKVLLTIRDLFCTGMKLKDCKTLACYGVKDDRGVACFISDIC
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	148	2.2.26 [Sep-21-2011]
P0CG84	377	Polyubiquitin (Fragment)	N/A	no	0.75	0.294	0.324	4e-11
P69309	305	Polyubiquitin OS=Avena fa	N/A	no	0.75	0.363	0.324	4e-11
P0CH05	458	Polyubiquitin OS=Petrosel	N/A	no	0.75	0.242	0.324	4e-11
P0CH04	458	Polyubiquitin OS=Petrosel	N/A	no	0.75	0.242	0.324	4e-11
P0CH32	382	Polyubiquitin 4 OS=Arabid	yes	no	0.75	0.290	0.324	4e-11
P69315	305	Polyubiquitin (Fragment)	N/A	no	0.75	0.363	0.324	4e-11
Q3E7T8	305	Polyubiquitin 14 OS=Arabi	no	no	0.75	0.363	0.324	4e-11
P69325	305	Polyubiquitin OS=Glycine	no	no	0.75	0.363	0.324	4e-11
P69322	381	Polyubiquitin OS=Pisum sa	N/A	no	0.75	0.291	0.324	4e-11
P0CH33	229	Polyubiquitin 11 OS=Arabi	no	no	0.75	0.484	0.324	4e-11

>sp|P0CG84|UBI4P_NICSY Polyubiquitin (Fragment) OS=Nicotiana sylvestris GN=UBI4 PE=2 SV=1

 Score = 67.0 bits (162), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 49/151 (32%), Positives = 74/151 (49%), Gaps = 40/151 (26%)

Query: 2   KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKR 61
           KT+TL VE S+TI N+K  + +KEG   D Q L FAG +L +GR        LA  N+++
Sbjct: 7   KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGR-------TLADYNIQK 59

Query: 62  ESTMQLLFCAIKVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVKVLLTI-------- 113
           EST+ L+                  L+  ++IFVK LT + + L+V+   TI        
Sbjct: 60  ESTLHLVLR----------------LRGGMQIFVKTLTGKTITLEVESSDTIDNVKAKIQ 103

Query: 114 ---------RDLFCTGMKLKDCKTLACYGVK 135
                    + L   G +L+D +TLA Y ++
Sbjct: 104 DKEGIPPDQQRLIFAGKQLEDGRTLADYNIQ 134

Ubiquitin exists either covalently attached to another protein, or free (unanchored). When covalently bound, it is conjugated to target proteins via an isopeptide bond either as a monomer (monoubiquitin), a polymer linked via different Lys residues of the ubiquitin (polyubiquitin chains) or a linear polymer linked via the initiator Met of the ubiquitin (linear polyubiquitin chains). Polyubiquitin chains, when attached to a target protein, have different functions depending on the Lys residue of the ubiquitin that is linked: Lys-6-linked may be involved in DNA repair; Lys-11-linked is involved in ERAD (endoplasmic reticulum-associated degradation) and in cell-cycle regulation; Lys-29-linked is involved in lysosomal degradation; Lys-33-linked is involved in kinase modification; Lys-48-linked is involved in protein degradation via the proteasome; Lys-63-linked is involved in endocytosis, DNA-damage responses as well as in signaling processes leading to activation of the transcription factor NF-kappa-B. Linear polymer chains formed via attachment by the initiator Met lead to cell signaling. Ubiquitin is usually conjugated to Lys residues of target proteins, however, in rare cases, conjugation to Cys or Ser residues has been observed. When polyubiquitin is free (unanchored-polyubiquitin), it also has distinct roles, such as in activation of protein kinases, and in signaling.
Nicotiana sylvestris (taxid: 4096)

>sp|P69309|UBIQP_AVEFA Polyubiquitin OS=Avena fatua PE=2 SV=2

 Score = 67.0 bits (162), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 49/151 (32%), Positives = 74/151 (49%), Gaps = 40/151 (26%)

Query: 2   KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKR 61
           KT+TL VE S+TI N+K  + +KEG   D Q L FAG +L +GR        LA  N+++
Sbjct: 11  KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGR-------TLADYNIQK 63

Query: 62  ESTMQLLFCAIKVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVKVLLTI-------- 113
           EST+ L+                  L+  ++IFVK LT + + L+V+   TI        
Sbjct: 64  ESTLHLVLR----------------LRGGMQIFVKTLTGKTITLEVESSDTIDNVKAKIQ 107

Query: 114 ---------RDLFCTGMKLKDCKTLACYGVK 135
                    + L   G +L+D +TLA Y ++
Sbjct: 108 DKEGIPPDQQRLIFAGKQLEDGRTLADYNIQ 138

Ubiquitin exists either covalently attached to another protein, or free (unanchored). When covalently bound, it is conjugated to target proteins via an isopeptide bond either as a monomer (monoubiquitin), a polymer linked via different Lys residues of the ubiquitin (polyubiquitin chains) or a linear polymer linked via the initiator Met of the ubiquitin (linear polyubiquitin chains). Polyubiquitin chains, when attached to a target protein, have different functions depending on the Lys residue of the ubiquitin that is linked: Lys-48-linked is involved in protein degradation via the proteasome. Linear polymer chains formed via attachment by the initiator Met lead to cell signaling. Ubiquitin is usually conjugated to Lys residues of target proteins, however, in rare cases, conjugation to Cys or Ser residues has been observed. When polyubiquitin is free (unanchored-polyubiquitin), it also has distinct roles, such as in activation of protein kinases, and in signaling.

Avena fatua (taxid: 4499)

>sp|P0CH05|UBI2P_PETCR Polyubiquitin OS=Petroselinum crispum GN=PCUBI4-2 PE=3 SV=1

 Score = 67.0 bits (162), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 49/151 (32%), Positives = 74/151 (49%), Gaps = 40/151 (26%)

Query: 2   KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKR 61
           KT+TL VE S+TI N+K  + +KEG   D Q L FAG +L +GR        LA  N+++
Sbjct: 11  KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGR-------TLADYNIQK 63

Query: 62  ESTMQLLFCAIKVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVKVLLTI-------- 113
           EST+ L+                  L+  ++IFVK LT + + L+V+   TI        
Sbjct: 64  ESTLHLVLR----------------LRGGMQIFVKTLTGKTITLEVESSDTIDNVKAKIQ 107

Query: 114 ---------RDLFCTGMKLKDCKTLACYGVK 135
                    + L   G +L+D +TLA Y ++
Sbjct: 108 DKEGIPPDQQRLIFAGKQLEDGRTLADYNIQ 138

Ubiquitin exists either covalently attached to another protein, or free (unanchored). When covalently bound, it is conjugated to target proteins via an isopeptide bond either as a monomer (monoubiquitin), a polymer linked via different Lys residues of the ubiquitin (polyubiquitin chains) or a linear polymer linked via the initiator Met of the ubiquitin (linear polyubiquitin chains). Polyubiquitin chains, when attached to a target protein, have different functions depending on the Lys residue of the ubiquitin that is linked: Lys-48-linked is involved in protein degradation via the proteasome. Linear polymer chains formed via attachment by the initiator Met lead to cell signaling. Ubiquitin is usually conjugated to Lys residues of target proteins, however, in rare cases, conjugation to Cys or Ser residues has been observed. When polyubiquitin is free (unanchored-polyubiquitin), it also has distinct roles, such as in activation of protein kinases, and in signaling.

Petroselinum crispum (taxid: 4043)

>sp|P0CH04|UBI1P_PETCR Polyubiquitin OS=Petroselinum crispum GN=PCUBI4-1 PE=2 SV=1

 Score = 67.0 bits (162), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 49/151 (32%), Positives = 74/151 (49%), Gaps = 40/151 (26%)

Query: 2   KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKR 61
           KT+TL VE S+TI N+K  + +KEG   D Q L FAG +L +GR        LA  N+++
Sbjct: 11  KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGR-------TLADYNIQK 63

Query: 62  ESTMQLLFCAIKVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVKVLLTI-------- 113
           EST+ L+                  L+  ++IFVK LT + + L+V+   TI        
Sbjct: 64  ESTLHLVLR----------------LRGGMQIFVKTLTGKTITLEVESSDTIDNVKAKIQ 107

Query: 114 ---------RDLFCTGMKLKDCKTLACYGVK 135
                    + L   G +L+D +TLA Y ++
Sbjct: 108 DKEGIPPDQQRLIFAGKQLEDGRTLADYNIQ 138

Ubiquitin exists either covalently attached to another protein, or free (unanchored). When covalently bound, it is conjugated to target proteins via an isopeptide bond either as a monomer (monoubiquitin), a polymer linked via different Lys residues of the ubiquitin (polyubiquitin chains) or a linear polymer linked via the initiator Met of the ubiquitin (linear polyubiquitin chains). Polyubiquitin chains, when attached to a target protein, have different functions depending on the Lys residue of the ubiquitin that is linked: Lys-48-linked is involved in protein degradation via the proteasome. Linear polymer chains formed via attachment by the initiator Met lead to cell signaling. Ubiquitin is usually conjugated to Lys residues of target proteins, however, in rare cases, conjugation to Cys or Ser residues has been observed. When polyubiquitin is free (unanchored-polyubiquitin), it also has distinct roles, such as in activation of protein kinases, and in signaling.

Petroselinum crispum (taxid: 4043)

>sp|P0CH32|UBQ4_ARATH Polyubiquitin 4 OS=Arabidopsis thaliana GN=UBQ4 PE=1 SV=1

 Score = 67.0 bits (162), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 49/151 (32%), Positives = 74/151 (49%), Gaps = 40/151 (26%)

Query: 2   KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKR 61
           KT+TL VE S+TI N+K  + +KEG   D Q L FAG +L +GR        LA  N+++
Sbjct: 11  KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGR-------TLADYNIQK 63

Query: 62  ESTMQLLFCAIKVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVKVLLTI-------- 113
           EST+ L+                  L+  ++IFVK LT + + L+V+   TI        
Sbjct: 64  ESTLHLVLR----------------LRGGMQIFVKTLTGKTITLEVESSDTIDNVKAKIQ 107

Query: 114 ---------RDLFCTGMKLKDCKTLACYGVK 135
                    + L   G +L+D +TLA Y ++
Sbjct: 108 DKEGIPPDQQRLIFAGKQLEDGRTLADYNIQ 138

Ubiquitin exists either covalently attached to another protein, or free (unanchored). When covalently bound, it is conjugated to target proteins via an isopeptide bond either as a monomer (monoubiquitin), a polymer linked via different Lys residues of the ubiquitin (polyubiquitin chains) or a linear polymer linked via the initiator Met of the ubiquitin (linear polyubiquitin chains). Polyubiquitin chains, when attached to a target protein, have different functions depending on the Lys residue of the ubiquitin that is linked: Lys-11-linked is involved in ERAD (endoplasmic reticulum-associated degradation) and in cell-cycle regulation; Lys-29-linked is involved in lysosomal degradation; Lys-33-linked is involved in kinase modification; Lys-48-linked is involved in protein degradation via the proteasome; Lys-63-linked is involved in endocytosis, and DNA-damage responses. Linear polymer chains formed via attachment by the initiator Met lead to cell signaling. Ubiquitin is usually conjugated to Lys residues of target proteins, however, in rare cases, conjugation to Cys or Ser residues has been observed. When polyubiquitin is free (unanchored-polyubiquitin), it also has distinct roles, such as in activation of protein kinases, and in signaling.

Arabidopsis thaliana (taxid: 3702)

>sp|P69315|UBIQP_LINUS Polyubiquitin (Fragment) OS=Linum usitatissimum PE=3 SV=2

 Score = 67.0 bits (162), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 49/151 (32%), Positives = 74/151 (49%), Gaps = 40/151 (26%)

Query: 2   KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKR 61
           KT+TL VE S+TI N+K  + +KEG   D Q L FAG +L +GR        LA  N+++
Sbjct: 52  KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGR-------TLADYNIQK 104

Query: 62  ESTMQLLFCAIKVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVKVLLTI-------- 113
           EST+ L+                  L+  ++IFVK LT + + L+V+   TI        
Sbjct: 105 ESTLHLVLR----------------LRGGMQIFVKTLTGKTITLEVESSDTIDNVKAKIQ 148

Query: 114 ---------RDLFCTGMKLKDCKTLACYGVK 135
                    + L   G +L+D +TLA Y ++
Sbjct: 149 DKEGIPPDQQRLIFAGKQLEDGRTLADYNIQ 179

Ubiquitin exists either covalently attached to another protein, or free (unanchored). When covalently bound, it is conjugated to target proteins via an isopeptide bond either as a monomer (monoubiquitin), a polymer linked via different Lys residues of the ubiquitin (polyubiquitin chains) or a linear polymer linked via the initiator Met of the ubiquitin (linear polyubiquitin chains). Polyubiquitin chains, when attached to a target protein, have different functions depending on the Lys residue of the ubiquitin that is linked: Lys-6-linked may be involved in DNA repair; Lys-11-linked is involved in ERAD (endoplasmic reticulum-associated degradation) and in cell-cycle regulation; Lys-29-linked is involved in lysosomal degradation; Lys-33-linked is involved in kinase modification; Lys-48-linked is involved in protein degradation via the proteasome; Lys-63-linked is involved in endocytosis, DNA-damage responses as well as in signaling processes leading to activation of the transcription factor NF-kappa-B. Linear polymer chains formed via attachment by the initiator Met lead to cell signaling. Ubiquitin is usually conjugated to Lys residues of target proteins, however, in rare cases, conjugation to Cys or Ser residues has been observed. When polyubiquitin is free (unanchored-polyubiquitin), it also has distinct roles, such as in activation of protein kinases, and in signaling.

Linum usitatissimum (taxid: 4006)

>sp|Q3E7T8|UBQ14_ARATH Polyubiquitin 14 OS=Arabidopsis thaliana GN=UBQ14 PE=1 SV=2

 Score = 67.0 bits (162), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 49/151 (32%), Positives = 74/151 (49%), Gaps = 40/151 (26%)

Query: 2   KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKR 61
           KT+TL VE S+TI N+K  + +KEG   D Q L FAG +L +GR        LA  N+++
Sbjct: 11  KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGR-------TLADYNIQK 63

Query: 62  ESTMQLLFCAIKVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVKVLLTI-------- 113
           EST+ L+                  L+  ++IFVK LT + + L+V+   TI        
Sbjct: 64  ESTLHLVLR----------------LRGGMQIFVKTLTGKTITLEVESSDTIDNVKAKIQ 107

Query: 114 ---------RDLFCTGMKLKDCKTLACYGVK 135
                    + L   G +L+D +TLA Y ++
Sbjct: 108 DKEGIPPDQQRLIFAGKQLEDGRTLADYNIQ 138

Ubiquitin exists either covalently attached to another protein, or free (unanchored). When covalently bound, it is conjugated to target proteins via an isopeptide bond either as a monomer (monoubiquitin), a polymer linked via different Lys residues of the ubiquitin (polyubiquitin chains) or a linear polymer linked via the initiator Met of the ubiquitin (linear polyubiquitin chains). Polyubiquitin chains, when attached to a target protein, have different functions depending on the Lys residue of the ubiquitin that is linked: Lys-11-linked is involved in ERAD (endoplasmic reticulum-associated degradation) and in cell-cycle regulation; Lys-29-linked is involved in lysosomal degradation; Lys-33-linked is involved in kinase modification; Lys-48-linked is involved in protein degradation via the proteasome; Lys-63-linked is involved in endocytosis, and DNA-damage responses. Linear polymer chains formed via attachment by the initiator Met lead to cell signaling. Ubiquitin is usually conjugated to Lys residues of target proteins, however, in rare cases, conjugation to Cys or Ser residues has been observed. When polyubiquitin is free (unanchored-polyubiquitin), it also has distinct roles, such as in activation of protein kinases, and in signaling.

Arabidopsis thaliana (taxid: 3702)

>sp|P69325|UBIQP_SOYBN Polyubiquitin OS=Glycine max GN=SUBI-1 PE=2 SV=2

 Score = 67.0 bits (162), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 49/151 (32%), Positives = 74/151 (49%), Gaps = 40/151 (26%)

Query: 2   KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKR 61
           KT+TL VE S+TI N+K  + +KEG   D Q L FAG +L +GR        LA  N+++
Sbjct: 11  KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGR-------TLADYNIQK 63

Query: 62  ESTMQLLFCAIKVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVKVLLTI-------- 113
           EST+ L+                  L+  ++IFVK LT + + L+V+   TI        
Sbjct: 64  ESTLHLVLR----------------LRGGMQIFVKTLTGKTITLEVESSDTIDNVKAKIQ 107

Query: 114 ---------RDLFCTGMKLKDCKTLACYGVK 135
                    + L   G +L+D +TLA Y ++
Sbjct: 108 DKEGIPPDQQRLIFAGKQLEDGRTLADYNIQ 138

Ubiquitin exists either covalently attached to another protein, or free (unanchored). When covalently bound, it is conjugated to target proteins via an isopeptide bond either as a monomer (monoubiquitin), a polymer linked via different Lys residues of the ubiquitin (polyubiquitin chains) or a linear polymer linked via the initiator Met of the ubiquitin (linear polyubiquitin chains). Polyubiquitin chains, when attached to a target protein, have different functions depending on the Lys residue of the ubiquitin that is linked: Lys-48-linked is involved in protein degradation via the proteasome. Linear polymer chains formed via attachment by the initiator Met lead to cell signaling. Ubiquitin is usually conjugated to Lys residues of target proteins, however, in rare cases, conjugation to Cys or Ser residues has been observed. When polyubiquitin is free (unanchored-polyubiquitin), it also has distinct roles, such as in activation of protein kinases, and in signaling.

Glycine max (taxid: 3847)

>sp|P69322|UBIQP_PEA Polyubiquitin OS=Pisum sativum GN=PU1 PE=2 SV=2

 Score = 67.0 bits (162), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 49/151 (32%), Positives = 74/151 (49%), Gaps = 40/151 (26%)

Query: 2   KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKR 61
           KT+TL VE S+TI N+K  + +KEG   D Q L FAG +L +GR        LA  N+++
Sbjct: 11  KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGR-------TLADYNIQK 63

Query: 62  ESTMQLLFCAIKVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVKVLLTI-------- 113
           EST+ L+                  L+  ++IFVK LT + + L+V+   TI        
Sbjct: 64  ESTLHLVLR----------------LRGGMQIFVKTLTGKTITLEVESSDTIDNVKAKIQ 107

Query: 114 ---------RDLFCTGMKLKDCKTLACYGVK 135
                    + L   G +L+D +TLA Y ++
Sbjct: 108 DKEGIPPDQQRLIFAGKQLEDGRTLADYNIQ 138

Ubiquitin exists either covalently attached to another protein, or free (unanchored). When covalently bound, it is conjugated to target proteins via an isopeptide bond either as a monomer (monoubiquitin), a polymer linked via different Lys residues of the ubiquitin (polyubiquitin chains) or a linear polymer linked via the initiator Met of the ubiquitin (linear polyubiquitin chains). Polyubiquitin chains, when attached to a target protein, have different functions depending on the Lys residue of the ubiquitin that is linked: Lys-48-linked is involved in protein degradation via the proteasome. Linear polymer chains formed via attachment by the initiator Met lead to cell signaling. Ubiquitin is usually conjugated to Lys residues of target proteins, however, in rare cases, conjugation to Cys or Ser residues has been observed. When polyubiquitin is free (unanchored-polyubiquitin), it also has distinct roles, such as in activation of protein kinases, and in signaling.

Pisum sativum (taxid: 3888)

>sp|P0CH33|UBQ11_ARATH Polyubiquitin 11 OS=Arabidopsis thaliana GN=UBQ11 PE=1 SV=1

 Score = 67.0 bits (162), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 49/151 (32%), Positives = 74/151 (49%), Gaps = 40/151 (26%)

Query: 2   KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKR 61
           KT+TL VE S+TI N+K  + +KEG   D Q L FAG +L +GR        LA  N+++
Sbjct: 11  KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGR-------TLADYNIQK 63

Query: 62  ESTMQLLFCAIKVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVKVLLTI-------- 113
           EST+ L+                  L+  ++IFVK LT + + L+V+   TI        
Sbjct: 64  ESTLHLVLR----------------LRGGMQIFVKTLTGKTITLEVESSDTIDNVKAKIQ 107

Query: 114 ---------RDLFCTGMKLKDCKTLACYGVK 135
                    + L   G +L+D +TLA Y ++
Sbjct: 108 DKEGIPPDQQRLIFAGKQLEDGRTLADYNIQ 138

Ubiquitin exists either covalently attached to another protein, or free (unanchored). When covalently bound, it is conjugated to target proteins via an isopeptide bond either as a monomer (monoubiquitin), a polymer linked via different Lys residues of the ubiquitin (polyubiquitin chains) or a linear polymer linked via the initiator Met of the ubiquitin (linear polyubiquitin chains). Polyubiquitin chains, when attached to a target protein, have different functions depending on the Lys residue of the ubiquitin that is linked: Lys-11-linked is involved in ERAD (endoplasmic reticulum-associated degradation) and in cell-cycle regulation; Lys-29-linked is involved in lysosomal degradation; Lys-33-linked is involved in kinase modification; Lys-48-linked is involved in protein degradation via the proteasome; Lys-63-linked is involved in endocytosis, and DNA-damage responses. Linear polymer chains formed via attachment by the initiator Met lead to cell signaling. Ubiquitin is usually conjugated to Lys residues of target proteins, however, in rare cases, conjugation to Cys or Ser residues has been observed. When polyubiquitin is free (unanchored-polyubiquitin), it also has distinct roles, such as in activation of protein kinases, and in signaling.

Arabidopsis thaliana (taxid: 3702)

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	148
326427340	220	ubiquitin [Salpingoeca sp. ATCC 50818]	0.777	0.522	0.347	2e-10
410976446	229	PREDICTED: polyubiquitin-B-like [Felis c	0.743	0.480	0.335	2e-10
350420431	471	PREDICTED: polyubiquitin-like [Bombus im	0.797	0.250	0.331	2e-10
348537407	237	PREDICTED: polyubiquitin-C-like [Oreochr	0.851	0.531	0.331	3e-10
226473052	304	polyubiquitin [Schistosoma japonicum]	0.777	0.378	0.344	4e-10
307108562	979	hypothetical protein CHLNCDRAFT_51574 [C	0.75	0.113	0.322	5e-10
339232974	210	ubiquitin family protein [Trichinella sp	0.743	0.523	0.328	6e-10
226484025	229	ubiquitin C [Schistosoma japonicum]	0.743	0.480	0.328	6e-10
302143601	771	unnamed protein product [Vitis vinifera]	0.702	0.134	0.343	6e-10
12849189	305	unnamed protein product [Mus musculus]	0.743	0.360	0.328	6e-10

>gi|326427340|gb|EGD72910.1| ubiquitin [Salpingoeca sp. ATCC 50818]

 Score = 70.9 bits (172), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 48/138 (34%), Positives = 76/138 (55%), Gaps = 23/138 (16%)

Query: 2   KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
           KT+TL VE S++I+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 11  KTITLEVEPSDSIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 62

Query: 61  RESTMQLLFCAI---KVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVKVLLTIRDLF 117
           +EST+ L+F      K +++ V+ PSD I  +K KI          + K  +    + L 
Sbjct: 63  KESTLHLIFVKTLTGKTITLEVE-PSDSIENVKAKI----------QDKEGIPPDQQRLI 111

Query: 118 CTGMKLKDCKTLACYGVK 135
             G +L+D +TL+ Y ++
Sbjct: 112 FAGKQLEDGRTLSDYNIQ 129

Source: Salpingoeca sp. ATCC 50818

Species: Salpingoeca sp. ATCC 50818

Genus: Salpingoeca

Family: Salpingoecidae

Order: Choanoflagellida

Superkingdom: Eukaryota

>gi|410976446|ref|XP_003994631.1| PREDICTED: polyubiquitin-B-like [Felis catus]

 Score = 70.9 bits (172), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 51/152 (33%), Positives = 77/152 (50%), Gaps = 42/152 (27%)

Query: 2   KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
           KT+TL VE S+TI+N+KG + EKEG   D Q L FAG +L +GR L DY        N++
Sbjct: 11  KTITLEVEPSDTIENVKGKIQEKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 62

Query: 61  RESTMQLLFCAIKVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVKVLLTIRD----- 115
           +EST+ L+                  L+  ++IFVK LT + + L+V+   TI +     
Sbjct: 63  KESTLHLVLR----------------LRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKI 106

Query: 116 ------------LFCTGMKLKDCKTLACYGVK 135
                       L   G +L+D +TL+ Y ++
Sbjct: 107 QDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQ 138

Source: Felis catus

Species: Felis catus

Genus: Felis

Family: Felidae

Order: Carnivora

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|350420431|ref|XP_003492506.1| PREDICTED: polyubiquitin-like [Bombus impatiens]

 Score = 70.5 bits (171), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 51/154 (33%), Positives = 83/154 (53%), Gaps = 36/154 (23%)

Query: 2   KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
           KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 315 KTITLEVEASDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 366

Query: 61  RESTMQLLFCAIKVLSISVKAPSDDILKLK--VKIFVKMLTEEIVKLKVKVLLTIRD--- 115
           +EST+ L+        + ++  S  +L+L+  ++IFVK LT + + L+V+   TI +   
Sbjct: 367 KESTLHLV--------LRLRGGSHLVLRLRGGMQIFVKTLTGKTITLEVEASDTIENVKA 418

Query: 116 --------------LFCTGMKLKDCKTLACYGVK 135
                         L   G +L+D +TL+ Y ++
Sbjct: 419 KIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQ 452

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|348537407|ref|XP_003456186.1| PREDICTED: polyubiquitin-C-like [Oreochromis niloticus]

 Score = 70.1 bits (170), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 54/163 (33%), Positives = 86/163 (52%), Gaps = 37/163 (22%)

Query: 2   KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
           KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 11  KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 62

Query: 61  RESTMQLLFCAIKVL---------SISVKAPSDDILKLK--VKIFVKMLTEEIVKLKVKV 109
           +EST+ L+  A K L         +I  ++    +L+L+  ++IFVK LT + + L+V+ 
Sbjct: 63  KESTLHLVLFAGKQLEDGRTLSDYNIQKESTLHLVLRLRENMQIFVKTLTGKTITLEVEP 122

Query: 110 LLTIRD-----------------LFCTGMKLKDCKTLACYGVK 135
             TI +                 L   G +L+D +TL+ Y ++
Sbjct: 123 SDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQ 165

Source: Oreochromis niloticus

Species: Oreochromis niloticus

Genus: Oreochromis

Family: Cichlidae

Order: Perciformes

Class: Actinopterygii

Phylum: Chordata

Superkingdom: Eukaryota

>gi|226473052|emb|CAX71212.1| polyubiquitin [Schistosoma japonicum]

 Score = 69.7 bits (169), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 50/145 (34%), Positives = 73/145 (50%), Gaps = 30/145 (20%)

Query: 2   KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
           KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 163 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 214

Query: 61  RESTMQLLFCAIKVLSISVKA-----------PSDDILKLKVKIFVKMLTEEIVKLKVKV 109
           +EST+ L+ C    + I VK            PSD I  +K KI          + K  +
Sbjct: 215 KESTLHLVLCFRGGMQIFVKTLTGKTITLEVEPSDPIENVKAKI----------QDKEGI 264

Query: 110 LLTIRDLFCTGMKLKDCKTLACYGV 134
               + L   G +L+D +TL+ Y +
Sbjct: 265 PPDQQRLIFAGKQLEDGRTLSDYNI 289

Source: Schistosoma japonicum

Species: Schistosoma japonicum

Genus: Schistosoma

Family: Schistosomatidae

Order: Strigeidida

Class: Trematoda

Phylum: Platyhelminthes

Superkingdom: Eukaryota

>gi|307108562|gb|EFN56802.1| hypothetical protein CHLNCDRAFT_51574 [Chlorella variabilis]

 Score = 69.3 bits (168), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 50/155 (32%), Positives = 78/155 (50%), Gaps = 44/155 (28%)

Query: 2   KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKR 61
           KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR        LA  N+++
Sbjct: 81  KTITLEVESSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGR-------TLADYNIQK 133

Query: 62  ESTMQLLFCAIKVLSISVKAPSDDILKLK--VKIFVKMLTEEIVKLKVKVLLTIRD---- 115
           EST+ L                  +L+L+  ++IFVK LT + + L+V+   TI +    
Sbjct: 134 ESTLHL------------------VLRLRGGMQIFVKTLTGKTITLEVESSDTIENVKAK 175

Query: 116 -------------LFCTGMKLKDCKTLACYGVKDD 137
                        L   G +L+D +TLA Y ++ +
Sbjct: 176 IQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKE 210

Source: Chlorella variabilis

Species: Chlorella variabilis

Genus: Chlorella

Family: Chlorellaceae

Order: Chlorellales

Class: Trebouxiophyceae

Phylum: Chlorophyta

Superkingdom: Eukaryota

>gi|339232974|ref|XP_003381604.1| ubiquitin family protein [Trichinella spiralis] gi|316979565|gb|EFV62342.1| ubiquitin family protein [Trichinella spiralis]

 Score = 68.9 bits (167), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 50/152 (32%), Positives = 77/152 (50%), Gaps = 42/152 (27%)

Query: 2   KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
           KT+TL VE S+TI+N+KG + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 11  KTITLEVEPSDTIENVKGKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 62

Query: 61  RESTMQLLFCAIKVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVKVLLTIRD----- 115
           +EST+ L+                  L+  ++IFVK LT + + L+V+   TI +     
Sbjct: 63  KESTLHLVLR----------------LRGGMQIFVKTLTGKTITLEVEPSDTIENVKGKI 106

Query: 116 ------------LFCTGMKLKDCKTLACYGVK 135
                       L   G +L+D +TL+ Y ++
Sbjct: 107 QDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQ 138

Source: Trichinella spiralis

Species: Trichinella spiralis

Genus: Trichinella

Family: Trichinellidae

Order: Trichocephalida

Class: Enoplea

Phylum: Nematoda

Superkingdom: Eukaryota

>gi|226484025|emb|CAX79681.1| ubiquitin C [Schistosoma japonicum]

 Score = 68.9 bits (167), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 50/152 (32%), Positives = 77/152 (50%), Gaps = 42/152 (27%)

Query: 2   KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
           KT+TL VE S+TI+N+K  + +KEGT  D Q L FAG +L +GR L DY        N++
Sbjct: 87  KTITLEVEPSDTIENVKAKIQDKEGTPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 138

Query: 61  RESTMQLLFCAIKVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVKVLLTIRD----- 115
           +EST+ L+                  L+  ++IFVK LT + + L+V+   TI +     
Sbjct: 139 KESTLHLVLR----------------LRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKI 182

Query: 116 ------------LFCTGMKLKDCKTLACYGVK 135
                       L   G +L+D +TL+ Y ++
Sbjct: 183 QDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQ 214

Source: Schistosoma japonicum

Species: Schistosoma japonicum

Genus: Schistosoma

Family: Schistosomatidae

Order: Strigeidida

Class: Trematoda

Phylum: Platyhelminthes

Superkingdom: Eukaryota

>gi|302143601|emb|CBI22354.3| unnamed protein product [Vitis vinifera]

 Score = 68.9 bits (167), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 46/134 (34%), Positives = 70/134 (52%), Gaps = 30/134 (22%)

Query: 2   KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKR 61
           KT+TL VE S+TI N+K  + +KEG   D Q L FAG +L +GR        LA  N+++
Sbjct: 648 KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGR-------TLADYNIQK 700

Query: 62  ESTMQLLFCAIKVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVKVLLTIRDLFCTGM 121
           EST+ L+                  L+  ++IFVK LT + + L+ +       L   G 
Sbjct: 701 ESTLHLVLR----------------LRGGMQIFVKTLTGKTITLEQR-------LIFAGK 737

Query: 122 KLKDCKTLACYGVK 135
           +L+D +TLA Y ++
Sbjct: 738 QLEDGRTLADYNIQ 751

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|12849189|dbj|BAB28242.1| unnamed protein product [Mus musculus]

 Score = 68.9 bits (167), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 50/152 (32%), Positives = 77/152 (50%), Gaps = 42/152 (27%)

Query: 2   KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
           KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 87  KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 138

Query: 61  RESTMQLLFCAIKVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVKVLLTIRD----- 115
           +EST+ L+F                 L+  ++IFVK LT + + L+V+   TI +     
Sbjct: 139 KESTLHLVFR----------------LRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKI 182

Query: 116 ------------LFCTGMKLKDCKTLACYGVK 135
                       L   G +L+D +TL+ Y ++
Sbjct: 183 QDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQ 214

Source: Mus musculus

Species: Mus musculus

Genus: Mus

Family: Muridae

Order: Rodentia

Class: Mammalia

Phylum: Chordata

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	148
UNIPROTKB|E1B9K1	305	UBC "Ubiquitin" [Bos taurus (t	0.844	0.409	0.354	1.7e-11
TAIR|locus:2138386	229	UBQ11 "AT4G05050" [Arabidopsis	0.851	0.550	0.342	2.2e-11
UNIPROTKB|F1PDG4	229	UBB "Uncharacterized protein"	0.844	0.545	0.347	2.8e-11
UNIPROTKB|P0CG47	229	UBB "Polyubiquitin-B" [Homo sa	0.844	0.545	0.347	2.8e-11
UNIPROTKB|A7U5U2	229	UBB "Uncharacterized protein"	0.844	0.545	0.347	2.8e-11
UNIPROTKB|J3QKN0	206	UBB "Ubiquitin" [Homo sapiens	0.844	0.606	0.347	2.8e-11
UNIPROTKB|F5GXK7	169	UBC "Polyubiquitin-C" [Homo sa	0.844	0.739	0.347	2.8e-11
UNIPROTKB|F5H747	161	UBC "Polyubiquitin-C" [Homo sa	0.844	0.776	0.347	2.8e-11
UNIPROTKB|F1NGE3	157	UBB "Polyubiquitin-B" [Gallus	0.844	0.796	0.347	2.8e-11
UNIPROTKB|Q91021	157	UBB "Ubiquitin" [Gallus gallus	0.844	0.796	0.347	2.8e-11

UNIPROTKB|E1B9K1 UBC "Ubiquitin" [Bos taurus (taxid:9913)]

 Score = 161 (61.7 bits), Expect = 1.7e-11, P = 1.7e-11
 Identities = 50/141 (35%), Positives = 78/141 (55%)

Query:     2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
             KT+TL VE S+TI+N+KG + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct:    11 KTITLEVEPSDTIENVKGKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 62

Query:    61 RESTMQLLFCAIKVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVKVLLTI----RDL 116
             +EST+ L+      + I VK  +   + L+V+      T E VK K++    I    + L
Sbjct:    63 KESTLHLVLRLRGGMQIFVKTLTGKTITLEVE---PSDTIENVKAKIQDKEGIPPDQQRL 119

Query:   117 FCTGMKLKDCKTLACYGVKDD 137
                G +L+D +TL+ Y ++ +
Sbjct:   120 IFAGKQLEDGRTLSDYNIQKE 140

GO:0097009 "energy homeostasis" evidence=IEA

GO:0072520 "seminiferous tubule development" evidence=IEA

GO:0060613 "fat pad development" evidence=IEA

GO:0021888 "hypothalamus gonadotrophin-releasing hormone neuron development" evidence=IEA

GO:0010992 "ubiquitin homeostasis" evidence=IEA

GO:0008585 "female gonad development" evidence=IEA

GO:0007144 "female meiosis I" evidence=IEA

GO:0007141 "male meiosis I" evidence=IEA

GO:0002020 "protease binding" evidence=IEA

TAIR|locus:2138386 UBQ11 "AT4G05050" [Arabidopsis thaliana (taxid:3702)]

 Score = 156 (60.0 bits), Expect = 2.2e-11, P = 2.2e-11
 Identities = 48/140 (34%), Positives = 75/140 (53%)

Query:     2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKR 61
             KT+TL VE S+TI N+K  + +KEG   D Q L FAG +L +GR        LA  N+++
Sbjct:    87 KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGR-------TLADYNIQK 139

Query:    62 ESTMQLLFCAIKVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVKVLLTI----RDLF 117
             EST+ L+      + I VK  +   + L+V+      T + VK K++    I    + L 
Sbjct:   140 ESTLHLVLRLRGGMQIFVKTLTGKTITLEVE---SSDTIDNVKAKIQDKEGIPPDQQRLI 196

Query:   118 CTGMKLKDCKTLACYGVKDD 137
               G +L+D +TLA Y ++ +
Sbjct:   197 FAGKQLEDGRTLADYNIQKE 216

GO:0005622 "intracellular" evidence=TAS

GO:0006464 "cellular protein modification process" evidence=ISS

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=ISS

UNIPROTKB|F1PDG4 UBB "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 155 (59.6 bits), Expect = 2.8e-11, P = 2.8e-11
 Identities = 49/141 (34%), Positives = 77/141 (54%)

Query:     2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
             KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct:    87 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 138

Query:    61 RESTMQLLFCAIKVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVKVLLTI----RDL 116
             +EST+ L+      + I VK  +   + L+V+      T E VK K++    I    + L
Sbjct:   139 KESTLHLVLRLRGGMQIFVKTLTGKTITLEVE---PSDTIENVKAKIQDKEGIPPDQQRL 195

Query:   117 FCTGMKLKDCKTLACYGVKDD 137
                G +L+D +TL+ Y ++ +
Sbjct:   196 IFAGKQLEDGRTLSDYNIQKE 216

GO:0097009 "energy homeostasis" evidence=IEA

GO:0072520 "seminiferous tubule development" evidence=IEA

GO:0060613 "fat pad development" evidence=IEA

GO:0021888 "hypothalamus gonadotrophin-releasing hormone neuron development" evidence=IEA

GO:0010992 "ubiquitin homeostasis" evidence=IEA

GO:0008585 "female gonad development" evidence=IEA

GO:0007144 "female meiosis I" evidence=IEA

GO:0007141 "male meiosis I" evidence=IEA

UNIPROTKB|P0CG47 UBB "Polyubiquitin-B" [Homo sapiens (taxid:9606)]

 Score = 155 (59.6 bits), Expect = 2.8e-11, P = 2.8e-11
 Identities = 49/141 (34%), Positives = 77/141 (54%)

Query:     2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
             KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct:    87 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 138

Query:    61 RESTMQLLFCAIKVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVKVLLTI----RDL 116
             +EST+ L+      + I VK  +   + L+V+      T E VK K++    I    + L
Sbjct:   139 KESTLHLVLRLRGGMQIFVKTLTGKTITLEVE---PSDTIENVKAKIQDKEGIPPDQQRL 195

Query:   117 FCTGMKLKDCKTLACYGVKDD 137
                G +L+D +TL+ Y ++ +
Sbjct:   196 IFAGKQLEDGRTLSDYNIQKE 216

GO:0000075 "cell cycle checkpoint" evidence=TAS

GO:0000080 "G1 phase of mitotic cell cycle" evidence=TAS

GO:0000082 "G1/S transition of mitotic cell cycle" evidence=TAS

GO:0000084 "S phase of mitotic cell cycle" evidence=TAS

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

GO:0000187 "activation of MAPK activity" evidence=TAS

GO:0000209 "protein polyubiquitination" evidence=TAS

GO:0000216 "M/G1 transition of mitotic cell cycle" evidence=TAS

GO:0000278 "mitotic cell cycle" evidence=TAS

GO:0002224 "toll-like receptor signaling pathway" evidence=TAS

GO:0002474 "antigen processing and presentation of peptide antigen via MHC class I" evidence=TAS

GO:0002479 "antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent" evidence=TAS

GO:0002755 "MyD88-dependent toll-like receptor signaling pathway" evidence=TAS

GO:0002756 "MyD88-independent toll-like receptor signaling pathway" evidence=TAS

GO:0005654 "nucleoplasm" evidence=TAS

GO:0005829 "cytosol" evidence=TAS

GO:0005886 "plasma membrane" evidence=TAS

GO:0006281 "DNA repair" evidence=TAS

GO:0006351 "transcription, DNA-dependent" evidence=TAS

GO:0006367 "transcription initiation from RNA polymerase II promoter" evidence=TAS

GO:0006915 "apoptotic process" evidence=TAS

GO:0006977 "DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest" evidence=TAS

GO:0007173 "epidermal growth factor receptor signaling pathway" evidence=TAS

GO:0007179 "transforming growth factor beta receptor signaling pathway" evidence=TAS

GO:0007219 "Notch signaling pathway" evidence=TAS

GO:0007220 "Notch receptor processing" evidence=TAS

GO:0007249 "I-kappaB kinase/NF-kappaB cascade" evidence=TAS

GO:0007254 "JNK cascade" evidence=TAS

GO:0008063 "Toll signaling pathway" evidence=TAS

GO:0008543 "fibroblast growth factor receptor signaling pathway" evidence=TAS

GO:0010008 "endosome membrane" evidence=TAS

GO:0010467 "gene expression" evidence=TAS

GO:0016032 "viral reproduction" evidence=TAS

GO:0016044 "cellular membrane organization" evidence=TAS

GO:0016070 "RNA metabolic process" evidence=TAS

GO:0016071 "mRNA metabolic process" evidence=TAS

GO:0016197 "endosomal transport" evidence=TAS

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

GO:0030512 "negative regulation of transforming growth factor beta receptor signaling pathway" evidence=TAS

GO:0030666 "endocytic vesicle membrane" evidence=TAS

GO:0031145 "anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process" evidence=TAS

GO:0032480 "negative regulation of type I interferon production" evidence=TAS

GO:0033554 "cellular response to stress" evidence=TAS

GO:0034130 "toll-like receptor 1 signaling pathway" evidence=TAS

GO:0034134 "toll-like receptor 2 signaling pathway" evidence=TAS

GO:0034138 "toll-like receptor 3 signaling pathway" evidence=TAS

GO:0034142 "toll-like receptor 4 signaling pathway" evidence=TAS

GO:0035666 "TRIF-dependent toll-like receptor signaling pathway" evidence=TAS

GO:0035872 "nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway" evidence=TAS

GO:0042059 "negative regulation of epidermal growth factor receptor signaling pathway" evidence=TAS

GO:0042590 "antigen processing and presentation of exogenous peptide antigen via MHC class I" evidence=TAS

GO:0042981 "regulation of apoptotic process" evidence=TAS

GO:0043123 "positive regulation of I-kappaB kinase/NF-kappaB cascade" evidence=TAS

GO:0045087 "innate immune response" evidence=TAS

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=TAS

GO:0046788 "egress of virus within host cell" evidence=TAS

GO:0048011 "neurotrophin TRK receptor signaling pathway" evidence=TAS

GO:0050852 "T cell receptor signaling pathway" evidence=TAS

GO:0051092 "positive regulation of NF-kappaB transcription factor activity" evidence=TAS

GO:0051403 "stress-activated MAPK cascade" evidence=TAS

GO:0051436 "negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle" evidence=TAS

GO:0051437 "positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle" evidence=TAS

GO:0051439 "regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle" evidence=TAS

GO:0061418 "regulation of transcription from RNA polymerase II promoter in response to hypoxia" evidence=TAS

GO:0070423 "nucleotide-binding oligomerization domain containing signaling pathway" evidence=TAS

GO:0071456 "cellular response to hypoxia" evidence=TAS

GO:0005515 "protein binding" evidence=IPI

UNIPROTKB|A7U5U2 UBB "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 155 (59.6 bits), Expect = 2.8e-11, P = 2.8e-11
 Identities = 49/141 (34%), Positives = 77/141 (54%)

Query:     2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
             KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct:    87 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 138

Query:    61 RESTMQLLFCAIKVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVKVLLTI----RDL 116
             +EST+ L+      + I VK  +   + L+V+      T E VK K++    I    + L
Sbjct:   139 KESTLHLVLRLRGGMQIFVKTLTGKTITLEVE---PSDTIENVKAKIQDKEGIPPDQQRL 195

Query:   117 FCTGMKLKDCKTLACYGVKDD 137
                G +L+D +TL+ Y ++ +
Sbjct:   196 IFAGKQLEDGRTLSDYNIQKE 216

GO:0097009 "energy homeostasis" evidence=IEA

GO:0072520 "seminiferous tubule development" evidence=IEA

GO:0060613 "fat pad development" evidence=IEA

GO:0021888 "hypothalamus gonadotrophin-releasing hormone neuron development" evidence=IEA

GO:0010992 "ubiquitin homeostasis" evidence=IEA

GO:0008585 "female gonad development" evidence=IEA

GO:0007144 "female meiosis I" evidence=IEA

GO:0007141 "male meiosis I" evidence=IEA

UNIPROTKB|J3QKN0 UBB "Ubiquitin" [Homo sapiens (taxid:9606)]

 Score = 155 (59.6 bits), Expect = 2.8e-11, P = 2.8e-11
 Identities = 49/141 (34%), Positives = 77/141 (54%)

Query:     2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
             KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct:    11 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 62

Query:    61 RESTMQLLFCAIKVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVKVLLTI----RDL 116
             +EST+ L+      + I VK  +   + L+V+      T E VK K++    I    + L
Sbjct:    63 KESTLHLVLRLRGGMQIFVKTLTGKTITLEVE---PSDTIENVKAKIQDKEGIPPDQQRL 119

Query:   117 FCTGMKLKDCKTLACYGVKDD 137
                G +L+D +TL+ Y ++ +
Sbjct:   120 IFAGKQLEDGRTLSDYNIQKE 140

GO:0007141 "male meiosis I" evidence=IEA

GO:0007144 "female meiosis I" evidence=IEA

GO:0008585 "female gonad development" evidence=IEA

GO:0010992 "ubiquitin homeostasis" evidence=IEA

GO:0021888 "hypothalamus gonadotrophin-releasing hormone neuron development" evidence=IEA

GO:0060613 "fat pad development" evidence=IEA

GO:0072520 "seminiferous tubule development" evidence=IEA

GO:0097009 "energy homeostasis" evidence=IEA

UNIPROTKB|F5GXK7 UBC "Polyubiquitin-C" [Homo sapiens (taxid:9606)]

 Score = 155 (59.6 bits), Expect = 2.8e-11, P = 2.8e-11
 Identities = 49/141 (34%), Positives = 77/141 (54%)

Query:     2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
             KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct:    11 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 62

Query:    61 RESTMQLLFCAIKVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVKVLLTI----RDL 116
             +EST+ L+      + I VK  +   + L+V+      T E VK K++    I    + L
Sbjct:    63 KESTLHLVLRLRGGMQIFVKTLTGKTITLEVE---PSDTIENVKAKIQDKEGIPSDQQRL 119

Query:   117 FCTGMKLKDCKTLACYGVKDD 137
                G +L+D +TL+ Y ++ +
Sbjct:   120 IFAGKQLEDGRTLSDYNIQKE 140

GO:0007141 "male meiosis I" evidence=IEA

GO:0007144 "female meiosis I" evidence=IEA

GO:0008585 "female gonad development" evidence=IEA

GO:0010992 "ubiquitin homeostasis" evidence=IEA

GO:0021888 "hypothalamus gonadotrophin-releasing hormone neuron development" evidence=IEA

GO:0060613 "fat pad development" evidence=IEA

GO:0072520 "seminiferous tubule development" evidence=IEA

GO:0097009 "energy homeostasis" evidence=IEA

UNIPROTKB|F5H747 UBC "Polyubiquitin-C" [Homo sapiens (taxid:9606)]

 Score = 155 (59.6 bits), Expect = 2.8e-11, P = 2.8e-11
 Identities = 49/141 (34%), Positives = 77/141 (54%)

Query:     2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
             KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct:    11 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 62

Query:    61 RESTMQLLFCAIKVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVKVLLTI----RDL 116
             +EST+ L+      + I VK  +   + L+V+      T E VK K++    I    + L
Sbjct:    63 KESTLHLVLRLRGGMQIFVKTLTGKTITLEVE---PSDTIENVKAKIQDKEGIPPDQQRL 119

Query:   117 FCTGMKLKDCKTLACYGVKDD 137
                G +L+D +TL+ Y ++ +
Sbjct:   120 IFAGKQLEDGRTLSDYNIQKE 140

GO:0007141 "male meiosis I" evidence=IEA

GO:0007144 "female meiosis I" evidence=IEA

GO:0008585 "female gonad development" evidence=IEA

GO:0010992 "ubiquitin homeostasis" evidence=IEA

GO:0021888 "hypothalamus gonadotrophin-releasing hormone neuron development" evidence=IEA

GO:0060613 "fat pad development" evidence=IEA

GO:0072520 "seminiferous tubule development" evidence=IEA

GO:0097009 "energy homeostasis" evidence=IEA

UNIPROTKB|F1NGE3 UBB "Polyubiquitin-B" [Gallus gallus (taxid:9031)]

 Score = 155 (59.6 bits), Expect = 2.8e-11, P = 2.8e-11
 Identities = 49/141 (34%), Positives = 77/141 (54%)

Query:     2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
             KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct:    15 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 66

Query:    61 RESTMQLLFCAIKVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVKVLLTI----RDL 116
             +EST+ L+      + I VK  +   + L+V+      T E VK K++    I    + L
Sbjct:    67 KESTLHLVLRLRGGMQIFVKTLTGKTITLEVE---PSDTIENVKAKIQDKEGIPPDQQRL 123

Query:   117 FCTGMKLKDCKTLACYGVKDD 137
                G +L+D +TL+ Y ++ +
Sbjct:   124 IFAGKQLEDGRTLSDYNIQKE 144

GO:0007141 "male meiosis I" evidence=IEA

GO:0007144 "female meiosis I" evidence=IEA

GO:0008585 "female gonad development" evidence=IEA

GO:0010992 "ubiquitin homeostasis" evidence=IEA

GO:0021888 "hypothalamus gonadotrophin-releasing hormone neuron development" evidence=IEA

GO:0060613 "fat pad development" evidence=IEA

GO:0072520 "seminiferous tubule development" evidence=IEA

GO:0097009 "energy homeostasis" evidence=IEA

UNIPROTKB|Q91021 UBB "Ubiquitin" [Gallus gallus (taxid:9031)]

 Score = 155 (59.6 bits), Expect = 2.8e-11, P = 2.8e-11
 Identities = 49/141 (34%), Positives = 77/141 (54%)

Query:     2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
             KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct:    15 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 66

Query:    61 RESTMQLLFCAIKVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVKVLLTI----RDL 116
             +EST+ L+      + I VK  +   + L+V+      T E VK K++    I    + L
Sbjct:    67 KESTLHLVLRLRGGMQIFVKTLTGKTITLEVE---PSDTIENVKAKIQDKEGIPPDQQRL 123

Query:   117 FCTGMKLKDCKTLACYGVKDD 137
                G +L+D +TL+ Y ++ +
Sbjct:   124 IFAGKQLEDGRTLSDYNIQKE 144

GO:0007141 "male meiosis I" evidence=IEA

GO:0007144 "female meiosis I" evidence=IEA

GO:0008585 "female gonad development" evidence=IEA

GO:0010992 "ubiquitin homeostasis" evidence=IEA

GO:0021888 "hypothalamus gonadotrophin-releasing hormone neuron development" evidence=IEA

GO:0060613 "fat pad development" evidence=IEA

GO:0072520 "seminiferous tubule development" evidence=IEA

GO:0097009 "energy homeostasis" 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

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	148
cd01803	76	cd01803, Ubiquitin, Ubiquitin	1e-11
pfam00240	69	pfam00240, ubiquitin, Ubiquitin family	3e-06
cd01769	69	cd01769, UBL, Ubiquitin-like domain of UBL	4e-04
smart00213	72	smart00213, UBQ, Ubiquitin homologues	0.004

>gnl|CDD|176398 cd01803, Ubiquitin, Ubiquitin

 Score = 56.4 bits (136), Expect = 1e-11
 Identities = 31/68 (45%), Positives = 44/68 (64%), Gaps = 9/68 (13%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 11 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 62

Query: 61 RESTMQLL 68
          +EST+ L+
Sbjct: 63 KESTLHLV 70

Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains). Length = 76

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

 Score = 42.2 bits (100), Expect = 3e-06
 Identities = 23/68 (33%), Positives = 36/68 (52%), Gaps = 7/68 (10%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKR 61
          KT+TL V+ S+T+  LK  + +KEG   D Q L F+G  L        +D  L+   ++ 
Sbjct: 6  KTITLEVDPSDTVSELKEKIEDKEGIPVDQQRLIFSGKVL-------EDDTTLSEYGIQD 58

Query: 62 ESTMQLLF 69
           ST+ L+ 
Sbjct: 59 GSTLHLVL 66

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

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

 Score = 36.5 bits (85), Expect = 4e-04
 Identities = 20/67 (29%), Positives = 31/67 (46%), Gaps = 7/67 (10%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKR 61
          KT  L V   +T+  LK  +  KEG   + Q L +AG  L +       D  L+   ++ 
Sbjct: 8  KTFELEVSPDDTVAELKAKIAAKEGVPPEQQRLIYAGKILKD-------DKTLSDYGIQD 60

Query: 62 ESTMQLL 68
           ST+ L+
Sbjct: 61 GSTLHLV 67

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

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

 Score = 33.8 bits (78), Expect = 0.004
 Identities = 21/67 (31%), Positives = 33/67 (49%), Gaps = 7/67 (10%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKR 61
          KT+TL V+ S+T+  LK  + E  G   + Q L + G  L        +D  LA   ++ 
Sbjct: 11 KTITLEVKPSDTVSELKEKIAELTGIPPEQQRLIYKGKVL-------EDDRTLADYGIQD 63

Query: 62 ESTMQLL 68
           ST+ L+
Sbjct: 64 GSTIHLV 70

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	148
cd01793	74	Fubi Fubi ubiquitin-like protein. Fubi is a ubiqui	99.76
cd01807	74	GDX_N ubiquitin-like domain of GDX. GDX contains a	99.71
cd01794	70	DC_UbP_C dendritic cell derived ubiquitin-like pro	99.7
cd01810	74	ISG15_repeat2 ISG15 ubiquitin-like protein, second	99.7
PTZ00044	76	ubiquitin; Provisional	99.69
cd01800	76	SF3a120_C Ubiquitin-like domain of Mammalian splic	99.68
cd01798	70	parkin_N amino-terminal ubiquitin-like of parkin p	99.67
cd01802	103	AN1_N ubiquitin-like domain of AN1. AN1 (also know	99.67
PF00240	69	ubiquitin: Ubiquitin family; InterPro: IPR000626 U	99.65
cd01791	73	Ubl5 UBL5 ubiquitin-like modifier. UBL5 (also know	99.65
cd01803	76	Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40	99.64
cd01797	78	NIRF_N amino-terminal ubiquitin-like domain of Np9	99.64
cd01806	76	Nedd8 Nebb8-like ubiquitin protein. Nedd8 (also kn	99.64
KOG0003	128	consensus Ubiquitin/60s ribosomal protein L40 fusi	99.63
cd01796	71	DDI1_N DNA damage inducible protein 1 ubiquitin-li	99.62
cd01809	72	Scythe_N Ubiquitin-like domain of Scythe protein.	99.6
KOG0004	156	consensus Ubiquitin/40S ribosomal protein S27a fus	99.59
cd01808	71	hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC	99.59
cd01805	77	RAD23_N Ubiquitin-like domain of RAD23. RAD23 belo	99.58
KOG0005	70	consensus Ubiquitin-like protein [Cell cycle contr	99.57
cd01813	74	UBP_N UBP ubiquitin processing protease. The UBP (	99.56
cd01804	78	midnolin_N Ubiquitin-like domain of midnolin. midn	99.56
cd01799	75	Hoil1_N Ubiquitin-like domain of HOIL1. HOIL1_N HO	99.56
cd01812	71	BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-ter	99.55
cd01792	80	ISG15_repeat1 ISG15 ubiquitin-like protein, first	99.54
cd01790	79	Herp_N Homocysteine-responsive endoplasmic reticul	99.51
cd01815	75	BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP. BMSC	99.48
cd01802	103	AN1_N ubiquitin-like domain of AN1. AN1 (also know	99.47
cd01763	87	Sumo Small ubiquitin-related modifier (SUMO). Smal	99.42
cd01795	107	USP48_C USP ubiquitin-specific protease. The USP (	99.38
smart00213	64	UBQ Ubiquitin homologues. Ubiquitin-mediated prote	99.38
cd01807	74	GDX_N ubiquitin-like domain of GDX. GDX contains a	99.36
cd01814	113	NTGP5 Ubiquitin-like NTGP5 and ATGP4. NTGP5 and AT	99.29
cd01769	69	UBL Ubiquitin-like domain of UBL. UBLs function by	99.28
cd01797	78	NIRF_N amino-terminal ubiquitin-like domain of Np9	99.24
TIGR00601	378	rad23 UV excision repair protein Rad23. All protei	99.22
cd01798	70	parkin_N amino-terminal ubiquitin-like of parkin p	99.22
cd01810	74	ISG15_repeat2 ISG15 ubiquitin-like protein, second	99.21
cd01789	84	Alp11_N Ubiquitin-like domain of Alp11 tubulin-fol	99.21
PTZ00044	76	ubiquitin; Provisional	99.19
cd01793	74	Fubi Fubi ubiquitin-like protein. Fubi is a ubiqui	99.19
cd01792	80	ISG15_repeat1 ISG15 ubiquitin-like protein, first	99.13
cd01806	76	Nedd8 Nebb8-like ubiquitin protein. Nedd8 (also kn	99.12
cd01809	72	Scythe_N Ubiquitin-like domain of Scythe protein.	99.12
cd01808	71	hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC	99.11
KOG0003	128	consensus Ubiquitin/60s ribosomal protein L40 fusi	99.11
KOG0004	156	consensus Ubiquitin/40S ribosomal protein S27a fus	99.1
cd01803	76	Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40	99.09
cd01805	77	RAD23_N Ubiquitin-like domain of RAD23. RAD23 belo	99.06
cd01804	78	midnolin_N Ubiquitin-like domain of midnolin. midn	99.05
cd01794	70	DC_UbP_C dendritic cell derived ubiquitin-like pro	99.04
cd01791	73	Ubl5 UBL5 ubiquitin-like modifier. UBL5 (also know	99.03
KOG0010	493	consensus Ubiquitin-like protein [Posttranslationa	99.03
PF14560	87	Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2K	99.03
PF00240	69	ubiquitin: Ubiquitin family; InterPro: IPR000626 U	98.96
KOG0001	75	consensus Ubiquitin and ubiquitin-like proteins [P	98.91
PF11976	72	Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; Inter	98.88
KOG0011	340	consensus Nucleotide excision repair factor NEF2,	98.85
cd01796	71	DDI1_N DNA damage inducible protein 1 ubiquitin-li	98.83
cd01788	119	ElonginB Ubiquitin-like domain of Elongin B. Elong	98.82
cd01763	87	Sumo Small ubiquitin-related modifier (SUMO). Smal	98.8
cd01790	79	Herp_N Homocysteine-responsive endoplasmic reticul	98.79
KOG0005	70	consensus Ubiquitin-like protein [Cell cycle contr	98.78
cd01800	76	SF3a120_C Ubiquitin-like domain of Mammalian splic	98.78
cd01812	71	BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-ter	98.72
cd01815	75	BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP. BMSC	98.67
TIGR00601	378	rad23 UV excision repair protein Rad23. All protei	98.64
KOG0010	493	consensus Ubiquitin-like protein [Posttranslationa	98.52
cd01801	77	Tsc13_N Ubiquitin-like domain of Tsc13. Tsc13_N N-	98.45
cd00196	69	UBQ Ubiquitin-like proteins. Ubiquitin homologs; I	98.45
PLN02560	308	enoyl-CoA reductase	98.43
KOG4248	1143	consensus Ubiquitin-like protein, regulator of apo	98.43
PF13881	111	Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB	98.4
cd01813	74	UBP_N UBP ubiquitin processing protease. The UBP (	98.34
smart00213	64	UBQ Ubiquitin homologues. Ubiquitin-mediated prote	98.3
PF11543	80	UN_NPL4: Nuclear pore localisation protein NPL4; I	98.27
PF11976	72	Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; Inter	98.26
cd01799	75	Hoil1_N Ubiquitin-like domain of HOIL1. HOIL1_N HO	98.11
KOG0011	340	consensus Nucleotide excision repair factor NEF2,	98.09
cd01814	113	NTGP5 Ubiquitin-like NTGP5 and ATGP4. NTGP5 and AT	98.08
KOG0006	446	consensus E3 ubiquitin-protein ligase (Parkin prot	98.01
cd01769	69	UBL Ubiquitin-like domain of UBL. UBLs function by	97.98
KOG1872	473	consensus Ubiquitin-specific protease [Posttransla	97.98
cd01811	80	OASL_repeat1 2'-5' oligoadenylate synthetase-like	97.96
KOG3493	73	consensus Ubiquitin-like protein [Posttranslationa	97.92
KOG0001	75	consensus Ubiquitin and ubiquitin-like proteins [P	97.85
cd01795	107	USP48_C USP ubiquitin-specific protease. The USP (	97.64
KOG4495	110	consensus RNA polymerase II transcription elongati	97.61
PF13881	111	Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB	97.57
KOG4248	1143	consensus Ubiquitin-like protein, regulator of apo	97.13
KOG0013	231	consensus Uncharacterized conserved protein [Funct	96.92
PF11470	65	TUG-UBL1: GLUT4 regulating protein TUG; InterPro:	96.91
PF10302	97	DUF2407: DUF2407 ubiquitin-like domain; InterPro:	96.79
cd01789	84	Alp11_N Ubiquitin-like domain of Alp11 tubulin-fol	96.66
PLN02560	308	enoyl-CoA reductase	96.52
KOG1769	99	consensus Ubiquitin-like proteins [Posttranslation	96.28
KOG3206	234	consensus Alpha-tubulin folding cofactor B [Posttr	96.06
PF08817	79	YukD: WXG100 protein secretion system (Wss), prote	95.69
cd01788	119	ElonginB Ubiquitin-like domain of Elongin B. Elong	95.52
PF08817	79	YukD: WXG100 protein secretion system (Wss), prote	95.39
cd01801	77	Tsc13_N Ubiquitin-like domain of Tsc13. Tsc13_N N-	95.32
COG5417	81	Uncharacterized small protein [Function unknown]	94.58
PF14560	87	Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2K	94.51
PF13019	162	Telomere_Sde2: Telomere stability and silencing	94.0
cd06406	80	PB1_P67 A PB1 domain is present in p67 proteins wh	93.86
cd01811	80	OASL_repeat1 2'-5' oligoadenylate synthetase-like	93.6
cd00196	69	UBQ Ubiquitin-like proteins. Ubiquitin homologs; I	93.55
PF11620	88	GABP-alpha: GA-binding protein alpha chain; InterP	93.14
PF11543	80	UN_NPL4: Nuclear pore localisation protein NPL4; I	92.72
PF15044	76	CLU_N: Mitochondrial function, CLU-N-term	92.38
KOG4583	391	consensus Membrane-associated ER protein involved	91.86
COG5417	81	Uncharacterized small protein [Function unknown]	91.77
KOG1769	99	consensus Ubiquitin-like proteins [Posttranslation	91.57
PF14836	88	Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A	91.09
COG5227	103	SMT3 Ubiquitin-like protein (sentrin) [Posttransla	90.42
PF00789	82	UBX: UBX domain; InterPro: IPR001012 The UBX domai	90.29
smart00166	80	UBX Domain present in ubiquitin-regulatory protein	88.66
KOG1639	297	consensus Steroid reductase required for elongatio	88.5
KOG0006	446	consensus E3 ubiquitin-protein ligase (Parkin prot	88.33
cd06411	78	PB1_p51 The PB1 domain is present in the p51 prote	87.74
KOG4250	732	consensus TANK binding protein kinase TBK1 [Signal	85.08
cd00565	65	ThiS ThiaminS ubiquitin-like sulfur carrier protei	83.93
cd01772	79	SAKS1_UBX SAKS1-like UBX domain. SAKS1 (SAPK-subst	83.43
PF10790	76	DUF2604: Protein of Unknown function (DUF2604); In	83.0
cd06407	82	PB1_NLP A PB1 domain is present in NIN like protei	82.84
PF11470	65	TUG-UBL1: GLUT4 regulating protein TUG; InterPro:	82.24
smart00666	81	PB1 PB1 domain. Phox and Bem1p domain, present in	81.28
PF14453	57	ThiS-like: ThiS-like ubiquitin	81.05
cd00754	80	MoaD Ubiquitin domain of MoaD-like proteins. MoaD	80.85

>cd01793 Fubi Fubi ubiquitin-like protein

Probab=99.76  E-value=1.1e-18  Score=113.20  Aligned_cols=62  Identities=29%  Similarity=0.305  Sum_probs=60.6

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|+|++||+++|++|++.+|+|+++|+|+|+|+.|+|+.       +|++|++++++++|++++
T Consensus         9 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~q~Li~~Gk~L~D~~-------tL~~~~i~~~~tl~l~~~   70 (74)
T cd01793           9 NTHTLEVTGQETVSDIKAHVAGLEGIDVEDQVLLLAGVPLEDDA-------TLGQCGVEELCTLEVAGR   70 (74)
T ss_pred             CEEEEEECCcCcHHHHHHHHHhhhCCCHHHEEEEECCeECCCCC-------CHHHcCCCCCCEEEEEEe
Confidence            57899999999999999999999999999999999999999999       999999999999999999

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.

>cd01807 GDX_N ubiquitin-like domain of GDX

Probab=99.71  E-value=1.9e-17  Score=107.23  Aligned_cols=62  Identities=24%  Similarity=0.454  Sum_probs=60.2

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|++++||++||++|++.+|+|+++|+|+|+|+.|+|+.       +|++|||+++++++++.+
T Consensus        11 ~~~~l~v~~~~tV~~lK~~i~~~~gi~~~~q~L~~~G~~L~d~~-------~L~~~~i~~~~~l~l~~~   72 (74)
T cd01807          11 RECSLQVSEKESVSTLKKLVSEHLNVPEEQQRLLFKGKALADDK-------RLSDYSIGPNAKLNLVVR   72 (74)
T ss_pred             CEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEECCCCC-------CHHHCCCCCCCEEEEEEc
Confidence            57899999999999999999999999999999999999999999       999999999999999987

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

>cd01794 DC_UbP_C dendritic cell derived ubiquitin-like protein

Probab=99.70  E-value=2.8e-17  Score=105.71  Aligned_cols=61  Identities=26%  Similarity=0.462  Sum_probs=59.2

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEE
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLF   69 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~   69 (148)
                      +++++++++++||+++|++|++.+|+|+++|+|+|+|+.|+|+.       +|++|+++++++||+++
T Consensus         9 ~~~~l~v~~~~TV~~lK~~I~~~~gi~~~~q~Li~~G~~L~D~~-------~l~~~~i~~~~tv~~~~   69 (70)
T cd01794           9 KDVKLSVSSKDTVGQLKKQLQAAEGVDPCCQRWFFSGKLLTDKT-------RLQETKIQKDYVVQVIV   69 (70)
T ss_pred             CEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCeECCCCC-------CHHHcCCCCCCEEEEEe
Confidence            57899999999999999999999999999999999999999999       99999999999999986

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.

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

Probab=99.70  E-value=4.2e-17  Score=105.68  Aligned_cols=62  Identities=21%  Similarity=0.266  Sum_probs=60.4

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +++++++++++||++||++|++..|+|+++|+|+|+|+.|+|+.       +|++|||++++++++..+
T Consensus         9 ~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~D~~-------tL~~~~i~~~~tl~l~~~   70 (74)
T cd01810           9 RSSIYEVQLTQTVATLKQQVSQRERVQADQFWLSFEGRPMEDEH-------PLGEYGLKPGCTVFMNLR   70 (74)
T ss_pred             CEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCEECCCCC-------CHHHcCCCCCCEEEEEEE
Confidence            57899999999999999999999999999999999999999999       999999999999999998

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.

>PTZ00044 ubiquitin; Provisional

Probab=99.69  E-value=7e-17  Score=104.81  Aligned_cols=62  Identities=24%  Similarity=0.396  Sum_probs=60.3

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +++++++++++||++||++|++.+|+|+++|+|+|+|+.|+|+.       +|++|++++++++|++++
T Consensus        11 ~~~~l~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~L~d~~-------~l~~~~i~~~~~i~l~~~   72 (76)
T PTZ00044         11 KKQSFNFEPDNTVQQVKMALQEKEGIDVKQIRLIYSGKQMSDDL-------KLSDYKVVPGSTIHMVLQ   72 (76)
T ss_pred             CEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEEccCCC-------cHHHcCCCCCCEEEEEEE
Confidence            57899999999999999999999999999999999999999999       999999999999999998

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

Probab=99.68  E-value=6.8e-17  Score=105.29  Aligned_cols=62  Identities=21%  Similarity=0.328  Sum_probs=60.5

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +++++++++++||++||++|+..+|+|+++|+|+|+|+.|+|+.       +|++|+++++++|+|+.+
T Consensus         8 ~~~~l~v~~~~TV~~lK~~i~~~~gip~~~q~L~~~G~~L~d~~-------tL~~~~i~~g~~l~v~~~   69 (76)
T cd01800           8 QMLNFTLQLSDPVSVLKVKIHEETGMPAGKQKLQYEGIFIKDSN-------SLAYYNLANGTIIHLQLK   69 (76)
T ss_pred             eEEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCEEcCCCC-------cHHHcCCCCCCEEEEEEe
Confidence            57899999999999999999999999999999999999999999       999999999999999998

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.

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

Probab=99.67  E-value=1e-16  Score=102.75  Aligned_cols=62  Identities=24%  Similarity=0.405  Sum_probs=59.5

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +++++++++++||+++|++|++.+|+|+++|+|+|+|+.|+|+.       +|++||+++++++|++.|
T Consensus         9 ~~~~~~v~~~~tV~~lK~~i~~~~gi~~~~q~Li~~G~~L~d~~-------~l~~~~i~~~stl~l~~~   70 (70)
T cd01798           9 HTFPVEVDPDTDIKQLKEVVAKRQGVPPDQLRVIFAGKELRNTT-------TIQECDLGQQSILHAVRR   70 (70)
T ss_pred             CEEEEEECCCChHHHHHHHHHHHHCCCHHHeEEEECCeECCCCC-------cHHHcCCCCCCEEEEEeC
Confidence            57899999999999999999999999999999999999999999       999999999999999864

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.

>cd01802 AN1_N ubiquitin-like domain of AN1

Probab=99.67  E-value=1.4e-16  Score=109.64  Aligned_cols=62  Identities=23%  Similarity=0.318  Sum_probs=60.3

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|++++||++||++|++.+|+|+++|+|+|+|+.|+|+.       +|++|+|+++++|+++++
T Consensus        38 ~~~~leV~~~~TV~~lK~kI~~~~gip~~~QrLi~~Gk~L~D~~-------tL~dy~I~~~stL~l~~~   99 (103)
T cd01802          38 TCFELRVSPFETVISVKAKIQRLEGIPVAQQHLIWNNMELEDEY-------CLNDYNISEGCTLKLVLA   99 (103)
T ss_pred             CEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEECCEECCCCC-------cHHHcCCCCCCEEEEEEe
Confidence            47899999999999999999999999999999999999999999       999999999999999998

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.

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

Probab=99.65  E-value=5e-16  Score=98.84  Aligned_cols=62  Identities=31%  Similarity=0.509  Sum_probs=60.1

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +++++++++++||++||++|++.+|+|++.|+|+|+|+.|+|+.       +|++||++++++|+|+.+
T Consensus         6 ~~~~~~v~~~~tV~~lK~~i~~~~~~~~~~~~L~~~G~~L~d~~-------tL~~~~i~~~~~I~l~~k   67 (69)
T PF00240_consen    6 KTFTLEVDPDDTVADLKQKIAEETGIPPEQQRLIYNGKELDDDK-------TLSDYGIKDGSTIHLVIK   67 (69)
T ss_dssp             EEEEEEEETTSBHHHHHHHHHHHHTSTGGGEEEEETTEEESTTS-------BTGGGTTSTTEEEEEEES
T ss_pred             cEEEEEECCCCCHHHhhhhcccccccccccceeeeeeecccCcC-------cHHHcCCCCCCEEEEEEe
Confidence            57999999999999999999999999999999999999999999       999999999999999987

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 ....

>cd01791 Ubl5 UBL5 ubiquitin-like modifier

Probab=99.65  E-value=3e-16  Score=101.68  Aligned_cols=61  Identities=18%  Similarity=0.234  Sum_probs=58.4

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEE
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLF   69 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~   69 (148)
                      +++.++++|++||++||++|++..|+|+++|||+|+|+.|.|+.       +|++||+++|++|||..
T Consensus        12 k~~~~~v~~~~TV~~LK~~I~~~~~~~~~~qrLi~~Gk~L~D~~-------tL~~ygi~~~stv~l~~   72 (73)
T cd01791          12 KKVRVKCNPDDTIGDLKKLIAAQTGTRPEKIVLKKWYTIFKDHI-------SLGDYEIHDGMNLELYY   72 (73)
T ss_pred             CEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEeCCcCCCCCC-------CHHHcCCCCCCEEEEEe
Confidence            56889999999999999999999999999999999999999999       99999999999999874

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.

>cd01803 Ubiquitin Ubiquitin

Probab=99.64  E-value=4.6e-16  Score=100.55  Aligned_cols=62  Identities=47%  Similarity=0.745  Sum_probs=60.1

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +++.+++++++||++||++|++.+|+|+++|+|+|+|+.|+|+.       +|++|+++++++++++.+
T Consensus        11 ~~~~~~v~~~~tV~~lK~~i~~~~g~~~~~q~L~~~g~~L~d~~-------~L~~~~i~~~~~i~l~~~   72 (76)
T cd01803          11 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGR-------TLSDYNIQKESTLHLVLR   72 (76)
T ss_pred             CEEEEEECCcCcHHHHHHHHHHHhCCCHHHeEEEECCEECCCCC-------cHHHcCCCCCCEEEEEEE
Confidence            47889999999999999999999999999999999999999999       999999999999999998

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

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

Probab=99.64  E-value=4e-16  Score=102.34  Aligned_cols=60  Identities=23%  Similarity=0.404  Sum_probs=58.0

Q ss_pred             EEEE-EcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            4 VTLN-VEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         4 ~~l~-v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++ +++++||++||++|++.+|+|+++|+|+|+|+.|+|+.       +|++|||+++++|+++++
T Consensus        14 ~~l~~v~~~~TV~~lK~~i~~~~gi~~~~QrLi~~Gk~L~D~~-------tL~~y~i~~~~~i~l~~~   74 (78)
T cd01797          14 RTVDSLSRLTKVEELREKIQELFNVEPECQRLFYRGKQMEDGH-------TLFDYNVGLNDIIQLLVR   74 (78)
T ss_pred             EEeeccCCcCcHHHHHHHHHHHhCCCHHHeEEEeCCEECCCCC-------CHHHcCCCCCCEEEEEEe
Confidence            6785 89999999999999999999999999999999999999       999999999999999998

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.

>cd01806 Nedd8 Nebb8-like ubiquitin protein

Probab=99.64  E-value=5.9e-16  Score=100.03  Aligned_cols=62  Identities=23%  Similarity=0.497  Sum_probs=60.0

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +++.+++++++||++||++|++.+|+|++.|+|+|+|+.|.|+.       +|++|++++|+++|++.+
T Consensus        11 ~~~~~~v~~~~tv~~lK~~i~~~~g~~~~~qrL~~~g~~L~d~~-------tl~~~~i~~g~~i~l~~~   72 (76)
T cd01806          11 KEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDDK-------TAADYKLEGGSVLHLVLA   72 (76)
T ss_pred             CEEEEEECCCCCHHHHHHHHhHhhCCChhhEEEEECCeEccCCC-------CHHHcCCCCCCEEEEEEE
Confidence            56889999999999999999999999999999999999999999       999999999999999998

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.

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

Probab=99.63  E-value=3.1e-17  Score=111.79  Aligned_cols=62  Identities=48%  Similarity=0.748  Sum_probs=61.2

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ||++++++|++||..+|++|+..+|+||++|+|+|+|++|+|+.       |+++||++..+|+|++.+
T Consensus        11 KT~~le~EpS~ti~~vKA~i~~~~Gi~~~~~~L~~~~k~LED~~-------Tla~Y~i~~~~Tl~~~~r   72 (128)
T KOG0003|consen   11 KTITLEVEPSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGR-------TLADYNIQKESTLHLVLR   72 (128)
T ss_pred             ceEEEEecccchHHHHHHHhccccCCCHHHHHHHhcccccccCC-------cccccCccchhhhhhhHH
Confidence            78999999999999999999999999999999999999999999       999999999999999999

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

Probab=99.62  E-value=8.4e-16  Score=98.96  Aligned_cols=60  Identities=27%  Similarity=0.427  Sum_probs=56.4

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCC-cccccccccccCCCcccccceeEE
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNG-RLIDYEDMALASPNVKRESTMQLL   68 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~-~~~~~~~~~L~~~~i~~~s~i~l~   68 (148)
                      +++++++++++||++||++|++.+|+|+++|+|+|+|+.|+|+ .       +|++||+++++++++-
T Consensus        10 ~~~~l~v~~~~TV~~lK~~I~~~~gip~~~q~Li~~Gk~L~D~~~-------~L~~~gi~~~~~l~l~   70 (71)
T cd01796          10 TTFSLDVDPDLELENFKALCEAESGIPASQQQLIYNGRELVDNKR-------LLALYGVKDGDLVVLR   70 (71)
T ss_pred             CEEEEEECCcCCHHHHHHHHHHHhCCCHHHeEEEECCeEccCCcc-------cHHHcCCCCCCEEEEe
Confidence            5789999999999999999999999999999999999999987 6       8999999999999863

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.

>cd01809 Scythe_N Ubiquitin-like domain of Scythe protein

Probab=99.60  E-value=2e-15  Score=96.57  Aligned_cols=62  Identities=27%  Similarity=0.380  Sum_probs=59.1

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +++++++++++||++||++|++.+|+|++.|+|+|+|+.|+|+.       +|++||+++|++++++.+
T Consensus        11 ~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~L~d~~-------~L~~~~i~~~~~l~l~~~   72 (72)
T cd01809          11 QTHTFTVEEEITVLDLKEKIAEEVGIPVEQQRLIYSGRVLKDDE-------TLSEYKVEDGHTIHLVKR   72 (72)
T ss_pred             CEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCEECCCcC-------cHHHCCCCCCCEEEEEeC
Confidence            47899999999999999999999999999999999999999999       999999999999998864

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.

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

Probab=99.59  E-value=7.7e-16  Score=111.35  Aligned_cols=62  Identities=45%  Similarity=0.736  Sum_probs=60.9

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +++++++++++||..+|++|++.+|||+++|||+|.|++|+|++       +|++|+|+..+++|++++
T Consensus        11 kti~~eve~~~ti~~~Kakiq~~egIp~dqqrlifag~qLedgr-------tlSDY~Iqkestl~l~l~   72 (156)
T KOG0004|consen   11 KTITLEVEANDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGR-------TLSDYNIQKESTLHLVLR   72 (156)
T ss_pred             cceeeeecccccHHHHHHhhhcccCCCchhhhhhhhhcccccCC-------ccccccccccceEEEEEE
Confidence            58999999999999999999999999999999999999999999       999999999999999999

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

Probab=99.59  E-value=2.3e-15  Score=96.68  Aligned_cols=60  Identities=23%  Similarity=0.364  Sum_probs=57.4

Q ss_pred             EEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            4 VTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         4 ~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      .++++++++||++||++|++.+|+|+++|+|+|+|+.|.|+.       +|++||+++++++||++|
T Consensus        12 ~~l~v~~~~TV~~lK~~I~~~~~i~~~~~~Li~~Gk~L~d~~-------tL~~~~i~~~stl~l~~~   71 (71)
T cd01808          12 EEIEIAEDASVKDFKEAVSKKFKANQEQLVLIFAGKILKDTD-------TLTQHNIKDGLTVHLVIK   71 (71)
T ss_pred             EEEEECCCChHHHHHHHHHHHhCCCHHHEEEEECCeEcCCCC-------cHHHcCCCCCCEEEEEEC
Confidence            478999999999999999999999999999999999999999       999999999999999874

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.

>cd01805 RAD23_N Ubiquitin-like domain of RAD23

Probab=99.58  E-value=4.4e-15  Score=96.47  Aligned_cols=62  Identities=19%  Similarity=0.424  Sum_probs=59.6

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCC--CCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGT--SEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gi--p~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +++++++++++||++||++|++.+|+  |+++|+|+|+|+.|+|+.       +|++||+++|++++++++
T Consensus        11 ~~~~l~v~~~~TV~~lK~~i~~~~~i~~~~~~q~L~~~G~~L~d~~-------~L~~~~i~~~~~i~~~~~   74 (77)
T cd01805          11 QTFPIEVDPDDTVAELKEKIEEEKGCDYPPEQQKLIYSGKILKDDT-------TLEEYKIDEKDFVVVMVS   74 (77)
T ss_pred             CEEEEEECCCCcHHHHHHHHHHhhCCCCChhHeEEEECCEEccCCC-------CHHHcCCCCCCEEEEEEe
Confidence            57899999999999999999999999  999999999999999999       999999999999999887

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).

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

Probab=99.57  E-value=1.4e-15  Score=93.35  Aligned_cols=60  Identities=27%  Similarity=0.501  Sum_probs=57.4

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEE
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLL   68 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~   68 (148)
                      |.+.++++|+++|..+|+++++++||||.+|||+|.|+++.|+.       +-++|++..||.+|++
T Consensus        11 KeIeidIep~DkverIKErvEEkeGIPp~qqrli~~gkqm~DD~-------tA~~Y~~~~GSVlHlv   70 (70)
T KOG0005|consen   11 KEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYAGKQMNDDK-------TAAHYNLLGGSVLHLV   70 (70)
T ss_pred             ceEEEeeCcchHHHHHHHHhhhhcCCCchhhhhhhccccccccc-------cHHHhhhccceeEeeC
Confidence            56889999999999999999999999999999999999999999       9999999999999974

>cd01813 UBP_N UBP ubiquitin processing protease

Probab=99.56  E-value=6.7e-15  Score=95.58  Aligned_cols=61  Identities=13%  Similarity=0.231  Sum_probs=58.0

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEE---cCeecCCCcccccccccccCCCcccccceeEEE
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFF---AGDRLMNGRLIDYEDMALASPNVKRESTMQLLF   69 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~---~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~   69 (148)
                      +++++++++++||++||++|++.+|+||++|+|+|   .|+.+.|+.       +|++|++++|+.++|+.
T Consensus        10 ~~~~v~v~~~~Tv~~lK~~i~~~tgvp~~~QKLi~~~~~Gk~l~D~~-------~L~~~~i~~g~~i~lmG   73 (74)
T cd01813          10 QEYSVTTLSEDTVLDLKQFIKTLTGVLPERQKLLGLKVKGKPAEDDV-------KISALKLKPNTKIMMMG   73 (74)
T ss_pred             EEEEEEECCCCCHHHHHHHHHHHHCCCHHHEEEEeecccCCcCCCCc-------CHHHcCCCCCCEEEEEe
Confidence            57899999999999999999999999999999996   899999999       99999999999999874

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.

>cd01804 midnolin_N Ubiquitin-like domain of midnolin

Probab=99.56  E-value=6.9e-15  Score=96.36  Aligned_cols=61  Identities=21%  Similarity=0.296  Sum_probs=57.7

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++++++.||++||++|++..|+|+++|+|+|+|+.|.|+        +|++||++++++|+|+..
T Consensus        12 ~~~~l~v~~~~TV~~LK~~I~~~~~~~~~~qrL~~~Gk~L~d~--------~L~~~gi~~~~~i~l~~~   72 (78)
T cd01804          12 TRFDLSVPPDETVEGLKKRISQRLKVPKERLALLHRETRLSSG--------KLQDLGLGDGSKLTLVPT   72 (78)
T ss_pred             CEEEEEECCcCHHHHHHHHHHHHhCCChHHEEEEECCcCCCCC--------cHHHcCCCCCCEEEEEee
Confidence            4678999999999999999999999999999999999999875        899999999999999988

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.

>cd01799 Hoil1_N Ubiquitin-like domain of HOIL1

Probab=99.56  E-value=6.8e-15  Score=95.81  Aligned_cols=60  Identities=25%  Similarity=0.306  Sum_probs=55.3

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecC-CCcccccccccccCCCcc-cccceeEEE
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLM-NGRLIDYEDMALASPNVK-RESTMQLLF   69 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~-d~~~~~~~~~~L~~~~i~-~~s~i~l~~   69 (148)
                      +|++++++|++||++||++|++++|+||++|+| |+|+.|. |+.       +|++||++ +|+++++.+
T Consensus        13 ~t~~l~v~~~~TV~~lK~kI~~~~gip~~~QrL-~~G~~L~dD~~-------tL~~ygi~~~g~~~~l~~   74 (75)
T cd01799          13 VTIWLTVRPDMTVAQLKDKVFLDYGFPPAVQRW-VIGQRLARDQE-------TLYSHGIRTNGDSAFLYI   74 (75)
T ss_pred             CeEEEEECCCCcHHHHHHHHHHHHCcCHHHEEE-EcCCeeCCCcC-------CHHHcCCCCCCCEEEEEe
Confidence            578999999999999999999999999999999 9999985 668       99999999 889998864

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.

>cd01812 BAG1_N Ubiquitin-like domain of BAG1

Probab=99.55  E-value=8.6e-15  Score=93.52  Aligned_cols=61  Identities=26%  Similarity=0.337  Sum_probs=58.0

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEE
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLF   69 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~   69 (148)
                      +++++++++++||++||++|++.+|+|+++|+|+|+|+.|.|+.       +|++||+++|++++++.
T Consensus        10 ~~~~i~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~l~d~~-------~L~~~~i~~g~~l~v~~   70 (71)
T cd01812          10 ESHDLSISSQATFGDLKKMLAPVTGVEPRDQKLIFKGKERDDAE-------TLDMSGVKDGSKVMLLE   70 (71)
T ss_pred             EEEEEEECCCCcHHHHHHHHHHhhCCChHHeEEeeCCcccCccC-------cHHHcCCCCCCEEEEec
Confidence            46789999999999999999999999999999999999999999       99999999999999874

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).

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

Probab=99.54  E-value=8e-15  Score=96.39  Aligned_cols=62  Identities=24%  Similarity=0.273  Sum_probs=59.5

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEE--EEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDL--FFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L--~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++++++.||++||++|++.+|+|+++|+|  +|+|+.|.|+.       +|++||+++|++++++.+
T Consensus        13 ~~~~~~v~~~~TV~~lK~~I~~~~~i~~~~qrL~~~~~G~~L~D~~-------tL~~~gi~~gs~l~l~~~   76 (80)
T cd01792          13 NEFLVSLRDSMTVSELKQQIAQKIGVPAFQQRLAHLDSREVLQDGV-------PLVSQGLGPGSTVLLVVQ   76 (80)
T ss_pred             CEEEEEcCCCCcHHHHHHHHHHHhCCCHHHEEEEeccCCCCCCCCC-------CHHHcCCCCCCEEEEEEE
Confidence            578899999999999999999999999999999  89999999999       999999999999999987

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.

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

Probab=99.51  E-value=2e-14  Score=94.25  Aligned_cols=60  Identities=18%  Similarity=0.115  Sum_probs=54.5

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhC--CCCcccEEEEcCeecCCCcccccccccccCCC--cccccceeEEE
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEG--TSEDIQDLFFAGDRLMNGRLIDYEDMALASPN--VKRESTMQLLF   69 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~g--ip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~--i~~~s~i~l~~   69 (148)
                      ++++++++++||++||++|++..+  .|+++|||+|+|+.|.|+.       +|++|.  +.++.++||+.
T Consensus        15 ~~~ve~~~~~TV~~lK~~i~~~~~~~~~~~~QrLIy~GKiLkD~~-------tL~~~~~~~~~~~tiHLV~   78 (79)
T cd01790          15 DQTVSCFLNWTVGELKTHLSRVYPSKPLEQDQRLIYSGKLLPDHL-------KLRDVLRKQDEYHMVHLVC   78 (79)
T ss_pred             EEEEecCCcChHHHHHHHHHHhcCCCCChhHeEEEEcCeeccchh-------hHHHHhhcccCCceEEEEe
Confidence            477777999999999999999875  5579999999999999999       999996  99999999985

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.

>cd01815 BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP

Probab=99.48  E-value=3.3e-14  Score=92.19  Aligned_cols=53  Identities=19%  Similarity=0.333  Sum_probs=49.2

Q ss_pred             CCCcHHHHHHHHHhhh--CCC-CcccEEEEcCeecCCCcccccccccccCCCcccccceeEEE
Q 041424           10 KSETIKNLKGMVHEKE--GTS-EDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLF   69 (148)
Q Consensus        10 ~~~tV~~lK~~i~~~~--gip-~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~   69 (148)
                      .++||.+||++|+++.  |++ +++|||+|+|+.|+|+.       +|++|||+++++|||+.
T Consensus        19 ~~~TV~~LK~kI~~~~~egi~~~dqQrLIy~GKiL~D~~-------TL~dygI~~gstlhLv~   74 (75)
T cd01815          19 GGYQVSTLKQLIAAQLPDSLPDPELIDLIHCGRKLKDDQ-------TLDFYGIQSGSTIHILR   74 (75)
T ss_pred             ccCcHHHHHHHHHHhhccCCCChHHeEEEeCCcCCCCCC-------cHHHcCCCCCCEEEEEe
Confidence            5799999999999995  575 99999999999999999       99999999999999874

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

>cd01802 AN1_N ubiquitin-like domain of AN1

Probab=99.47  E-value=1.5e-13  Score=94.66  Aligned_cols=74  Identities=19%  Similarity=0.262  Sum_probs=67.7

Q ss_pred             CCCcccccceeEEEeeeeeccccccCCchhhhhheeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eee
Q 041424           56 SPNVKRESTMQLLFCAIKVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFC  118 (148)
Q Consensus        56 ~~~i~~~s~i~l~~~~~~~~~~~~~~p~~~~~~~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f  118 (148)
                      .+++.+-+++|+.++                ++++|+|+||...|+++.++|+       +|++|++          |+|
T Consensus         9 ~~~~~~~~~~~~~~~----------------~~~~M~I~Vk~l~G~~~~leV~~~~TV~~lK~kI~~~~gip~~~QrLi~   72 (103)
T cd01802           9 FFNEDNMGPFHYKLP----------------FYDTMELFIETLTGTCFELRVSPFETVISVKAKIQRLEGIPVAQQHLIW   72 (103)
T ss_pred             ccccCCcceeEEeec----------------cCCCEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEE
Confidence            356677789999999                8889999999999999998888       9999986          999


Q ss_pred             cCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424          119 TGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus       119 ~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      +|+.|+|+++|++|+|++|++|+++++
T Consensus        73 ~Gk~L~D~~tL~dy~I~~~stL~l~~~   99 (103)
T cd01802          73 NNMELEDEYCLNDYNISEGCTLKLVLA   99 (103)
T ss_pred             CCEECCCCCcHHHcCCCCCCEEEEEEe
Confidence            999999999999999999999999986

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.

>cd01763 Sumo Small ubiquitin-related modifier (SUMO)

Probab=99.42  E-value=6.3e-13  Score=88.75  Aligned_cols=62  Identities=15%  Similarity=0.347  Sum_probs=60.3

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|.+++|+..||.++++..|+|+++|+|+|+|+.|+++.       |+++|++.++++|+++.+
T Consensus        22 ~~~~~~v~~~~~l~~l~~~y~~~~gi~~~~~rf~f~G~~L~~~~-------T~~~l~m~d~d~I~v~l~   83 (87)
T cd01763          22 NEVFFKIKRSTPLKKLMEAYCQRQGLSMNSVRFLFDGQRIRDNQ-------TPDDLGMEDGDEIEVMLE   83 (87)
T ss_pred             CEEEEEEcCCCHHHHHHHHHHHHhCCCccceEEEECCeECCCCC-------CHHHcCCCCCCEEEEEEe
Confidence            56899999999999999999999999999999999999999999       999999999999999998

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.

>cd01795 USP48_C USP ubiquitin-specific protease

Probab=99.38  E-value=9.6e-13  Score=88.94  Aligned_cols=61  Identities=25%  Similarity=0.173  Sum_probs=57.4

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCC-cccccccccccCCCcccccceeEEEe
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNG-RLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~-~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ..+++|++++||.+||.+|...+++||+.|+|+|.|+.|.|+ +       +|++||+.++|++.|..+
T Consensus        16 ~~~L~V~~~~TVg~LK~lImQ~f~V~P~dQkL~~dG~~L~DDsr-------TLssyGv~sgSvl~Llid   77 (107)
T cd01795          16 EKALLVSANQTLKELKIQIMHAFSVAPFDQNLSIDGKILSDDCA-------TLGTLGVIPESVILLKAD   77 (107)
T ss_pred             CceEEeCccccHHHHHHHHHHHhcCCcccceeeecCceeccCCc-------cHHhcCCCCCCEEEEEec
Confidence            468899999999999999999999999999999999999766 6       999999999999999986

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

>smart00213 UBQ Ubiquitin homologues

Probab=99.38  E-value=8.2e-13  Score=82.07  Aligned_cols=54  Identities=35%  Similarity=0.511  Sum_probs=51.6

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCccccc
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRES   63 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s   63 (148)
                      ++.+++++++||++||++|+..+|+|++.|+|+|+|+.|.|+.       +|++||+++|+
T Consensus        11 ~~~~~v~~~~tv~~lk~~i~~~~~~~~~~~~L~~~g~~L~d~~-------tL~~~~i~~~~   64 (64)
T smart00213       11 TITLEVKPSDTVSELKEKIAELTGIPVEQQRLIYKGKVLEDDR-------TLADYNIQDGS   64 (64)
T ss_pred             eEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCEECCCCC-------CHHHcCCcCCC
Confidence            6789999999999999999999999999999999999999999       99999999875

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

>cd01807 GDX_N ubiquitin-like domain of GDX

Probab=99.36  E-value=9.9e-13  Score=85.03  Aligned_cols=55  Identities=22%  Similarity=0.324  Sum_probs=51.2

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      |+|+||+.+|++++++|+       +|++|++          |+|+|+.|+|+++|++|||++|++|+++++
T Consensus         1 m~i~vk~~~G~~~~l~v~~~~tV~~lK~~i~~~~gi~~~~q~L~~~G~~L~d~~~L~~~~i~~~~~l~l~~~   72 (74)
T cd01807           1 MFLTVKLLQGRECSLQVSEKESVSTLKKLVSEHLNVPEEQQRLLFKGKALADDKRLSDYSIGPNAKLNLVVR   72 (74)
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEECCCCCCHHHCCCCCCCEEEEEEc
Confidence            578999999999998887       9999886          999999999999999999999999999987

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

>cd01814 NTGP5 Ubiquitin-like NTGP5 and ATGP4

Probab=99.29  E-value=1.8e-12  Score=89.67  Aligned_cols=58  Identities=22%  Similarity=0.177  Sum_probs=52.3

Q ss_pred             EEEcCCCcHHHHHHHHH-----hhhCCC--CcccEEEEcCeecCCCcccccccccccCCC------cccccceeEEEe
Q 041424            6 LNVEKSETIKNLKGMVH-----EKEGTS--EDIQDLFFAGDRLMNGRLIDYEDMALASPN------VKRESTMQLLFC   70 (148)
Q Consensus         6 l~v~~~~tV~~lK~~i~-----~~~gip--~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~------i~~~s~i~l~~~   70 (148)
                      ..+++++||++||++|+     .++|+|  +++|+|+|+|+.|+|+.       ||++|+      +....|+|+++|
T Consensus        20 ~~~~~sdTV~~lKekI~~~~p~~ke~~P~~~~~qKLIysGKiLeD~~-------TL~d~~~p~g~~~~~~~TmHvvlr   90 (113)
T cd01814          20 KRYPAATTVDFLKERVVSQWPKDKEVGPKTVNEVKLISAGKILENSK-------TVGECRSPVGDIAGGVITMHVVVQ   90 (113)
T ss_pred             cccChhhHHHHHHHHHHHhcccccccCCCCHHHeEEEeCCeecCCCC-------cHHHhCCcccccCCCceEEEEEec
Confidence            45789999999999999     555666  99999999999999999       999999      677799999999

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

>cd01769 UBL Ubiquitin-like domain of UBL

Probab=99.28  E-value=9.1e-12  Score=78.32  Aligned_cols=61  Identities=31%  Similarity=0.527  Sum_probs=57.2

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEE
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLF   69 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~   69 (148)
                      +.+.+.+++++||++||++|+..+|+|++.|+|.|+|+.|.|+.       +|++|++.+++.|+++.
T Consensus         8 ~~~~~~~~~~~ti~~lK~~i~~~~~~~~~~~~l~~~g~~l~d~~-------~l~~~~v~~~~~i~v~~   68 (69)
T cd01769           8 KTFELEVSPDDTVAELKAKIAAKEGVPPEQQRLIYAGKILKDDK-------TLSDYGIQDGSTLHLVL   68 (69)
T ss_pred             CEEEEEECCCChHHHHHHHHHHHHCcChHHEEEEECCcCCCCcC-------CHHHCCCCCCCEEEEEE
Confidence            46788999999999999999999999999999999999999999       99999999999998864

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.

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

Probab=99.24  E-value=1.2e-11  Score=80.96  Aligned_cols=55  Identities=20%  Similarity=0.295  Sum_probs=48.7

Q ss_pred             eeeeeeeeeeee-eehh-hh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           91 VKIFVKMLTEEI-VKLK-VK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        91 i~I~Vk~~~gk~-~~l~-v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      |.|+||+.+|++ ++++ ++       +|.+|++          |+|+|+.|+|+.+|++|||++|++|+|+++
T Consensus         1 M~I~vk~~~G~~~~~l~~v~~~~TV~~lK~~i~~~~gi~~~~QrLi~~Gk~L~D~~tL~~y~i~~~~~i~l~~~   74 (78)
T cd01797           1 MWIQVRTMDGKETRTVDSLSRLTKVEELREKIQELFNVEPECQRLFYRGKQMEDGHTLFDYNVGLNDIIQLLVR   74 (78)
T ss_pred             CEEEEEcCCCCEEEEeeccCCcCcHHHHHHHHHHHhCCCHHHeEEEeCCEECCCCCCHHHcCCCCCCEEEEEEe
Confidence            578999999986 5663 44       9999886          999999999999999999999999999986

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.

>TIGR00601 rad23 UV excision repair protein Rad23

Probab=99.22  E-value=1.7e-11  Score=101.39  Aligned_cols=66  Identities=20%  Similarity=0.382  Sum_probs=61.7

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhC---CCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEeeeee
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEG---TSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFCAIKV   74 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~g---ip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~~~~~   74 (148)
                      ++++++|++++||.+||++|+...|   +|+++|+|+|+|+.|.|+.       +|++|+|+++++|++++...+.
T Consensus        11 ~~~~IeV~~~~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GkiL~Dd~-------tL~dy~I~e~~~Ivvmv~k~k~   79 (378)
T TIGR00601        11 QKFKIDMEPDETVKELKEKIEAEQGKDAYPVAQQKLIYSGKILSDDK-------TVREYKIKEKDFVVVMVSKPKT   79 (378)
T ss_pred             CEEEEEeCCcChHHHHHHHHHHhhCCCCCChhHeEEEECCEECCCCC-------cHHHcCCCCCCEEEEEeccCCC
Confidence            5789999999999999999999999   9999999999999999999       9999999999999999886443

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).

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

Probab=99.22  E-value=1.2e-11  Score=79.01  Aligned_cols=53  Identities=11%  Similarity=0.219  Sum_probs=48.3

Q ss_pred             eeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           93 IFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        93 I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      |+||++.|++++++++       +|+.|++          |+|+|+.|+|+.+|++|||++||+||++.|
T Consensus         1 i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi~~~~q~Li~~G~~L~d~~~l~~~~i~~~stl~l~~~   70 (70)
T cd01798           1 VYVRTNTGHTFPVEVDPDTDIKQLKEVVAKRQGVPPDQLRVIFAGKELRNTTTIQECDLGQQSILHAVRR   70 (70)
T ss_pred             CEEEcCCCCEEEEEECCCChHHHHHHHHHHHHCCCHHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEeC
Confidence            5788889999998887       8888876          999999999999999999999999999875

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.

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

Probab=99.21  E-value=1.7e-11  Score=79.24  Aligned_cols=53  Identities=21%  Similarity=0.231  Sum_probs=48.9

Q ss_pred             eeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           93 IFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        93 I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      |+||++.|++++++++       +|++|++          |+|+|+.|+|+++|++|||++|++|+|+++
T Consensus         1 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~D~~tL~~~~i~~~~tl~l~~~   70 (74)
T cd01810           1 ILVRNDKGRSSIYEVQLTQTVATLKQQVSQRERVQADQFWLSFEGRPMEDEHPLGEYGLKPGCTVFMNLR   70 (74)
T ss_pred             CEEECCCCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCEECCCCCCHHHcCCCCCCEEEEEEE
Confidence            5789999999888888       9999885          999999999999999999999999999987

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.

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

Probab=99.21  E-value=5.2e-11  Score=79.04  Aligned_cols=60  Identities=23%  Similarity=0.253  Sum_probs=52.1

Q ss_pred             EEEEEcCCCcHHHHHHHHHhhhCCCCcccEEE-EcCe-----ec-CCCcccccccccccCCCcccccceeEEEe
Q 041424            4 VTLNVEKSETIKNLKGMVHEKEGTSEDIQDLF-FAGD-----RL-MNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         4 ~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~-~~g~-----~L-~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      .+..+++++||.+||++++..+|+||+.|+|. |.|+     .| +|+.       +|++||+++|++||++-.
T Consensus        15 ~ekr~~~~~Tv~~lK~kl~~~~G~~~~~mrL~l~~~~~~~~~~l~~d~~-------~L~~y~~~dg~~IhVvD~   81 (84)
T cd01789          15 FEKKYSRGLTIAELKKKLELVVGTPASSMRLQLFDGDDKLVSKLDDDDA-------LLGSYPVDDGCRIHVIDV   81 (84)
T ss_pred             eeEecCCCCcHHHHHHHHHHHHCCCccceEEEEEcCCCCeEeecCCCcc-------EeeeccCCCCCEEEEEeC
Confidence            44558999999999999999999999999995 7777     46 4566       999999999999998754

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.

>PTZ00044 ubiquitin; Provisional

Probab=99.19  E-value=2.8e-11  Score=78.32  Aligned_cols=55  Identities=20%  Similarity=0.377  Sum_probs=50.9

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      |+|+||+.+|++++++++       +|++|++          |+|+|+.|+|+.+|++|++++|++|++.++
T Consensus         1 m~i~vk~~~G~~~~l~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~L~d~~~l~~~~i~~~~~i~l~~~   72 (76)
T PTZ00044          1 MQILIKTLTGKKQSFNFEPDNTVQQVKMALQEKEGIDVKQIRLIYSGKQMSDDLKLSDYKVVPGSTIHMVLQ   72 (76)
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEEccCCCcHHHcCCCCCCEEEEEEE
Confidence            578999999999998888       9998876          999999999999999999999999999986

>cd01793 Fubi Fubi ubiquitin-like protein

Probab=99.19  E-value=3e-11  Score=78.08  Aligned_cols=53  Identities=23%  Similarity=0.318  Sum_probs=45.9

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      |+|+||..  ++++++|+       +|++|++          |+|+|+.|+|+++|++|||++++|||++++
T Consensus         1 mqi~vk~~--~~~~l~v~~~~tV~~lK~~i~~~~gip~~~q~Li~~Gk~L~D~~tL~~~~i~~~~tl~l~~~   70 (74)
T cd01793           1 MQLFVRAQ--NTHTLEVTGQETVSDIKAHVAGLEGIDVEDQVLLLAGVPLEDDATLGQCGVEELCTLEVAGR   70 (74)
T ss_pred             CEEEEECC--CEEEEEECCcCcHHHHHHHHHhhhCCCHHHEEEEECCeECCCCCCHHHcCCCCCCEEEEEEe
Confidence            56788874  56666666       9999886          999999999999999999999999999986

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.

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

Probab=99.13  E-value=7e-11  Score=77.54  Aligned_cols=58  Identities=19%  Similarity=0.195  Sum_probs=51.6

Q ss_pred             eeeeeeeeeeeeeeehhhh-------Hhhhhhe----------e--eecCeeeCCCCchhhhCCCCCCEEEEEeecc
Q 041424           90 KVKIFVKMLTEEIVKLKVK-------VLLTIRD----------L--FCTGMKLKDCKTLACYGVKDDRGVACFISDI  147 (148)
Q Consensus        90 ~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L--~f~g~~L~d~~tL~~y~I~~gstI~l~l~~~  147 (148)
                      +|+|+|+...|+++.++++       +|++|++          |  +|+|+.|+|+++|++|||++|++|+++++..
T Consensus         2 ~~~i~Vk~~~G~~~~~~v~~~~TV~~lK~~I~~~~~i~~~~qrL~~~~~G~~L~D~~tL~~~gi~~gs~l~l~~~~~   78 (80)
T cd01792           2 GWDLKVKMLGGNEFLVSLRDSMTVSELKQQIAQKIGVPAFQQRLAHLDSREVLQDGVPLVSQGLGPGSTVLLVVQNC   78 (80)
T ss_pred             ceEEEEEeCCCCEEEEEcCCCCcHHHHHHHHHHHhCCCHHHEEEEeccCCCCCCCCCCHHHcCCCCCCEEEEEEEcc
Confidence            3788999999999988766       8988875          6  8999999999999999999999999998853

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.

>cd01806 Nedd8 Nebb8-like ubiquitin protein

Probab=99.12  E-value=9.7e-11  Score=75.40  Aligned_cols=56  Identities=21%  Similarity=0.322  Sum_probs=50.3

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEeec
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFISD  146 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~~  146 (148)
                      |+|+|+..+|+++.++++       +|+++++          |+|+|+.|+|+++|++|++++|++|+++++.
T Consensus         1 m~i~v~~~~g~~~~~~v~~~~tv~~lK~~i~~~~g~~~~~qrL~~~g~~L~d~~tl~~~~i~~g~~i~l~~~~   73 (76)
T cd01806           1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDDKTAADYKLEGGSVLHLVLAL   73 (76)
T ss_pred             CEEEEEeCCCCEEEEEECCCCCHHHHHHHHhHhhCCChhhEEEEECCeEccCCCCHHHcCCCCCCEEEEEEEc
Confidence            568899999998887776       9998876          8899999999999999999999999999874

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=99.12  E-value=9.3e-11  Score=74.73  Aligned_cols=55  Identities=29%  Similarity=0.378  Sum_probs=49.3

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      |+|+||..+|++++++++       +|+++++          |+|+|+.|+|+++|++||+++|++|+++++
T Consensus         1 i~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~L~d~~~L~~~~i~~~~~l~l~~~   72 (72)
T cd01809           1 IEIKVKTLDSQTHTFTVEEEITVLDLKEKIAEEVGIPVEQQRLIYSGRVLKDDETLSEYKVEDGHTIHLVKR   72 (72)
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCEECCCcCcHHHCCCCCCCEEEEEeC
Confidence            568899999988888777       8888875          999999999999999999999999999875

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.

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

Probab=99.11  E-value=9.5e-11  Score=75.10  Aligned_cols=53  Identities=26%  Similarity=0.328  Sum_probs=44.8

Q ss_pred             eeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           92 KIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        92 ~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      .|+||+..|+. .++++       +|++|++          |+|+|+.|+|+++|++||+++|++||++++
T Consensus         2 ~i~vk~~~g~~-~l~v~~~~TV~~lK~~I~~~~~i~~~~~~Li~~Gk~L~d~~tL~~~~i~~~stl~l~~~   71 (71)
T cd01808           2 KVTVKTPKDKE-EIEIAEDASVKDFKEAVSKKFKANQEQLVLIFAGKILKDTDTLTQHNIKDGLTVHLVIK   71 (71)
T ss_pred             EEEEEcCCCCE-EEEECCCChHHHHHHHHHHHhCCCHHHEEEEECCeEcCCCCcHHHcCCCCCCEEEEEEC
Confidence            46777777763 55555       8888864          999999999999999999999999999986

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.

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

Probab=99.11  E-value=9.5e-12  Score=85.00  Aligned_cols=55  Identities=35%  Similarity=0.573  Sum_probs=50.8

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      +.+++++++|++++++++       +|++|++          |+|+|++|||++||++|||+..|||+++++
T Consensus         1 ~~~~~~~~~GKT~~le~EpS~ti~~vKA~i~~~~Gi~~~~~~L~~~~k~LED~~Tla~Y~i~~~~Tl~~~~r   72 (128)
T KOG0003|consen    1 MQIFVKTLTGKTITLEVEPSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR   72 (128)
T ss_pred             CcEEEEEeeCceEEEEecccchHHHHHHHhccccCCCHHHHHHHhcccccccCCcccccCccchhhhhhhHH
Confidence            357899999999999988       9999997          999999999999999999999999998864

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

Probab=99.10  E-value=3.4e-11  Score=87.30  Aligned_cols=55  Identities=33%  Similarity=0.565  Sum_probs=51.4

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      |.|||++.+|+++..+++       +|++|++          |+|.|++|+|+++|+||+|+..+|||++++
T Consensus         1 m~ifVk~l~~kti~~eve~~~ti~~~Kakiq~~egIp~dqqrlifag~qLedgrtlSDY~Iqkestl~l~l~   72 (156)
T KOG0004|consen    1 MQIFVKTLTGKTITLEVEANDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR   72 (156)
T ss_pred             CccchhhccccceeeeecccccHHHHHHhhhcccCCCchhhhhhhhhcccccCCccccccccccceEEEEEE
Confidence            468999999999998887       9999997          999999999999999999999999999986

>cd01803 Ubiquitin Ubiquitin

Probab=99.09  E-value=1.6e-10  Score=74.36  Aligned_cols=55  Identities=33%  Similarity=0.565  Sum_probs=49.9

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      |+|+|+..+|+.+.++++       +|++|++          |+|+|+.|+|+++|++|++++|++|+++++
T Consensus         1 m~i~v~~~~g~~~~~~v~~~~tV~~lK~~i~~~~g~~~~~q~L~~~g~~L~d~~~L~~~~i~~~~~i~l~~~   72 (76)
T cd01803           1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR   72 (76)
T ss_pred             CEEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhCCCHHHeEEEECCEECCCCCcHHHcCCCCCCEEEEEEE
Confidence            568899988998888777       8888875          899999999999999999999999999987

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

>cd01805 RAD23_N Ubiquitin-like domain of RAD23

Probab=99.06  E-value=2.4e-10  Score=74.00  Aligned_cols=55  Identities=29%  Similarity=0.410  Sum_probs=48.9

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe------------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD------------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e------------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      |+|+|++.+|+.+.++++       +|+.|++            |+|+|+.|+|+.+|++|||++|++|++.++
T Consensus         1 m~i~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~i~~~~~~q~L~~~G~~L~d~~~L~~~~i~~~~~i~~~~~   74 (77)
T cd01805           1 MKITFKTLKQQTFPIEVDPDDTVAELKEKIEEEKGCDYPPEQQKLIYSGKILKDDTTLEEYKIDEKDFVVVMVS   74 (77)
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCCChhHeEEEECCEEccCCCCHHHcCCCCCCEEEEEEe
Confidence            578899999999888877       8877753            999999999999999999999999999876

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).

>cd01804 midnolin_N Ubiquitin-like domain of midnolin

Probab=99.05  E-value=2.3e-10  Score=74.81  Aligned_cols=54  Identities=17%  Similarity=0.198  Sum_probs=48.8

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      |+|+|+...|+.++++++       +|++|++          |+|+|+.|+|+ +|++|||++|++|+++.+
T Consensus         2 m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~~~~~~~qrL~~~Gk~L~d~-~L~~~gi~~~~~i~l~~~   72 (78)
T cd01804           2 MNLNIHSTTGTRFDLSVPPDETVEGLKKRISQRLKVPKERLALLHRETRLSSG-KLQDLGLGDGSKLTLVPT   72 (78)
T ss_pred             eEEEEEECCCCEEEEEECCcCHHHHHHHHHHHHhCCChHHEEEEECCcCCCCC-cHHHcCCCCCCEEEEEee
Confidence            678999998999888877       9998875          99999999999 999999999999999875

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.

>cd01794 DC_UbP_C dendritic cell derived ubiquitin-like protein

Probab=99.04  E-value=2.5e-10  Score=73.29  Aligned_cols=51  Identities=25%  Similarity=0.290  Sum_probs=46.0

Q ss_pred             eeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEe
Q 041424           94 FVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFI  144 (148)
Q Consensus        94 ~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l  144 (148)
                      .||..+|++++++++       +|++|++          |+|+|+.|+|+.+|.+|+|++|++||+.+
T Consensus         2 ~vk~~~G~~~~l~v~~~~TV~~lK~~I~~~~gi~~~~q~Li~~G~~L~D~~~l~~~~i~~~~tv~~~~   69 (70)
T cd01794           2 KVRLSTGKDVKLSVSSKDTVGQLKKQLQAAEGVDPCCQRWFFSGKLLTDKTRLQETKIQKDYVVQVIV   69 (70)
T ss_pred             eEEcCCCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCeECCCCCCHHHcCCCCCCEEEEEe
Confidence            467788899888888       9999875          99999999999999999999999999975

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.

>cd01791 Ubl5 UBL5 ubiquitin-like modifier

Probab=99.03  E-value=2.6e-10  Score=73.83  Aligned_cols=53  Identities=17%  Similarity=0.178  Sum_probs=47.7

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEE
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACF  143 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~  143 (148)
                      |.|.|++..|+.+.++++       ||++|++          |+|+|+.|+|+++|++|||++|++|||-
T Consensus         2 ~~i~vkt~~Gk~~~~~v~~~~TV~~LK~~I~~~~~~~~~~qrLi~~Gk~L~D~~tL~~ygi~~~stv~l~   71 (73)
T cd01791           2 IEVVCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRPEKIVLKKWYTIFKDHISLGDYEIHDGMNLELY   71 (73)
T ss_pred             EEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEeCCcCCCCCCCHHHcCCCCCCEEEEE
Confidence            568888888898888766       9999876          9999999999999999999999999985

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.

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

Probab=99.03  E-value=2.3e-10  Score=96.10  Aligned_cols=63  Identities=21%  Similarity=0.339  Sum_probs=59.9

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEeee
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFCAI   72 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~~~   72 (148)
                      .+.+.|..+.||.+||++|...+++|+++|+|||.|+.|+|+.       +|..|||++|.||||+.+..
T Consensus        26 k~~~~V~~~ssV~qlKE~I~~~f~a~~dqlvLIfaGrILKD~d-------TL~~~gI~Dg~TvHLVik~~   88 (493)
T KOG0010|consen   26 KYEVNVASDSSVLQLKELIAQRFGAPPDQLVLIYAGRILKDDD-------TLKQYGIQDGHTVHLVIKSQ   88 (493)
T ss_pred             ceeEecccchHHHHHHHHHHHhcCCChhHeeeeecCccccChh-------hHHHcCCCCCcEEEEEeccC
Confidence            4678999999999999999999999999999999999999999       99999999999999999853

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

Probab=99.03  E-value=4.9e-10  Score=74.57  Aligned_cols=61  Identities=20%  Similarity=0.213  Sum_probs=49.7

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEc-C------eecC-CCcccccccccccCCCcccccceeEEEe
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFA-G------DRLM-NGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~-g------~~L~-d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      .++..+++++||++||++|+..+|+|++.|+|.+. .      ..+. |..       +|.+||+++|.+||+.-.
T Consensus        15 ~~ekr~~~~~Tv~eLK~kl~~~~Gi~~~~m~L~l~~~~~~~~~~~~~dd~~-------~L~~y~~~dg~~i~V~D~   83 (87)
T PF14560_consen   15 SVEKRFPKSITVSELKQKLEKLTGIPPSDMRLQLKSDKDDSKIEELDDDDA-------TLGSYGIKDGMRIHVVDT   83 (87)
T ss_dssp             EEEEEEETTSBHHHHHHHHHHHHTS-TTTEEEEEE-TSSSSEEEESSGSSS-------BCCHHT-STTEEEEEEE-
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCcccEEEEEEecCCCccccccCCCcc-------EeecCCCCCCCEEEEEeC
Confidence            56788999999999999999999999999999876 1      1243 455       999999999999998754

>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=98.96  E-value=8e-10  Score=70.00  Aligned_cols=50  Identities=34%  Similarity=0.505  Sum_probs=42.9

Q ss_pred             eeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           96 KMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        96 k~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      |+.+|+.+.++++       +|+.|++          |+|+|+.|+|+.+|.+|||++|++|+++++
T Consensus         1 k~~~g~~~~~~v~~~~tV~~lK~~i~~~~~~~~~~~~L~~~G~~L~d~~tL~~~~i~~~~~I~l~~k   67 (69)
T PF00240_consen    1 KTLSGKTFTLEVDPDDTVADLKQKIAEETGIPPEQQRLIYNGKELDDDKTLSDYGIKDGSTIHLVIK   67 (69)
T ss_dssp             EETTSEEEEEEEETTSBHHHHHHHHHHHHTSTGGGEEEEETTEEESTTSBTGGGTTSTTEEEEEEES
T ss_pred             CCCCCcEEEEEECCCCCHHHhhhhcccccccccccceeeeeeecccCcCcHHHcCCCCCCEEEEEEe
Confidence            3456777777666       8888776          999999999999999999999999999876

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 ....

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

Probab=98.91  E-value=5.6e-09  Score=65.27  Aligned_cols=62  Identities=42%  Similarity=0.644  Sum_probs=59.4

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +++.+.+.++.++..+|.+++...|+|++.|++.+.|+.|+|+.       ++++|+|..++++++..+
T Consensus        10 k~~~~~~~~~~~i~~~k~~i~~~~~~~~~~q~~~~~~~~l~d~~-------~l~~~~i~~~~~~~l~~~   71 (75)
T KOG0001|consen   10 KTITLEVSPSDTIEVVKAKIRDKEGIPVDQQRLIFGGKPLEDGR-------TLADYNIQEGSTLHLVLS   71 (75)
T ss_pred             CEEEEEecCCCHHHHHHHHHHhhcCCCCeeEEEEECCEECcCCC-------cHHHhCCCCCCEEEEEEe
Confidence            57889999999999999999999999999999999999999999       999999999999999887

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

Probab=98.88  E-value=4.1e-09  Score=67.38  Aligned_cols=61  Identities=21%  Similarity=0.366  Sum_probs=55.5

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCC-cccEEEEcCeecCCCcccccccccccCCCcccccceeEEE
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSE-DIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLF   69 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~-~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~   69 (148)
                      +.+.+.|.+++++..|++..++..|+|+ +..+|+|.|+.|.++.       |++++|+.+|++|++++
T Consensus        11 ~~~~~~v~~~~~~~~l~~~~~~~~~i~~~~~~~l~fdG~~L~~~~-------T~~~~~ied~d~Idv~I   72 (72)
T PF11976_consen   11 KEIKFKVKPTTTVSKLIEKYCEKKGIPPEESIRLIFDGKRLDPND-------TPEDLGIEDGDTIDVII   72 (72)
T ss_dssp             EEEEEEEETTSCCHHHHHHHHHHHTTTT-TTEEEEETTEEE-TTS-------CHHHHT-STTEEEEEE-
T ss_pred             CEEEEEECCCCcHHHHHHHHHHhhCCCccceEEEEECCEEcCCCC-------CHHHCCCCCCCEEEEEC
Confidence            4688999999999999999999999999 9999999999999999       99999999999999863

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 ....

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

Probab=98.85  E-value=3.9e-09  Score=84.91  Aligned_cols=65  Identities=20%  Similarity=0.374  Sum_probs=61.6

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhC--CCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEeeee
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEG--TSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFCAIK   73 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~g--ip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~~~~   73 (148)
                      .+|++++.|++||.++|.+|+...|  .|+++|+|+|+|+.|.|+.       ++.+|++.+++.|.+++...+
T Consensus        11 ~~F~iev~Pe~tV~evK~kIet~~g~dyP~~~QkLIy~GkiL~D~~-------tv~Eykv~E~~fiVvMlsK~k   77 (340)
T KOG0011|consen   11 QTFTIEVKPEDTVVEVKKKIETEKGPDYPAEQQKLIYSGKILKDET-------TVGEYKVKEKKFIVVMLSKDK   77 (340)
T ss_pred             ceeEeecCcchhHHHHHHHHHhccCCCCchhhheeeecceeccCCc-------chhhhccccCceEEEEEecCc
Confidence            3689999999999999999999999  9999999999999999999       999999999999999998665

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

Probab=98.83  E-value=4.2e-09  Score=67.57  Aligned_cols=51  Identities=33%  Similarity=0.337  Sum_probs=43.7

Q ss_pred             eeeeee-eeeeeehhhh-------Hhhhhhe----------eeecCeeeCCC-CchhhhCCCCCCEEEEE
Q 041424           93 IFVKML-TEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDC-KTLACYGVKDDRGVACF  143 (148)
Q Consensus        93 I~Vk~~-~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~-~tL~~y~I~~gstI~l~  143 (148)
                      ++|++. +|+++.++++       +|++|++          |+|+|+.|+|+ .+|++|||++|++|+|.
T Consensus         1 l~v~~~~~g~~~~l~v~~~~TV~~lK~~I~~~~gip~~~q~Li~~Gk~L~D~~~~L~~~gi~~~~~l~l~   70 (71)
T cd01796           1 ITVYTARSETTFSLDVDPDLELENFKALCEAESGIPASQQQLIYNGRELVDNKRLLALYGVKDGDLVVLR   70 (71)
T ss_pred             CEEEECCCCCEEEEEECCcCCHHHHHHHHHHHhCCCHHHeEEEECCeEccCCcccHHHcCCCCCCEEEEe
Confidence            356777 7888887777       8988876          99999999987 68999999999999984

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.

>cd01788 ElonginB Ubiquitin-like domain of Elongin B

Probab=98.82  E-value=9.2e-09  Score=71.20  Aligned_cols=62  Identities=23%  Similarity=0.287  Sum_probs=57.1

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCc-------ccccceeEEEee
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNV-------KRESTMQLLFCA   71 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i-------~~~s~i~l~~~~   71 (148)
                      |+.+++.++.||.+||++|+.+...||+.|+|+-.+..|+|++       +|++||+       +..+++-+.+|.
T Consensus        13 TiF~dakes~tVlelK~~iegI~k~pp~dQrL~kd~qvLeD~k-------TL~d~g~t~~~akaq~pA~vgLa~r~   81 (119)
T cd01788          13 TIFTDAKESTTVYELKRIVEGILKRPPEDQRLYKDDQLLDDGK-------TLGDCGFTSQTARPQAPATVGLAFRS   81 (119)
T ss_pred             EEEeecCCcccHHHHHHHHHHHhcCChhHheeecCceeecccc-------cHHHcCccccccccCCCCeEEEEEec
Confidence            6889999999999999999999999999999996667799999       9999999       778889888883

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

>cd01763 Sumo Small ubiquitin-related modifier (SUMO)

Probab=98.80  E-value=9.2e-09  Score=68.53  Aligned_cols=57  Identities=18%  Similarity=0.300  Sum_probs=50.7

Q ss_pred             heeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           89 LKVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        89 ~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      ..|.|+|+..+|+.+.++|+       |+..+++          |+|+|+.|+++.|+.+|++++||+|+++++
T Consensus        10 ~~i~I~v~~~~g~~~~~~v~~~~~l~~l~~~y~~~~gi~~~~~rf~f~G~~L~~~~T~~~l~m~d~d~I~v~l~   83 (87)
T cd01763          10 EHINLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQRQGLSMNSVRFLFDGQRIRDNQTPDDLGMEDGDEIEVMLE   83 (87)
T ss_pred             CeEEEEEECCCCCEEEEEEcCCCHHHHHHHHHHHHhCCCccceEEEECCeECCCCCCHHHcCCCCCCEEEEEEe
Confidence            45788999999999988888       6666665          999999999999999999999999999875

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.

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

Probab=98.79  E-value=6e-09  Score=68.35  Aligned_cols=54  Identities=17%  Similarity=0.100  Sum_probs=45.1

Q ss_pred             eeeeeeeeeeeeeehhh--h-------Hhhhhhe------------eeecCeeeCCCCchhhhC--CCCCCEEEEEe
Q 041424           91 VKIFVKMLTEEIVKLKV--K-------VLLTIRD------------LFCTGMKLKDCKTLACYG--VKDDRGVACFI  144 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v--~-------lK~~i~e------------L~f~g~~L~d~~tL~~y~--I~~gstI~l~l  144 (148)
                      +.++||+.+++...+++  +       +|++|++            |+|+||.|+|..||++|.  +++|.||||+-
T Consensus         2 i~l~IK~~~~~~~~~~ve~~~~~TV~~lK~~i~~~~~~~~~~~~QrLIy~GKiLkD~~tL~~~~~~~~~~~tiHLV~   78 (79)
T cd01790           2 VTLLIKSPNQKYEDQTVSCFLNWTVGELKTHLSRVYPSKPLEQDQRLIYSGKLLPDHLKLRDVLRKQDEYHMVHLVC   78 (79)
T ss_pred             eEEEEECCCCCeEEEEEecCCcChHHHHHHHHHHhcCCCCChhHeEEEEcCeeccchhhHHHHhhcccCCceEEEEe
Confidence            56788888888744444  3       8877765            999999999999999996  99999999985

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.

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

Probab=98.78  E-value=3.5e-09  Score=65.15  Aligned_cols=53  Identities=23%  Similarity=0.336  Sum_probs=48.0

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEE
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACF  143 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~  143 (148)
                      |.|.|++++|+.+.++++       +|..+++          |+|.|++|.|++|-.+|++..||++|++
T Consensus         1 m~iKvktLt~KeIeidIep~DkverIKErvEEkeGIPp~qqrli~~gkqm~DD~tA~~Y~~~~GSVlHlv   70 (70)
T KOG0005|consen    1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYAGKQMNDDKTAAHYNLLGGSVLHLV   70 (70)
T ss_pred             CeeeEeeeccceEEEeeCcchHHHHHHHHhhhhcCCCchhhhhhhccccccccccHHHhhhccceeEeeC
Confidence            357889999999998887       7888776          9999999999999999999999999985

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

Probab=98.78  E-value=7.6e-09  Score=67.16  Aligned_cols=47  Identities=17%  Similarity=0.389  Sum_probs=41.0

Q ss_pred             eeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           99 TEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        99 ~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      +|++++++++       +|++|++          |+|+|+.|+|+++|++|+|++|++|+++++
T Consensus         6 ~g~~~~l~v~~~~TV~~lK~~i~~~~gip~~~q~L~~~G~~L~d~~tL~~~~i~~g~~l~v~~~   69 (76)
T cd01800           6 NGQMLNFTLQLSDPVSVLKVKIHEETGMPAGKQKLQYEGIFIKDSNSLAYYNLANGTIIHLQLK   69 (76)
T ss_pred             CCeEEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCEEcCCCCcHHHcCCCCCCEEEEEEe
Confidence            4666666666       8888875          999999999999999999999999999986

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.

>cd01812 BAG1_N Ubiquitin-like domain of BAG1

Probab=98.72  E-value=1.7e-08  Score=64.06  Aligned_cols=52  Identities=27%  Similarity=0.326  Sum_probs=44.6

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEE
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACF  143 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~  143 (148)
                      |+|.||.. |+...++++       +|++|++          |+|+|+.|+|+.+|++||+++|++|+++
T Consensus         1 i~i~vk~~-g~~~~i~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~l~d~~~L~~~~i~~g~~l~v~   69 (71)
T cd01812           1 IRVRVKHG-GESHDLSISSQATFGDLKKMLAPVTGVEPRDQKLIFKGKERDDAETLDMSGVKDGSKVMLL   69 (71)
T ss_pred             CEEEEEEC-CEEEEEEECCCCcHHHHHHHHHHhhCCChHHeEEeeCCcccCccCcHHHcCCCCCCEEEEe
Confidence            35777775 777777766       8888875          9999999999999999999999999986

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).

>cd01815 BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP

Probab=98.67  E-value=2.2e-08  Score=64.97  Aligned_cols=30  Identities=33%  Similarity=0.513  Sum_probs=28.6

Q ss_pred             eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424          116 LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus       116 L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      |+|+|+.|+|++||++|||++|++|||+.+
T Consensus        46 LIy~GKiL~D~~TL~dygI~~gstlhLv~~   75 (75)
T cd01815          46 LIHCGRKLKDDQTLDFYGIQSGSTIHILRK   75 (75)
T ss_pred             EEeCCcCCCCCCcHHHcCCCCCCEEEEEeC
Confidence            999999999999999999999999999853

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

>TIGR00601 rad23 UV excision repair protein Rad23

Probab=98.64  E-value=3.1e-08  Score=82.13  Aligned_cols=55  Identities=25%  Similarity=0.368  Sum_probs=50.0

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe-------------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD-------------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e-------------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      |+|+||++.|+++.++|+       ||++|++             |+|+|+.|+|+++|.+|+|++|++|+++++
T Consensus         1 MkItVKtl~g~~~~IeV~~~~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GkiL~Dd~tL~dy~I~e~~~Ivvmv~   75 (378)
T TIGR00601         1 MTLTFKTLQQQKFKIDMEPDETVKELKEKIEAEQGKDAYPVAQQKLIYSGKILSDDKTVREYKIKEKDFVVVMVS   75 (378)
T ss_pred             CEEEEEeCCCCEEEEEeCCcChHHHHHHHHHHhhCCCCCChhHeEEEECCEECCCCCcHHHcCCCCCCEEEEEec
Confidence            578999999999999888       8888753             999999999999999999999999999876

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).

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

Probab=98.52  E-value=8.1e-08  Score=80.93  Aligned_cols=55  Identities=29%  Similarity=0.405  Sum_probs=45.6

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEeec
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFISD  146 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~~  146 (148)
                      +.|.||+.++ +..+.|.       +|+.|..          |||.||.|.|..||..|||++|.|||||.+-
T Consensus        16 irV~Vkt~~d-k~~~~V~~~ssV~qlKE~I~~~f~a~~dqlvLIfaGrILKD~dTL~~~gI~Dg~TvHLVik~   87 (493)
T KOG0010|consen   16 IRVTVKTPKD-KYEVNVASDSSVLQLKELIAQRFGAPPDQLVLIYAGRILKDDDTLKQYGIQDGHTVHLVIKS   87 (493)
T ss_pred             eEEEEecCCc-ceeEecccchHHHHHHHHHHHhcCCChhHeeeeecCccccChhhHHHcCCCCCcEEEEEecc
Confidence            5678888766 4444444       7877775          9999999999999999999999999999863

>cd01801 Tsc13_N Ubiquitin-like domain of Tsc13

Probab=98.45  E-value=2.9e-07  Score=59.87  Aligned_cols=52  Identities=21%  Similarity=0.252  Sum_probs=46.5

Q ss_pred             cCCCcHHHHHHHHHhhhC-CCCcccEEE--EcCeecCCCcccccccccccCCCcccccceeE
Q 041424            9 EKSETIKNLKGMVHEKEG-TSEDIQDLF--FAGDRLMNGRLIDYEDMALASPNVKRESTMQL   67 (148)
Q Consensus         9 ~~~~tV~~lK~~i~~~~g-ip~~~Q~L~--~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l   67 (148)
                      +++.||.+||..+++..+ +++++|||.  +.|+.|.|+.       +|++||+.+|+++++
T Consensus        20 ~~~aTV~dlk~~i~~~~~~~~~~Rqrl~~~~~g~~L~d~~-------tL~~~gv~~g~~lyv   74 (77)
T cd01801          20 SGDATIADLKKLIAKSSPQLTVNRQSLRLEPKGKSLKDDD-------TLVDLGVGAGATLYV   74 (77)
T ss_pred             CCCccHHHHHHHHHHHcCCCCcceeEEEeCCCCcccCCcc-------cHhhcCCCCCCEEEE
Confidence            588999999999999876 589999995  7889999999       999999999998764

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

>cd00196 UBQ Ubiquitin-like proteins

Probab=98.45  E-value=7.4e-07  Score=52.78  Aligned_cols=60  Identities=25%  Similarity=0.303  Sum_probs=54.5

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEE
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLF   69 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~   69 (148)
                      ...+.+++..|+.++|+++.++.|++++.|.|++.|..+.+..       .+.++++.+++++++..
T Consensus         9 ~~~~~~~~~~tv~~l~~~i~~~~~~~~~~~~l~~~~~~~~~~~-------~~~~~~~~~~~~i~~~~   68 (69)
T cd00196           9 TVELLVPSGTTVADLKEKLAKKLGLPPEQQRLLVNGKILPDSL-------TLEDYGLQDGDELVLVP   68 (69)
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHHCcChHHeEEEECCeECCCCC-------cHHHcCCCCCCEEEEEe
Confidence            5678888999999999999999999999999999999999888       77889999999998764

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.

>PLN02560 enoyl-CoA reductase

Probab=98.43  E-value=3.8e-07  Score=73.91  Aligned_cols=56  Identities=23%  Similarity=0.332  Sum_probs=49.9

Q ss_pred             EEEEcCCCcHHHHHHHHHhhhCC-CCcccEEEEc---C----eecCCCcccccccccccCCCcccccceeE
Q 041424            5 TLNVEKSETIKNLKGMVHEKEGT-SEDIQDLFFA---G----DRLMNGRLIDYEDMALASPNVKRESTMQL   67 (148)
Q Consensus         5 ~l~v~~~~tV~~lK~~i~~~~gi-p~~~Q~L~~~---g----~~L~d~~~~~~~~~~L~~~~i~~~s~i~l   67 (148)
                      +++++++.||++||++|+++.++ ++++|||.+.   |    ..|.|+.       +|+++|+++++++++
T Consensus        17 ~lev~~~aTV~dLK~~Isk~~~~~~~~RqRL~~~~~~gk~~g~~L~d~k-------tL~d~gv~~gstLy~   80 (308)
T PLN02560         17 GLEVPDSATVADLKKAIHKRKKKYYPSRQRLTLPLPPGKTRPTVLDDSK-------SLKDYGLGDGGTVVF   80 (308)
T ss_pred             eEEcCCCCcHHHHHHHHHHHcCCCChhheEEEEecCCCCcCccccCCCC-------CHHhcCCCCCceEEE
Confidence            78999999999999999999986 8999999983   3    3788898       999999999998764

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

Probab=98.43  E-value=2.4e-07  Score=83.59  Aligned_cols=62  Identities=21%  Similarity=0.299  Sum_probs=59.0

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEee
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFCA   71 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~~   71 (148)
                      ++.++.|..++||.+||..+.+...|+.+.|||+|.|+.|.|++       ++.+|+| +|.+|||+.|+
T Consensus        13 r~~t~~ig~q~ti~~~~d~~r~~~ni~s~~qr~i~~grvl~~~k-------~vq~~~v-dgk~~hlverp   74 (1143)
T KOG4248|consen   13 RTRTFIIGAQMTIKEFKDHIRASVNIPSEKQRLIYQGRVLQDDK-------KVQEYNV-DGKVIHLVERP   74 (1143)
T ss_pred             ceeEEEechHHHHHHHHHHHHHhcccccccceeeecceeeccch-------hhhhccC-CCeEEEeeccC
Confidence            46788899999999999999999999999999999999999999       9999999 99999999993

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

Probab=98.40  E-value=1.2e-06  Score=60.97  Aligned_cols=61  Identities=20%  Similarity=0.252  Sum_probs=47.1

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhh-------CCCCcccEEEEcCeecCCCcccccccccccCCCccccc------ceeEEE
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKE-------GTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRES------TMQLLF   69 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~-------gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s------~i~l~~   69 (148)
                      +.++..++++||++||+.|....       -..++..||+|.|+.|+|+.       +|+++.+..+.      ++||++
T Consensus        15 ~~~~~~~~~~TV~~lKe~i~~~WP~d~~~~p~s~~~lRLI~~GriL~d~~-------tL~~~~~~~~~~~~~~~vmHlvv   87 (111)
T PF13881_consen   15 IGPFRFDPSTTVADLKERIWAEWPEDWEERPKSPSDLRLIYAGRILEDNK-------TLSDCRLPSGETPGGPTVMHLVV   87 (111)
T ss_dssp             EEEEEE-TTSBHHHHHHHHHHSSSTTSSSTT-SGGGEEEEETTEEE-SSS-------BTGGGT--TTSETT--EEEEEEE
T ss_pred             ccccccCccChHHHHHHHHHHHCccccccCCCChhhEEEEeCCeecCCcC-------cHHHhCCCCCCCCCCCEEEEEEe
Confidence            56788999999999999999743       13467899999999999999       99999988765      678888


Q ss_pred             e
Q 041424           70 C   70 (148)
Q Consensus        70 ~   70 (148)
                      +
T Consensus        88 r   88 (111)
T PF13881_consen   88 R   88 (111)
T ss_dssp             -
T ss_pred             c
Confidence            7

>cd01813 UBP_N UBP ubiquitin processing protease

Probab=98.34  E-value=7.3e-07  Score=57.69  Aligned_cols=51  Identities=14%  Similarity=0.184  Sum_probs=43.1

Q ss_pred             eeeeeeeeeeeeehhhh-------Hhhhhhe----------eee---cCeeeCCCCchhhhCCCCCCEEEEE
Q 041424           92 KIFVKMLTEEIVKLKVK-------VLLTIRD----------LFC---TGMKLKDCKTLACYGVKDDRGVACF  143 (148)
Q Consensus        92 ~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f---~g~~L~d~~tL~~y~I~~gstI~l~  143 (148)
                      .|.||. .|+.++++|+       +|++|++          |+|   +|+.++|+.+|++|+|++|+.|.|+
T Consensus         2 ~i~vk~-~g~~~~v~v~~~~Tv~~lK~~i~~~tgvp~~~QKLi~~~~~Gk~l~D~~~L~~~~i~~g~~i~lm   72 (74)
T cd01813           2 PVIVKW-GGQEYSVTTLSEDTVLDLKQFIKTLTGVLPERQKLLGLKVKGKPAEDDVKISALKLKPNTKIMMM   72 (74)
T ss_pred             EEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHHCCCHHHEEEEeecccCCcCCCCcCHHHcCCCCCCEEEEE
Confidence            455555 5788888777       8999886          885   9999999999999999999999886

The UBP (ubiquitin processing protease) domain (also referred to as USP which stands for "ubiquitin-specific protease") is present at in a large family of cysteine proteases that specifically cleave ubiquitin conjugates. This family includes Rpn11, UBP6 (USP14), USP7 (HAUSP). This domain is closely related to the amino-terminal ubiquitin-like domain of BAG1 (Bcl2-associated anthanogene1) protein and is found only in eukaryotes.

>smart00213 UBQ Ubiquitin homologues

Probab=98.30  E-value=6.8e-07  Score=55.01  Aligned_cols=47  Identities=34%  Similarity=0.513  Sum_probs=37.4

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCC
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDR  138 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gs  138 (148)
                      |+|+|+..+ +.+.++++       +|+.+++          |+|+|+.|+|+.+|++||+++|+
T Consensus         1 ~~i~vk~~~-~~~~~~v~~~~tv~~lk~~i~~~~~~~~~~~~L~~~g~~L~d~~tL~~~~i~~~~   64 (64)
T smart00213        1 IELTVKTLD-GTITLEVKPSDTVSELKEKIAELTGIPVEQQRLIYKGKVLEDDRTLADYNIQDGS   64 (64)
T ss_pred             CEEEEEECC-ceEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCEECCCCCCHHHcCCcCCC
Confidence            356777765 55555555       8888764          99999999999999999999986

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

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

Probab=98.27  E-value=1.2e-06  Score=57.59  Aligned_cols=59  Identities=22%  Similarity=0.287  Sum_probs=36.8

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcC---eec--CCCcccccccccccCCCcccccceeEE
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAG---DRL--MNGRLIDYEDMALASPNVKRESTMQLL   68 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g---~~L--~d~~~~~~~~~~L~~~~i~~~s~i~l~   68 (148)
                      +..++++|++|+++|+++|++..++|.+.|.|....   ..+  .++.       +|+++|++.|+.+++-
T Consensus        15 ~~Rie~~~~~t~~~L~~kI~~~l~~~~~~~~L~~~~~~~~~l~s~~~~-------tl~~lglkHGdmlyL~   78 (80)
T PF11543_consen   15 MKRIEVSPSSTLSDLKEKISEQLSIPDSSQSLSKDRNNKEELKSSDSK-------TLSSLGLKHGDMLYLK   78 (80)
T ss_dssp             EEEEEE-TTSBHHHHHHHHHHHS---TTT---BSSGGGGGCSSS-TT--------CCCCT---TT-EEE--
T ss_pred             CEEEEcCCcccHHHHHHHHHHHcCCCCcceEEEecCCCCcccccCCcC-------CHHHcCCCCccEEEEe
Confidence            578999999999999999999999999999886432   234  3456       9999999999988753

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.

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

Probab=98.26  E-value=1.4e-06  Score=55.47  Aligned_cols=54  Identities=24%  Similarity=0.361  Sum_probs=39.3

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe-----------eeecCeeeCCCCchhhhCCCCCCEEEEEe
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD-----------LFCTGMKLKDCKTLACYGVKDDRGVACFI  144 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e-----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l  144 (148)
                      |+|+|+..+|+.+.+.|.       +...+++           |+|.|+.|+++.|+.+||+++||+|++.+
T Consensus         1 I~i~v~~~~~~~~~~~v~~~~~~~~l~~~~~~~~~i~~~~~~~l~fdG~~L~~~~T~~~~~ied~d~Idv~I   72 (72)
T PF11976_consen    1 ITIKVRSQDGKEIKFKVKPTTTVSKLIEKYCEKKGIPPEESIRLIFDGKRLDPNDTPEDLGIEDGDTIDVII   72 (72)
T ss_dssp             EEEEEEETTSEEEEEEEETTSCCHHHHHHHHHHHTTTT-TTEEEEETTEEE-TTSCHHHHT-STTEEEEEE-
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCccceEEEEECCEEcCCCCCHHHCCCCCCCEEEEEC
Confidence            456677777776666666       3333322           99999999999999999999999999864

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 ....

>cd01799 Hoil1_N Ubiquitin-like domain of HOIL1

Probab=98.11  E-value=4.1e-06  Score=54.35  Aligned_cols=35  Identities=20%  Similarity=0.270  Sum_probs=30.8

Q ss_pred             Hhhhhhe----------eeecCeeeC-CCCchhhhCCC-CCCEEEEEe
Q 041424          109 VLLTIRD----------LFCTGMKLK-DCKTLACYGVK-DDRGVACFI  144 (148)
Q Consensus       109 lK~~i~e----------L~f~g~~L~-d~~tL~~y~I~-~gstI~l~l  144 (148)
                      +|+++++          | |+|+.|. |+++|++||++ +|++++|.+
T Consensus        28 lK~kI~~~~gip~~~QrL-~~G~~L~dD~~tL~~ygi~~~g~~~~l~~   74 (75)
T cd01799          28 LKDKVFLDYGFPPAVQRW-VIGQRLARDQETLYSHGIRTNGDSAFLYI   74 (75)
T ss_pred             HHHHHHHHHCcCHHHEEE-EcCCeeCCCcCCHHHcCCCCCCCEEEEEe
Confidence            8888876          8 9999995 77999999998 899999875

HOIL1_N HOIL-1 (heme-oxidized IRP2 ubiquitin ligase-1) is an E3 ubiquitin-protein ligase that recognizes heme-oxidized IRP2 (iron regulatory protein2) and is thought to affect the turnover of oxidatively damaged proteins. Hoil-1 has an amino-terminal ubiquitin-like domain as well as an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain.

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

Probab=98.09  E-value=4e-06  Score=67.77  Aligned_cols=55  Identities=33%  Similarity=0.465  Sum_probs=50.9

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe------------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD------------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e------------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      |+|+||++.+.++++++.       +|.+|+.            |||.|+.|.|..|+.+|++++++-|.++++
T Consensus         1 m~lt~KtL~q~~F~iev~Pe~tV~evK~kIet~~g~dyP~~~QkLIy~GkiL~D~~tv~Eykv~E~~fiVvMls   74 (340)
T KOG0011|consen    1 MKLTVKTLKQQTFTIEVKPEDTVVEVKKKIETEKGPDYPAEQQKLIYSGKILKDETTVGEYKVKEKKFIVVMLS   74 (340)
T ss_pred             CeeEeeeccCceeEeecCcchhHHHHHHHHHhccCCCCchhhheeeecceeccCCcchhhhccccCceEEEEEe
Confidence            578999999999999988       8888885            999999999999999999999999998876

>cd01814 NTGP5 Ubiquitin-like NTGP5 and ATGP4

Probab=98.08  E-value=5.5e-06  Score=57.54  Aligned_cols=31  Identities=16%  Similarity=0.174  Sum_probs=29.1

Q ss_pred             eeecCeeeCCCCchhhhC------CCCCCEEEEEeec
Q 041424          116 LFCTGMKLKDCKTLACYG------VKDDRGVACFISD  146 (148)
Q Consensus       116 L~f~g~~L~d~~tL~~y~------I~~gstI~l~l~~  146 (148)
                      |||+|+.|+|++||++|+      +....|+|++++.
T Consensus        55 LIysGKiLeD~~TL~d~~~p~g~~~~~~~TmHvvlr~   91 (113)
T cd01814          55 LISAGKILENSKTVGECRSPVGDIAGGVITMHVVVQP   91 (113)
T ss_pred             EEeCCeecCCCCcHHHhCCcccccCCCceEEEEEecC
Confidence            999999999999999999      7788999999874

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

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

Probab=98.01  E-value=7.5e-06  Score=66.11  Aligned_cols=62  Identities=21%  Similarity=0.430  Sum_probs=57.1

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEE-Ee
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLL-FC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~-~~   70 (148)
                      .+++++|+.+.+|.+||+.++...|+|+++.+++|.|+.|+|+.       ++..+.+..-+.+|++ +|
T Consensus        14 h~l~v~v~~~t~I~~lke~Vak~~gvp~D~L~viFaGKeLs~~t-------tv~~cDL~qqs~~hi~~lR   76 (446)
T KOG0006|consen   14 HGLPVEVDSDTSIFQLKEVVAKRQGVPADQLRVIFAGKELSNDT-------TVQNCDLSQQSATHIMLLR   76 (446)
T ss_pred             CceeEEEecCCCHHHHHHHHHHhhCCChhheEEEEeccccccCc-------eeecccccccchhhhhccC
Confidence            36889999999999999999999999999999999999999999       9998888888888887 44

>cd01769 UBL Ubiquitin-like domain of UBL

Probab=97.98  E-value=8e-06  Score=50.82  Aligned_cols=36  Identities=33%  Similarity=0.474  Sum_probs=32.1

Q ss_pred             Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEe
Q 041424          109 VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFI  144 (148)
Q Consensus       109 lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l  144 (148)
                      +|..|++          |+|+|+.|+|..+|.+|++.+|++|++..
T Consensus        23 lK~~i~~~~~~~~~~~~l~~~g~~l~d~~~l~~~~v~~~~~i~v~~   68 (69)
T cd01769          23 LKAKIAAKEGVPPEQQRLIYAGKILKDDKTLSDYGIQDGSTLHLVL   68 (69)
T ss_pred             HHHHHHHHHCcChHHEEEEECCcCCCCcCCHHHCCCCCCCEEEEEE
Confidence            7777764          88999999999999999999999999864

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.

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

Probab=97.98  E-value=1.2e-05  Score=67.65  Aligned_cols=62  Identities=16%  Similarity=0.199  Sum_probs=57.1

Q ss_pred             EEEE-EcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEeee
Q 041424            4 VTLN-VEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFCAI   72 (148)
Q Consensus         4 ~~l~-v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~~~   72 (148)
                      +.++ ++.++|+..||+++...+|+||++|++.+.|..+.|+-       .+....|+++.+++|+..+.
T Consensus        15 y~v~~l~~d~t~~vlKaqlf~LTgV~PeRQKv~vKGg~a~dd~-------~~~al~iKpn~~lmMmGt~e   77 (473)
T KOG1872|consen   15 YPVETLSTDETPSVLKAQLFALTGVPPERQKVMVKGGLAKDDV-------DWGALQIKPNETLMMMGTAE   77 (473)
T ss_pred             ccceeccCCCchHHHHHHHHHhcCCCccceeEEEecccccccc-------cccccccCCCCEEEeecccc
Confidence            4555 88999999999999999999999999999999999997       88889999999999999854

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

Probab=97.96  E-value=2.8e-05  Score=50.07  Aligned_cols=60  Identities=23%  Similarity=0.312  Sum_probs=51.9

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEc---C--eecCCCcccccccccccCCCcccccceeEEEe
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFA---G--DRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~---g--~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      .+++.|+|..+|..+|++|....|++- .|||.|.   |  ..|++..       +|++|||..+-.|.++..
T Consensus        12 dl~l~vnPy~pI~k~K~kI~~~~~~~g-~qrLsfQepgg~rqlL~s~~-------sLA~yGiFs~~~i~lleT   76 (80)
T cd01811          12 DWILRVNPYSPIRKIKEKIRRSRNCSG-LQRLSFQEPGGERQLLSSRK-------SLADYGIFSKTNICLLET   76 (80)
T ss_pred             ceEEEeCCcchHHHHHHHHHHhhCccc-ceEEEeecCCcccccccccc-------cHhhhcceeccEEEEEec
Confidence            478999999999999999999999995 9999985   3  2478888       999999999888877765

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

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

Probab=97.92  E-value=4.8e-06  Score=52.11  Aligned_cols=61  Identities=18%  Similarity=0.239  Sum_probs=54.4

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEE
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLF   69 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~   69 (148)
                      |.+.+...+++||+++|..|+.++|..++...|.-.+..+.|..       +|++|.+.+|..+.+..
T Consensus        12 KKVRvKCn~dDtiGD~KKliaaQtGT~~~kivl~k~~~i~kd~I-------~L~dyeihdg~~lelyy   72 (73)
T KOG3493|consen   12 KKVRVKCNTDDTIGDLKKLIAAQTGTRPEKIVLKKWYTIFKDHI-------TLSDYEIHDGMNLELYY   72 (73)
T ss_pred             ceEEEEeCCcccccCHHHHHHHhhCCChhHhHHHhhhhhhhccc-------ceeeEEeccCccEEEee
Confidence            67889999999999999999999999999888876667788888       99999999999887753

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

Probab=97.85  E-value=3.7e-05  Score=47.54  Aligned_cols=52  Identities=37%  Similarity=0.547  Sum_probs=41.5

Q ss_pred             eeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           94 FVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        94 ~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      ++++..|+.+.+++.       +|.+|..          +.|+|+.|+|+.++.+|+|..+++++++.+
T Consensus         3 ~~~~~~gk~~~~~~~~~~~i~~~k~~i~~~~~~~~~~q~~~~~~~~l~d~~~l~~~~i~~~~~~~l~~~   71 (75)
T KOG0001|consen    3 FVKTLDGKTITLEVSPSDTIEVVKAKIRDKEGIPVDQQRLIFGGKPLEDGRTLADYNIQEGSTLHLVLS   71 (75)
T ss_pred             EEEecCCCEEEEEecCCCHHHHHHHHHHhhcCCCCeeEEEEECCEECcCCCcHHHhCCCCCCEEEEEEe
Confidence            445556666666555       6666664          889999999999999999999999998865

>cd01795 USP48_C USP ubiquitin-specific protease

Probab=97.64  E-value=6.3e-05  Score=51.19  Aligned_cols=38  Identities=26%  Similarity=0.358  Sum_probs=32.8

Q ss_pred             Hhhhhhe----------eeecCeeeC-CCCchhhhCCCCCCEEEEEeec
Q 041424          109 VLLTIRD----------LFCTGMKLK-DCKTLACYGVKDDRGVACFISD  146 (148)
Q Consensus       109 lK~~i~e----------L~f~g~~L~-d~~tL~~y~I~~gstI~l~l~~  146 (148)
                      +|.+|++          |+|.|+.|. |.+||++|||.+||+|.|.+.+
T Consensus        30 LK~lImQ~f~V~P~dQkL~~dG~~L~DDsrTLssyGv~sgSvl~Llide   78 (107)
T cd01795          30 LKIQIMHAFSVAPFDQNLSIDGKILSDDCATLGTLGVIPESVILLKADE   78 (107)
T ss_pred             HHHHHHHHhcCCcccceeeecCceeccCCccHHhcCCCCCCEEEEEecC
Confidence            7777775          999999996 5599999999999999998753

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

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

Probab=97.61  E-value=6.1e-05  Score=50.79  Aligned_cols=50  Identities=20%  Similarity=0.211  Sum_probs=44.7

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEE-cC-eecCCCcccccccccccCCCc
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFF-AG-DRLMNGRLIDYEDMALASPNV   59 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~-~g-~~L~d~~~~~~~~~~L~~~~i   59 (148)
                      ++.++..++.||.+||.+++.++.-|+..|+|.. .. ..|+|++       +|+++|.
T Consensus        13 tif~da~es~tV~elK~~l~gi~~~Pvn~qrL~kmd~eqlL~D~k-------tL~d~gf   64 (110)
T KOG4495|consen   13 TIFTDAKESSTVFELKRKLEGILKRPVNEQRLYKMDTEQLLDDGK-------TLGDCGF   64 (110)
T ss_pred             eEEeecCccccHHHHHHHHHHHHhCCCcchheeecCHHHHhhccc-------hhhhccc
Confidence            5888999999999999999999999999999986 33 4688999       9999975

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

Probab=97.57  E-value=0.00017  Score=50.27  Aligned_cols=30  Identities=23%  Similarity=0.261  Sum_probs=24.0

Q ss_pred             eeecCeeeCCCCchhhhCCCCCC------EEEEEee
Q 041424          116 LFCTGMKLKDCKTLACYGVKDDR------GVACFIS  145 (148)
Q Consensus       116 L~f~g~~L~d~~tL~~y~I~~gs------tI~l~l~  145 (148)
                      |+|.||.|+|+.||++|++..|+      ++||+++
T Consensus        53 LI~~GriL~d~~tL~~~~~~~~~~~~~~~vmHlvvr   88 (111)
T PF13881_consen   53 LIYAGRILEDNKTLSDCRLPSGETPGGPTVMHLVVR   88 (111)
T ss_dssp             EEETTEEE-SSSBTGGGT--TTSETT--EEEEEEE-
T ss_pred             EEeCCeecCCcCcHHHhCCCCCCCCCCCEEEEEEec
Confidence            99999999999999999999877      5788875

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

Probab=97.13  E-value=0.00037  Score=63.65  Aligned_cols=53  Identities=25%  Similarity=0.306  Sum_probs=43.9

Q ss_pred             eeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           92 KIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        92 ~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      .+.||+++.++-++.|.       +|..|.+          +||+|+.|.|++++.+||| +|-+|||+-|
T Consensus         4 ~v~vktld~r~~t~~ig~q~ti~~~~d~~r~~~ni~s~~qr~i~~grvl~~~k~vq~~~v-dgk~~hlver   73 (1143)
T KOG4248|consen    4 NVLVKTLDSRTRTFIIGAQMTIKEFKDHIRASVNIPSEKQRLIYQGRVLQDDKKVQEYNV-DGKVIHLVER   73 (1143)
T ss_pred             ceeeeecccceeEEEechHHHHHHHHHHHHHhcccccccceeeecceeeccchhhhhccC-CCeEEEeecc
Confidence            36788888776665544       6666664          9999999999999999999 9999999865

>KOG0013 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.92  E-value=0.0015  Score=50.02  Aligned_cols=62  Identities=19%  Similarity=0.315  Sum_probs=55.3

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +.+.+.+...+|+.++|.+++...|+.+..|+++|+|..+-+..       .|.++++..++...+...
T Consensus       157 ~d~~lta~~~Dtv~eik~~L~Aaeg~D~~sQrif~Sg~~l~dkt-------~LeEc~iekg~rYvlqvi  218 (231)
T KOG0013|consen  157 EDFWLTAPHYDTVGEIKRALRAAEGVDPLSQRIFFSGGVLVDKT-------DLEECKIEKGQRYVLQVI  218 (231)
T ss_pred             hheeecccCcCcHHHHHHHHHHhhccchhhheeeccCCceeccc-------cceeeeecCCCEEEEEEE
Confidence            34778889999999999999999999999999999999999998       999999999976655544

>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=96.91  E-value=0.0023  Score=40.34  Aligned_cols=59  Identities=15%  Similarity=0.178  Sum_probs=43.0

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeE
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQL   67 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l   67 (148)
                      +.+++.++|+.++.++=+....++|+++++=.|.|+++.++-..       ++.-.|+.+|+.+.|
T Consensus         7 rr~~vkvtp~~~l~~VL~eac~k~~l~~~~~~L~h~~k~ldlsl-------p~R~snL~n~akLeL   65 (65)
T PF11470_consen    7 RRFKVKVTPNTTLNQVLEEACKKFGLDPSSYDLKHNNKPLDLSL-------PFRLSNLPNNAKLEL   65 (65)
T ss_dssp             -EEEE---TTSBHHHHHHHHHHHTT--GGG-EEEETTEEESSS--------BHHHH---SS-EEEE
T ss_pred             cEEEEEECCCCCHHHHHHHHHHHcCCCccceEEEECCEEecccc-------ceeecCCCCCCEEeC
Confidence            46889999999999999999999999999989999999998887       888889999998765

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.

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

Probab=96.79  E-value=0.0019  Score=43.88  Aligned_cols=42  Identities=24%  Similarity=0.368  Sum_probs=35.9

Q ss_pred             EEEEEc--CCCcHHHHHHHHHhhhC--CCCcccEEEEcCeecCCCc
Q 041424            4 VTLNVE--KSETIKNLKGMVHEKEG--TSEDIQDLFFAGDRLMNGR   45 (148)
Q Consensus         4 ~~l~v~--~~~tV~~lK~~i~~~~g--ip~~~Q~L~~~g~~L~d~~   45 (148)
                      ++|+|+  .+.||..||+.|.+..+  ..-..+||+|+|+.|.|+.
T Consensus        14 l~L~I~~~~~~Tv~~LK~lIR~~~p~~~s~~rLRlI~~Gr~L~d~t   59 (97)
T PF10302_consen   14 LPLDIPSPNTTTVAWLKQLIRERLPPEPSRRRLRLIYAGRLLNDHT   59 (97)
T ss_pred             ceeecCCCCcccHHHHHHHHHhhcCCCCccccEEeeecCcccCccc
Confidence            567777  89999999999999984  4455688999999999997

They contain a characteristic GFDRL sequence motif.

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

Probab=96.66  E-value=0.0046  Score=40.71  Aligned_cols=39  Identities=23%  Similarity=0.207  Sum_probs=32.0

Q ss_pred             Hhhhhhe----------e-eecCe-----ee-CCCCchhhhCCCCCCEEEEEeecc
Q 041424          109 VLLTIRD----------L-FCTGM-----KL-KDCKTLACYGVKDDRGVACFISDI  147 (148)
Q Consensus       109 lK~~i~e----------L-~f~g~-----~L-~d~~tL~~y~I~~gstI~l~l~~~  147 (148)
                      +|.++..          | +|.|+     .| +|.++|.+||+++|++||++-.|-
T Consensus        28 lK~kl~~~~G~~~~~mrL~l~~~~~~~~~~l~~d~~~L~~y~~~dg~~IhVvD~~p   83 (84)
T cd01789          28 LKKKLELVVGTPASSMRLQLFDGDDKLVSKLDDDDALLGSYPVDDGCRIHVIDVSG   83 (84)
T ss_pred             HHHHHHHHHCCCccceEEEEEcCCCCeEeecCCCccEeeeccCCCCCEEEEEeCCC
Confidence            7887765          5 57888     45 788999999999999999987663

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.

>PLN02560 enoyl-CoA reductase

Probab=96.52  E-value=0.0028  Score=51.48  Aligned_cols=51  Identities=27%  Similarity=0.298  Sum_probs=35.1

Q ss_pred             eeeeeeeeeeee---ehhhh-------Hhhhhhe-----------eeec-------CeeeCCCCchhhhCCCCCCEEEE
Q 041424           92 KIFVKMLTEEIV---KLKVK-------VLLTIRD-----------LFCT-------GMKLKDCKTLACYGVKDDRGVAC  142 (148)
Q Consensus        92 ~I~Vk~~~gk~~---~l~v~-------lK~~i~e-----------L~f~-------g~~L~d~~tL~~y~I~~gstI~l  142 (148)
                      .|.|+..+|+.+   +++++       +|..|++           +++.       |+.|+|+++|.+||+++|++|++
T Consensus         2 ~I~Vk~~~Gk~i~~~~lev~~~aTV~dLK~~Isk~~~~~~~~RqRL~~~~~~gk~~g~~L~d~ktL~d~gv~~gstLy~   80 (308)
T PLN02560          2 KVTVVSRSGREIIKGGLEVPDSATVADLKKAIHKRKKKYYPSRQRLTLPLPPGKTRPTVLDDSKSLKDYGLGDGGTVVF   80 (308)
T ss_pred             EEEEEcCCCCeecceeEEcCCCCcHHHHHHHHHHHcCCCChhheEEEEecCCCCcCccccCCCCCHHhcCCCCCceEEE
Confidence            345555555554   34433       7777764           6662       34889999999999999999765

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

Probab=96.28  E-value=0.024  Score=38.51  Aligned_cols=61  Identities=16%  Similarity=0.322  Sum_probs=57.2

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++.+.|..+.+...|+..-++..|++.+..|.+|.|+++....       |-++++..+++.|.++..
T Consensus        32 ~~~Fkikr~t~LkKLM~aYc~r~Gl~~~s~RFlFdG~rI~~~~-------TP~~L~mEd~D~Iev~~~   92 (99)
T KOG1769|consen   32 VVVFKIKRHTPLKKLMKAYCERQGLSMNSLRFLFDGQRIRETH-------TPADLEMEDGDEIEVVQE   92 (99)
T ss_pred             EEEEEeecCChHHHHHHHHHHHcCCccceEEEEECCcCcCCCC-------ChhhhCCcCCcEEEEEee
Confidence            4577888999999999999999999999999999999999999       999999999999998876

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

Probab=96.06  E-value=0.016  Score=44.44  Aligned_cols=57  Identities=19%  Similarity=0.246  Sum_probs=48.1

Q ss_pred             EEcCCCcHHHHHHHHHhhhCCCCcccEEE-EcC-----eecCCC-cccccccccccCCCcccccceeEEEe
Q 041424            7 NVEKSETIKNLKGMVHEKEGTSEDIQDLF-FAG-----DRLMNG-RLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         7 ~v~~~~tV~~lK~~i~~~~gip~~~Q~L~-~~g-----~~L~d~-~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ..+++.||++||.+++..+|.+++...|. |.|     ..|+|+ .       .|..|+..+|-.||++-.
T Consensus        18 r~~~~ltl~q~K~KLe~~~G~~~~~M~l~l~~~~d~~~~~lsn~d~-------~lg~~~~~Dg~rihviD~   81 (234)
T KOG3206|consen   18 RLSNSLTLAQFKDKLELLTGTEAESMELELYDGDDKKVSALSNEDA-------DLGFYKVEDGLRIHVIDS   81 (234)
T ss_pred             hcCCcCcHHHHHhhhhhhhCCCccceEEEEEcCCCceeeeccCCcc-------cccccCCCCceEEEEEec
Confidence            45789999999999999999999999996 544     246554 5       899999999999998865

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

Probab=95.69  E-value=0.024  Score=36.74  Aligned_cols=59  Identities=22%  Similarity=0.227  Sum_probs=41.4

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcc---c---EEE-EcCeecCCCcccccccccccCCCcccccceeE
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDI---Q---DLF-FAGDRLMNGRLIDYEDMALASPNVKRESTMQL   67 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~---Q---~L~-~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l   67 (148)
                      +.+.+.++.+.+|++|...+-+..+.+...   +   .|. -+|..|+++.       +|+++|+.+|+.+.+
T Consensus        13 ~~~Dl~lP~~vpv~~li~~l~~~~~~~~~~~~~~~~~~L~~~~g~~L~~~~-------tL~~~gV~dGd~L~L   78 (79)
T PF08817_consen   13 RQVDLALPADVPVAELIPELVELLGLPGDDPPGHGQWVLARAGGRPLDPDQ-------TLADAGVRDGDVLVL   78 (79)
T ss_dssp             -EEEEEEETTSBTTHHHHHHHHHS---S---TT-E-EEEG-GGTEEEETTS-------BCGGGT--TT-EEEE
T ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhCCccCCCCCcceEEEEecCCcccCCcC-------cHhHcCCCCCCEEEe
Confidence            467788899999999999999988864332   2   233 4578899999       999999999998876

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.

>cd01788 ElonginB Ubiquitin-like domain of Elongin B

Probab=95.52  E-value=0.035  Score=38.73  Aligned_cols=30  Identities=27%  Similarity=0.262  Sum_probs=25.8

Q ss_pred             eeecCeeeCCCCchhhhCC-------CCCCEEEEEee
Q 041424          116 LFCTGMKLKDCKTLACYGV-------KDDRGVACFIS  145 (148)
Q Consensus       116 L~f~g~~L~d~~tL~~y~I-------~~gstI~l~l~  145 (148)
                      |+-.+..|+|++||+|||+       +..+++-|.++
T Consensus        44 L~kd~qvLeD~kTL~d~g~t~~~akaq~pA~vgLa~r   80 (119)
T cd01788          44 LYKDDQLLDDGKTLGDCGFTSQTARPQAPATVGLAFR   80 (119)
T ss_pred             eecCceeecccccHHHcCccccccccCCCCeEEEEEe
Confidence            5555578999999999999       77999999888

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

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

Probab=95.39  E-value=0.018  Score=37.28  Aligned_cols=28  Identities=32%  Similarity=0.265  Sum_probs=21.6

Q ss_pred             ee-ecCeeeCCCCchhhhCCCCCCEEEEE
Q 041424          116 LF-CTGMKLKDCKTLACYGVKDDRGVACF  143 (148)
Q Consensus       116 L~-f~g~~L~d~~tL~~y~I~~gstI~l~  143 (148)
                      |. -+|..|.++.||++|||.+|+++.|.
T Consensus        51 L~~~~g~~L~~~~tL~~~gV~dGd~L~L~   79 (79)
T PF08817_consen   51 LARAGGRPLDPDQTLADAGVRDGDVLVLR   79 (79)
T ss_dssp             EG-GGTEEEETTSBCGGGT--TT-EEEE-
T ss_pred             EEecCCcccCCcCcHhHcCCCCCCEEEeC
Confidence            44 67999999999999999999999873

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.

>cd01801 Tsc13_N Ubiquitin-like domain of Tsc13

Probab=95.32  E-value=0.015  Score=37.50  Aligned_cols=27  Identities=33%  Similarity=0.268  Sum_probs=24.5

Q ss_pred             eeecCeeeCCCCchhhhCCCCCCEEEE
Q 041424          116 LFCTGMKLKDCKTLACYGVKDDRGVAC  142 (148)
Q Consensus       116 L~f~g~~L~d~~tL~~y~I~~gstI~l  142 (148)
                      +.+.|+.|.|+.+|.+||+.+|++|++
T Consensus        48 ~~~~g~~L~d~~tL~~~gv~~g~~lyv   74 (77)
T cd01801          48 LEPKGKSLKDDDTLVDLGVGAGATLYV   74 (77)
T ss_pred             eCCCCcccCCcccHhhcCCCCCCEEEE
Confidence            358999999999999999999999875

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

>COG5417 Uncharacterized small protein [Function unknown]

Probab=94.58  E-value=0.065  Score=34.63  Aligned_cols=50  Identities=12%  Similarity=0.073  Sum_probs=37.4

Q ss_pred             eeeeeeeeeeeehhhh----Hhhhhhe------------------eeecCeeeCCCCchhhhCCCCCCEEEE
Q 041424           93 IFVKMLTEEIVKLKVK----VLLTIRD------------------LFCTGMKLKDCKTLACYGVKDDRGVAC  142 (148)
Q Consensus        93 I~Vk~~~gk~~~l~v~----lK~~i~e------------------L~f~g~~L~d~~tL~~y~I~~gstI~l  142 (148)
                      +-++.++|.++.+.+.    +|+.|.-                  .+-+++.|.++..|.+|+|.+||.+.+
T Consensus         9 vD~t~y~g~~yDLrl~d~~pikklIdivwe~~kis~~~reg~~Ikv~nKa~llsgd~kL~d~~IadGD~Lei   80 (81)
T COG5417           9 VDFTNYNGGTYDLRLPDYLPIKKLIDIVWESLKISIFDREGTQIKVMNKAQLLSGDDKLIDYQIADGDILEI   80 (81)
T ss_pred             EEeEecCCceEEEeccccchHHHHHHHHHHHhhccccccCCCEEEEeccceEecCCceEEeccccCCCEEEe
Confidence            4445667777777666    4444331                  667889999999999999999999875

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

Probab=94.51  E-value=0.036  Score=36.39  Aligned_cols=23  Identities=30%  Similarity=0.491  Sum_probs=18.7

Q ss_pred             CCCCchhhhCCCCCCEEEEEeec
Q 041424          124 KDCKTLACYGVKDDRGVACFISD  146 (148)
Q Consensus       124 ~d~~tL~~y~I~~gstI~l~l~~  146 (148)
                      +|..+|..||+++|++||+.-.|
T Consensus        62 dd~~~L~~y~~~dg~~i~V~D~~   84 (87)
T PF14560_consen   62 DDDATLGSYGIKDGMRIHVVDTN   84 (87)
T ss_dssp             GSSSBCCHHT-STTEEEEEEE-T
T ss_pred             CCccEeecCCCCCCCEEEEEeCC
Confidence            57899999999999999997654

>PF13019 Telomere_Sde2: Telomere stability and silencing

Probab=94.00  E-value=0.2  Score=37.11  Aligned_cols=62  Identities=21%  Similarity=0.220  Sum_probs=43.5

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCccc-EEEEc-Ceec--CCCcccccccccccCCCcccc----cceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQ-DLFFA-GDRL--MNGRLIDYEDMALASPNVKRE----STMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q-~L~~~-g~~L--~d~~~~~~~~~~L~~~~i~~~----s~i~l~~~   70 (148)
                      .++.+.++++.||.+|+..|.+..++|+..| .|.+. ++.|  .++.       .++++.-.+.    .++++..+
T Consensus        15 ~tl~~~lp~~ttv~dL~~~l~~~~~~~~~~~~~L~~~~n~~l~~~~~~-------~~s~l~~~~~~~~~~~l~l~~r   84 (162)
T PF13019_consen   15 PTLSLSLPSTTTVSDLKDRLSERLPIPSSSQLYLTTNSNGQLSPSSDI-------PLSSLLSSSQDSDFITLRLSLR   84 (162)
T ss_pred             CeEEeeCCCCCcHHHHHHHHHhhcCCCccceeEEEEeCCCeeCCCccc-------cHHhhccCcCCCCceEEEEEEe
Confidence            4788899999999999999999999999885 34443 4455  3444       5555543333    35666666

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

Probab=93.86  E-value=0.22  Score=32.63  Aligned_cols=37  Identities=16%  Similarity=0.214  Sum_probs=34.1

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCe
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGD   39 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~   39 (148)
                      |+.+.|.+..+.++|.++|.++.++|++...|.|...
T Consensus        12 tIaIrvp~~~~y~~L~~ki~~kLkl~~e~i~LsYkde   48 (80)
T cd06406          12 TVAIQVARGLSYATLLQKISSKLELPAEHITLSYKSE   48 (80)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhCCCchhcEEEeccC
Confidence            7889999999999999999999999999999998744

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

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

Probab=93.60  E-value=0.1  Score=33.77  Aligned_cols=52  Identities=23%  Similarity=0.234  Sum_probs=37.6

Q ss_pred             eeeeeeeeeeeeehhhh-------Hhhhhhe---------eee-----cCeeeCCCCchhhhCCCCCCEEEEE
Q 041424           92 KIFVKMLTEEIVKLKVK-------VLLTIRD---------LFC-----TGMKLKDCKTLACYGVKDDRGVACF  143 (148)
Q Consensus        92 ~I~Vk~~~gk~~~l~v~-------lK~~i~e---------L~f-----~g~~L~d~~tL~~y~I~~gstI~l~  143 (148)
                      ++.|+..++..+++.|+       +|++|..         |.|     .-+.|.+..+|++|||=..-.|.|.
T Consensus         2 qVtV~q~g~~dl~l~vnPy~pI~k~K~kI~~~~~~~g~qrLsfQepgg~rqlL~s~~sLA~yGiFs~~~i~ll   74 (80)
T cd01811           2 QVTVEQTGYSDWILRVNPYSPIRKIKEKIRRSRNCSGLQRLSFQEPGGERQLLSSRKSLADYGIFSKTNICLL   74 (80)
T ss_pred             EEEeeecCCCceEEEeCCcchHHHHHHHHHHhhCcccceEEEeecCCcccccccccccHhhhcceeccEEEEE
Confidence            46677766666666666       8888876         555     2236788999999999877777664

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

>cd00196 UBQ Ubiquitin-like proteins

Probab=93.55  E-value=0.18  Score=28.76  Aligned_cols=29  Identities=31%  Similarity=0.441  Sum_probs=26.8

Q ss_pred             eeecCeeeCCCCchhhhCCCCCCEEEEEe
Q 041424          116 LFCTGMKLKDCKTLACYGVKDDRGVACFI  144 (148)
Q Consensus       116 L~f~g~~L~d~~tL~~y~I~~gstI~l~l  144 (148)
                      |.+.|..+++...+.+|++.+|++|++..
T Consensus        40 l~~~~~~~~~~~~~~~~~~~~~~~i~~~~   68 (69)
T cd00196          40 LLVNGKILPDSLTLEDYGLQDGDELVLVP   68 (69)
T ss_pred             EEECCeECCCCCcHHHcCCCCCCEEEEEe
Confidence            88999999999999999999999999864

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.

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

Probab=93.14  E-value=0.39  Score=31.85  Aligned_cols=61  Identities=18%  Similarity=0.256  Sum_probs=44.7

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      .+...++-.++++.||..++.+.|++-+.-.+......|+.++       +|.+.+++-...+++.+.
T Consensus         4 vI~q~mDI~epl~~Lk~lLe~Rl~~~L~~~~f~LQD~~L~~~k-------~L~dQcVqgeGlVQlnvQ   64 (88)
T PF11620_consen    4 VIMQHMDIREPLSTLKKLLERRLGISLSDYEFWLQDIQLEPHK-------SLVDQCVQGEGLVQLNVQ   64 (88)
T ss_dssp             EEEEEEESSSBGGGHHHHSHHHH-S--SS-EEEETTEE--TTS-------BTTTSS----SEEEEEEE
T ss_pred             eEEEEEecCCcHHHHHHHHHHhhCCCcCCCeEEeccceecCCc-------cHHHhhccccCEEEEEEE
Confidence            3566788899999999999999999988888888888899999       999999998888888776

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

>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=92.72  E-value=0.12  Score=33.82  Aligned_cols=20  Identities=30%  Similarity=0.316  Sum_probs=11.3

Q ss_pred             CCCCchhhhCCCCCCEEEEE
Q 041424          124 KDCKTLACYGVKDDRGVACF  143 (148)
Q Consensus       124 ~d~~tL~~y~I~~gstI~l~  143 (148)
                      .++.+|+++||+.||.|+|.
T Consensus        59 ~~~~tl~~lglkHGdmlyL~   78 (80)
T PF11543_consen   59 SDSKTLSSLGLKHGDMLYLK   78 (80)
T ss_dssp             -TT-CCCCT---TT-EEE--
T ss_pred             CCcCCHHHcCCCCccEEEEe
Confidence            46899999999999999985

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.

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

Probab=92.38  E-value=0.2  Score=32.34  Aligned_cols=56  Identities=18%  Similarity=0.208  Sum_probs=45.0

Q ss_pred             EcCCCcHHHHHHHHHhhhC-CCCcccEEEEcCeecCCCcccccccccccCC-CcccccceeEEEe
Q 041424            8 VEKSETIKNLKGMVHEKEG-TSEDIQDLFFAGDRLMNGRLIDYEDMALASP-NVKRESTMQLLFC   70 (148)
Q Consensus         8 v~~~~tV~~lK~~i~~~~g-ip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~-~i~~~s~i~l~~~   70 (148)
                      |+++++|.++++-+..... ..-..-.|.++|..|++..       .+++. |+++++.+.|+..
T Consensus         1 v~~~d~v~dvrq~L~~~~~t~~~Tn~~L~~~g~~L~~~~-------el~~i~~~~~~~~L~lve~   58 (76)
T PF15044_consen    1 VSPTDTVQDVRQVLAESPETCYLTNFSLEHNGQRLDDFV-------ELSEIEGIKDGCVLELVEE   58 (76)
T ss_pred             CChhhHHHHHHHHHHhCccccceeEEEEEECCCccCCch-------hhhhhhCCCCCcEEEEEec
Confidence            5789999999999988754 3445567889999998877       77776 4788999998876

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

Probab=91.86  E-value=0.044  Score=44.95  Aligned_cols=64  Identities=20%  Similarity=0.240  Sum_probs=49.0

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhC-CC-CcccEEEEcCeecCCCcccccccccccCCCcc--cccceeEEEeee
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEG-TS-EDIQDLFFAGDRLMNGRLIDYEDMALASPNVK--RESTMQLLFCAI   72 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~g-ip-~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~--~~s~i~l~~~~~   72 (148)
                      +..++..+..|||++||..++...- -| +..|||+|.|+.|.|..       .+.++-.+  ....+|++...+
T Consensus        22 ~dl~i~~dl~wtv~~Lk~hls~VyPskpl~~dqrliYsgkllld~q-------cl~d~lrkq~k~Hv~hlvcnsk   89 (391)
T KOG4583|consen   22 KDLSISLDLKWTVGDLKVHLSQVYPSKPLELDQRLIYSGKLLLDHQ-------CLTDWLRKQVKEHVKHLVCNSK   89 (391)
T ss_pred             cceeeehhhhhhHHHHhhhHhhcCCCCCchhhHHHHhhccccccch-------hHHHHHHHHHHHHHHHHhcCCC
Confidence            3467777889999999999998863 33 45799999999999998       88887654  445677766533

>COG5417 Uncharacterized small protein [Function unknown]

Probab=91.77  E-value=0.63  Score=30.11  Aligned_cols=59  Identities=17%  Similarity=0.148  Sum_probs=47.6

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCC-----CcccEEEEcCeecCCCcccccccccccCCCcccccceeE
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTS-----EDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQL   67 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip-----~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l   67 (148)
                      +++-|.++...++..|-..+-+...++     -...+..-.++.|+++.       .|++|+|.+|+.+.+
T Consensus        17 ~~yDLrl~d~~pikklIdivwe~~kis~~~reg~~Ikv~nKa~llsgd~-------kL~d~~IadGD~Lei   80 (81)
T COG5417          17 GTYDLRLPDYLPIKKLIDIVWESLKISIFDREGTQIKVMNKAQLLSGDD-------KLIDYQIADGDILEI   80 (81)
T ss_pred             ceEEEeccccchHHHHHHHHHHHhhccccccCCCEEEEeccceEecCCc-------eEEeccccCCCEEEe
Confidence            467788899999999988888766543     23456777888999999       999999999998765

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

Probab=91.57  E-value=0.41  Score=32.54  Aligned_cols=32  Identities=13%  Similarity=0.280  Sum_probs=29.2

Q ss_pred             eeecCeeeCCCCchhhhCCCCCCEEEEEeecc
Q 041424          116 LFCTGMKLKDCKTLACYGVKDDRGVACFISDI  147 (148)
Q Consensus       116 L~f~g~~L~d~~tL~~y~I~~gstI~l~l~~~  147 (148)
                      +.|.|+.+.+.+|=++.+..+||.|.++..-.
T Consensus        63 FlFdG~rI~~~~TP~~L~mEd~D~Iev~~~q~   94 (99)
T KOG1769|consen   63 FLFDGQRIRETHTPADLEMEDGDEIEVVQEQT   94 (99)
T ss_pred             EEECCcCcCCCCChhhhCCcCCcEEEEEeecc
Confidence            88999999999999999999999999887543

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

Probab=91.09  E-value=1.9  Score=28.71  Aligned_cols=60  Identities=12%  Similarity=0.045  Sum_probs=41.6

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEE-Ec---Ce-ecCC-CcccccccccccCCCcccccceeEEEe
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLF-FA---GD-RLMN-GRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~-~~---g~-~L~d-~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      .++-.++..+||+.++..+.+.+.| +..-||- ++   +. .|.+ +.       |+.+.++..|..|.+-.+
T Consensus        15 ~~t~~FSk~DTI~~v~~~~rklf~i-~~E~RLW~~~~~~~~e~L~~~~~-------Tv~da~L~~gQ~vliE~r   80 (88)
T PF14836_consen   15 VLTKQFSKTDTIGFVEKEMRKLFNI-QEETRLWNKYSENSYELLNNPEI-------TVEDAGLYDGQVVLIEER   80 (88)
T ss_dssp             EEEEEE-TTSBHHHHHHHHHHHCT--TS-EEEEEECTTTCEEEE--TTS-------BTTTTT--TTEEEEEEE-
T ss_pred             HhHhhccccChHHHHHHHHHHHhCC-CccceehhccCCcchhhhCCCCc-------cHHHccCcCCCEEEEEee
Confidence            5788899999999999999999999 5566774 22   11 3544 35       999999999998888777

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

Probab=90.42  E-value=1.2  Score=29.85  Aligned_cols=60  Identities=13%  Similarity=0.303  Sum_probs=54.1

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEE
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLF   69 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~   69 (148)
                      ++.++|..+.|...|-......-|-.-+.-|+.|.|+.+.-++       |-++++...+..|..+.
T Consensus        36 elfFkiKktT~f~klm~af~~rqGK~m~slRfL~dG~rI~~dq-------TP~dldmEdnd~iEav~   95 (103)
T COG5227          36 ELFFKIKKTTTFKKLMDAFSRRQGKNMSSLRFLFDGKRIDLDQ-------TPGDLDMEDNDEIEAVT   95 (103)
T ss_pred             EEEEEEeccchHHHHHHHHHHHhCcCcceeEEEEcceecCCCC-------ChhhcCCccchHHHHHH
Confidence            5678899999999999999999999999999999999999999       99999999988776543

>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=90.29  E-value=2  Score=27.43  Aligned_cols=60  Identities=18%  Similarity=0.292  Sum_probs=45.9

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcc-cEEE--EcCeecCC--CcccccccccccCCCcccccceeEE
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDI-QDLF--FAGDRLMN--GRLIDYEDMALASPNVKRESTMQLL   68 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~-Q~L~--~~g~~L~d--~~~~~~~~~~L~~~~i~~~s~i~l~   68 (148)
                      +.+.-...+++||.+|..-|......+... -.|+  |-.+.+.+  +.       +|++.|+.+.+++++-
T Consensus        17 ~~l~~~F~~~~tl~~l~~~v~~~~~~~~~~~f~L~~~~Pr~~l~~~~~~-------tl~e~~l~p~~~l~v~   81 (82)
T PF00789_consen   17 SRLQRRFPKSDTLQDLYDFVESQLFSPEESDFELITAFPRRELTDEDSK-------TLEEAGLLPSATLIVE   81 (82)
T ss_dssp             TEEEEEEETTSBHHHHHHHHHHHHHCTTTSSEEEEESSSTEECCSTTTS-------BTCCCTTSSCEEEEEE
T ss_pred             CEEEEEECCcchHHHHHHHHHHhcCCCCCccEEEEeCCCCcCCCccccc-------cHHHhcCCCCeEEEEE
Confidence            356677889999999999999988777654 4564  44456643  26       9999999999988763

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

>smart00166 UBX Domain present in ubiquitin-regulatory proteins

Probab=88.66  E-value=1.6  Score=28.00  Aligned_cols=58  Identities=17%  Similarity=0.203  Sum_probs=43.1

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEE--EcCeecCC---CcccccccccccCCCcccccceeE
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLF--FAGDRLMN---GRLIDYEDMALASPNVKRESTMQL   67 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~--~~g~~L~d---~~~~~~~~~~L~~~~i~~~s~i~l   67 (148)
                      .+.-...+++||.++.+-+....+.+...-.|+  |-.+.+.+   +.       +|.+.|+.+.+++.+
T Consensus        16 ri~~~F~~~~tl~~v~~~v~~~~~~~~~~f~L~t~~Prk~l~~~d~~~-------tL~e~gL~p~~~l~v   78 (80)
T smart00166       16 RLVRRFPSSDTLRTVYEFVSAALTDGNDPFTLNSPFPRRTFTKDDYSK-------TLLELALLPSSTLVL   78 (80)
T ss_pred             EEEEEeCCCCcHHHHHHHHHHcccCCCCCEEEEeCCCCcCCccccccC-------CHHHCCCCCceEEEE
Confidence            466778899999999999976666665555665  44455643   35       899999988887765

Present in FAF1 and Shp1p.

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

Probab=88.50  E-value=0.52  Score=37.37  Aligned_cols=55  Identities=20%  Similarity=0.195  Sum_probs=42.6

Q ss_pred             EEEcCCCcHHHHHHHHHhh-hCCCCcccEEEE----cCeecCCCcccccccccccCCCcccccceeE
Q 041424            6 LNVEKSETIKNLKGMVHEK-EGTSEDIQDLFF----AGDRLMNGRLIDYEDMALASPNVKRESTMQL   67 (148)
Q Consensus         6 l~v~~~~tV~~lK~~i~~~-~gip~~~Q~L~~----~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l   67 (148)
                      .+.+.+.|+.+++.++... ..+.+..+|+.+    +|+.|-|+.       +|++|+..+++++.+
T Consensus        17 ~~~s~~~ti~d~~~~~~~~~~k~~~~~~r~tlr~e~kgkpl~~~s-------~l~e~~~~s~~~i~v   76 (297)
T KOG1639|consen   17 KDLSGSETIDDLLKAISAKNLKITPYRIRLTLRVEPKGKPLIDNS-------KLQEYGDGSGATIYV   76 (297)
T ss_pred             ecCCCCCcHHHHHHHHHHhhhccCccchhheeeccCCCccccchh-------HHHHhccCCCCEEEE
Confidence            5678899999999666654 567776666653    588899998       999999988866653

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

Probab=88.33  E-value=0.24  Score=40.52  Aligned_cols=28  Identities=11%  Similarity=0.214  Sum_probs=26.4

Q ss_pred             eeecCeeeCCCCchhhhCCCCCCEEEEE
Q 041424          116 LFCTGMKLKDCKTLACYGVKDDRGVACF  143 (148)
Q Consensus       116 L~f~g~~L~d~~tL~~y~I~~gstI~l~  143 (148)
                      ++|.|++|.+.-|+..+++.-.+.+|++
T Consensus        46 viFaGKeLs~~ttv~~cDL~qqs~~hi~   73 (446)
T KOG0006|consen   46 VIFAGKELSNDTTVQNCDLSQQSATHIM   73 (446)
T ss_pred             EEEeccccccCceeecccccccchhhhh
Confidence            9999999999999999999999988877

>cd06411 PB1_p51 The PB1 domain is present in the p51 protein, a homolog of the p67 protein

Probab=87.74  E-value=1.4  Score=28.67  Aligned_cols=36  Identities=14%  Similarity=0.288  Sum_probs=33.3

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcC
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAG   38 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g   38 (148)
                      |+.+.+.+..+.++|.++|.++...+++.-.|-|..
T Consensus         8 TVai~v~~g~~y~~L~~~ls~kL~l~~~~~~LSY~~   43 (78)
T cd06411           8 TVALRAPRGADVSSLRALLSQALPQQAQRGQLSYRA   43 (78)
T ss_pred             EEEEEccCCCCHHHHHHHHHHHhcCChhhcEEEecC
Confidence            688899999999999999999999999999998863

p51 plays an important role in NADPH oxidase activation during phagosytosis. The PB1 domain is a modular domain mediating specific protein-protein interaction 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 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain mo

>KOG4250 consensus TANK binding protein kinase TBK1 [Signal transduction mechanisms]

Probab=85.08  E-value=1.3  Score=39.91  Aligned_cols=38  Identities=24%  Similarity=0.399  Sum_probs=34.7

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCee
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDR   40 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~   40 (148)
                      .+.+-++++.|+..+++.|+..+|+|+..|.|+|.|..
T Consensus       326 ~~~~~~~~~ntl~~~~~~I~~~Tgipe~~qeLL~e~~~  363 (732)
T KOG4250|consen  326 SHEYYVHADNTLHSLIERISKQTGIPEGKQELLFEGGL  363 (732)
T ss_pred             EEEEecChhhhHHHHHHHHHHhhCCCCccceeeeecCc
Confidence            46778999999999999999999999999999998754

>cd00565 ThiS ThiaminS ubiquitin-like sulfur carrier protein

Probab=83.93  E-value=4.2  Score=24.90  Aligned_cols=54  Identities=15%  Similarity=0.210  Sum_probs=39.9

Q ss_pred             EEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            5 TLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         5 ~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      .++++...|+.+|.+.+    +++++.-.+..+|+....+        ..++.-+++|+.+.++..
T Consensus         8 ~~~~~~~~tv~~ll~~l----~~~~~~i~V~vNg~~v~~~--------~~~~~~L~~gD~V~ii~~   61 (65)
T cd00565           8 PREVEEGATLAELLEEL----GLDPRGVAVALNGEIVPRS--------EWASTPLQDGDRIEIVTA   61 (65)
T ss_pred             EEEcCCCCCHHHHHHHc----CCCCCcEEEEECCEEcCHH--------HcCceecCCCCEEEEEEe
Confidence            46677888999988775    5777777777888877554        344566889999987754

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

>cd01772 SAKS1_UBX SAKS1-like UBX domain

Probab=83.43  E-value=4.9  Score=25.79  Aligned_cols=57  Identities=12%  Similarity=0.211  Sum_probs=41.4

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEE--EcCeecCC---CcccccccccccCCCcccccceeE
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLF--FAGDRLMN---GRLIDYEDMALASPNVKRESTMQL   67 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~--~~g~~L~d---~~~~~~~~~~L~~~~i~~~s~i~l   67 (148)
                      .+.-..+.++|+.++.+-|+...+-+ ..-.|+  |-.+.+.+   +.       +|.+.|+.+.+++.|
T Consensus        16 ~~~~~F~~~~tl~~v~~fV~~~~~~~-~~f~L~t~fPrk~~~~~d~~~-------TL~elgL~Psa~L~v   77 (79)
T cd01772          16 TLKQTFKAREQLAAVRLFVELNTGNG-GPFTLMTPFPRKVFTEDDMEK-------PLQELGLVPSAVLIV   77 (79)
T ss_pred             EEEEEeCCCChHHHHHHHHHHcCCCC-CCEEEEeCCCCeECCcccccC-------CHHHCCCCCceEEEE
Confidence            45567788999999999999765543 334454  44566753   35       999999999888765

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

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

Probab=83.00  E-value=1.3  Score=27.91  Aligned_cols=27  Identities=15%  Similarity=0.203  Sum_probs=24.6

Q ss_pred             cCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424          119 TGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus       119 ~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      .|..|+-++.+.|||+.+|-+++|.|.
T Consensus        45 ~G~vlD~~kKveD~GftngvkLFLsLK   71 (76)
T PF10790_consen   45 SGQVLDVNKKVEDFGFTNGVKLFLSLK   71 (76)
T ss_pred             CCcEeeccchhhhccccccceEEEEee
Confidence            578888899999999999999999885

>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=82.84  E-value=3.2  Score=27.12  Aligned_cols=36  Identities=14%  Similarity=0.174  Sum_probs=29.6

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCC-cccEEEEcC
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSE-DIQDLFFAG   38 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~-~~Q~L~~~g   38 (148)
                      ++.+.+.|+++..+|+++|.++.++.. ..-.|-|-.
T Consensus        11 ~~r~~l~~~~~~~~L~~~i~~r~~~~~~~~f~LkY~D   47 (82)
T cd06407          11 KIRFRLPPSWGFTELKQEIAKRFKLDDMSAFDLKYLD   47 (82)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhCCCCCCeeEEEEEC
Confidence            578899999999999999999999875 455565643

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

>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=82.24  E-value=2.6  Score=26.44  Aligned_cols=27  Identities=7%  Similarity=-0.004  Sum_probs=20.7

Q ss_pred             eeecCeeeCCCCchhhhCCCCCCEEEE
Q 041424          116 LFCTGMKLKDCKTLACYGVKDDRGVAC  142 (148)
Q Consensus       116 L~f~g~~L~d~~tL~~y~I~~gstI~l  142 (148)
                      |.|+++.++-..+++-.|+.+|+.+.|
T Consensus        39 L~h~~k~ldlslp~R~snL~n~akLeL   65 (65)
T PF11470_consen   39 LKHNNKPLDLSLPFRLSNLPNNAKLEL   65 (65)
T ss_dssp             EEETTEEESSS-BHHHH---SS-EEEE
T ss_pred             EEECCEEeccccceeecCCCCCCEEeC
Confidence            999999999999999999999999875

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.

>smart00666 PB1 PB1 domain

Probab=81.28  E-value=6.2  Score=24.95  Aligned_cols=35  Identities=20%  Similarity=0.302  Sum_probs=31.1

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEc
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFA   37 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~   37 (148)
                      +..+.++++.|..+|+.+|..+.+.+.....|.|.
T Consensus        12 ~~~~~~~~~~s~~dL~~~i~~~~~~~~~~~~l~Y~   46 (81)
T smart00666       12 TRRLSVPRDISFEDLRSKVAKRFGLDNQSFTLKYQ   46 (81)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHhCCCCCCeEEEEE
Confidence            56788999999999999999999998777788776

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.

>PF14453 ThiS-like: ThiS-like ubiquitin

Probab=81.05  E-value=5.8  Score=24.27  Aligned_cols=49  Identities=14%  Similarity=0.141  Sum_probs=37.0

Q ss_pred             EEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            4 VTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         4 ~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      -.+++....|+.+||.++..      +.=.++++|-+..++.       .     +++|+.+.++-|
T Consensus         8 k~~~~~~~~tl~~lr~~~k~------~~DI~I~NGF~~~~d~-------~-----L~e~D~v~~Ikk   56 (57)
T PF14453_consen    8 KEIETEENTTLFELRKESKP------DADIVILNGFPTKEDI-------E-----LKEGDEVFLIKK   56 (57)
T ss_pred             EEEEcCCCcCHHHHHHhhCC------CCCEEEEcCcccCCcc-------c-----cCCCCEEEEEeC
Confidence            35778889999999998765      3337889999887776       4     556888877654

>cd00754 MoaD Ubiquitin domain of MoaD-like proteins

Probab=80.85  E-value=7.7  Score=24.28  Aligned_cols=56  Identities=9%  Similarity=0.068  Sum_probs=37.7

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCC----CCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGT----SEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gi----p~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ...++++...||.+|.+.+....+-    ......+..+|+....+            .-+++|+.|.++..
T Consensus        17 ~~~~~~~~~~tv~~ll~~l~~~~~~~~~~~~~~~~v~vNg~~v~~~------------~~l~~gD~v~i~pp   76 (80)
T cd00754          17 EEELELPEGATVGELLDALEARYPGLLEELLARVRIAVNGEYVRLD------------TPLKDGDEVAIIPP   76 (80)
T ss_pred             eEEEECCCCCcHHHHHHHHHHHCchHHHhhhhcEEEEECCeEcCCC------------cccCCCCEEEEeCC
Confidence            3566777789999999999987542    22334455666665433            34778888887754

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

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	148
2y5b_B	152	Structure Of Usp21 In Complex With Linear Diubiquit		4e-12
2w9n_A	152	Crystal Structure Of Linear Di-Ubiquitin Length = 1		5e-12
3u30_A	172	Crystal Structure Of A Linear-Specific Ubiquitin Fa		5e-12
2zvn_A	154	Nemo Cozi Domain Incomplex With Diubiquitin In P212		5e-12
3b08_A	152	Crystal Structure Of The Mouse Hoil1-L-Nzf In Compl		5e-12
2znv_B	76	Crystal Structure Of Human Amsh-Lp Dub Domain In Co		1e-09
2o6v_B	76	Crystal Structure And Solution Nmr Studies Of Lys48		1e-09
2o6v_D	76	Crystal Structure And Solution Nmr Studies Of Lys48		2e-09
3dvg_Y	79	Crystal Structure Of K63-Specific Fab Apu.3a8 Bound		2e-09
1yx5_B	98	Solution Structure Of S5a Uim-1UBIQUITIN COMPLEX Le		2e-09
4a18_K	129	T.Thermophila 60s Ribosomal Subunit In Complex With		3e-09
3ldz_F	73	Crystal Structure Of Human Stam1 Vhs Domain In Comp		3e-09
3ons_A	72	Crystal Structure Of Human Ubiquitin In A New Cryst		3e-09
3rul_A	79	New Strategy To Analyze Structures Of Glycopeptide-		4e-09
2k6d_B	76	Cin85 Sh3-C Domain In Complex With Ubiquitin Length		4e-09
1xd3_B	75	Crystal Structure Of Uchl3-Ubvme Complex Length = 7		4e-09
1cmx_B	76	Structural Basis For The Specificity Of Ubiquitin C		4e-09
2gbj_A	84	Crystal Structure Of The 9-10 8 Glycine Insertion M		4e-09
3k9o_B	96	The Crystal Structure Of E2-25k And Ubb+1 Complex L		4e-09
2zcb_A	76	Crystal Structure Of Ubiquitin P37aP38A Length = 76		4e-09
1yiw_A	76	X-Ray Crystal Structure Of A Chemically Synthesized		4e-09
1aar_A	76	Structure Of A Diubiquitin Conjugate And A Model Fo		4e-09
1s1q_B	76	Tsg101(Uev) Domain In Complex With Ubiquitin Length		4e-09
2znv_C	77	Crystal Structure Of Human Amsh-Lp Dub Domain In Co		4e-09
3nob_A	78	Structure Of K11-Linked Di-Ubiquitin Length = 78		5e-09
2gbk_A	83	Crystal Structure Of The 9-10 Moad Insertion Mutant		5e-09
2kdi_A	114	Solution Structure Of A UbiquitinUIM FUSION PROTEIN		5e-09
2ld9_A	77	Backbone Structure Of Ubiquitin Determined Using Ba		5e-09
4ap4_C	80	Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex Le		5e-09
2khw_B	79	Solution Structure Of The Human Polymerase Iota Ubm		5e-09
1zgu_B	76	Solution Structure Of The Human Mms2-Ubiquitin Comp		5e-09
3jvz_X	81	E2~ubiquitin-Hect Length = 81		5e-09
3dvg_X	80	Crystal Structure Of K63-Specific Fab Apu.3a8 Bound		5e-09
3u5e_m	128	The Structure Of The Eukaryotic Ribosome At 3.0 A R		6e-09
4ii2_B	83	Crystal Structure Of Ubiquitin Activating Enzyme 1		6e-09
3q3f_A	189	Engineering Domain-Swapped Binding Interfaces By Mu		7e-09
3l0w_B	169	Structure Of Split Monoubiquitinated Pcna With Ubiq		8e-09
2k25_A	103	Automated Nmr Structure Of The Ubb By Fapsy Length		8e-09
3vdz_A	111	Tailoring Encodable Lanthanide-Binding Tags As Mri		8e-09
2ojr_A	111	Structure Of Ubiquitin Solved By Sad Using The Lant		9e-09
3ai5_A	307	Crystal Structure Of Yeast Enhanced Green Fluoresce		9e-09
3olm_D	79	Structure And Function Of A Ubiquitin Binding Site		1e-08
1otr_B	76	Solution Structure Of A Cue-Ubiquitin Complex Lengt		1e-08
3u5c_f	152	The Structure Of The Eukaryotic Ribosome At 3.0 A R		1e-08
4ii3_B	96	Crystal Structure Of S. Pombe Ubiquitin Activating		1e-08
3u5g_f	152	The Structure Of The Eukaryotic Ribosome At 3.0 A R		1e-08
1ud7_A	76	Solution Structure Of The Designed Hydrophobic Core		1e-08
3h7s_B	76	Crystal Structures Of K63-Linked Di- And Tri-Ubiqui		1e-08
3zf7_s	128	High-resolution Cryo-electron Microscopy Structure		2e-08
3v6e_B	91	Crystal Structure Of Usp2 And A Mutant Form Of Ubiq		2e-08
4hcn_B	98	Crystal Structure Of Burkholderia Pseudomallei Effe		2e-08
2xk5_B	76	Crystal Structure Of K6-Linked Diubiquitin Length =		2e-08
1ogw_A	76	Synthetic Ubiquitin With Fluoro-Leu At 50 And 67 Le		3e-08
2fcs_A	76	X-Ray Crystal Structure Of A Chemically Synthesized		4e-08
2jwz_A	76	Mutations In The Hydrophobic Core Of Ubiquitin Diff		4e-08
1yj1_A	76	X-Ray Crystal Structure Of A Chemically Synthesized		4e-08
3v6c_B	91	Crystal Structure Of Usp2 In Complex With Mutated U		4e-08
1sif_A	88	Crystal Structure Of A Multiple Hydrophobic Core Mu		5e-08
1c3t_A	76	Rotamer Strain As A Determinant Of Protein Structur		7e-08
3mtn_B	85	Usp21 In Complex With A Ubiquitin-based, Usp21-spec		1e-07
2gbr_A	81	Crystal Structure Of The 35-36 Moad Insertion Mutan		2e-07
4hk2_A	78	U7ub25.2540 Length = 78		3e-07
1zw7_A	82	Elimination Of The C-Cap In Ubiquitin Structure, Dy		3e-07
4gsw_A	80	Crystal Structure Of Ubiquitin From Entamoeba Histo		5e-07
4i6l_B	76	Crystal Structure Of Otub1 In Complex With Ubiquiti		8e-07
4hjk_A	77	U7ub7 Disulfide Variant Length = 77		1e-06
3n3k_B	85	The Catalytic Domain Of Usp8 In Complex With A Usp8		3e-06
2gbm_A	84	Crystal Structure Of The 35-36 8 Glycine Insertion		5e-06
1gjz_A	53	Solution Structure Of A Dimeric N-Terminal Fragment		1e-05
2jvc_A	82	Nmr Solution Structure Of Ubiquitin Like Protein Le		2e-05

>pdb|2Y5B|B Chain B, Structure Of Usp21 In Complex With Linear Diubiquitin-Aldehyde Length = 152

Iteration: 1
 Score = 67.0 bits (162), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 49/152 (32%), Positives = 76/152 (50%), Gaps = 42/152 (27%)
Query: 2   KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
           KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 11  KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 62
Query: 61  RESTMQLLFCAIKVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVKVLLTIRD----- 115
           +EST+ L+                  L+  ++IFVK LT + + L+V+   TI +     
Sbjct: 63  KESTLHLVLR----------------LRGHMQIFVKTLTGKTITLEVEPSDTIENVKAKI 106
Query: 116 ------------LFCTGMKLKDCKTLACYGVK 135
                       L   G +L+D +TL+ Y ++
Sbjct: 107 QDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQ 138

>pdb|2W9N|A Chain A, Crystal Structure Of Linear Di-Ubiquitin Length = 152

Iteration: 1
 Score = 66.6 bits (161), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 49/152 (32%), Positives = 76/152 (50%), Gaps = 42/152 (27%)
Query: 2   KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
           KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 11  KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 62
Query: 61  RESTMQLLFCAIKVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVKVLLTIRD----- 115
           +EST+ L+                  L+  ++IFVK LT + + L+V+   TI +     
Sbjct: 63  KESTLHLVLR----------------LRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKI 106
Query: 116 ------------LFCTGMKLKDCKTLACYGVK 135
                       L   G +L+D +TL+ Y ++
Sbjct: 107 QDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQ 138

>pdb|3U30|A Chain A, Crystal Structure Of A Linear-Specific Ubiquitin Fab Bound To Linear Ubiquitin Length = 172

Iteration: 1
 Score = 66.6 bits (161), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 49/152 (32%), Positives = 76/152 (50%), Gaps = 42/152 (27%)
Query: 2   KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
           KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 31  KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 82
Query: 61  RESTMQLLFCAIKVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVKVLLTIRD----- 115
           +EST+ L+                  L+  ++IFVK LT + + L+V+   TI +     
Sbjct: 83  KESTLHLVLR----------------LRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKI 126
Query: 116 ------------LFCTGMKLKDCKTLACYGVK 135
                       L   G +L+D +TL+ Y ++
Sbjct: 127 QDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQ 158

>pdb|2ZVN|A Chain A, Nemo Cozi Domain Incomplex With Diubiquitin In P212121 Space Group Length = 154

Iteration: 1
 Score = 66.6 bits (161), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 49/152 (32%), Positives = 76/152 (50%), Gaps = 42/152 (27%)
Query: 2   KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
           KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 13  KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 64
Query: 61  RESTMQLLFCAIKVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVKVLLTIRD----- 115
           +EST+ L+                  L+  ++IFVK LT + + L+V+   TI +     
Sbjct: 65  KESTLHLVLR----------------LRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKI 108
Query: 116 ------------LFCTGMKLKDCKTLACYGVK 135
                       L   G +L+D +TL+ Y ++
Sbjct: 109 QDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQ 140

>pdb|3B08|A Chain A, Crystal Structure Of The Mouse Hoil1-L-Nzf In Complex With Linear Di- Ubiquitin Length = 152

Iteration: 1
 Score = 66.6 bits (161), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 49/152 (32%), Positives = 76/152 (50%), Gaps = 42/152 (27%)
Query: 2   KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
           KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 11  KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 62
Query: 61  RESTMQLLFCAIKVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVKVLLTIRD----- 115
           +EST+ L+                  L+  ++IFVK LT + + L+V+   TI +     
Sbjct: 63  KESTLHLVLR----------------LRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKI 106
Query: 116 ------------LFCTGMKLKDCKTLACYGVK 135
                       L   G +L+D +TL+ Y ++
Sbjct: 107 QDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQ 138

>pdb|2ZNV|B Chain B, Crystal Structure Of Human Amsh-Lp Dub Domain In Complex With Lys63-Linked Ubiquitin Dimer Length = 76

Iteration: 1
 Score = 58.5 bits (140), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 32/69 (46%), Positives = 44/69 (63%), Gaps = 9/69 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 11 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 62
Query: 61 RESTMQLLF 69
          REST+ L+ 
Sbjct: 63 RESTLHLVL 71

>pdb|2O6V|B Chain B, Crystal Structure And Solution Nmr Studies Of Lys48-Linked Tetraubiquitin At Neutral Ph Length = 76

Iteration: 1
 Score = 58.5 bits (140), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 32/69 (46%), Positives = 44/69 (63%), Gaps = 9/69 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 11 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGXQLEDGRTLSDY--------NIQ 62
Query: 61 RESTMQLLF 69
          REST+ L+ 
Sbjct: 63 RESTLHLVL 71

>pdb|2O6V|D Chain D, Crystal Structure And Solution Nmr Studies Of Lys48-Linked Tetraubiquitin At Neutral Ph Length = 76

Iteration: 1
 Score = 58.2 bits (139), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 32/69 (46%), Positives = 44/69 (63%), Gaps = 9/69 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 11 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGRQLEDGRTLSDY--------NIQ 62
Query: 61 RESTMQLLF 69
          REST+ L+ 
Sbjct: 63 RESTLHLVL 71

>pdb|3DVG|Y Chain Y, Crystal Structure Of K63-Specific Fab Apu.3a8 Bound To K63-Linked Di- Ubiquitin Length = 79

Iteration: 1
 Score = 58.2 bits (139), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 32/69 (46%), Positives = 44/69 (63%), Gaps = 9/69 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 14 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 65
Query: 61 RESTMQLLF 69
          REST+ L+ 
Sbjct: 66 RESTLHLVL 74

>pdb|1YX5|B Chain B, Solution Structure Of S5a Uim-1UBIQUITIN COMPLEX Length = 98

Iteration: 1
 Score = 57.8 bits (138), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 31/69 (44%), Positives = 44/69 (63%), Gaps = 9/69 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 11 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 62
Query: 61 RESTMQLLF 69
          +EST+ L+ 
Sbjct: 63 KESTLHLVL 71

>pdb|4A18|K Chain K, T.Thermophila 60s Ribosomal Subunit In Complex With Initiation Factor 6. This File Contains 26s Rrna And Proteins Of Molecule 1 Length = 129

Iteration: 1
 Score = 57.4 bits (137), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 31/69 (44%), Positives = 45/69 (65%), Gaps = 9/69 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL+VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 11 KTITLDVEASDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 62
Query: 61 RESTMQLLF 69
          +EST+ L+ 
Sbjct: 63 KESTLHLVL 71

>pdb|3LDZ|F Chain F, Crystal Structure Of Human Stam1 Vhs Domain In Complex With Ubiquitin Length = 73

Iteration: 1
 Score = 57.4 bits (137), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 31/69 (44%), Positives = 44/69 (63%), Gaps = 9/69 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 11 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 62
Query: 61 RESTMQLLF 69
          +EST+ L+ 
Sbjct: 63 KESTLHLVL 71

>pdb|3ONS|A Chain A, Crystal Structure Of Human Ubiquitin In A New Crystal Form Length = 72

Iteration: 1
 Score = 57.4 bits (137), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 31/69 (44%), Positives = 44/69 (63%), Gaps = 9/69 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 11 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 62
Query: 61 RESTMQLLF 69
          +EST+ L+ 
Sbjct: 63 KESTLHLVL 71

>pdb|3RUL|A Chain A, New Strategy To Analyze Structures Of Glycopeptide-Target Complexes Length = 79

Iteration: 1
 Score = 57.0 bits (136), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 31/69 (44%), Positives = 44/69 (63%), Gaps = 9/69 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 11 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 62
Query: 61 RESTMQLLF 69
          +EST+ L+ 
Sbjct: 63 KESTLHLVL 71

>pdb|2K6D|B Chain B, Cin85 Sh3-C Domain In Complex With Ubiquitin Length = 76

Iteration: 1
 Score = 57.0 bits (136), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 31/69 (44%), Positives = 44/69 (63%), Gaps = 9/69 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 11 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 62
Query: 61 RESTMQLLF 69
          +EST+ L+ 
Sbjct: 63 KESTLHLVL 71

>pdb|1XD3|B Chain B, Crystal Structure Of Uchl3-Ubvme Complex Length = 75

Iteration: 1
 Score = 57.0 bits (136), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 31/69 (44%), Positives = 44/69 (63%), Gaps = 9/69 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 11 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 62
Query: 61 RESTMQLLF 69
          +EST+ L+ 
Sbjct: 63 KESTLHLVL 71

>pdb|1CMX|B Chain B, Structural Basis For The Specificity Of Ubiquitin C- Terminal Hydrolases Length = 76

Iteration: 1
 Score = 57.0 bits (136), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 31/69 (44%), Positives = 44/69 (63%), Gaps = 9/69 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 11 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 62
Query: 61 RESTMQLLF 69
          +EST+ L+ 
Sbjct: 63 KESTLHLVL 71

>pdb|2GBJ|A Chain A, Crystal Structure Of The 9-10 8 Glycine Insertion Mutant Of Ubiquitin. Length = 84

Iteration: 1
 Score = 57.0 bits (136), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 31/69 (44%), Positives = 44/69 (63%), Gaps = 9/69 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 19 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 70
Query: 61 RESTMQLLF 69
          +EST+ L+ 
Sbjct: 71 KESTLHLVL 79

>pdb|3K9O|B Chain B, The Crystal Structure Of E2-25k And Ubb+1 Complex Length = 96

Iteration: 1
 Score = 57.0 bits (136), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 31/69 (44%), Positives = 44/69 (63%), Gaps = 9/69 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 12 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 63
Query: 61 RESTMQLLF 69
          +EST+ L+ 
Sbjct: 64 KESTLHLVL 72

>pdb|2ZCB|A Chain A, Crystal Structure Of Ubiquitin P37aP38A Length = 76

Iteration: 1
 Score = 57.0 bits (136), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 31/69 (44%), Positives = 45/69 (65%), Gaps = 9/69 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI+N+K  + +KEG + D Q L FAG +L +GR L DY        N++
Sbjct: 11 KTITLEVEPSDTIENVKAKIQDKEGIAADQQRLIFAGKQLEDGRTLSDY--------NIQ 62
Query: 61 RESTMQLLF 69
          +EST+ L+ 
Sbjct: 63 KESTLHLVL 71

>pdb|1YIW|A Chain A, X-Ray Crystal Structure Of A Chemically Synthesized Ubiquitin Length = 76

Iteration: 1
 Score = 57.0 bits (136), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 31/69 (44%), Positives = 44/69 (63%), Gaps = 9/69 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 11 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 62
Query: 61 RESTMQLLF 69
          +EST+ L+ 
Sbjct: 63 KESTLHLVL 71

>pdb|1AAR|A Chain A, Structure Of A Diubiquitin Conjugate And A Model For Interaction With Ubiquitin Conjugating Enzyme (E2) Length = 76

Iteration: 1
 Score = 56.6 bits (135), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 31/69 (44%), Positives = 44/69 (63%), Gaps = 9/69 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 11 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 62
Query: 61 RESTMQLLF 69
          +EST+ L+ 
Sbjct: 63 KESTLHLVL 71

>pdb|1S1Q|B Chain B, Tsg101(Uev) Domain In Complex With Ubiquitin Length = 76

Iteration: 1
 Score = 56.6 bits (135), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 31/69 (44%), Positives = 44/69 (63%), Gaps = 9/69 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 11 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 62
Query: 61 RESTMQLLF 69
          +EST+ L+ 
Sbjct: 63 KESTLHLVL 71

>pdb|2ZNV|C Chain C, Crystal Structure Of Human Amsh-Lp Dub Domain In Complex With Lys63-Linked Ubiquitin Dimer Length = 77

Iteration: 1
 Score = 56.6 bits (135), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 31/69 (44%), Positives = 44/69 (63%), Gaps = 9/69 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 11 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 62
Query: 61 RESTMQLLF 69
          +EST+ L+ 
Sbjct: 63 KESTLHLVL 71

>pdb|3NOB|A Chain A, Structure Of K11-Linked Di-Ubiquitin Length = 78

Iteration: 1
 Score = 56.6 bits (135), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 31/69 (44%), Positives = 44/69 (63%), Gaps = 9/69 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 13 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 64
Query: 61 RESTMQLLF 69
          +EST+ L+ 
Sbjct: 65 KESTLHLVL 73

>pdb|2GBK|A Chain A, Crystal Structure Of The 9-10 Moad Insertion Mutant Of Ubiquitin Length = 83

Iteration: 1
 Score = 56.6 bits (135), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 31/69 (44%), Positives = 44/69 (63%), Gaps = 9/69 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 18 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 69
Query: 61 RESTMQLLF 69
          +EST+ L+ 
Sbjct: 70 KESTLHLVL 78

>pdb|2KDI|A Chain A, Solution Structure Of A UbiquitinUIM FUSION PROTEIN Length = 114

Iteration: 1
 Score = 56.6 bits (135), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 34/96 (35%), Positives = 58/96 (60%), Gaps = 10/96 (10%)
Query: 2   KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
           KT+TL VE S+TI N+K  + +KEG   D Q L +AG +L +GR L DY        N++
Sbjct: 20  KTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIWAGKQLEDGRTLSDY--------NIQ 71
Query: 61  RESTMQLLFCAIKVLSISVKAPSDDILKLKVKIFVK 96
           REST+ L+   ++  S+   A  +++++  +++ +K
Sbjct: 72  RESTLHLVL-RLRGGSMGGAADEEELIRKAIELSLK 106

>pdb|2LD9|A Chain A, Backbone Structure Of Ubiquitin Determined Using Backbone Amide Noes And Backbone N-H And N-C Rdcs Length = 77

Iteration: 1
 Score = 56.6 bits (135), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 31/69 (44%), Positives = 44/69 (63%), Gaps = 9/69 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 12 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 63
Query: 61 RESTMQLLF 69
          +EST+ L+ 
Sbjct: 64 KESTLHLVL 72

>pdb|4AP4|C Chain C, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex Length = 80

Iteration: 1
 Score = 56.6 bits (135), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 31/69 (44%), Positives = 44/69 (63%), Gaps = 9/69 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 15 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 66
Query: 61 RESTMQLLF 69
          +EST+ L+ 
Sbjct: 67 KESTLHLVL 75

>pdb|2KHW|B Chain B, Solution Structure Of The Human Polymerase Iota Ubm2- Ubiquitin Complex Length = 79

Iteration: 1
 Score = 56.6 bits (135), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 31/69 (44%), Positives = 44/69 (63%), Gaps = 9/69 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 14 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 65
Query: 61 RESTMQLLF 69
          +EST+ L+ 
Sbjct: 66 KESTLHLVL 74

>pdb|1ZGU|B Chain B, Solution Structure Of The Human Mms2-Ubiquitin Complex Length = 76

Iteration: 1
 Score = 56.6 bits (135), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 31/69 (44%), Positives = 44/69 (63%), Gaps = 9/69 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 11 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGRQLEDGRTLSDY--------NIQ 62
Query: 61 RESTMQLLF 69
          +EST+ L+ 
Sbjct: 63 KESTLHLVL 71

>pdb|3JVZ|X Chain X, E2~ubiquitin-Hect Length = 81

Iteration: 1
 Score = 56.6 bits (135), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 31/69 (44%), Positives = 44/69 (63%), Gaps = 9/69 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 16 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 67
Query: 61 RESTMQLLF 69
          +EST+ L+ 
Sbjct: 68 KESTLHLVL 76

>pdb|3DVG|X Chain X, Crystal Structure Of K63-Specific Fab Apu.3a8 Bound To K63-Linked Di- Ubiquitin Length = 80

Iteration: 1
 Score = 56.6 bits (135), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 31/69 (44%), Positives = 44/69 (63%), Gaps = 9/69 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 14 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 65
Query: 61 RESTMQLLF 69
          +EST+ L+ 
Sbjct: 66 KESTLHLVL 74

>pdb|3U5E|MM Chain m, The Structure Of The Eukaryotic Ribosome At 3.0 A Resolution. This Entry Contains Proteins Of The 60s Subunit, Ribosome A Length = 128

Iteration: 1
 Score = 56.2 bits (134), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 31/69 (44%), Positives = 43/69 (62%), Gaps = 9/69 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 11 KTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 62
Query: 61 RESTMQLLF 69
          +EST+ L+ 
Sbjct: 63 KESTLHLVL 71

>pdb|4II2|B Chain B, Crystal Structure Of Ubiquitin Activating Enzyme 1 (uba1) In Complex With The Ub E2 Ubc4, Ubiquitin, And Atp/mg Length = 83

Iteration: 1
 Score = 56.2 bits (134), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 28/68 (41%), Positives = 42/68 (61%), Gaps = 7/68 (10%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKR 61
          +T+TL VE S+TI N++  + ++EG   D Q L FAG +L +GR        LA  N++R
Sbjct: 18 RTITLEVESSDTIDNVRARIQDREGIPPDQQRLIFAGRQLEDGR-------TLADYNIQR 70
Query: 62 ESTMQLLF 69
          EST+ L+ 
Sbjct: 71 ESTLHLVL 78

>pdb|3Q3F|A Chain A, Engineering Domain-Swapped Binding Interfaces By Mutually Exclusive Folding: Insertion Of Ubiquitin Into Position 103 Of Barnase Length = 189

Iteration: 1
 Score = 56.2 bits (134), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 31/68 (45%), Positives = 44/68 (64%), Gaps = 9/68 (13%)
Query: 2   KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
           KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 116 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 167
Query: 61  RESTMQLL 68
           +EST+ L+
Sbjct: 168 KESTLHLV 175

>pdb|3L0W|B Chain B, Structure Of Split Monoubiquitinated Pcna With Ubiquitin In Position Two Length = 169

Iteration: 1
 Score = 55.8 bits (133), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 31/68 (45%), Positives = 43/68 (63%), Gaps = 9/68 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 11 KTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 62
Query: 61 RESTMQLL 68
          +EST+ L+
Sbjct: 63 KESTLHLV 70

>pdb|2K25|A Chain A, Automated Nmr Structure Of The Ubb By Fapsy Length = 103

Iteration: 1
 Score = 55.8 bits (133), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 29/68 (42%), Positives = 43/68 (63%), Gaps = 7/68 (10%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKR 61
          KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR        L+  N+++
Sbjct: 19 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGR-------TLSEYNIQK 71
Query: 62 ESTMQLLF 69
          EST+ L+ 
Sbjct: 72 ESTLHLVL 79

>pdb|3VDZ|A Chain A, Tailoring Encodable Lanthanide-Binding Tags As Mri Contrast Agents: Xq-Dse3-Ubiquitin At 2.4 Angstroms Length = 111

Iteration: 1
 Score = 55.8 bits (133), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 31/69 (44%), Positives = 44/69 (63%), Gaps = 9/69 (13%)
Query: 2   KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
           KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 46  KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 97
Query: 61  RESTMQLLF 69
           +EST+ L+ 
Sbjct: 98  KESTLHLVL 106

>pdb|2OJR|A Chain A, Structure Of Ubiquitin Solved By Sad Using The Lanthanide- Binding Tag Length = 111

Iteration: 1
 Score = 55.8 bits (133), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 31/69 (44%), Positives = 44/69 (63%), Gaps = 9/69 (13%)
Query: 2   KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
           KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 46  KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 97
Query: 61  RESTMQLLF 69
           +EST+ L+ 
Sbjct: 98  KESTLHLVL 106

>pdb|3AI5|A Chain A, Crystal Structure Of Yeast Enhanced Green Fluorescent Protein- Ubiquitin Fusion Protein Length = 307

Iteration: 1
 Score = 55.8 bits (133), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 31/68 (45%), Positives = 44/68 (64%), Gaps = 9/68 (13%)
Query: 2   KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
           KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 244 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 295
Query: 61  RESTMQLL 68
           +EST+ L+
Sbjct: 296 KESTLHLV 303

>pdb|3OLM|D Chain D, Structure And Function Of A Ubiquitin Binding Site Within The Catalytic Domain Of A Hect Ubiquitin Ligase Length = 79

Iteration: 1
 Score = 55.5 bits (132), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 31/69 (44%), Positives = 43/69 (62%), Gaps = 9/69 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 14 KTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 65
Query: 61 RESTMQLLF 69
          +EST+ L+ 
Sbjct: 66 KESTLHLVL 74

>pdb|1OTR|B Chain B, Solution Structure Of A Cue-Ubiquitin Complex Length = 76

Iteration: 1
 Score = 55.5 bits (132), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 31/69 (44%), Positives = 43/69 (62%), Gaps = 9/69 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 11 KTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 62
Query: 61 RESTMQLLF 69
          +EST+ L+ 
Sbjct: 63 KESTLHLVL 71

>pdb|3U5C|FF Chain f, The Structure Of The Eukaryotic Ribosome At 3.0 A Resolution. This Entry Contains Proteins Of The 40s Subunit, Ribosome A Length = 152

Iteration: 1
 Score = 55.5 bits (132), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 31/68 (45%), Positives = 43/68 (63%), Gaps = 9/68 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 11 KTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 62
Query: 61 RESTMQLL 68
          +EST+ L+
Sbjct: 63 KESTLHLV 70

>pdb|4II3|B Chain B, Crystal Structure Of S. Pombe Ubiquitin Activating Enzyme 1 (uba1) In Complex With Ubiquitin And Atp/mg Length = 96

Iteration: 1
 Score = 55.5 bits (132), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 31/69 (44%), Positives = 43/69 (62%), Gaps = 9/69 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 31 KTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 82
Query: 61 RESTMQLLF 69
          +EST+ L+ 
Sbjct: 83 KESTLHLVL 91

>pdb|3U5G|FF Chain f, The Structure Of The Eukaryotic Ribosome At 3.0 A Resolution. This Entry Contains Proteins Of The 40s Subunit, Ribosome B Length = 152

Iteration: 1
 Score = 55.5 bits (132), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 31/69 (44%), Positives = 43/69 (62%), Gaps = 9/69 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 11 KTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 62
Query: 61 RESTMQLLF 69
          +EST+ L+ 
Sbjct: 63 KESTLHLVL 71

>pdb|1UD7|A Chain A, Solution Structure Of The Designed Hydrophobic Core Mutant Of Ubiquitin, 1d7 Length = 76

Iteration: 1
 Score = 55.1 bits (131), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 30/69 (43%), Positives = 43/69 (62%), Gaps = 9/69 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KTVT+ VE S+T++N K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 11 KTVTIEVEPSDTVENFKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 62
Query: 61 RESTMQLLF 69
          +EST+ L+ 
Sbjct: 63 KESTIHLVL 71

>pdb|3ZF7|SS Chain s, High-resolution Cryo-electron Microscopy Structure Of The Trypanosoma Brucei Ribosome Length = 128

Iteration: 1
 Score = 55.1 bits (131), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 30/69 (43%), Positives = 42/69 (60%), Gaps = 9/69 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+ L VE S+TI+N+K  + +KEG   D Q L FAG +L  GR L DY        N++
Sbjct: 11 KTIALEVEASDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEEGRTLADY--------NIQ 62
Query: 61 RESTMQLLF 69
          +EST+ L+ 
Sbjct: 63 KESTLHLVL 71

>pdb|3V6E|B Chain B, Crystal Structure Of Usp2 And A Mutant Form Of Ubiquitin Length = 91

Iteration: 1
 Score = 54.7 bits (130), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 30/69 (43%), Positives = 43/69 (62%), Gaps = 9/69 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          K +TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 28 KHITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 79
Query: 61 RESTMQLLF 69
          +EST+ L+ 
Sbjct: 80 KESTLHLVL 88

>pdb|4HCN|B Chain B, Crystal Structure Of Burkholderia Pseudomallei Effector Protein Chbp In Complex With Ubiquitin Length = 98

Iteration: 1
 Score = 54.7 bits (130), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 31/69 (44%), Positives = 43/69 (62%), Gaps = 9/69 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 33 KTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 84
Query: 61 RESTMQLLF 69
          +EST+ L+ 
Sbjct: 85 KESTLHLVL 93

>pdb|2XK5|B Chain B, Crystal Structure Of K6-Linked Diubiquitin Length = 76

Iteration: 1
 Score = 54.3 bits (129), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 30/69 (43%), Positives = 43/69 (62%), Gaps = 9/69 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI+N+K  + +KEG     Q L FAG +L +GR L DY        N++
Sbjct: 11 KTITLEVEPSDTIENVKAKIQDKEGIPPQQQRLIFAGKQLEDGRTLSDY--------NIQ 62
Query: 61 RESTMQLLF 69
          +EST+ L+ 
Sbjct: 63 KESTLHLVL 71

>pdb|1OGW|A Chain A, Synthetic Ubiquitin With Fluoro-Leu At 50 And 67 Length = 76

Iteration: 1
 Score = 53.9 bits (128), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 30/69 (43%), Positives = 42/69 (60%), Gaps = 9/69 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +  +GR L DY        N++
Sbjct: 11 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQXEDGRTLSDY--------NIQ 62
Query: 61 RESTMQLLF 69
          +EST  L+ 
Sbjct: 63 KESTXHLVL 71

>pdb|2FCS|A Chain A, X-Ray Crystal Structure Of A Chemically Synthesized [l-Gln35]ubiquitin With A Cubic Space Group Length = 76

Iteration: 1
 Score = 53.9 bits (128), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 30/69 (43%), Positives = 43/69 (62%), Gaps = 9/69 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI+N+K  + +KE    D Q L FAG +L +GR L DY        N++
Sbjct: 11 KTITLEVEPSDTIENVKAKIQDKEQIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 62
Query: 61 RESTMQLLF 69
          +EST+ L+ 
Sbjct: 63 KESTLHLVL 71

>pdb|2JWZ|A Chain A, Mutations In The Hydrophobic Core Of Ubiquitin Differentially Affect Its Recognition By Receptor Proteins Length = 76

Iteration: 1
 Score = 53.5 bits (127), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 30/66 (45%), Positives = 41/66 (62%), Gaps = 9/66 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 11 KTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 62
Query: 61 RESTMQ 66
          +EST+ 
Sbjct: 63 KESTLH 68

>pdb|1YJ1|A Chain A, X-Ray Crystal Structure Of A Chemically Synthesized [d-Gln35]ubiquitin Length = 76

Iteration: 1
 Score = 53.5 bits (127), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 30/69 (43%), Positives = 43/69 (62%), Gaps = 9/69 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI+N+K  + +KE    D Q L FAG +L +GR L DY        N++
Sbjct: 11 KTITLEVEPSDTIENVKAKIQDKEXIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 62
Query: 61 RESTMQLLF 69
          +EST+ L+ 
Sbjct: 63 KESTLHLVL 71

>pdb|3V6C|B Chain B, Crystal Structure Of Usp2 In Complex With Mutated Ubiquitin Length = 91

Iteration: 1
 Score = 53.5 bits (127), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 29/67 (43%), Positives = 42/67 (62%), Gaps = 9/67 (13%)
Query: 4  VTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVKRE 62
          +TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N+++E
Sbjct: 30 ITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQKE 81
Query: 63 STMQLLF 69
          ST+ L+ 
Sbjct: 82 STLHLVL 88

>pdb|1SIF|A Chain A, Crystal Structure Of A Multiple Hydrophobic Core Mutant Of Ubiquitin Length = 88

Iteration: 1
 Score = 53.5 bits (127), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 30/69 (43%), Positives = 43/69 (62%), Gaps = 9/69 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT T+ +E S+TI+NLK  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 20 KTFTVEMEPSDTIENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 71
Query: 61 RESTMQLLF 69
          +EST+ L+ 
Sbjct: 72 KESTLHLVL 80

>pdb|1C3T|A Chain A, Rotamer Strain As A Determinant Of Protein Structural Specificity Length = 76

Iteration: 1
 Score = 52.8 bits (125), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 29/69 (42%), Positives = 44/69 (63%), Gaps = 9/69 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+T+ +E S+T++NLK  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 11 KTLTVELEPSDTVENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NLQ 62
Query: 61 RESTMQLLF 69
          +EST+ L+ 
Sbjct: 63 KESTIHLVL 71

>pdb|3MTN|B Chain B, Usp21 In Complex With A Ubiquitin-based, Usp21-specific Inhibitor Length = 85

Iteration: 1
 Score = 52.0 bits (123), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 29/65 (44%), Positives = 41/65 (63%), Gaps = 9/65 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 14 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 65
Query: 61 RESTM 65
          + ST+
Sbjct: 66 KWSTL 70

>pdb|2GBR|A Chain A, Crystal Structure Of The 35-36 Moad Insertion Mutant Of Ubiquitin Length = 81

Iteration: 1
 Score = 51.2 bits (121), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 31/74 (41%), Positives = 44/74 (59%), Gaps = 14/74 (18%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGT-----SEDIQDLFFAGDRLMNGR-LIDYEDMALA 55
          KT+TL VE S+TI+N+K  + +KEG        D Q L FAG +L +GR L DY      
Sbjct: 11 KTITLEVEPSDTIENVKAKIQDKEGRWALAIPPDQQRLIFAGKQLEDGRTLSDY------ 64
Query: 56 SPNVKRESTMQLLF 69
            N+++EST+ L+ 
Sbjct: 65 --NIQKESTLHLVL 76

>pdb|4HK2|A Chain A, U7ub25.2540 Length = 78

Iteration: 1
 Score = 50.8 bits (120), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 30/66 (45%), Positives = 41/66 (62%), Gaps = 9/66 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT TL VE S+TI+N+K  + +K G   D Q L FAG RL +GR L DY        N++
Sbjct: 13 KTYTLEVEPSDTIENVKAKIQDKLGIPPDQQWLIFAGKRLEDGRTLSDY--------NIQ 64
Query: 61 RESTMQ 66
          +EST++
Sbjct: 65 KESTLR 70

>pdb|1ZW7|A Chain A, Elimination Of The C-Cap In Ubiquitin Structure, Dynamics And Thermodynamic Consequences Length = 82

Iteration: 1
 Score = 50.8 bits (120), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 28/68 (41%), Positives = 40/68 (58%), Gaps = 9/68 (13%)
Query: 3  TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVKR 61
          T+TL VE S+TI N+K  +    G   D Q+L FAG +L +GR L DY        N+++
Sbjct: 12 TITLEVESSDTIDNVKSKIQAAPGIPPDQQELIFAGKQLEDGRTLSDY--------NIQK 63
Query: 62 ESTMQLLF 69
          EST+ L+ 
Sbjct: 64 ESTLHLVL 71

>pdb|4GSW|A Chain A, Crystal Structure Of Ubiquitin From Entamoeba Histolytica To 2.15 Angstrom Length = 80

Iteration: 1
 Score = 50.1 bits (118), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 28/69 (40%), Positives = 41/69 (59%), Gaps = 9/69 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE +++I  +K  + EKEG   D Q L FAG +L  G+ L DY        N++
Sbjct: 14 KTITLEVEPNDSIDAIKAKIQEKEGIPPDQQRLIFAGKQLEEGKTLSDY--------NIQ 65
Query: 61 RESTMQLLF 69
          +EST+ L+ 
Sbjct: 66 KESTLHLVL 74

>pdb|4I6L|B Chain B, Crystal Structure Of Otub1 In Complex With Ubiquitin Variant Length = 76

Iteration: 1
 Score = 49.3 bits (116), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 29/69 (42%), Positives = 41/69 (59%), Gaps = 9/69 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI+N+K  + +KEG   D Q L FA  +L +GR L DY        N+ 
Sbjct: 13 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQKLLFARKQLEDGRTLSDY--------NIH 64
Query: 61 RESTMQLLF 69
          +ES + L+ 
Sbjct: 65 KESFLYLVL 73

>pdb|4HJK|A Chain A, U7ub7 Disulfide Variant Length = 77

Iteration: 1
 Score = 48.9 bits (115), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 29/66 (43%), Positives = 40/66 (60%), Gaps = 9/66 (13%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT TL VE S+TI+N+K  + +K G   D Q L FAG +L +GR L DY        N++
Sbjct: 12 KTNTLEVEPSDTIENVKAKIQDKIGYPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 63
Query: 61 RESTMQ 66
          +EST+ 
Sbjct: 64 KESTLH 69

>pdb|3N3K|B Chain B, The Catalytic Domain Of Usp8 In Complex With A Usp8 Specific Inhibitor Length = 85

Iteration: 1
 Score = 47.4 bits (111), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 24/49 (48%), Positives = 33/49 (67%), Gaps = 1/49 (2%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDY 49
          +T+ L VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY
Sbjct: 14 RTIILEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 62

>pdb|2GBM|A Chain A, Crystal Structure Of The 35-36 8 Glycine Insertion Mutant Of Ubiquitin Length = 84

Iteration: 1
 Score = 46.6 bits (109), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 31/77 (40%), Positives = 44/77 (57%), Gaps = 17/77 (22%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGT--------SEDIQDLFFAGDRLMNGR-LIDYEDM 52
          KT+TL VE S+TI+N+K  + +KEG           D Q L FAG +L +GR L DY   
Sbjct: 11 KTITLEVEPSDTIENVKAKIQDKEGGGGGGGGGIPPDQQRLIFAGKQLEDGRTLSDY--- 67
Query: 53 ALASPNVKRESTMQLLF 69
               N+++EST+ L+ 
Sbjct: 68 -----NIQKESTLHLVL 79

>pdb|1GJZ|A Chain A, Solution Structure Of A Dimeric N-Terminal Fragment Of Human Ubiquitin Length = 53

Iteration: 1
 Score = 45.4 bits (106), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 21/40 (52%), Positives = 28/40 (70%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRL 41
          KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L
Sbjct: 13 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL 52

>pdb|2JVC|A Chain A, Nmr Solution Structure Of Ubiquitin Like Protein Length = 82

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 22/68 (32%), Positives = 41/68 (60%), Gaps = 7/68 (10%)
Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKR 61
          KT+T++V+ ++T+  +K  +++KEG   D Q L F G +L +         A++  NV++
Sbjct: 16 KTITIDVDHADTVGAVKAKIYDKEGIPPDQQRLIFGGKQLEDSN-------AMSDYNVQK 68
Query: 62 ESTMQLLF 69
          EST+ L+ 
Sbjct: 69 ESTLHLVL 76

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	148
1ttn_A	106	DC-UBP, dendritic cell-derived ubiquitin-like prot	4e-13
3rt3_B	159	Ubiquitin-like protein ISG15; ubiquitin-like domai	4e-13
3rt3_B	159	Ubiquitin-like protein ISG15; ubiquitin-like domai	5e-07
3u30_A	172	Ubiquitin, linear DI-ubiquitin; immune system; 2.4	5e-13
3u30_A	172	Ubiquitin, linear DI-ubiquitin; immune system; 2.4	1e-06
3b08_A	152	Polyubiquitin-C, ubiquitin; protein complex, signa	9e-13
3b08_A	152	Polyubiquitin-C, ubiquitin; protein complex, signa	2e-06
2l7r_A	93	Ubiquitin-like protein FUBI; structural genomics,	4e-12
2l7r_A	93	Ubiquitin-like protein FUBI; structural genomics,	2e-04
3u5c_F	225	RP14, S2, YS8, 40S ribosomal protein S5; translati	8e-12
3q3f_A	189	Ribonuclease/ubiquitin chimeric protein; domain SW	2e-11
3q3f_A	189	Ribonuclease/ubiquitin chimeric protein; domain SW	9e-10
3dbh_I	88	NEDD8; cell cycle, activating enzyme, apoptosis, m	2e-11
3a9j_A	76	Ubiquitin; protein complex, cytoplasm, isopeptide	3e-11
1wh3_A	87	59 kDa 2'-5'-oligoadenylate synthetase like protei	4e-11
2dzi_A	81	Ubiquitin-like protein 4A; GDX, structural genomic	5e-11
3mtn_B	85	UBA80, ubcep1, ubiquitin variant UBV.21.4; ubiquit	8e-11
1ndd_A	76	NEDD8, protein (ubiquitin-like protein NEDD8); pro	9e-11
4fbj_B	88	NEDD8; effector-HOST target complex, glutamine dea	1e-10
3b1l_X	76	E3 ubiquitin-protein ligase parkin; proteasome, AL	1e-10
1wy8_A	89	NP95-like ring finger protein, isoform A; ubiquiti	1e-10
3k9o_B	96	Ubiquitin, UBB+1; E2-25K, complex structure, ATP-b	2e-10
1sif_A	88	Ubiquitin; hydrophobic mutants, folding, stability	2e-10
3l0w_B	169	Monoubiquitinated proliferating cell nuclear antig	2e-10
2kdi_A	114	Ubiquitin, vacuolar protein sorting-associated pro	2e-10
3n3k_B	85	Ubiquitin; hydrolase, protease, thiol protease, DU	2e-10
1we7_A	115	SF3A1 protein; structural genomics, ubiquitin-like	4e-10
1yx5_B	98	Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo s	4e-10
2ojr_A	111	Ubiquitin; lanthide-binding TAG, terbium, TB, SAD	5e-10
2hj8_A	88	Interferon-induced 17 kDa protein; HR2873B, human	2e-09
3phx_B	79	Ubiquitin-like protein ISG15; OTU domain, DE-ubiqu	5e-09
2xzm_9	189	RPS31E; ribosome, translation; 3.93A {Tetrahymena	6e-09
4dwf_A	90	HLA-B-associated transcript 3; ubiquitin-like doma	7e-09
4eew_A	88	Large proline-rich protein BAG6; ubiquitin-like fo	9e-09
2kk8_A	84	Uncharacterized protein AT4G05270; solution arabid	1e-08
2faz_A	78	Ubiquitin-like containing PHD and ring finger DOM	2e-08
3m63_B	101	Ubiquitin domain-containing protein DSK2; armadill	6e-08
3u5e_m	128	60S ribosomal protein L40; translation, ribosome,	6e-08
2bwf_A	77	Ubiquitin-like protein DSK2; signaling protein, UB	1e-07
1wx7_A	106	Ubiquilin 3; ubiquitin-like domain, structural gen	2e-07
2klc_A	101	Ubiquilin-1; ubiquitin-like, structural genomics,	2e-07
2kan_A	94	Uncharacterized protein AR3433A; ubiquitin fold, a	3e-07
1wx8_A	96	Riken cDNA 4931431F19; ubiquitin-like domain, ubiq	4e-07
1j8c_A	125	Ubiquitin-like protein hplic-2; ubiquitin-like dom	8e-07
1yqb_A	100	Ubiquilin 3; structural genomics consortium, ubiqu	9e-07
3ai5_A	307	Yeast enhanced green fluorescent protein, ubiquit;	3e-06
1we6_A	111	Splicing factor, putative; structural genomics, ub	4e-06
3m62_B	106	UV excision repair protein RAD23; armadillo-like r	6e-06
1uel_A	95	HHR23B, UV excision repair protein RAD23 homolog B	8e-06
1oqy_A	368	HHR23A, UV excision repair protein RAD23 homolog A	1e-05
1oqy_A	368	HHR23A, UV excision repair protein RAD23 homolog A	7e-04
1v5o_A	102	1700011N24RIK protein; hypothetical protein, ubiqu	1e-05
2wyq_A	85	HHR23A, UV excision repair protein RAD23 homolog A	2e-05
2kd0_A	85	LRR repeats and ubiquitin-like domain-containing p	8e-05

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

 Score = 60.5 bits (147), Expect = 4e-13
 Identities = 17/83 (20%), Positives = 36/83 (43%), Gaps = 15/83 (18%)

Query: 2   KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
           K + L V  ++T+ ++K  +H  EG     Q  FF+G  L +     +          + 
Sbjct: 34  KDLKLVVRSTDTVFHMKRRLHAAEGVEPGSQRWFFSGRPLTDKMKFEEL--------KIP 85

Query: 61  RESTMQLLFCAIKVLSISVKAPS 83
           ++  +Q+      ++S  V+ P+
Sbjct: 86  KDYVVQV------IVSQPVQNPT 102

>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 Length = 159

 Score = 61.9 bits (150), Expect = 4e-13
 Identities = 25/143 (17%), Positives = 47/143 (32%), Gaps = 17/143 (11%)

Query: 2   KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFF--AGDRLMNGR-LIDY---EDMALA 55
               +++  S ++  LK  + +K G     Q L    +G  L +   L          + 
Sbjct: 13  NEFQVSLSSSMSVSELKAQITQKIGVHAFQQRLAVHPSGVALQDRVPLASQGLGPGSTVL 72

Query: 56  SPNVKRESTMQLLFCAIKVLSISVKA-PSDDILKLKVKIFVKMLTEEIVKLKVKVLLTIR 114
               K +  + +L    K  S + +   +  +  LK ++               V   + 
Sbjct: 73  LVVDKSDEPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLE----------GVQDDLF 122

Query: 115 DLFCTGMKLKDCKTLACYGVKDD 137
            L   G  L+D   L  YG+K  
Sbjct: 123 WLTFEGKPLEDQLPLGEYGLKPL 145

>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 Length = 159

 Score = 45.7 bits (108), Expect = 5e-07
 Identities = 18/68 (26%), Positives = 31/68 (45%), Gaps = 9/68 (13%)

Query: 1   MKTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNV 59
            ++ T  V  ++T+ +LK  V   EG  +D+  L F G  L +   L +Y         +
Sbjct: 91  GRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEY--------GL 142

Query: 60  KRESTMQL 67
           K  ST+ +
Sbjct: 143 KPLSTVFM 150

>3u30_A Ubiquitin, linear DI-ubiquitin; immune system; 2.43A {Homo sapiens} Length = 172

 Score = 62.0 bits (150), Expect = 5e-13
 Identities = 44/140 (31%), Positives = 72/140 (51%), Gaps = 14/140 (10%)

Query: 2   KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDY--EDMALASPN 58
           KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY  +  +     
Sbjct: 31  KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 90

Query: 59  VKRESTMQLLFCAIKVLSISVKA-PSDDILKLKVKIFVKMLTEEIVKLKVKVLLTIRDLF 117
           ++    MQ+    +   +I+++  PSD I  +K KI  K            +    + L 
Sbjct: 91  LRLRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKE----------GIPPDQQRLI 140

Query: 118 CTGMKLKDCKTLACYGVKDD 137
             G +L+D +TL+ Y ++ +
Sbjct: 141 FAGKQLEDGRTLSDYNIQKE 160

>3u30_A Ubiquitin, linear DI-ubiquitin; immune system; 2.43A {Homo sapiens} Length = 172

 Score = 44.7 bits (105), Expect = 1e-06
 Identities = 31/69 (44%), Positives = 44/69 (63%), Gaps = 9/69 (13%)

Query: 1   MKTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNV 59
            KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N+
Sbjct: 106 GKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NI 157

Query: 60  KRESTMQLL 68
           ++EST+ L+
Sbjct: 158 QKESTLHLV 166

>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 Length = 152

 Score = 60.8 bits (147), Expect = 9e-13
 Identities = 44/140 (31%), Positives = 72/140 (51%), Gaps = 14/140 (10%)

Query: 2   KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDY--EDMALASPN 58
           KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY  +  +     
Sbjct: 11  KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 70

Query: 59  VKRESTMQLLFCAIKVLSISVKA-PSDDILKLKVKIFVKMLTEEIVKLKVKVLLTIRDLF 117
           ++    MQ+    +   +I+++  PSD I  +K KI  K            +    + L 
Sbjct: 71  LRLRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKE----------GIPPDQQRLI 120

Query: 118 CTGMKLKDCKTLACYGVKDD 137
             G +L+D +TL+ Y ++ +
Sbjct: 121 FAGKQLEDGRTLSDYNIQKE 140

>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 Length = 152

 Score = 43.5 bits (102), Expect = 2e-06
 Identities = 31/69 (44%), Positives = 44/69 (63%), Gaps = 9/69 (13%)

Query: 1   MKTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNV 59
            KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N+
Sbjct: 86  GKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NI 137

Query: 60  KRESTMQLL 68
           ++EST+ L+
Sbjct: 138 QKESTLHLV 146

>2l7r_A Ubiquitin-like protein FUBI; structural genomics, PSI-biology, protein structure initiati northeast structural genomics consortium, NESG; NMR {Homo sapiens} Length = 93

 Score = 57.9 bits (140), Expect = 4e-12
 Identities = 15/67 (22%), Positives = 27/67 (40%), Gaps = 9/67 (13%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          +  T  V   ET+  +K  V   EG + + Q +  AG  L +   L            V+
Sbjct: 28 ELHTFEVTGQETVAQIKAHVASLEGIAPEDQVVLLAGAPLEDEATLGQC--------GVE 79

Query: 61 RESTMQL 67
            +T+++
Sbjct: 80 ALTTLEV 86

>2l7r_A Ubiquitin-like protein FUBI; structural genomics, PSI-biology, protein structure initiati northeast structural genomics consortium, NESG; NMR {Homo sapiens} Length = 93

 Score = 37.4 bits (87), Expect = 2e-04
 Identities = 14/84 (16%), Positives = 29/84 (34%), Gaps = 11/84 (13%)

Query: 54  LASPNVKRESTMQLLFCAIKVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVKVLLTI 113
             S  +    +MQL   A ++ +  V    + + ++K  +               +    
Sbjct: 9   HHSSGLVPRGSMQLFVRAQELHTFEVT-GQETVAQIKAHVASLE----------GIAPED 57

Query: 114 RDLFCTGMKLKDCKTLACYGVKDD 137
           + +   G  L+D  TL   GV+  
Sbjct: 58  QVVLLAGAPLEDEATLGQCGVEAL 81

>3u5c_F RP14, S2, YS8, 40S ribosomal protein S5; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_F 3o30_D 3o2z_D 3u5g_F 3jyv_G* 2noq_F 1s1h_G 3iz6_F Length = 225

 Score = 58.3 bits (141), Expect = 8e-12
 Identities = 4/70 (5%), Positives = 16/70 (22%), Gaps = 9/70 (12%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          +     VE+   +     +  E +    +I+         +  +             +  
Sbjct: 11 QEDFEVVEEFTPVVLATPIPEEVQQAQTEIKLFNKWSFEEVEVKDASLV--------DYV 62

Query: 61 RESTMQLLFC 70
          +      +  
Sbjct: 63 QVRQPIFVAH 72

>3q3f_A Ribonuclease/ubiquitin chimeric protein; domain SWAP, oligomerization, ubiquitin insertion, hydrolase binding; 2.17A {Bacillus amyloliquefaciens} Length = 189

 Score = 58.5 bits (141), Expect = 2e-11
 Identities = 24/136 (17%), Positives = 50/136 (36%), Gaps = 11/136 (8%)

Query: 2   KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKR 61
                     +   N +G +  K G +    D+ +      + R++   D  +       
Sbjct: 45  DVAPGKSIGGDIFSNREGKLPGKSGRTWREADINYTSGFRNSDRILYSSDWLIYKTTDHY 104

Query: 62  ESTMQLLFCAIKVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVKVLLTIRDLFCTGM 121
              + +     K +++ V+ PSD I  +K KI  K            +    + L   G 
Sbjct: 105 GGQIFVKTLTGKTITLEVE-PSDTIENVKAKIQDKE----------GIPPDQQRLIFAGK 153

Query: 122 KLKDCKTLACYGVKDD 137
           +L+D +TL+ Y ++ +
Sbjct: 154 QLEDGRTLSDYNIQKE 169

>3q3f_A Ribonuclease/ubiquitin chimeric protein; domain SWAP, oligomerization, ubiquitin insertion, hydrolase binding; 2.17A {Bacillus amyloliquefaciens} Length = 189

 Score = 53.5 bits (128), Expect = 9e-10
 Identities = 31/70 (44%), Positives = 44/70 (62%), Gaps = 9/70 (12%)

Query: 2   KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
           KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 116 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 167

Query: 61  RESTMQLLFC 70
           +EST+ L+  
Sbjct: 168 KESTLHLVLR 177

>3dbh_I NEDD8; cell cycle, activating enzyme, apoptosis, membrane, UBL conjugation pathway, ATP-binding, ligase, nucleotide- binding, polymorphism; 2.85A {Homo sapiens} SCOP: k.45.1.1 PDB: 3dbr_I 3dbl_I Length = 88

 Score = 55.5 bits (134), Expect = 2e-11
 Identities = 15/67 (22%), Positives = 32/67 (47%), Gaps = 9/67 (13%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          K + +++E ++ ++ +K  V EKEG     Q L ++G ++ + +   DY         + 
Sbjct: 23 KEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADY--------KIL 74

Query: 61 RESTMQL 67
            S + L
Sbjct: 75 GGSVLHL 81

>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 ... Length = 76

 Score = 54.6 bits (132), Expect = 3e-11
 Identities = 32/67 (47%), Positives = 43/67 (64%), Gaps = 9/67 (13%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 11 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 62

Query: 61 RESTMQL 67
          REST+ L
Sbjct: 63 RESTLHL 69

>1wh3_A 59 kDa 2'-5'-oligoadenylate synthetase like protein; P59 OASL, ubiquitin family, structural genomics; NMR {Homo sapiens} SCOP: d.15.1.1 Length = 87

 Score = 54.7 bits (132), Expect = 4e-11
 Identities = 13/67 (19%), Positives = 25/67 (37%), Gaps = 9/67 (13%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
           +    +  +  I  LK  + +++G  +  Q L F G  L +   L  Y         ++
Sbjct: 18 GSYAYAINPNSFILGLKQQIEDQQGLPKKQQQLEFQGQVLQDWLGLGIY--------GIQ 69

Query: 61 RESTMQL 67
             T+ L
Sbjct: 70 DSDTLIL 76

>2dzi_A Ubiquitin-like protein 4A; GDX, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 81

 Score = 54.6 bits (132), Expect = 5e-11
 Identities = 19/67 (28%), Positives = 29/67 (43%), Gaps = 9/67 (13%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          +  +L V + E +  LK +V EK       Q L F G  L +G+ L DY        ++ 
Sbjct: 18 RECSLQVPEDELVSTLKQLVSEKLNVPVRQQRLLFKGKALADGKRLSDY--------SIG 69

Query: 61 RESTMQL 67
            S + L
Sbjct: 70 PNSKLNL 76

>3mtn_B UBA80, ubcep1, ubiquitin variant UBV.21.4; ubiquitin-specific protease activity, hydrolase, ubiquitin B structural genomics consortium, SGC; 2.70A {Homo sapiens} Length = 85

 Score = 53.9 bits (130), Expect = 8e-11
 Identities = 30/67 (44%), Positives = 42/67 (62%), Gaps = 9/67 (13%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 14 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 65

Query: 61 RESTMQL 67
          + ST+ L
Sbjct: 66 KWSTLFL 72

>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 Length = 76

 Score = 53.8 bits (130), Expect = 9e-11
 Identities = 15/67 (22%), Positives = 32/67 (47%), Gaps = 9/67 (13%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          K + +++E ++ ++ +K  V EKEG     Q L ++G ++ + +   DY         + 
Sbjct: 11 KEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADY--------KIL 62

Query: 61 RESTMQL 67
            S + L
Sbjct: 63 GGSVLHL 69

>4fbj_B NEDD8; effector-HOST target complex, glutamine deamidase, deamidati bacterial effector, cell cycle-protein binding complex; 1.60A {Homo sapiens} PDB: 4f8c_B Length = 88

 Score = 53.9 bits (130), Expect = 1e-10
 Identities = 15/67 (22%), Positives = 32/67 (47%), Gaps = 9/67 (13%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          K + +++E ++ ++ +K  V EKEG     Q L ++G ++ + +   DY         + 
Sbjct: 11 KEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADY--------KIL 62

Query: 61 RESTMQL 67
            S + L
Sbjct: 63 GGSVLHL 69

>3b1l_X E3 ubiquitin-protein ligase parkin; proteasome, ALFA-beta-protein; 1.85A {Mus musculus} PDB: 1mg8_A 2zeq_A 2knb_A 1iyf_A Length = 76

 Score = 53.5 bits (129), Expect = 1e-10
 Identities = 13/67 (19%), Positives = 30/67 (44%), Gaps = 9/67 (13%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
              + V+   +I  LK +V +++G   D   + FAG  L N   + +         +++
Sbjct: 11 YGFPVEVDSDTSILQLKEVVAKQQGVPADQLRVIFAGKELPNHLTVQNC--------DLE 62

Query: 61 RESTMQL 67
          ++S + +
Sbjct: 63 QQSIVHI 69

>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 Length = 89

 Score = 53.6 bits (129), Expect = 1e-10
 Identities = 21/68 (30%), Positives = 31/68 (45%), Gaps = 10/68 (14%)

Query: 2  KTVTL-NVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNV 59
          KT T+ +V +  TI+ L+  V        + Q LF+ G +L NG  L DY        +V
Sbjct: 19 KTCTIEDVSRKATIEELRERVWALFDVRPECQRLFYRGKQLENGYTLFDY--------DV 70

Query: 60 KRESTMQL 67
               +QL
Sbjct: 71 GLNDIIQL 78

>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 Length = 96

 Score = 53.6 bits (129), Expect = 2e-10
 Identities = 31/67 (46%), Positives = 43/67 (64%), Gaps = 9/67 (13%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 12 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 63

Query: 61 RESTMQL 67
          +EST+ L
Sbjct: 64 KESTLHL 70

>1sif_A Ubiquitin; hydrophobic mutants, folding, stability, structural protein; 2.18A {Homo sapiens} SCOP: d.15.1.1 Length = 88

 Score = 53.1 bits (128), Expect = 2e-10
 Identities = 30/67 (44%), Positives = 42/67 (62%), Gaps = 9/67 (13%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT T+ +E S+TI+NLK  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 20 KTFTVEMEPSDTIENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 71

Query: 61 RESTMQL 67
          +EST+ L
Sbjct: 72 KESTLHL 78

>3l0w_B Monoubiquitinated proliferating cell nuclear antigen, proliferating cell nuclear antigen; replication, DNA damage, DNA repair; 2.80A {Saccharomyces cerevisiae} PDB: 3l10_B Length = 169

 Score = 55.0 bits (132), Expect = 2e-10
 Identities = 40/126 (31%), Positives = 61/126 (48%), Gaps = 10/126 (7%)

Query: 2   KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
           KT+TL VE S+TI N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 11  KTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 62

Query: 61  RESTMQLLFCAIKVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVKVLLTIR-DLFCT 119
           +EST+ L+         ++K  +D  +     I    +  E  +  +K+ +    DL   
Sbjct: 63  KESTLHLVLRLRGGGGETIKFVADGDIGSGSVIIKPFVDMEHPETSIKLEMDQPVDLTFG 122

Query: 120 GMKLKD 125
              L D
Sbjct: 123 AKYLLD 128

>2kdi_A Ubiquitin, vacuolar protein sorting-associated protein 27 fusion protein; ubiquitin interacting motif, UIM, protein domain interface; NMR {Saccharomyces cerevisiae} Length = 114

 Score = 53.7 bits (129), Expect = 2e-10
 Identities = 31/67 (46%), Positives = 42/67 (62%), Gaps = 9/67 (13%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI N+K  + +KEG   D Q L +AG +L +GR L DY        N++
Sbjct: 20 KTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIWAGKQLEDGRTLSDY--------NIQ 71

Query: 61 RESTMQL 67
          REST+ L
Sbjct: 72 RESTLHL 78

>3n3k_B Ubiquitin; hydrolase, protease, thiol protease, DUB, zinc ribbon, inhibitor, ubiqu acetylation, cytoplasm, isopeptide bond, nucleus; 2.60A {Homo sapiens} Length = 85

 Score = 52.7 bits (127), Expect = 2e-10
 Identities = 27/67 (40%), Positives = 38/67 (56%), Gaps = 9/67 (13%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          +T+ L VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N+ 
Sbjct: 14 RTIILEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIH 65

Query: 61 RESTMQL 67
            S + L
Sbjct: 66 NHSALYL 72

>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 Length = 115

 Score = 52.9 bits (127), Expect = 4e-10
 Identities = 11/67 (16%), Positives = 25/67 (37%), Gaps = 9/67 (13%)

Query: 2   KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
           + +   +  ++ +  +K  +HE  G     Q L + G  + +   L  Y        N+ 
Sbjct: 46  QGLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDSNSLAYY--------NMA 97

Query: 61  RESTMQL 67
             + + L
Sbjct: 98  SGAVIHL 104

>1yx5_B Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo sapiens} SCOP: d.15.1.1 PDB: 1yx6_B Length = 98

 Score = 52.5 bits (126), Expect = 4e-10
 Identities = 31/67 (46%), Positives = 43/67 (64%), Gaps = 9/67 (13%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 11 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 62

Query: 61 RESTMQL 67
          +EST+ L
Sbjct: 63 KESTLHL 69

>2ojr_A Ubiquitin; lanthide-binding TAG, terbium, TB, SAD phasing, protein binding; 2.60A {Homo sapiens} Length = 111

 Score = 52.6 bits (126), Expect = 5e-10
 Identities = 31/67 (46%), Positives = 43/67 (64%), Gaps = 9/67 (13%)

Query: 2   KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
           KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 46  KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 97

Query: 61  RESTMQL 67
           +EST+ L
Sbjct: 98  KESTLHL 104

>2hj8_A Interferon-induced 17 kDa protein; HR2873B, human ISG15, structure, northeast structural genomics consortium, protein structure initiative, NESG; NMR {Homo sapiens} Length = 88

 Score = 50.5 bits (121), Expect = 2e-09
 Identities = 18/67 (26%), Positives = 31/67 (46%), Gaps = 9/67 (13%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          ++ T  V  ++T+ +LK  V   EG  +D+  L F G  L +   L +Y         +K
Sbjct: 15 RSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEY--------GLK 66

Query: 61 RESTMQL 67
            ST+ +
Sbjct: 67 PLSTVFM 73

>3phx_B Ubiquitin-like protein ISG15; OTU domain, DE-ubiquitinase, DE-isgylase, hydrolase-protein complex; 1.60A {Homo sapiens} Length = 79

 Score = 49.3 bits (118), Expect = 5e-09
 Identities = 18/67 (26%), Positives = 31/67 (46%), Gaps = 9/67 (13%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          ++ T  V  ++T+ +LK  V   EG  +D+  L F G  L +   L +Y         +K
Sbjct: 15 RSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEY--------GLK 66

Query: 61 RESTMQL 67
            ST+ +
Sbjct: 67 PLSTVFM 73

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

 Score = 51.3 bits (122), Expect = 6e-09
 Identities = 10/46 (21%), Positives = 20/46 (43%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLI 47
          +T    +E+  ++ +LK  + +  G   D+  L   G    N  L+
Sbjct: 11 ETKIYTLEQGTSVLDLKSQISQDMGFEIDMMTLVNNGFIAPNTELV 56

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

 Score = 49.2 bits (118), Expect = 7e-09
 Identities = 11/49 (22%), Positives = 19/49 (38%), Gaps = 1/49 (2%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDY 49
          +T T  V     +K  K  +        + Q L + G  L + + L +Y
Sbjct: 16 QTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEY 64

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

 Score = 48.8 bits (117), Expect = 9e-09
 Identities = 11/49 (22%), Positives = 19/49 (38%), Gaps = 1/49 (2%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDY 49
          +T T  V     +K  K  +        + Q L + G  L + + L +Y
Sbjct: 28 QTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEY 76

>2kk8_A Uncharacterized protein AT4G05270; solution arabidopsis thaliana, uncharacterized putative protein, NESG, structural genomics; NMR {Arabidopsis thaliana} Length = 84

 Score = 48.0 bits (115), Expect = 1e-08
 Identities = 12/66 (18%), Positives = 25/66 (37%), Gaps = 6/66 (9%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKR 61
           +  L V+  +T+  +K  +   +      Q L   G  ++       ED+ +    +  
Sbjct: 21 SSFELEVDYRDTLLVVKQKIERSQHIPVSKQTLIVDGIVILR------EDLTVEQCQIVP 74

Query: 62 ESTMQL 67
           S +QL
Sbjct: 75 TSDIQL 80

>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 Length = 78

 Score = 47.3 bits (113), Expect = 2e-08
 Identities = 14/66 (21%), Positives = 28/66 (42%), Gaps = 9/66 (13%)

Query: 3  TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVKR 61
              ++ +   ++ L+  + E       +Q LF+ G ++ +G  L DY         V+ 
Sbjct: 16 HTVDSLSRLTKVEELRRKIQELFHVEPGLQRLFYRGKQMEDGHTLFDY--------EVRL 67

Query: 62 ESTMQL 67
            T+QL
Sbjct: 68 NDTIQL 73

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

 Score = 46.9 bits (112), Expect = 6e-08
 Identities = 11/67 (16%), Positives = 26/67 (38%), Gaps = 9/67 (13%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
              +NV    T+   K  +++  G     Q L ++G  L + + +  Y        +++
Sbjct: 38 DKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESY--------HIQ 89

Query: 61 RESTMQL 67
             ++ L
Sbjct: 90 DGHSVHL 96

>3u5e_m 60S ribosomal protein L40; translation, ribosome, ribosomal R ribosomal protein, STM1, eukaryotic ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 3u5i_m 4a18_K 4a19_K 4a1b_K 4a1d_K 4adx_5 3izc_p 3izs_p 3iz5_p 3izr_p Length = 128

 Score = 47.4 bits (112), Expect = 6e-08
 Identities = 29/69 (42%), Positives = 42/69 (60%), Gaps = 7/69 (10%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKR 61
          KT+TL VE S+TI N+K  + +KEG   D Q L FAG +L +GR        L+  N+++
Sbjct: 11 KTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRT-------LSDYNIQK 63

Query: 62 ESTMQLLFC 70
          EST+ L+  
Sbjct: 64 ESTLHLVLR 72

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

 Score = 45.7 bits (109), Expect = 1e-07
 Identities = 11/67 (16%), Positives = 26/67 (38%), Gaps = 9/67 (13%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
              +NV    T+   K  +++  G     Q L ++G  L + + +  Y        +++
Sbjct: 14 DKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESY--------HIQ 65

Query: 61 RESTMQL 67
             ++ L
Sbjct: 66 DGHSVHL 72

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

 Score = 45.8 bits (109), Expect = 2e-07
 Identities = 15/64 (23%), Positives = 24/64 (37%), Gaps = 9/64 (14%)

Query: 5  TLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVKRES 63
            +V  + TI+ LK  + ++     D   L FAG  L +   L            V+   
Sbjct: 30 DFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQC--------GVRDGL 81

Query: 64 TMQL 67
          T+ L
Sbjct: 82 TVHL 85

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

 Score = 45.4 bits (108), Expect = 2e-07
 Identities = 11/66 (16%), Positives = 24/66 (36%), Gaps = 9/66 (13%)

Query: 3  TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVKR 61
               V ++ +++  K  + ++  +  D   L FAG  L +   L  +         +  
Sbjct: 36 KEEFAVPENSSVQQFKEEISKRFKSHTDQLVLIFAGKILKDQDTLSQH--------GIHD 87

Query: 62 ESTMQL 67
            T+ L
Sbjct: 88 GLTVHL 93

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

 Score = 44.7 bits (106), Expect = 3e-07
 Identities = 15/67 (22%), Positives = 30/67 (44%), Gaps = 6/67 (8%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKR 61
          K  T+ V+++ET+ +LK  +H  E T      L+++G  L +      +   L    +  
Sbjct: 25 KQFTVEVDRTETVSSLKDKIHIVENTPIKRMQLYYSGIELAD------DYRNLNEYGITE 78

Query: 62 ESTMQLL 68
           S + + 
Sbjct: 79 FSEIVVF 85

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

 Score = 44.7 bits (106), Expect = 4e-07
 Identities = 9/64 (14%), Positives = 21/64 (32%), Gaps = 9/64 (14%)

Query: 5  TLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVKRES 63
             + ++  ++  K  + +    + D   L F G  L +   L            +   S
Sbjct: 30 EFFLAENSNVRRFKKQISKYLHCNADRLVLIFTGKILRDQDILSQR--------GILDGS 81

Query: 64 TMQL 67
          T+ +
Sbjct: 82 TVHV 85

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

 Score = 44.4 bits (105), Expect = 8e-07
 Identities = 12/65 (18%), Positives = 25/65 (38%), Gaps = 9/65 (13%)

Query: 4   VTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVKRE 62
               V ++ +++  K  + ++  +  D   L FAG  L +   LI +         +   
Sbjct: 44  EEFAVPENSSVQQFKEAISKRFKSQTDQLVLIFAGKILKDQDTLIQH--------GIHDG 95

Query: 63  STMQL 67
            T+ L
Sbjct: 96  LTVHL 100

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

 Score = 43.9 bits (104), Expect = 9e-07
 Identities = 15/64 (23%), Positives = 24/64 (37%), Gaps = 9/64 (14%)

Query: 5  TLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVKRES 63
            +V  + TI+ LK  + ++     D   L FAG  L +   L            V+   
Sbjct: 35 DFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQC--------GVRDGL 86

Query: 64 TMQL 67
          T+ L
Sbjct: 87 TVHL 90

>3ai5_A Yeast enhanced green fluorescent protein, ubiquit; ubiquitin, fusion protein, fluore protein, transcription; HET: CR2; 1.40A {Aequorea victoria} PDB: 3ako_B* Length = 307

 Score = 44.4 bits (104), Expect = 3e-06
 Identities = 31/68 (45%), Positives = 43/68 (63%), Gaps = 9/68 (13%)

Query: 1   MKTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNV 59
            KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N+
Sbjct: 243 GKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NI 294

Query: 60  KRESTMQL 67
           ++EST+ L
Sbjct: 295 QKESTLHL 302

>1we6_A Splicing factor, putative; structural genomics, ubiquitin-like domain, riken structural genomics/proteomics initiative, RSGI; NMR {Arabidopsis thaliana} SCOP: d.15.1.1 Length = 111

 Score = 42.1 bits (99), Expect = 4e-06
 Identities = 13/68 (19%), Positives = 24/68 (35%), Gaps = 10/68 (14%)

Query: 2   KTVTLNVE-KSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNV 59
           + + + V+  SE + +LK  +  +     + Q L      L +   L  Y        NV
Sbjct: 41  QFMEITVQSLSENVGSLKEKIAGEIQIPANKQKLSGKAGFLKDNMSLAHY--------NV 92

Query: 60  KRESTMQL 67
                + L
Sbjct: 93  GAGEILTL 100

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

 Score = 41.6 bits (98), Expect = 6e-06
 Identities = 14/82 (17%), Positives = 28/82 (34%), Gaps = 7/82 (8%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKR 61
          + V L++E S TI   K  + +     E    L ++G  L + +        ++   +K 
Sbjct: 12 EKVPLDLEPSNTILETKTKLAQSISCEESQIKLIYSGKVLQDSK-------TVSECGLKD 64

Query: 62 ESTMQLLFCAIKVLSISVKAPS 83
             +  +    K     V    
Sbjct: 65 GDQVVFMVSQKKSTKTKVTERD 86

>1uel_A HHR23B, UV excision repair protein RAD23 homolog B; UBL, UIM, riken structural genomics/proteomics initiative, RSGI, structural genomics; NMR {Homo sapiens} SCOP: d.15.1.1 Length = 95

 Score = 41.1 bits (97), Expect = 8e-06
 Identities = 14/70 (20%), Positives = 31/70 (44%), Gaps = 12/70 (17%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSE---DIQDLFFAGDRLMNGR-LIDYEDMALASP 57
          +T  ++++  ET+K LK  +  ++G        Q L +AG  L +   L +Y        
Sbjct: 11 QTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALKEY-------- 62

Query: 58 NVKRESTMQL 67
           +  ++ + +
Sbjct: 63 KIDEKNFVVV 72

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

 Score = 43.1 bits (100), Expect = 1e-05
 Identities = 15/52 (28%), Positives = 25/52 (48%), Gaps = 4/52 (7%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSE---DIQDLFFAGDRLMNGR-LIDY 49
          +T  + +E  ET+K LK  +  ++G        Q L +AG  L +   + DY
Sbjct: 18 QTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIRDY 69

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

 Score = 37.7 bits (86), Expect = 7e-04
 Identities = 14/87 (16%), Positives = 29/87 (33%), Gaps = 10/87 (11%)

Query: 61  RESTMQLLFCAI--KVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVKVLLTIRDLFC 118
             S + +    +  +   I ++ P + +  LK KI  +   +       K       L  
Sbjct: 4   GSSAVTITLKTLQQQTFKIRME-PDETVKVLKEKIEAEKGRDAFPVAGQK-------LIY 55

Query: 119 TGMKLKDCKTLACYGVKDDRGVACFIS 145
            G  L D   +  Y + +   V   ++
Sbjct: 56  AGKILSDDVPIRDYRIDEKNFVVVMVT 82

>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 Length = 102

 Score = 41.1 bits (96), Expect = 1e-05
 Identities = 11/67 (16%), Positives = 25/67 (37%), Gaps = 6/67 (8%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKR 61
           T +L V     + N + +   + G   +   + +        +L+  +  +L S  +K 
Sbjct: 22 VTFSLQVNPDFELSNFRVLCELESGVPAEEAQIVY------MEQLLTDDHCSLGSYGLKD 75

Query: 62 ESTMQLL 68
             + LL
Sbjct: 76 GDMVVLL 82

>2wyq_A HHR23A, UV excision repair protein RAD23 homolog A; DNA binding protein, DNA excision repair, proteasomal degrad polyubiquitin; 1.65A {Homo sapiens} PDB: 1p98_A 1p9d_U 1p1a_A Length = 85

 Score = 39.5 bits (93), Expect = 2e-05
 Identities = 15/71 (21%), Positives = 31/71 (43%), Gaps = 12/71 (16%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSE---DIQDLFFAGDRLMNGR-LIDYEDMALASP 57
          +T  + +E  ET+K LK  +  ++G        Q L +AG  L +   + DY        
Sbjct: 16 QTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIRDY-------- 67

Query: 58 NVKRESTMQLL 68
           +  ++ + ++
Sbjct: 68 RIDEKNFVVVM 78

>2kd0_A LRR repeats and ubiquitin-like domain-containing protein AT2G30105; ubiquitin-like protein, NESG, leucine-rich repeat, structural genomics; NMR {Arabidopsis thaliana} Length = 85

 Score = 38.4 bits (90), Expect = 8e-05
 Identities = 15/67 (22%), Positives = 26/67 (38%), Gaps = 7/67 (10%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKR 61
          K++ L+V    T+K+LK  +          Q L F G  L+           L   +V  
Sbjct: 22 KSIPLSVSPDCTVKDLKSQLQPITNVLPRGQKLIFKGKVLVE-------TSTLKQSDVGS 74

Query: 62 ESTMQLL 68
           + + L+
Sbjct: 75 GAKLMLM 81

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	148
3u30_A	172	Ubiquitin, linear DI-ubiquitin; immune system; 2.4	99.97
3rt3_B	159	Ubiquitin-like protein ISG15; ubiquitin-like domai	99.97
3b08_A	152	Polyubiquitin-C, ubiquitin; protein complex, signa	99.96
2kdi_A	114	Ubiquitin, vacuolar protein sorting-associated pro	99.77
3plu_A	93	Ubiquitin-like modifier HUB1; ubiquitin-like, HUB-	99.74
3phx_B	79	Ubiquitin-like protein ISG15; OTU domain, DE-ubiqu	99.74
4fbj_B	88	NEDD8; effector-HOST target complex, glutamine dea	99.73
1yx5_B	98	Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo s	99.73
3dbh_I	88	NEDD8; cell cycle, activating enzyme, apoptosis, m	99.7
4ajy_B	118	Transcription elongation factor B polypeptide 2; E	99.7
1ndd_A	76	NEDD8, protein (ubiquitin-like protein NEDD8); pro	99.7
2kk8_A	84	Uncharacterized protein AT4G05270; solution arabid	99.69
1wju_A	100	NEDD8 ultimate buster-1; ubiquitin-like domain, st	99.69
3n3k_B	85	Ubiquitin; hydrolase, protease, thiol protease, DU	99.69
4hcn_B	98	Polyubiquitin, ubiquitin; ubiquitin/NEDD8 deamidas	99.68
1sif_A	88	Ubiquitin; hydrophobic mutants, folding, stability	99.68
2uyz_B	79	Small ubiquitin-related modifier 1; sumoylation, c	99.68
2fnj_B	118	Transcription elongation factor B polypeptide 2; b	99.68
2kan_A	94	Uncharacterized protein AR3433A; ubiquitin fold, a	99.68
3a9j_A	76	Ubiquitin; protein complex, cytoplasm, isopeptide	99.67
4eew_A	88	Large proline-rich protein BAG6; ubiquitin-like fo	99.67
2l7r_A	93	Ubiquitin-like protein FUBI; structural genomics,	99.67
3mtn_B	85	UBA80, ubcep1, ubiquitin variant UBV.21.4; ubiquit	99.67
3k9o_B	96	Ubiquitin, UBB+1; E2-25K, complex structure, ATP-b	99.67
3v6c_B	91	Ubiquitin; structural genomics, structural genomic	99.67
1uh6_A	100	Ubiquitin-like 5; beta-grAsp fold, structural geno	99.67
2faz_A	78	Ubiquitin-like containing PHD and ring finger DOM	99.67
1wh3_A	87	59 kDa 2'-5'-oligoadenylate synthetase like protei	99.67
2hj8_A	88	Interferon-induced 17 kDa protein; HR2873B, human	99.66
3m62_B	106	UV excision repair protein RAD23; armadillo-like r	99.66
3vdz_A	111	Ubiquitin-40S ribosomal protein S27A; gadolinium,	99.66
4dwf_A	90	HLA-B-associated transcript 3; ubiquitin-like doma	99.66
3q3f_A	189	Ribonuclease/ubiquitin chimeric protein; domain SW	99.66
2bwf_A	77	Ubiquitin-like protein DSK2; signaling protein, UB	99.66
1wyw_B	97	Ubiquitin-like protein SMT3C; hydrolase; 2.10A {Ho	99.66
1wy8_A	89	NP95-like ring finger protein, isoform A; ubiquiti	99.65
2wyq_A	85	HHR23A, UV excision repair protein RAD23 homolog A	99.65
4dbg_A	105	Ranbp-type and C3HC4-type zinc finger-containing;	99.65
2dzi_A	81	Ubiquitin-like protein 4A; GDX, structural genomic	99.65
2lxa_A	87	Ubiquitin-like protein MDY2; ubiquitin-like domain	99.64
3l0w_B	169	Monoubiquitinated proliferating cell nuclear antig	99.64
4a20_A	98	Ubiquitin-like protein MDY2; protein binding, GET-	99.64
2kd0_A	85	LRR repeats and ubiquitin-like domain-containing p	99.64
3rt3_B	159	Ubiquitin-like protein ISG15; ubiquitin-like domai	99.64
4b6w_A	86	Tubulin-specific chaperone; CAP-Gly, ubiquitin-lik	99.64
1we7_A	115	SF3A1 protein; structural genomics, ubiquitin-like	99.63
1wgd_A	93	Homocysteine-responsive endoplasmic reticulum- res	99.63
1we6_A	111	Splicing factor, putative; structural genomics, ub	99.63
2ojr_A	111	Ubiquitin; lanthide-binding TAG, terbium, TB, SAD	99.62
1uel_A	95	HHR23B, UV excision repair protein RAD23 homolog B	99.61
3b1l_X	76	E3 ubiquitin-protein ligase parkin; proteasome, AL	99.4
3u30_A	172	Ubiquitin, linear DI-ubiquitin; immune system; 2.4	99.61
1wx8_A	96	Riken cDNA 4931431F19; ubiquitin-like domain, ubiq	99.6
2klc_A	101	Ubiquilin-1; ubiquitin-like, structural genomics,	99.6
1v5o_A	102	1700011N24RIK protein; hypothetical protein, ubiqu	99.6
2kjr_A	95	CG11242; UBL, ubiquitin, ubiquitin-like, structura	99.6
3m63_B	101	Ubiquitin domain-containing protein DSK2; armadill	99.6
1j8c_A	125	Ubiquitin-like protein hplic-2; ubiquitin-like dom	99.59
1ttn_A	106	DC-UBP, dendritic cell-derived ubiquitin-like prot	99.59
1yqb_A	100	Ubiquilin 3; structural genomics consortium, ubiqu	99.59
2kj6_A	97	Tubulin folding cofactor B; methods development, N	99.58
1wgh_A	116	Ubiquitin-like 3, HCG-1 protein; ubiquitin-like fo	99.57
1se9_A	126	Ubiquitin family; ubiquitin-like, cell-free, wheat	99.56
3u5e_m	128	60S ribosomal protein L40; translation, ribosome,	99.56
1v5t_A	90	8430435I17RIK protein; hypothetical protein, ubiqu	99.55
3b08_A	152	Polyubiquitin-C, ubiquitin; protein complex, signa	99.55
2daf_A	118	FLJ35834 protein; hypothetical protein FLJ35834, u	99.55
2kdb_A	99	Homocysteine-responsive endoplasmic reticulum- res	99.55
1wx7_A	106	Ubiquilin 3; ubiquitin-like domain, structural gen	99.55
3u5c_f	152	40S ribosomal protein S31; translation, ribosome,	99.54
2dzm_A	100	FAS-associated factor 1; ubiquitin-like domain, HF	99.53
2gow_A	125	HCG-1 protein, ubiquitin-like protein 3; BC059385,	99.53
1wxv_A	92	BAG-family molecular chaperone regulator-1; struct	99.52
1v6e_A	95	Cytoskeleton-associated protein 1; tubulin-specifi	99.52
1wgg_A	96	Ubiquitin carboxyl-terminal hydrolase 14; ubiquiti	99.51
1v86_A	95	DNA segment, CHR 7, wayne state university 128, ex	99.51
1v2y_A	105	3300001G02RIK protein; hypothetical protein, ubiqu	99.51
1wia_A	95	Hypothetical ubiquitin-like protein (riken cDNA 20	99.49
1x1m_A	107	Ubiquitin-like protein SB132; structural genomics,	99.48
1t0y_A	122	Tubulin folding cofactor B; ubiquitin-like, cytosk	99.47
2dzj_A	88	Synaptic glycoprotein SC2; ubiquitin-like fold, st	99.43
3ai5_A	307	Yeast enhanced green fluorescent protein, ubiquit;	99.4
4eew_A	88	Large proline-rich protein BAG6; ubiquitin-like fo	99.38
2xzm_9	189	RPS31E; ribosome, translation; 3.93A {Tetrahymena	99.38
3shq_A	320	UBLCP1; phosphatase, hydrolase; 1.96A {Drosophila	99.36
1wf9_A	107	NPL4 family protein; beta-grAsp fold like domain,	99.32
3plu_A	93	Ubiquitin-like modifier HUB1; ubiquitin-like, HUB-	99.3
3phx_B	79	Ubiquitin-like protein ISG15; OTU domain, DE-ubiqu	99.3
1oqy_A	368	HHR23A, UV excision repair protein RAD23 homolog A	99.3
3v6c_B	91	Ubiquitin; structural genomics, structural genomic	99.28
2io1_B	94	Small ubiquitin-related modifier 3 precursor; SUMO	99.26
2faz_A	78	Ubiquitin-like containing PHD and ring finger DOM	99.26
4fbj_B	88	NEDD8; effector-HOST target complex, glutamine dea	99.22
1uh6_A	100	Ubiquitin-like 5; beta-grAsp fold, structural geno	99.22
2kk8_A	84	Uncharacterized protein AT4G05270; solution arabid	99.22
2uyz_B	79	Small ubiquitin-related modifier 1; sumoylation, c	99.2
3k9o_B	96	Ubiquitin, UBB+1; E2-25K, complex structure, ATP-b	99.2
1wyw_B	97	Ubiquitin-like protein SMT3C; hydrolase; 2.10A {Ho	99.19
3m62_B	106	UV excision repair protein RAD23; armadillo-like r	99.19
1sif_A	88	Ubiquitin; hydrophobic mutants, folding, stability	99.19
4dwf_A	90	HLA-B-associated transcript 3; ubiquitin-like doma	99.18
3dbh_I	88	NEDD8; cell cycle, activating enzyme, apoptosis, m	99.17
4a20_A	98	Ubiquitin-like protein MDY2; protein binding, GET-	99.17
1wjn_A	97	Tubulin-folding protein TBCE; ubiquitin-like domai	99.17
1ndd_A	76	NEDD8, protein (ubiquitin-like protein NEDD8); pro	99.16
2lxa_A	87	Ubiquitin-like protein MDY2; ubiquitin-like domain	99.16
4hcn_B	98	Polyubiquitin, ubiquitin; ubiquitin/NEDD8 deamidas	99.16
2kzr_A	86	Ubiquitin thioesterase OTU1; structural genomics,	99.15
3m63_B	101	Ubiquitin domain-containing protein DSK2; armadill	99.15
2io0_B	91	Small ubiquitin-related modifier 2 precursor; SUMO	99.14
2hj8_A	88	Interferon-induced 17 kDa protein; HR2873B, human	99.13
2d07_B	93	Ubiquitin-like protein SMT3B; hydrolase; 2.10A {Ho	99.12
3n3k_B	85	Ubiquitin; hydrolase, protease, thiol protease, DU	99.12
3a9j_A	76	Ubiquitin; protein complex, cytoplasm, isopeptide	99.11
1wm3_A	72	Ubiquitin-like protein SMT3B; ubiquitin fold, half	99.11
2wyq_A	85	HHR23A, UV excision repair protein RAD23 homolog A	99.11
1wh3_A	87	59 kDa 2'-5'-oligoadenylate synthetase like protei	99.1
2dzi_A	81	Ubiquitin-like protein 4A; GDX, structural genomic	99.09
3b1l_X	76	E3 ubiquitin-protein ligase parkin; proteasome, AL	98.68
2l7r_A	93	Ubiquitin-like protein FUBI; structural genomics,	99.09
1v2y_A	105	3300001G02RIK protein; hypothetical protein, ubiqu	99.09
2bwf_A	77	Ubiquitin-like protein DSK2; signaling protein, UB	99.08
3mtn_B	85	UBA80, ubcep1, ubiquitin variant UBV.21.4; ubiquit	99.08
1ttn_A	106	DC-UBP, dendritic cell-derived ubiquitin-like prot	99.08
1wy8_A	89	NP95-like ring finger protein, isoform A; ubiquiti	99.07
2kan_A	94	Uncharacterized protein AR3433A; ubiquitin fold, a	99.07
2fnj_B	118	Transcription elongation factor B polypeptide 2; b	99.06
1yx5_B	98	Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo s	99.05
1wia_A	95	Hypothetical ubiquitin-like protein (riken cDNA 20	99.05
3vdz_A	111	Ubiquitin-40S ribosomal protein S27A; gadolinium,	99.04
1uel_A	95	HHR23B, UV excision repair protein RAD23 homolog B	99.04
3l0w_B	169	Monoubiquitinated proliferating cell nuclear antig	99.03
4ajy_B	118	Transcription elongation factor B polypeptide 2; E	99.03
1wgh_A	116	Ubiquitin-like 3, HCG-1 protein; ubiquitin-like fo	99.03
2kdb_A	99	Homocysteine-responsive endoplasmic reticulum- res	99.02
2eke_C	106	Ubiquitin-like protein SMT3; UBC9, SUMO binding mo	99.02
2kdi_A	114	Ubiquitin, vacuolar protein sorting-associated pro	99.01
1wz0_A	104	Ubiquitin-like protein SMT3B; SUMO-2, ubiquitin-li	99.01
1se9_A	126	Ubiquitin family; ubiquitin-like, cell-free, wheat	99.0
3a4r_A	79	Nfatc2-interacting protein; ubiquitin fold, coiled	99.0
1wx7_A	106	Ubiquilin 3; ubiquitin-like domain, structural gen	98.99
1yqb_A	100	Ubiquilin 3; structural genomics consortium, ubiqu	98.98
1wju_A	100	NEDD8 ultimate buster-1; ubiquitin-like domain, st	98.96
1wx8_A	96	Riken cDNA 4931431F19; ubiquitin-like domain, ubiq	98.96
3q3f_A	189	Ribonuclease/ubiquitin chimeric protein; domain SW	98.94
2gow_A	125	HCG-1 protein, ubiquitin-like protein 3; BC059385,	98.94
3u5e_m	128	60S ribosomal protein L40; translation, ribosome,	98.94
2klc_A	101	Ubiquilin-1; ubiquitin-like, structural genomics,	98.94
1j8c_A	125	Ubiquitin-like protein hplic-2; ubiquitin-like dom	98.94
2ojr_A	111	Ubiquitin; lanthide-binding TAG, terbium, TB, SAD	98.93
1wgd_A	93	Homocysteine-responsive endoplasmic reticulum- res	98.92
2k8h_A	110	Small ubiquitin protein; SUMO, post-translational	98.92
2daf_A	118	FLJ35834 protein; hypothetical protein FLJ35834, u	98.89
3u5c_f	152	40S ribosomal protein S31; translation, ribosome,	98.88
1we6_A	111	Splicing factor, putative; structural genomics, ub	98.88
1we7_A	115	SF3A1 protein; structural genomics, ubiquitin-like	98.86
1v5o_A	102	1700011N24RIK protein; hypothetical protein, ubiqu	98.86
4dbg_A	105	Ranbp-type and C3HC4-type zinc finger-containing;	98.84
2kd0_A	85	LRR repeats and ubiquitin-like domain-containing p	98.8
2dzm_A	100	FAS-associated factor 1; ubiquitin-like domain, HF	98.78
1v5t_A	90	8430435I17RIK protein; hypothetical protein, ubiqu	98.75
3ai5_A	307	Yeast enhanced green fluorescent protein, ubiquit;	98.69
4efo_A	94	Serine/threonine-protein kinase TBK1; ubiquitin li	98.69
1wgg_A	96	Ubiquitin carboxyl-terminal hydrolase 14; ubiquiti	98.69
1oqy_A	368	HHR23A, UV excision repair protein RAD23 homolog A	98.62
2io1_B	94	Small ubiquitin-related modifier 3 precursor; SUMO	98.61
1x1m_A	107	Ubiquitin-like protein SB132; structural genomics,	98.6
2dzj_A	88	Synaptic glycoprotein SC2; ubiquitin-like fold, st	98.58
1v86_A	95	DNA segment, CHR 7, wayne state university 128, ex	98.55
3pge_A	200	SUMO-modified proliferating cell nuclear antigen;	98.53
2xzm_9	189	RPS31E; ribosome, translation; 3.93A {Tetrahymena	98.52
3kyd_D	115	Small ubiquitin-related modifier 1; SUMO, thioeste	98.48
4b6w_A	86	Tubulin-specific chaperone; CAP-Gly, ubiquitin-lik	98.48
2kjr_A	95	CG11242; UBL, ubiquitin, ubiquitin-like, structura	98.48
1wxv_A	92	BAG-family molecular chaperone regulator-1; struct	98.47
1wm3_A	72	Ubiquitin-like protein SMT3B; ubiquitin fold, half	98.41
2pjh_A	80	Protein NPL4, nuclear protein localization protein	98.39
2io0_B	91	Small ubiquitin-related modifier 2 precursor; SUMO	98.39
3tix_A	207	Ubiquitin-like protein SMT3, RNA-induced transcri	98.33
2d07_B	93	Ubiquitin-like protein SMT3B; hydrolase; 2.10A {Ho	98.3
2kj6_A	97	Tubulin folding cofactor B; methods development, N	98.29
3a4r_A	79	Nfatc2-interacting protein; ubiquitin fold, coiled	98.24
1wz0_A	104	Ubiquitin-like protein SMT3B; SUMO-2, ubiquitin-li	98.23
2eke_C	106	Ubiquitin-like protein SMT3; UBC9, SUMO binding mo	98.22
1wf9_A	107	NPL4 family protein; beta-grAsp fold like domain,	98.22
2k8h_A	110	Small ubiquitin protein; SUMO, post-translational	98.12
3goe_A	82	DNA repair protein RAD60; SUMO-like domain, sumoyl	98.11
1v6e_A	95	Cytoskeleton-associated protein 1; tubulin-specifi	98.1
3shq_A	320	UBLCP1; phosphatase, hydrolase; 1.96A {Drosophila	98.08
1t0y_A	122	Tubulin folding cofactor B; ubiquitin-like, cytosk	98.05
2kzr_A	86	Ubiquitin thioesterase OTU1; structural genomics,	98.03
3v7o_A	227	Minor nucleoprotein VP30; ssgcid, seattle structur	98.02
3uf8_A	209	Ubiquitin-like protein SMT3, peptidyl-prolyl CIS-	97.62
3kyd_D	115	Small ubiquitin-related modifier 1; SUMO, thioeste	97.58
3ix6_A	360	TS, tsase, thymidylate synthase; niaid, ssgcid, se	97.57
2jxx_A	97	Nfatc2-interacting protein; nuclear factor of acti	97.53
1wjn_A	97	Tubulin-folding protein TBCE; ubiquitin-like domai	97.31
4da1_A	389	Protein phosphatase 1K, mitochondrial; metal-ION-a	97.29
3pge_A	200	SUMO-modified proliferating cell nuclear antigen;	97.15
3tix_A	207	Ubiquitin-like protein SMT3, RNA-induced transcri	96.99
2l76_A	95	Nfatc2-interacting protein; ubiquitin-like domain,	96.9
2bps_A	81	YUKD protein; ubiquitin-like protein, ubiquitin; 2	96.75
2al3_A	90	TUG long isoform; TUG UBL1 insulin, endocytosis/ex	96.63
2kc2_A	128	Talin-1, F1; FERM, adhesion, cell membrane, cell p	96.62
3v7o_A	227	Minor nucleoprotein VP30; ssgcid, seattle structur	96.33
3ivf_A	371	Talin-1; FERM domain, cell membrane, cell projecti	96.11
2bps_A	81	YUKD protein; ubiquitin-like protein, ubiquitin; 2	95.81
2jxx_A	97	Nfatc2-interacting protein; nuclear factor of acti	95.75
3goe_A	82	DNA repair protein RAD60; SUMO-like domain, sumoyl	95.6
2al3_A	90	TUG long isoform; TUG UBL1 insulin, endocytosis/ex	94.93
3jyu_A	231	Ubiquitin carboxyl-terminal hydrolase; domain in u	94.5
3qx1_A	84	FAS-associated factor 1; UBX, protein binding, P97	94.27
4e71_A	111	Plexin-B2, MM1; transmembrane, signaling, RBD, str	94.16
2l76_A	95	Nfatc2-interacting protein; ubiquitin-like domain,	94.12
3ix6_A	360	TS, tsase, thymidylate synthase; niaid, ssgcid, se	94.03
2juo_A	89	GA-binding protein alpha chain; OST, ubiquitin, tr	93.68
3h6n_A	127	Plexin-D1; structural genomics consortium, SGC, me	93.66
4a3p_A	217	Ubiquitin carboxyl-terminal hydrolase 15; 1.40A {H	93.65
2kvr_A	130	Ubiquitin carboxyl-terminal hydrolase 7; USP7, ubi	93.45
2pjh_A	80	Protein NPL4, nuclear protein localization protein	92.82
2kc2_A	128	Talin-1, F1; FERM, adhesion, cell membrane, cell p	92.31
1oey_A	83	P67-PHOX, neutrophil cytosol factor 2; immune syst	92.05
4e74_A	117	Plexin-A4; RBD, structural genomics, structural ge	91.9
3uf8_A	209	Ubiquitin-like protein SMT3, peptidyl-prolyl CIS-	91.55
4da1_A	389	Protein phosphatase 1K, mitochondrial; metal-ION-a	91.47
3kuz_A	126	Plexin-C1; structural genomics, structural genomic	91.09
2r2o_A	138	Plexin-B1; effector domain, structural genomics, s	90.88
2dzk_A	109	UBX domain-containing protein 2; ubiquitin-like fo	89.96
1wj4_A	124	KIAA0794 protein; UBX domain, beta-grAsp fold, str	88.93
4eut_A	396	Serine/threonine-protein kinase TBK1; ATP binding,	88.39
2ylm_A	530	Ubiquitin carboxyl-terminal hydrolase 7; UBL; 2.70	84.67
3ig3_A	627	Plxna3 protein; plexin intracellular GAP RBD inact	81.75

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

Probab=99.97  E-value=3.4e-30  Score=190.36  Aligned_cols=121  Identities=40%  Similarity=0.642  Sum_probs=115.4

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEeeeeeccccccC
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFCAIKVLSISVKA   81 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~~~~~~~~~~~~   81 (148)
                      ++++++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.       +|++|||+++++++++.+           
T Consensus        31 ~~~~l~v~~~~tV~~lK~~I~~~~gip~~~QrL~~~g~~L~d~~-------tL~~~~i~~~~~l~l~~~-----------   92 (172)
T 3u30_A           31 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGR-------TLSDYNIQKESTLHLVLR-----------   92 (172)
T ss_dssp             EEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTC-------BTGGGTCCTTCEEEEEEC-----------
T ss_pred             CEEEEEECCCCcHHHHHHHHHHHHCcChHHEEEEECCccccccC-------CHhHcCCcccceeeeeec-----------
Confidence            57899999999999999999999999999999999999999999       999999999999999999           


Q ss_pred             Cchhhhhheeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEe
Q 041424           82 PSDDILKLKVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFI  144 (148)
Q Consensus        82 p~~~~~~~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l  144 (148)
                           +++|+.++|+..+|++++++++       +|++|++          |+|+|+.|+|+++|++|+|++|++|||++
T Consensus        93 -----~~gg~~i~Vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gip~~~q~L~~~g~~L~D~~tL~~y~i~~g~tl~l~~  167 (172)
T 3u30_A           93 -----LRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVL  167 (172)
T ss_dssp             -----CCCCEEEEEEESSCCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCCEEETTEECCTTSBSGGGTCCTTCEEEECC
T ss_pred             -----ccccccceeecccCcceeEEecCCCCHHHHHHHHHHHhCCCceeEEEEECCccCCCCCcHHHhCCCCCCEEEEEE
Confidence                 8899999999999999998887       8998886          99999999999999999999999999987


Q ss_pred             e
Q 041424          145 S  145 (148)
Q Consensus       145 ~  145 (148)
                      +
T Consensus       168 r  168 (172)
T 3u30_A          168 R  168 (172)
T ss_dssp             -
T ss_pred             e
Confidence            6

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

Probab=99.97  E-value=4.1e-30  Score=187.36  Aligned_cols=122  Identities=22%  Similarity=0.230  Sum_probs=114.3

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEE-E-cCeecCCCcccccccccccCCCcccccceeEEEeeeeeccccc
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLF-F-AGDRLMNGRLIDYEDMALASPNVKRESTMQLLFCAIKVLSISV   79 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~-~-~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~~~~~~~~~~   79 (148)
                      ++++++|++++||.+||++|++.+|+|+++|+|+ | +|+.|+|+.       +|++|||++|++++++.+.        
T Consensus        13 ~~~~l~v~~~~tV~~lK~~I~~~~gip~~~QrL~~~~~g~~L~d~~-------tL~~y~i~~~~~l~l~~~~--------   77 (159)
T 3rt3_B           13 NEFQVSLSSSMSVSELKAQITQKIGVHAFQQRLAVHPSGVALQDRV-------PLASQGLGPGSTVLLVVDK--------   77 (159)
T ss_dssp             CEEEEECCTTCCHHHHHHHHHHHHCCCGGGEEEEEETTCCBCCTTS-------CGGGGTCCTTCEEEEEECC--------
T ss_pred             CEEEEEeCCCCcHHHHHHHHHHHhCCCHHHEEEEEcCCCCCCCCCC-------CHHHcCCCCCCEEEEEccC--------
Confidence            5789999999999999999999999999999999 9 799999999       9999999999999999981        


Q ss_pred             cCCchhhhhheeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEE
Q 041424           80 KAPSDDILKLKVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVAC  142 (148)
Q Consensus        80 ~~p~~~~~~~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l  142 (148)
                             ++++|+|+|+..+|++++++|+       +|++|++          |+|+|+.|+|+++|++|+|++|++|+|
T Consensus        78 -------~~~~m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~q~L~~~G~~L~d~~tL~~y~i~~g~~l~l  150 (159)
T 3rt3_B           78 -------SDEPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFM  150 (159)
T ss_dssp             -------CCCCEEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEE
T ss_pred             -------CCCcEEEEEECCCCCEEEEEeCCCCCHHHHHHHHHHHHCCCHHHEEEEECCeecCCCCCHHHcCCCCCCEEEE
Confidence                   2577999999999999998887       8998875          999999999999999999999999999


Q ss_pred             Eee
Q 041424          143 FIS  145 (148)
Q Consensus       143 ~l~  145 (148)
                      +++
T Consensus       151 ~~r  153 (159)
T 3rt3_B          151 NLR  153 (159)
T ss_dssp             EEC
T ss_pred             EEe
Confidence            986

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

Probab=99.96  E-value=2.9e-28  Score=175.33  Aligned_cols=121  Identities=40%  Similarity=0.642  Sum_probs=114.3

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEeeeeeccccccC
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFCAIKVLSISVKA   81 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~~~~~~~~~~~~   81 (148)
                      +++++++++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.       +|++||++++++++++.+           
T Consensus        11 ~~~~~~v~~~~tv~~lK~~i~~~~gip~~~q~L~~~g~~L~d~~-------tL~~~~i~~~~~l~l~~~-----------   72 (152)
T 3b08_A           11 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGR-------TLSDYNIQKESTLHLVLR-----------   72 (152)
T ss_dssp             CEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTS-------BTGGGTCCTTCEEEEEEC-----------
T ss_pred             CEEEEEECCCCCHHHHHHHHHHHHCcChHHeEEEECCeECcCcc-------cHHHhccCCCCeeEEEee-----------
Confidence            47899999999999999999999999999999999999999999       999999999999999998           


Q ss_pred             Cchhhhhheeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEe
Q 041424           82 PSDDILKLKVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFI  144 (148)
Q Consensus        82 p~~~~~~~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l  144 (148)
                           ..+++.|+|+..+|+.+.++++       +|.+|++          |+|+|+.|+|+++|++|+|++|++|++++
T Consensus        73 -----~~~~~~i~Vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~qrL~~~g~~L~d~~tL~~~~i~~~~~i~l~~  147 (152)
T 3b08_A           73 -----LRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVL  147 (152)
T ss_dssp             -----CTTCEEEEEEESSSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEE
T ss_pred             -----cccccceeeeecCCCEEEEEeCCCCcHHHHHHHHHHHhCcChhhEEEEECCEECCCCCCHHHcCCCCCCEEEEEE
Confidence                 7788999999999999888777       8888875          99999999999999999999999999998


Q ss_pred             e
Q 041424          145 S  145 (148)
Q Consensus       145 ~  145 (148)
                      +
T Consensus       148 r  148 (152)
T 3b08_A          148 R  148 (152)
T ss_dssp             C
T ss_pred             e
Confidence            6

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

Probab=99.77  E-value=2e-19  Score=124.78  Aligned_cols=84  Identities=39%  Similarity=0.562  Sum_probs=77.8

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEeeeeeccccccC
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFCAIKVLSISVKA   81 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~~~~~~~~~~~~   81 (148)
                      +++++++++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.       +|++|+|+++++|+|+.+           
T Consensus        20 ~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~-------tL~~ygI~~gstI~l~~~-----------   81 (114)
T 2kdi_A           20 KTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIWAGKQLEDGR-------TLSDYNIQRESTLHLVLR-----------   81 (114)
T ss_dssp             CEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTC-------BTTTTTCCSSCEEEEEEC-----------
T ss_pred             cEEEEEECCCCcHHHHHHHHHHHHCcChHHEEEEECCEECCCCC-------cHHHCCCCCCCEEEEEEE-----------
Confidence            57899999999999999999999999999999999999999999       999999999999999999           


Q ss_pred             Cchhhhhheeeeeee---eeeeeeeehhhh
Q 041424           82 PSDDILKLKVKIFVK---MLTEEIVKLKVK  108 (148)
Q Consensus        82 p~~~~~~~~i~I~Vk---~~~gk~~~l~v~  108 (148)
                           ++||++++++   ..+|++++++|+
T Consensus        82 -----~~GG~~~~~~~~~~~~g~~~~~~v~  106 (114)
T 2kdi_A           82 -----LRGGSMGGAADEEELIRKAIELSLK  106 (114)
T ss_dssp             -----CCSSCCCSSCSSSHHHHHHHHSSSH
T ss_pred             -----cCCCceeeccccccccCceEEEEec
Confidence                 8888888887   567888887765

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

Probab=99.74  E-value=5.9e-18  Score=113.11  Aligned_cols=61  Identities=18%  Similarity=0.276  Sum_probs=59.0

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEE
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLF   69 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~   69 (148)
                      ++++++++|++||.+||++|++++|+||++|||+|+|+.|+|+.       +|++|+|++|++++|..
T Consensus        32 kk~~v~v~p~DTI~~LK~~I~~k~Gip~~qQrLif~Gk~LkD~~-------TL~dY~I~dgstLhL~~   92 (93)
T 3plu_A           32 KKVRVKCLGEDSVGDFKKVLSLQIGTQPNKIVLQKGGSVLKDHI-------SLEDYEVHDQTNLELYY   92 (93)
T ss_dssp             CEEEEEEETTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTS-------BTGGGTCCTTCEEEEEE
T ss_pred             CEEEEEECCcCHHHHHHHHHHHHhCCCHHHEEEEeCCEEccCcC-------CHHHcCCCCCCEEEEEe
Confidence            68899999999999999999999999999999999999999999       99999999999999864

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

Probab=99.74  E-value=5.7e-18  Score=109.47  Aligned_cols=62  Identities=27%  Similarity=0.319  Sum_probs=60.4

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|++++||++||++|++.+|+|+++|+|+|+|+.|+|+.       +|++|||++|++++++++
T Consensus        15 ~~~~~~v~~~~tV~~lK~~i~~~~gip~~~qrL~~~G~~L~d~~-------tL~~~~i~~~~~l~l~~r   76 (79)
T 3phx_B           15 RSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQL-------PLGEYGLKPLSTVFMNLR   76 (79)
T ss_dssp             CEEEEEECTTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTS-------BGGGGTCCTTCEEEEEEC
T ss_pred             CEEEEEECCcChHHHHHHHHHhhcCCCHHHEEEEECCEECCCCC-------cHHHCCCCCCCEEEEEEe
Confidence            57899999999999999999999999999999999999999999       999999999999999998

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

Probab=99.73  E-value=8.6e-18  Score=111.25  Aligned_cols=62  Identities=23%  Similarity=0.481  Sum_probs=60.6

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|++++||++||++|++.+|+|+++|+|+|+|+.|+|+.       +|++|+|++|++|+++++
T Consensus        11 ~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~-------tL~~~~i~~g~~l~l~~r   72 (88)
T 4fbj_B           11 KEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEK-------TAADYKILGGSVLHLVLA   72 (88)
T ss_dssp             CEEEEECCTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTS-------BTTTTTCCTTCEEEEECB
T ss_pred             CEEEEEECCCCCHHHHHHHHHHHHCcChhHEEEEECCeECCCCC-------cHHHcCCCCCCEEEEEEE
Confidence            57899999999999999999999999999999999999999999       999999999999999999

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

Probab=99.73  E-value=7.3e-18  Score=113.49  Aligned_cols=81  Identities=38%  Similarity=0.550  Sum_probs=63.4

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEeeeeeccccccC
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFCAIKVLSISVKA   81 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~~~~~~~~~~~~   81 (148)
                      +++++++++++||++||++|++.+|+|+++|+|+|+|+.|+|+.       +|++||++++++|+++.+           
T Consensus        11 ~~~~~~v~~~~TV~~LK~~I~~~~gi~~~~qrL~~~Gk~L~D~~-------tL~~~gi~~g~~i~l~~~-----------   72 (98)
T 1yx5_B           11 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGR-------TLSDYNIQKESTLHLVLR-----------   72 (98)
T ss_dssp             CEEEEECCTTCBHHHHHHHHHHHTCCCGGGEEEEETTEECCTTS-------BTGGGTCCTTCEEEEEEC-----------
T ss_pred             CEEEEEECCCCcHHHHHHHHHHHHCcChhhEEEEECCEECCCCC-------CHHHcCCCCCCEEEEEEe-----------
Confidence            46889999999999999999999999999999999999999999       999999999999999999           


Q ss_pred             Cchhhhhheeeeeeeeeeeeeeeh
Q 041424           82 PSDDILKLKVKIFVKMLTEEIVKL  105 (148)
Q Consensus        82 p~~~~~~~~i~I~Vk~~~gk~~~l  105 (148)
                           .+||.+++.++.+|+.-.+
T Consensus        73 -----~~gG~~i~~~~v~~~~~~~   91 (98)
T 1yx5_B           73 -----LRGGRDPNSSSVDKLAAAL   91 (98)
T ss_dssp             -----CCCC---------------
T ss_pred             -----CCCCCcCccccCCCchhhh
Confidence                 7888889988888776544

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

Probab=99.70  E-value=2e-17  Score=108.65  Aligned_cols=62  Identities=23%  Similarity=0.467  Sum_probs=60.4

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.       +|++|+|+++++|+++++
T Consensus        23 ~~~~~~v~~~~tV~~lK~~i~~~~gip~~~qrL~~~G~~L~d~~-------tL~~~~i~~~~~i~l~~r   84 (88)
T 3dbh_I           23 KEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEK-------TAADYKILGGSVLHLVLR   84 (88)
T ss_dssp             CEEEEEECTTCBHHHHHHHHHHHHCCCGGGCCEEETTEECCTTS-------BGGGGTCCTTCEEEECCC
T ss_pred             CEEEEEECCCCCHHHHHHHHHHHHCcCHHHEEEEECCeECCCCC-------cHHHcCCCCCCEEEEEEe
Confidence            57899999999999999999999999999999999999999999       999999999999999998

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

Probab=99.70  E-value=4.5e-17  Score=113.24  Aligned_cols=64  Identities=25%  Similarity=0.270  Sum_probs=61.4

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCccc-------ccceeEEEeee
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKR-------ESTMQLLFCAI   72 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~-------~s~i~l~~~~~   72 (148)
                      .|+++++++++||.+||++|+.++|+||++|||+|+|+.|+|++       +|++|||++       +++|||++|+.
T Consensus        12 tTI~ldve~sdTV~~lK~kI~~~~giPp~qQrLI~~Gk~LeD~k-------TL~dy~I~~~ta~~q~~atl~Lvlr~~   82 (118)
T 4ajy_B           12 TTIFTDAKESSTVFELKRIVEGILKRPPDEQRLYKDDQLLDDGK-------TLGECGFTSQTARPQAPATVGLAFRAD   82 (118)
T ss_dssp             EEEEEEEETTSBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTS-------BTTTTTCCGGGSBTTBCEEEEEEECCS
T ss_pred             EEEEEEcCCCChHHHHHHHHHHHHCCCHHHeEEEeCCeECCCcC-------CHHHcCCCcCcccCCCCCEEEEEEecC
Confidence            37899999999999999999999999999999999999999999       999999999       99999999954

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

Probab=99.70  E-value=4.3e-17  Score=103.87  Aligned_cols=62  Identities=23%  Similarity=0.481  Sum_probs=60.1

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +++++++++++||++||++|++.+|+|+++|+|+|+|+.|+|+.       +|++||++++++++++.+
T Consensus        11 ~~~~~~v~~~~tv~~lK~~i~~~~~i~~~~q~L~~~g~~L~d~~-------tL~~~~i~~g~~i~l~~~   72 (76)
T 1ndd_A           11 KEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEK-------TAADYKILGGSVLHLVLA   72 (76)
T ss_dssp             CEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTS-------BGGGGTCCTTCEEEEEEC
T ss_pred             CEEEEEECCCChHHHHHHHHHHHHCcChHHEEEEECCEECCCCC-------cHHHcCCCCCCEEEEEEe
Confidence            46889999999999999999999999999999999999999999       999999999999999998

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

Probab=99.69  E-value=3.2e-17  Score=107.86  Aligned_cols=62  Identities=18%  Similarity=0.195  Sum_probs=59.9

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCee-cCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDR-LMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~-L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|++++||++||++|++.+|+|+++|+|+|+|+. |+|+.       +|++|||++|++|+++++
T Consensus        21 ~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~lL~D~~-------tL~~y~I~~gs~i~lv~~   83 (84)
T 2kk8_A           21 SSFELEVDYRDTLLVVKQKIERSQHIPVSKQTLIVDGIVILREDL-------TVEQCQIVPTSDIQLEVS   83 (84)
T ss_dssp             CEEEEEECTTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCCSSS-------BHHHHTCCTTSCEEEEEC
T ss_pred             cEEEEEECCCChHHHHHHHHHHHHCcChHHEEEEECCEEecCCcC-------CHHHcCCCCCCEEEEEEc
Confidence            578999999999999999999999999999999999999 99999       999999999999999886

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

Probab=99.69  E-value=1.6e-17  Score=112.67  Aligned_cols=61  Identities=16%  Similarity=0.239  Sum_probs=57.6

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|+|++||.+||++|++++|+||++|+|+|+|+.|+|+.       +|++|+|+++++| ++++
T Consensus        30 ~~~~lev~~~~TV~~lK~kI~~k~gip~~qQrLI~~GKiL~D~~-------TL~~y~I~~gsti-~vl~   90 (100)
T 1wju_A           30 RKNLLETRLHITGRELRSKIAETFGLQENYIKIVINKKQLQLGK-------TLEEQGVAHNVKA-MVLE   90 (100)
T ss_dssp             SSEEEEEESSSBHHHHHHHHHHHTTCCSTTCEEEETTEECCTTS-------BHHHHTCCSSEEE-EEEC
T ss_pred             cEEEEEeCCcCHHHHHHHHHHHHHCcCHHHeEEEeCCeECCCCC-------cHHHcCCCCCCEE-EEEE
Confidence            46899999999999999999999999999999999999999999       9999999999999 4554

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

Probab=99.69  E-value=6.2e-17  Score=105.53  Aligned_cols=62  Identities=42%  Similarity=0.674  Sum_probs=60.3

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +++++++++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.       +|++|+|+++++|+++++
T Consensus        14 ~~~~~~v~~~~tV~~lK~~i~~~~~ip~~~qrL~~~g~~L~d~~-------tL~~~~i~~~~~i~l~~r   75 (85)
T 3n3k_B           14 RTIILEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGR-------TLSDYNIHNHSALYLLLK   75 (85)
T ss_dssp             CEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETBEECCTTC-------BTTTTTCCTTCEEEEEEC
T ss_pred             CEEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCeECCCCC-------CHHHCCCCCCCEEEEEEe
Confidence            47899999999999999999999999999999999999999999       999999999999999999

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

Probab=99.68  E-value=5e-17  Score=109.54  Aligned_cols=62  Identities=47%  Similarity=0.745  Sum_probs=60.3

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.       +|++|+|+++++|+++++
T Consensus        33 ~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~-------tL~~~~i~~g~~i~l~~r   94 (98)
T 4hcn_B           33 KTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGR-------TLSDYNIQKESTLHLVLR   94 (98)
T ss_dssp             CEEEEECCTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTC-------BSGGGTCCTTEEEEEECB
T ss_pred             CEEEEEECCCCcHHHHHHHHHHHhCCChhHEEEEECCEECCCCC-------cHHHCCCCCCCEEEEEEe
Confidence            57899999999999999999999999999999999999999999       999999999999999998

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

Probab=99.68  E-value=7.5e-17  Score=106.69  Aligned_cols=62  Identities=45%  Similarity=0.719  Sum_probs=59.4

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +++++++++++||++||++|++.+|+|+++|+|+|+|+.|+|+.       +|++||++++++|+++.+
T Consensus        20 ~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~-------tL~~~gi~~g~~i~l~~r   81 (88)
T 1sif_A           20 KTFTVEMEPSDTIENLKAKIQDKEGIPPDQQRLIFAGKQLEDGR-------TLSDYNIQKESTLHLVLR   81 (88)
T ss_dssp             CEEEEECCTTSBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTS-------BSGGGTCCTTCEEEEEC-
T ss_pred             CEEEEEECCCChHHHHHHHHHHHHCcChhhEEEEECCEECCCCC-------cHHHcCCCCCCEEEEEEe
Confidence            57899999999999999999999999999999999999999999       999999999999999998

>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=99.68  E-value=4e-17  Score=105.47  Aligned_cols=62  Identities=15%  Similarity=0.331  Sum_probs=60.3

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|++++||.+||+++++++|+|+++|+|+|+|+.|+|+.       +|++|+++++++|+++.+
T Consensus        14 ~~~~~~v~~~~tv~~lk~~i~~~~gi~~~~qrL~~~G~~L~d~~-------tl~~~~i~~~~~i~l~~~   75 (79)
T 2uyz_B           14 SEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNH-------TPKELGMEEEDVIEVYQE   75 (79)
T ss_dssp             CEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTC-------CHHHHTCCTTEEEEEEEC
T ss_pred             CEEEEEECCCChHHHHHHHHHHHHCCCcccEEEEECCEEeCCCC-------CHHHcCCCCCCEEEEEEe
Confidence            57899999999999999999999999999999999999999999       999999999999999998

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

Probab=99.68  E-value=5.9e-17  Score=112.85  Aligned_cols=62  Identities=24%  Similarity=0.286  Sum_probs=60.1

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcc-------cccceeEEEee
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVK-------RESTMQLLFCA   71 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~-------~~s~i~l~~~~   71 (148)
                      +++++|++++||.+||++|+.++|+|+++|||+|+|+.|+|++       +|++|||+       .+++|+|++|.
T Consensus        13 ti~lev~~sdTV~~lK~kI~~~egIP~~qQrLi~~Gk~LeD~~-------TLsdy~I~~~~a~~q~~stL~L~lr~   81 (118)
T 2fnj_B           13 TIFTDAKESSTVFELKRIVEGILKRPPEEQRLYKDDQLLDDGK-------TLGECGFTSQTARPQAPATVGLAFRA   81 (118)
T ss_dssp             EEEEEEETTSBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTS-------BHHHHTCCTTTSBTTBCEEEEEEEBS
T ss_pred             EEEEEeCCcChHHHHHHHHHHHhCCCHHHeEEEECCeECCCCC-------CHHHcCcccccccCCCCCEEEEEecC
Confidence            6899999999999999999999999999999999999999999       99999999       79999999994

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

Probab=99.68  E-value=4.7e-17  Score=109.15  Aligned_cols=61  Identities=25%  Similarity=0.406  Sum_probs=59.6

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCC-cccccccccccCCCcccccceeEEEe
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNG-RLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~-~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +++++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+ .       +|++|||+++++|+|+.+
T Consensus        26 ~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~~-------tL~~ygI~~gstl~lv~r   87 (94)
T 2kan_A           26 QFTVEVDRTETVSSLKDKIHIVENTPIKRMQLYYSGIELADDYR-------NLNEYGITEFSEIVVFLK   87 (94)
T ss_dssp             EEEEEECTTCBHHHHHHHHHHHSSSCTTTEEEEETTEEECCTTS-------BHHHHTCCTTEEEEEEEC
T ss_pred             EEEEEECCCCcHHHHHHHHHHHHCcCHHHEEEEECCEECCCCcc-------cHHHCCCCCCCEEEEEEe
Confidence            688999999999999999999999999999999999999999 9       999999999999999998

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

Probab=99.67  E-value=1.1e-16  Score=101.94  Aligned_cols=62  Identities=48%  Similarity=0.756  Sum_probs=59.9

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +++++++++++||++||++|++.+|+|+++|+|+|+|+.|+|+.       +|++||+++|++|+++.+
T Consensus        11 ~~~~i~v~~~~tv~~lK~~i~~~~~i~~~~q~L~~~g~~L~d~~-------tL~~~~i~~g~~i~l~~~   72 (76)
T 3a9j_A           11 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGR-------TLSDYNIQRESTLHLVLR   72 (76)
T ss_dssp             CEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTC-------BTGGGTCCTTCEEEEEEC
T ss_pred             CEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCeECCCCC-------cHHHcCCCCCCEEEEEEe
Confidence            46889999999999999999999999999999999999999999       999999999999999998

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

Probab=99.67  E-value=1.2e-16  Score=105.29  Aligned_cols=61  Identities=21%  Similarity=0.277  Sum_probs=58.4

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +++++++++++||++||++|++.+|+|+++|+|+|+|+.|+|+.       +|++||+ +|+++|++.|
T Consensus        28 ~~~~~~v~~~~tV~~lK~~i~~~~gip~~~qrLi~~Gk~L~D~~-------tL~~~~i-~g~~i~lv~R   88 (88)
T 4eew_A           28 QTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDK-------KLQEYNV-GGKVIHLVER   88 (88)
T ss_dssp             CEEEEEEETTCBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTS-------BGGGGTC-TTEEEEEEEC
T ss_pred             CEEEEEECCCCCHHHHHHHHHHHhCCCHHHEEEEECCEECCCCC-------cHHHcCC-CCcEEEEEEC
Confidence            57889999999999999999999999999999999999999999       9999999 8999999875

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

Probab=99.67  E-value=4.3e-17  Score=109.01  Aligned_cols=62  Identities=24%  Similarity=0.281  Sum_probs=60.2

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.       +|++|+|+++++|+++++
T Consensus        28 ~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~-------tL~~y~I~~gstI~lv~r   89 (93)
T 2l7r_A           28 ELHTFEVTGQETVAQIKAHVASLEGIAPEDQVVLLAGAPLEDEA-------TLGQCGVEALTTLEVAGR   89 (93)
T ss_dssp             SEEEEECCSSCBHHHHHHHHHHHHTCCGGGCEEEETTEECCTTS-------BHHHHTCCSSCEEEEECC
T ss_pred             CEEEEEeCCCCcHHHHHHHHHHHhCcChhHEEEEECCEECCCCC-------cHHHCCCCCCCEEEEEEe
Confidence            57889999999999999999999999999999999999999999       999999999999999998

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

Probab=99.67  E-value=1.2e-16  Score=104.05  Aligned_cols=62  Identities=47%  Similarity=0.694  Sum_probs=60.3

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +++++++++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.       +|++|+|+++++|+++++
T Consensus        14 ~~~~~~v~~~~tV~~lK~~i~~~~~i~~~~qrL~~~g~~L~d~~-------tL~~~~i~~~~~l~l~~r   75 (85)
T 3mtn_B           14 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGR-------TLSDYNIQKWSTLFLLLR   75 (85)
T ss_dssp             CEEEEEECTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTS-------BTGGGTCCTTCEEEEECC
T ss_pred             CEEEEEECCCCCHHHHHHHHHHHHCcChHHEEEEECCEECCCCC-------CHHHcCCCCCCEEEEEEE
Confidence            57899999999999999999999999999999999999999999       999999999999999998

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

Probab=99.67  E-value=1.1e-16  Score=106.94  Aligned_cols=62  Identities=47%  Similarity=0.745  Sum_probs=60.4

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.       +|++|+|.++++|+++++
T Consensus        12 ~~~~~~v~~~~TV~~LK~~i~~~~gip~~~qrL~~~G~~L~d~~-------tL~~~~i~~~~~i~l~~r   73 (96)
T 3k9o_B           12 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGR-------TLSDYNIQKESTLHLVLR   73 (96)
T ss_dssp             CEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTS-------BTGGGTCCTTCEEEEEEC
T ss_pred             CEEEEEECCCCCHHHHHHHHHhhhCCChhHEEEEECCEECCCCC-------cHHHcCCCCCCEEEEEEE
Confidence            57899999999999999999999999999999999999999999       999999999999999999

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

Probab=99.67  E-value=1.2e-16  Score=106.04  Aligned_cols=62  Identities=44%  Similarity=0.714  Sum_probs=60.2

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.       +|++|||++|++|++++|
T Consensus        28 ~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~-------tL~~~gi~~g~~i~l~~r   89 (91)
T 3v6c_B           28 THITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGR-------TLSDYNIQKESTLHLVLR   89 (91)
T ss_dssp             CEEEEEECTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTC-------BTGGGTCCTTCEEEEECC
T ss_pred             CEEEEEECCCCCHHHHHHHHHhhhCCChhhEEEEECCeECCCcC-------cHHHCCCCCCCEEEEEEe
Confidence            57899999999999999999999999999999999999999999       999999999999999987

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

Probab=99.67  E-value=5.3e-17  Score=110.11  Aligned_cols=61  Identities=18%  Similarity=0.217  Sum_probs=58.5

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEE
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLF   69 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~   69 (148)
                      ++++++|+|++||.+||++|++++|+|+++|||+|+|+.|+|+.       +|++|||+++++|+|..
T Consensus        39 k~i~lev~p~dTV~~lK~~Ia~k~Gip~~qQrLi~~Gk~L~D~~-------TL~dygI~~gstlhL~~   99 (100)
T 1uh6_A           39 KKVRVKCNTDDTIGDLKKLIAAQTGTRWNKIVLKKWYTIFKDHV-------SLGDYEIHDGMNLELYY   99 (100)
T ss_dssp             SCEEEEEETTSBHHHHHHHHHHHHCCCGGGCEEEETTEECCSSC-------BHHHHTCCTTEEEEEEC
T ss_pred             CEEEEEeCCCCcHHHHHHHHHHHhCCCHHHEEEEECCEECCCCC-------CHHHcCCCCCCEEEEEe
Confidence            56899999999999999999999999999999999999999999       99999999999999864

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

Probab=99.67  E-value=2e-16  Score=101.83  Aligned_cols=60  Identities=23%  Similarity=0.423  Sum_probs=58.2

Q ss_pred             EEEE-EcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            4 VTLN-VEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         4 ~~l~-v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++ +++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.       +|++||+++|++++++.+
T Consensus        16 ~~l~~v~~~~tv~~lK~~i~~~~gip~~~qrL~~~g~~L~d~~-------tL~~~~i~~g~~i~l~~r   76 (78)
T 2faz_A           16 HTVDSLSRLTKVEELRRKIQELFHVEPGLQRLFYRGKQMEDGH-------TLFDYEVRLNDTIQLLVR   76 (78)
T ss_dssp             EEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTC-------BTTTTTCCTTCEEEEEEC
T ss_pred             EEEeccCCCCCHHHHHHHHHHHHCcChhhEEEEECCEECCCCC-------CHHHcCCCCCCEEEEEEe
Confidence            4898 99999999999999999999999999999999999999       999999999999999987

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

Probab=99.67  E-value=9.7e-17  Score=105.32  Aligned_cols=62  Identities=19%  Similarity=0.238  Sum_probs=60.3

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +++++++++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.       +|++|+++++++|+++.+
T Consensus        18 ~~~~~~v~~~~tV~~lK~~i~~~~gi~~~~qrL~~~Gk~L~d~~-------tL~~~~i~~g~~i~l~~~   79 (87)
T 1wh3_A           18 GSYAYAINPNSFILGLKQQIEDQQGLPKKQQQLEFQGQVLQDWL-------GLGIYGIQDSDTLILSKK   79 (87)
T ss_dssp             EEEEEEECSSSBHHHHHHHHHHHTCCCTTTEEEEETTEECCSSS-------BHHHHTCCTTEEEEEEEC
T ss_pred             CEEEEEeCCCChHHHHHHHHHHHhCCChHHEEEEECCEEccCCC-------CHHHCCCCCCCEEEEEEe
Confidence            57899999999999999999999999999999999999999999       999999999999999999

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

Probab=99.66  E-value=5.3e-17  Score=107.36  Aligned_cols=62  Identities=27%  Similarity=0.319  Sum_probs=60.2

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.       +|++|||++|++|+++.+
T Consensus        15 ~~~~~~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~-------tL~~~~I~~g~~i~l~~~   76 (88)
T 2hj8_A           15 RSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQL-------PLGEYGLKPLSTVFMNLR   76 (88)
T ss_dssp             CEEEEEEESSSBHHHHHHHHHHHTCSCTTTEEEESSSSCCCTTS-------BHHHHHCSTTCEEEEEEC
T ss_pred             CEEEEEECCCCcHHHHHHHHHHHhCCChhHEEEEECCEECCCCC-------cHHHcCCCCCCEEEEEEE
Confidence            57899999999999999999999999999999999999999999       999999999999999998

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

Probab=99.66  E-value=1.1e-16  Score=109.48  Aligned_cols=65  Identities=20%  Similarity=0.312  Sum_probs=60.9

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEeeee
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFCAIK   73 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~~~~   73 (148)
                      ++++++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.       +|++|||++|++|+++++...
T Consensus        12 ~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~-------tL~~~~i~~g~~i~lv~~~~~   76 (106)
T 3m62_B           12 EKVPLDLEPSNTILETKTKLAQSISCEESQIKLIYSGKVLQDSK-------TVSECGLKDGDQVVFMVSQKK   76 (106)
T ss_dssp             CEEEECCCTTSBHHHHHHHHHHTTTSCGGGCEEEETTEECCTTS-------BTTTTTCCTTCEEEEECCC--
T ss_pred             CEEEEEECCCCcHHHHHHHHHHHHCCChhhEEEEECCEECCCcC-------CHHHcCCCCCCEEEEEEcCCC
Confidence            57899999999999999999999999999999999999999999       999999999999999998543

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

Probab=99.66  E-value=2e-16  Score=109.00  Aligned_cols=62  Identities=47%  Similarity=0.745  Sum_probs=60.4

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|++++||.+||++|++.+|+|+++|+|+|+|+.|.|+.       +|++|+|+++++|+++++
T Consensus        46 ~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~-------tL~~~gI~~gs~I~l~~r  107 (111)
T 3vdz_A           46 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGR-------TLSDYNIQKESTLHLVLR  107 (111)
T ss_dssp             CEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTS-------BTTTTTCCTTCEEEEEEC
T ss_pred             CEEEEEeCCCCCHHHHHHHHHHHhCCChHHEEEEECCEECCCCC-------cHHHCCCCCCCEEEEEEe
Confidence            57899999999999999999999999999999999999999999       999999999999999998

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

Probab=99.66  E-value=2.3e-16  Score=104.27  Aligned_cols=62  Identities=23%  Similarity=0.285  Sum_probs=59.5

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEee
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFCA   71 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~~   71 (148)
                      ++++++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.       +|++|+| +|++|||+.+.
T Consensus        16 ~~~~~~v~~~~tV~~lK~~i~~~~gip~~~qrLi~~Gk~L~d~~-------tL~~~~i-~g~~i~l~~~~   77 (90)
T 4dwf_A           16 QTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDK-------KLQEYNV-GGKVIHLVERA   77 (90)
T ss_dssp             CEEEEEEETTCBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTS-------BGGGGTC-TTEEEEEEECC
T ss_pred             CEEEEEECCCCCHHHHHHHHHHHhCCCHHHEEEEECCeECCCCC-------CHHHcCC-CCcEEEEEecC
Confidence            57899999999999999999999999999999999999999999       9999999 89999999983

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

Probab=99.66  E-value=9.5e-17  Score=120.33  Aligned_cols=72  Identities=44%  Similarity=0.684  Sum_probs=68.7

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEeeeeeccccccC
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFCAIKVLSISVKA   81 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~~~~~~~~~~~~   81 (148)
                      ++++++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.       +|++|+|+++++|+|+++           
T Consensus       116 kt~~l~V~~s~TV~~LK~kI~~~~gIp~~~QrLi~~Gk~L~D~~-------tL~dygI~~gstI~Lvlr-----------  177 (189)
T 3q3f_A          116 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGR-------TLSDYNIQKESTLHLVLR-----------  177 (189)
T ss_dssp             CEEEEEECTTCBHHHHHHHHHHHHCCCGGGCCEEETTEECCTTC-------BGGGGTCCTTCEEEECCC-----------
T ss_pred             CEEEEEeCCCCcHHHHHHHHHhccCCCHHHEEEEECCEECCCCC-------CHHHCCCCCCCEEEEEEE-----------
Confidence            57899999999999999999999999999999999999999999       999999999999999999           


Q ss_pred             Cchhhhhheeeeeee
Q 041424           82 PSDDILKLKVKIFVK   96 (148)
Q Consensus        82 p~~~~~~~~i~I~Vk   96 (148)
                           ++||..+|||
T Consensus       178 -----lrGG~~~fvk  187 (189)
T 3q3f_A          178 -----LRGGGQTFTK  187 (189)
T ss_dssp             -----CCCCCCCCCC
T ss_pred             -----cCCCCcceEe
Confidence                 8888888775

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

Probab=99.66  E-value=3.6e-16  Score=100.08  Aligned_cols=62  Identities=18%  Similarity=0.322  Sum_probs=59.6

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +++++++++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.       +|++||+++|++|+++.+
T Consensus        14 ~~~~~~v~~~~tV~~LK~~i~~~~~i~~~~qrL~~~gk~L~d~~-------tL~~~~i~~g~~i~l~~~   75 (77)
T 2bwf_A           14 DKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQ-------TVESYHIQDGHSVHLVKS   75 (77)
T ss_dssp             EEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTS-------BTGGGTCCTTCEEEEEEC
T ss_pred             EEEEEEECCCCcHHHHHHHHHHHhCCCHHHEEEEECCeEcCCCC-------CHHHcCCCCCCEEEEEEc
Confidence            57899999999999999999999999999999999999999999       999999999999999876

>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=99.66  E-value=1.1e-16  Score=107.88  Aligned_cols=62  Identities=15%  Similarity=0.331  Sum_probs=60.5

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|++++||.+||++++++.|+|+++|+|+|+|+.|+|+.       +|++|+|+++++|+++++
T Consensus        32 ~~~~l~v~~~~tv~~lK~~i~~~~gip~~~qrLif~Gk~L~d~~-------tl~dy~i~~g~~I~l~~~   93 (97)
T 1wyw_B           32 SEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNH-------TPKELGMEEEDVIEVYQE   93 (97)
T ss_dssp             CEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTC-------CHHHHTCCTTCEEEEEES
T ss_pred             CEEEEEECCCCcHHHHHHHHHHHHCCChhhEEEEECCeEcCCCC-------CHHHCCCCCCCEEEEEEe
Confidence            57899999999999999999999999999999999999999999       999999999999999998

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

Probab=99.65  E-value=1.7e-16  Score=104.66  Aligned_cols=62  Identities=32%  Similarity=0.437  Sum_probs=59.9

Q ss_pred             eEEEE-EEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTL-NVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l-~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +++++ +|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.       +|++|+|.++++|+++.+
T Consensus        19 ~~~~l~~v~~~~tV~~lK~~i~~~~gip~~~qrL~~~gk~L~d~~-------tL~~~~i~~g~~i~l~~~   81 (89)
T 1wy8_A           19 KTCTIEDVSRKATIEELRERVWALFDVRPECQRLFYRGKQLENGY-------TLFDYDVGLNDIIQLLVR   81 (89)
T ss_dssp             CEEEEEEECTTCBHHHHHHHHHHHSCCCTTTEEEEETTEECCSSS-------BHHHHTCCTTCEEEEEEC
T ss_pred             ceEEEEecCCCCCHHHHHHHHHHHHCcChhhEEEEECCeECCCCC-------CHHHCCCCCCCEEEEEEe
Confidence            47899 599999999999999999999999999999999999999       999999999999999998

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

Probab=99.65  E-value=4.1e-16  Score=101.78  Aligned_cols=62  Identities=19%  Similarity=0.317  Sum_probs=59.6

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhh---hCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEK---EGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~---~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|++++||.+||++|++.   +|+|+++|+|+|+|+.|+|+.       +|++|||++|++|+++.+
T Consensus        16 ~~~~~~v~~~~TV~~lK~~i~~~~~~~gip~~~qrLi~~Gk~L~D~~-------tL~~~~i~~g~~i~l~~~   80 (85)
T 2wyq_A           16 QTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDV-------PIRDYRIDEKNFVVVMVT   80 (85)
T ss_dssp             CEEEEEECTTSBHHHHHHHHHHHHCTTTCCGGGEEEEETTEECCTTS-------BGGGGCCCTTSEEEEEEC
T ss_pred             CEEEEEECCCCCHHHHHHHHHhhccccCCCHHHeEEEECCEECcCCC-------CHHHcCCCCCCEEEEEEc
Confidence            46889999999999999999998   899999999999999999999       999999999999999987

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

Probab=99.65  E-value=3.7e-16  Score=106.78  Aligned_cols=62  Identities=23%  Similarity=0.218  Sum_probs=59.4

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCc-ccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNV-KRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i-~~~s~i~l~~~   70 (148)
                      .+++++|+|++||++||++|++++|+||++|||+|+|+.++|++       +|++||| ++|+++||++.
T Consensus        37 ~~i~l~V~ps~TV~~LK~~I~~k~Gipp~~QRli~ggkll~D~~-------TL~~ygI~~~G~t~hL~l~   99 (105)
T 4dbg_A           37 VTIWLTVRPDMTVASLKDMVFLDYGFPPVLQQWVIGQRLARDQE-------TLHSHGVRQNGDSAYLYLL   99 (105)
T ss_dssp             EEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEEECTTC-------BTGGGTCCSTTCEEEEEEC
T ss_pred             ceEEEEECCcChHHHHHHHHHHHhCCCHHHEEEeccCeEccCcC-------cHHHcCCCCCCCEEEEEEE
Confidence            47999999999999999999999999999999999999999999       9999999 59999999986

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

Probab=99.65  E-value=4.4e-16  Score=100.58  Aligned_cols=62  Identities=27%  Similarity=0.443  Sum_probs=59.6

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +++++++++++||++||++|++.+|+|+++|+|+|+|+.|+|+.       +|++||+++|++|+++.+
T Consensus        18 ~~~~~~v~~~~tV~~LK~~i~~~~~i~~~~qrL~~~gk~L~d~~-------tL~~~~i~~g~~i~l~~~   79 (81)
T 2dzi_A           18 RECSLQVPEDELVSTLKQLVSEKLNVPVRQQRLLFKGKALADGK-------RLSDYSIGPNSKLNLVVK   79 (81)
T ss_dssp             CEEEEEECSSCBHHHHHHHHHHHTCCCTTTCEEEETTEECCTTS-------BGGGGTCCSSBCCEEECC
T ss_pred             CEEEEEECCCCcHHHHHHHHHHHHCcCHHHEEEEECCeECCCCC-------cHHHcCCCCCCEEEEEEe
Confidence            46889999999999999999999999999999999999999999       999999999999999987

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

Probab=99.64  E-value=9.3e-17  Score=106.45  Aligned_cols=62  Identities=19%  Similarity=0.283  Sum_probs=57.6

Q ss_pred             eEEEEEEc--CCCcHHHHHHHH-HhhhCCCCcccEEEEcCeecCCCcccccccccccCCCc-ccccceeEEEe
Q 041424            2 KTVTLNVE--KSETIKNLKGMV-HEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNV-KRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~--~~~tV~~lK~~i-~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i-~~~s~i~l~~~   70 (148)
                      ++++++|+  +++||.+||++| ++.+|+|+++|||+|+|+.|+|+.       +|++|+| ++|++|+++.+
T Consensus        12 ~~~~i~v~v~~~~TV~~lK~~I~~~~~gip~~~QrLi~~Gk~L~D~~-------tL~~y~I~~~~stl~v~~~   77 (87)
T 2lxa_A           12 PKFSIEHDFSPSDTILQIKQHLISEEKASHISEIKLLLKGKVLHDNL-------FLSDLKVTPANSTITVMIK   77 (87)
T ss_dssp             SCEECCEECCTTCBHHHHHHHHHHTTSCSSSTTEEEEETTEECCTTC-------BHHHHCCCGGGCEEEEEEC
T ss_pred             CEEEEEEcCCCCCcHHHHHHHHHHHhcCCChHHEEEEECCEECcCcC-------CHHHcCCCCCCCEEEEEcC
Confidence            34677655  999999999999 999999999999999999999999       9999999 79999999998

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

Probab=99.64  E-value=3.5e-16  Score=115.33  Aligned_cols=63  Identities=46%  Similarity=0.727  Sum_probs=61.0

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEee
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFCA   71 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~~   71 (148)
                      ++++++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.       +|++|+|++|++||++.+.
T Consensus        11 k~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~-------tL~~y~I~~gstI~Lvlrl   73 (169)
T 3l0w_B           11 KTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGR-------TLSDYNIQKESTLHLVLRL   73 (169)
T ss_dssp             CEEEEECCTTCBHHHHHHHHHHHHCCCTTTEEEEETTEECCTTS-------BGGGGTCCTTCEEEEEECC
T ss_pred             CEEEEEeCCCCCHHHHHHHHHHHHCcCHHHEEEEECCccccCcC-------cHHHcCCCCCCEEEEEEEe
Confidence            57899999999999999999999999999999999999999999       9999999999999999993

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

Probab=99.64  E-value=5.2e-16  Score=104.97  Aligned_cols=60  Identities=20%  Similarity=0.282  Sum_probs=56.3

Q ss_pred             EEEEEcCCCcHHHHHHHH-HhhhCCCCcccEEEEcCeecCCCcccccccccccCCCc-ccccceeEEEe
Q 041424            4 VTLNVEKSETIKNLKGMV-HEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNV-KRESTMQLLFC   70 (148)
Q Consensus         4 ~~l~v~~~~tV~~lK~~i-~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i-~~~s~i~l~~~   70 (148)
                      +++++++++||++||++| ++.+|+|+++|||+|+|+.|+|+.       +|++|+| ++|++|+++++
T Consensus        34 i~v~v~~~~TV~~lK~~I~~~~~gip~~~QrLi~~Gk~L~D~~-------tL~dy~I~~~g~ti~lmvs   95 (98)
T 4a20_A           34 IEHDFSPSDTILQIKQHLISEEKASHISEIKLLLKGKVLHDNL-------FLSDLKVTPANSTITVMIK   95 (98)
T ss_dssp             EEEEECTTCBHHHHHHHHHHTTSCSCGGGEEEEETTEEECTTC-------BGGGSCCBTTBCEEEEEEC
T ss_pred             EEEecCCCChHHHHHHHHHHHhcCCChhhEEEEECCEECcCcC-------CHHHcCcCCCCCEEEEEEe
Confidence            444677999999999999 889999999999999999999999       9999999 99999999987

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

Probab=99.64  E-value=7.3e-16  Score=101.43  Aligned_cols=62  Identities=24%  Similarity=0.352  Sum_probs=59.3

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +++++++++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.       +|++||+++|++|+++..
T Consensus        22 ~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~-------tL~~~gi~~g~~l~l~~s   83 (85)
T 2kd0_A           22 KSIPLSVSPDCTVKDLKSQLQPITNVLPRGQKLIFKGKVLVETS-------TLKQSDVGSGAKLMLMAS   83 (85)
T ss_dssp             EEEEEEECTTSBHHHHHHHHHHHHCCCTTTCEEEETTEECCTTC-------BTTTTTCCTTEEEEEECC
T ss_pred             EEEEEEECCCCcHHHHHHHHHHHHCcChHHEEEEECCeECCCcC-------CHHHCCCCCCCEEEEEEe
Confidence            57899999999999999999999999999999999999999999       999999999999998865

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

Probab=99.64  E-value=4.5e-16  Score=112.81  Aligned_cols=62  Identities=27%  Similarity=0.319  Sum_probs=60.7

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|++++||++||++|++.+|+|+++|+|+|+|+.|+|+.       +|++|+|++|+++|++++
T Consensus        92 ~~~~~~v~~~~tV~~lK~~i~~~~gip~~~q~L~~~G~~L~d~~-------tL~~y~i~~g~~l~l~~r  153 (159)
T 3rt3_B           92 RSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQL-------PLGEYGLKPLSTVFMNLR  153 (159)
T ss_dssp             CEEEEEECTTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTS-------BGGGGTCCTTCEEEEEEC
T ss_pred             CEEEEEeCCCCCHHHHHHHHHHHHCCCHHHEEEEECCeecCCCC-------CHHHcCCCCCCEEEEEEe
Confidence            57899999999999999999999999999999999999999999       999999999999999999

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

Probab=99.64  E-value=3.5e-16  Score=103.42  Aligned_cols=61  Identities=15%  Similarity=0.151  Sum_probs=56.9

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEE-------cCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFF-------AGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~-------~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      .+...+++++||.+||++|+.++|+||++|||+|       .|+.|+|++       +|++|||++|++|||+-+
T Consensus        16 ~~E~r~~~s~TI~~lK~ki~~~~Gip~~~QrLi~~~~~~~~~g~~l~d~~-------tL~~Y~i~~g~~ihlvd~   83 (86)
T 4b6w_A           16 VPEKRYGLAQTIESIKENVFTHFATPPEYMQLQLIDDRGITIEKNMANDK-------QLGYYQCRDEFVIHVVDL   83 (86)
T ss_dssp             EEEEEEETTSBHHHHHHHHHTTSCCCGGGEEEEEECTTSCEEESSCCTTS-------BGGGGTCCTTCEEEEEEC
T ss_pred             EEEEEcCccCcHHHHHHHHHHHHCCCHHHEEEEEecCCCCceeeEcCCCC-------CHHHCCCCCCCEEEEEeC
Confidence            4678899999999999999999999999999996       478899999       999999999999999876

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

Probab=99.63  E-value=2.8e-16  Score=108.85  Aligned_cols=62  Identities=18%  Similarity=0.291  Sum_probs=60.3

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.       +|++|+|+++++|||+++
T Consensus        46 ~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrL~~~Gk~L~D~~-------tL~~y~i~~g~~i~lv~r  107 (115)
T 1we7_A           46 QGLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDSN-------SLAYYNMASGAVIHLALK  107 (115)
T ss_dssp             EEEEEEECSCSBTHHHHHHHHHHSSCCTTTEEEEETTEEECTTS-------BHHHHTCCSSCEEEEEEC
T ss_pred             eEEEEEECCCCCHHHHHHHHHHHHCCChHHEEEEECCEECCCCC-------CHHHCCCCCCCEEEEEEE
Confidence            47899999999999999999999999999999999999999999       999999999999999999

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

Probab=99.63  E-value=1.9e-16  Score=105.58  Aligned_cols=61  Identities=15%  Similarity=0.281  Sum_probs=58.3

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhh--CCCCcccEEEEcCeecCCCcccccccccccCC--CcccccceeEEEe
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKE--GTSEDIQDLFFAGDRLMNGRLIDYEDMALASP--NVKRESTMQLLFC   70 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~--gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~--~i~~~s~i~l~~~   70 (148)
                      ++++++++++||.+||++|++.+  |+|+++|||+|+|+.|+|+.       +|++|  +|+++++|||+.+
T Consensus        21 ~~~v~v~~~~TV~~lK~~I~~~~~~~i~~~~QrLi~~Gk~L~D~~-------tL~~~~~~i~~~~~i~lv~~   85 (93)
T 1wgd_A           21 DLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLLDHQ-------CLRDLLPKQEKRHVLHLVCN   85 (93)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHSTTCCCTTTCEEEETTEECCSSS-------CHHHHSCSSSCSEEEEEECC
T ss_pred             EEEEecCCCCcHHHHHHHHHHHhcCCCChHHeEEEECCEECcCcC-------CHHHHhcCCCCCCEEEEEeC
Confidence            57778889999999999999999  99999999999999999999       99999  9999999999988

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

Probab=99.63  E-value=4.1e-16  Score=107.32  Aligned_cols=62  Identities=21%  Similarity=0.191  Sum_probs=59.9

Q ss_pred             eEEEEEEcC-CCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEK-SETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~-~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|++ ++||.+||++|++.+|+|+++|+|+|+|+.|+|+.       +|++|+|+++++|+|+++
T Consensus        41 ~~~~l~v~~l~~TV~~LK~~I~~~~gip~~~QrL~~~Gk~L~D~~-------tL~~y~I~~g~~l~l~~r  103 (111)
T 1we6_A           41 QFMEITVQSLSENVGSLKEKIAGEIQIPANKQKLSGKAGFLKDNM-------SLAHYNVGAGEILTLSLR  103 (111)
T ss_dssp             CCEEEEESCSSSBHHHHHHHHHHHTTCCTTTSEEECSSSBCCTTS-------BTTTTTCSSSCEEEEECS
T ss_pred             cEEEEEecCCCCcHHHHHHHHHHHHCCCHHHeEEEECCEECCCCC-------cHHHCCCCCCCEEEEEEE
Confidence            468899998 99999999999999999999999999999999999       999999999999999998

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

Probab=99.62  E-value=1.4e-15  Score=104.64  Aligned_cols=62  Identities=47%  Similarity=0.745  Sum_probs=60.1

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|++++||++||++|++.+|+|+++|+|+|+|+.|+|+.       +|++|+++++++|+++.+
T Consensus        46 ~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~-------tL~~~gI~~gs~I~l~~r  107 (111)
T 2ojr_A           46 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGR-------TLSDYNIQKESTLHLVLR  107 (111)
T ss_dssp             CEEEEEECTTCBHHHHHHHHHHHHCCCTTTEEEEETTEECCSSC-------BTTTTTCCTTCEEEEEEC
T ss_pred             CEEEEEeCCCCCHHHHHHHHHHHHCcCcccEEEEECCEECCCCC-------cHHHcCCCCCCEEEEEEe
Confidence            46889999999999999999999999999999999999999999       999999999999999998

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

Probab=99.61  E-value=1.5e-15  Score=101.71  Aligned_cols=62  Identities=21%  Similarity=0.365  Sum_probs=59.6

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhh---hCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEK---EGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~---~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|++++||.+||++|++.   +|+|+++|+|+|+|+.|+|+.       +|++|||++|++|+++.+
T Consensus        11 ~~~~~~v~~~~TV~~LK~~I~~~~~~~gip~~~qrLi~~Gk~L~D~~-------tL~~ygI~~g~~i~l~~~   75 (95)
T 1uel_A           11 QTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDT-------ALKEYKIDEKNFVVVMVT   75 (95)
T ss_dssp             CEEEEECCTTSBHHHHHHHHHHHHCTTTCCTTTEEEEETTEECCTTS-------BGGGGTCCSSSEEEEEES
T ss_pred             CEEEEEECCCCHHHHHHHHHHhhcccCCCChhhEEEEECCEECCCcC-------cHHHCCCCCCCEEEEEEe
Confidence            46899999999999999999999   899999999999999999999       999999999999999987

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

Probab=99.40  E-value=4.9e-17  Score=104.10  Aligned_cols=62  Identities=21%  Similarity=0.364  Sum_probs=59.7

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +++++++++++||++||++|++.+|+|+++|+|+|+|+.|+|+.       +|++||+++|++++++.+
T Consensus        11 ~~~~~~v~~~~tV~~lK~~i~~~~gi~~~~qrL~~~gk~L~d~~-------tL~~~~i~~g~~i~l~~r   72 (76)
T 3b1l_X           11 YGFPVEVDSDTSILQLKEVVAKQQGVPADQLRVIFAGKELPNHL-------TVQNCDLEQQSIVHIVQR   72 (76)
Confidence            46789999999999999999999999999999999999999999       999999999999999998

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

Probab=99.61  E-value=9.1e-16  Score=112.78  Aligned_cols=62  Identities=47%  Similarity=0.745  Sum_probs=59.6

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +++++++++++||.+||++|+.++|+|+++|+|+|+|+.|+|+.       +|++|+|++|++|||+++
T Consensus       107 ~~~~l~v~~~~tV~~lK~~I~~~~gip~~~q~L~~~g~~L~D~~-------tL~~y~i~~g~tl~l~~r  168 (172)
T 3u30_A          107 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGR-------TLSDYNIQKESTLHLVLR  168 (172)
T ss_dssp             CEEEEEECTTCBHHHHHHHHHHHHCCCGGGCCEEETTEECCTTS-------BSGGGTCCTTCEEEECC-
T ss_pred             cceeEEecCCCCHHHHHHHHHHHhCCCceeEEEEECCccCCCCC-------cHHHhCCCCCCEEEEEEe
Confidence            57899999999999999999999999999999999999999999       999999999999999999

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

Probab=99.60  E-value=3.7e-16  Score=104.63  Aligned_cols=62  Identities=15%  Similarity=0.217  Sum_probs=60.0

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.       +|++|+|+++++|||+.+
T Consensus        27 ~~~~~~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~-------tL~~~gi~~g~~i~l~~~   88 (96)
T 1wx8_A           27 DCHEFFLAENSNVRRFKKQISKYLHCNADRLVLIFTGKILRDQD-------ILSQRGILDGSTVHVVVR   88 (96)
T ss_dssp             SEEEEEEETTCCHHHHHHHHHHHTCSCTTTBCCEETTEECCTTS-------CHHHHTCCTTEEEECCBC
T ss_pred             eEEEEEECCCCCHHHHHHHHHHHhCCCHHHEEEEECCEECCCcC-------CHHHCCCCCCCEEEEEEe
Confidence            57889999999999999999999999999999999999999999       999999999999999988

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

Probab=99.60  E-value=2.1e-15  Score=102.27  Aligned_cols=62  Identities=18%  Similarity=0.293  Sum_probs=59.8

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|++++||++||++|++.+|+|+++|+|+|+|+.|+|+.       +|++|||++|++|+|+.+
T Consensus        35 ~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~-------tL~~~gI~~g~~I~l~~~   96 (101)
T 2klc_A           35 EKEEFAVPENSSVQQFKEEISKRFKSHTDQLVLIFAGKILKDQD-------TLSQHGIHDGLTVHLVIK   96 (101)
T ss_dssp             CEEEEEECSCCCHHHHHHHHHHHHTCCGGGEEEEETTEEECTTC-------CTGGGTCCTTCEEEEEEC
T ss_pred             cEEEEEECCCCCHHHHHHHHHHHHCcChhhEEEEECCEECCCcC-------cHHHcCCCCCCEEEEEEc
Confidence            46889999999999999999999999999999999999999999       999999999999999987

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

Probab=99.60  E-value=9.6e-16  Score=104.04  Aligned_cols=64  Identities=17%  Similarity=0.221  Sum_probs=60.4

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCC-cccccccccccCCCcccccceeEEEeee
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNG-RLIDYEDMALASPNVKRESTMQLLFCAI   72 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~-~~~~~~~~~L~~~~i~~~s~i~l~~~~~   72 (148)
                      ++++++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+ .       +|++|+|+++++|+|+.+..
T Consensus        22 ~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~gk~L~D~~~-------tL~~ygI~~g~~l~l~~~~~   86 (102)
T 1v5o_A           22 VTFSLQVNPDFELSNFRVLCELESGVPAEEAQIVYMEQLLTDDHC-------SLGSYGLKDGDMVVLLQKDN   86 (102)
T ss_dssp             CEEEEEECTTCBHHHHHHHHHHHTCCCGGGBCEEETTEEECCSSS-------BHHHHTCCTTEEEEECBCCC
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHHCcChHHeEEEECCEECCCCcc-------cHHHCCCCCCCEEEEEECCC
Confidence            5788999999999999999999999999999999999999887 7       89999999999999998844

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

Probab=99.60  E-value=1.5e-15  Score=102.15  Aligned_cols=60  Identities=12%  Similarity=0.106  Sum_probs=55.1

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEc--Ce---ec-CCCcccccccccccCCCcccccceeEE
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFA--GD---RL-MNGRLIDYEDMALASPNVKRESTMQLL   68 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~--g~---~L-~d~~~~~~~~~~L~~~~i~~~s~i~l~   68 (148)
                      +++++++++++||++||++|+.++|+||++|||+|.  |+   .| +|++       +|++|||++|++|+|+
T Consensus        28 ~~~~~~v~~~~TV~~LK~kI~~~~GiP~~~QrL~~~~~g~~~~~L~~D~~-------tL~~Y~i~~gstihlv   93 (95)
T 2kjr_A           28 VAFEVKLAKDLTVAQLKTKLEILTGGCAGTMKVQVFKGDTCVSTMDNNDA-------QLGYYANSDGLRLHVV   93 (95)
T ss_dssp             EEEEEEEETTCBHHHHHHHHHHHHCSCTTTEEEEEEETTEEEEECCCTTS-------BHHHHCCSSSCEEEEE
T ss_pred             eEEEEEeCccCHHHHHHHHHHHHHCcCHHHeEEEEecCCcccceeCCCCC-------CHhHCCcCCCCEEEEE
Confidence            368999999999999999999999999999999998  44   45 8889       9999999999999986

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

Probab=99.60  E-value=4.2e-16  Score=105.81  Aligned_cols=62  Identities=18%  Similarity=0.322  Sum_probs=58.8

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|++++||++||++|++.+|+|+++|+|+|+|+.|+|+.       +|++|||++|++|+|+.+
T Consensus        38 ~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~-------tL~~~gI~~g~tI~lv~~   99 (101)
T 3m63_B           38 DKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQ-------TVESYHIQDGHSVHLVKS   99 (101)
T ss_dssp             CCCCBCCCTTSBHHHHHHHHHHHHSCCSTTCCEEETTEECCTTS-------BTTTTTCCTTEEEEECCC
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHHHCcChHHEEEEECCEECCCcC-------cHHHCCCCCCCEEEEEeC
Confidence            35678899999999999999999999999999999999999999       999999999999999876

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

Probab=99.59  E-value=3.1e-15  Score=105.22  Aligned_cols=62  Identities=18%  Similarity=0.292  Sum_probs=60.1

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.       +|++|+|+++++|+|+.+
T Consensus        42 ~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~-------tL~dygI~~gstI~lv~~  103 (125)
T 1j8c_A           42 EKEEFAVPENSSVQQFKEAISKRFKSQTDQLVLIFAGKILKDQD-------TLIQHGIHDGLTVHLVIK  103 (125)
T ss_dssp             CEEEEEECTTCCHHHHHHHHHHHHCSCSSSEEEEETTEEESTTS-------CGGGTTCSSSEEEEEEEC
T ss_pred             eEEEEEECCCCcHHHHHHHHHHHHCcCcceEEEEECCEEcCCCC-------CHHHcCCCCCCEEEEEec
Confidence            56889999999999999999999999999999999999999999       999999999999999998

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

Probab=99.59  E-value=1.7e-15  Score=103.45  Aligned_cols=62  Identities=23%  Similarity=0.419  Sum_probs=60.1

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|++++||.+||++|+..+|+|+++|+|+|+|+.|+|+.       +|++|||++|++|||+.+
T Consensus        34 ~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~-------tL~~ygI~~g~ti~lv~~   95 (106)
T 1ttn_A           34 KDLKLVVRSTDTVFHMKRRLHAAEGVEPGSQRWFFSGRPLTDKM-------KFEELKIPKDYVVQVIVS   95 (106)
T ss_dssp             EEEEEEECTTSHHHHHHHHHHHTTCCCSTTCEEEETTEECCTTS-------HHHHCCCSSSCEEEEECC
T ss_pred             CEEEEEeCCCCcHHHHHHHHHHHHCcCcccEEEEECCEECCCCC-------cHHHcCCCCCCEEEEEEe
Confidence            57889999999999999999999999999999999999999999       999999999999999988

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

Probab=99.59  E-value=1.8e-15  Score=102.43  Aligned_cols=61  Identities=26%  Similarity=0.309  Sum_probs=59.0

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      .++++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.       +|++|||+++++|+++.+
T Consensus        33 ~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~-------tL~~ygI~~gstI~l~~r   93 (100)
T 1yqb_A           33 KEDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPD-------SLAQCGVRDGLTVHLVIK   93 (100)
T ss_dssp             EEEEEEETTCBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTS-------BHHHHTCCTTCEEEEEEC
T ss_pred             cEEEEECCCCcHHHHHHHHHHHHCcChhhEEEEECCEECCCcC-------cHHHCCCCCCCEEEEEEc
Confidence            3689999999999999999999999999999999999999999       999999999999999998

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

Probab=99.58  E-value=1.2e-15  Score=103.06  Aligned_cols=61  Identities=15%  Similarity=0.116  Sum_probs=55.7

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCe---e----cCCCcccccccccccCCCcccccceeEEEe
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGD---R----LMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~---~----L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      .++++++|++||++||++|+.++|+||++|||+|.|+   .    ++|++       +|++|+|++|++|+|+-.
T Consensus        28 ~~e~~v~~~~TV~~LK~kIe~~~Gip~~~QrLi~~g~~g~~~~~L~~D~~-------tL~~Y~I~~g~~Ihlvd~   95 (97)
T 2kj6_A           28 SADARFSPQMSVEAVKEKLWKKCGTSVNSMALELYDDSGSKVAVLSDDSR-------PLGFFSPFDGFRLHIIDL   95 (97)
T ss_dssp             CEEEEECTTCCHHHHHHHHHHHHCCCTTSEEEEEECSSSCBCCCSSGGGS-------CHHHHCCCSCCEEEEEEC
T ss_pred             EEEEEeCCCChHHHHHHHHHHHHCcCHHHeEEEEecCCCcccceecCCcC-------CHHHCCCCCCCEEEEEeC
Confidence            5889999999999999999999999999999999883   3    47888       999999999999998754

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

Probab=99.57  E-value=6.8e-15  Score=102.29  Aligned_cols=62  Identities=19%  Similarity=0.259  Sum_probs=57.0

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHh------hhCC--CCcccEEEEcCeecCCCcccccccccccCCCcccc--cceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHE------KEGT--SEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRE--STMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~------~~gi--p~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~--s~i~l~~~   70 (148)
                      ++++++|++++||.+||++|++      ++|+  |+++|||+|+|+.|+|+.       +|++|+|+.+  +++||+++
T Consensus        27 ~t~~lev~~s~TV~~lK~kI~~~~p~dwke~~p~p~~qqrLIy~GK~LeD~~-------TL~~y~I~~~~~~tlhLvlr   98 (116)
T 1wgh_A           27 KTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNV-------TLGALKLPFGKTTVMHLVAR   98 (116)
T ss_dssp             CEEEEEECTTCBHHHHHHHHHHSSSCCSSCCCCCCTTTEEEEETTEEECSSC-------BTTTTTCCSSCEEEEEEEEC
T ss_pred             CEEEEEECCcCHHHHHHHHHHHhcccccccCCCCChHHEEEEECCcCCCCCC-------cHHHcCCCCCCceEEEEEcc
Confidence            5799999999999999999999      6785  699999999999999999       9999999866  67898888

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

Probab=99.56  E-value=4.1e-15  Score=104.59  Aligned_cols=61  Identities=23%  Similarity=0.290  Sum_probs=56.2

Q ss_pred             EE-EEEEcCCCcHHHHHHHH-----HhhhCCCC--cccEEEEcCeecCCCcccccccccccCCCcccc------cceeEE
Q 041424            3 TV-TLNVEKSETIKNLKGMV-----HEKEGTSE--DIQDLFFAGDRLMNGRLIDYEDMALASPNVKRE------STMQLL   68 (148)
Q Consensus         3 ~~-~l~v~~~~tV~~lK~~i-----~~~~gip~--~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~------s~i~l~   68 (148)
                      ++ +++++|++||.+||++|     ++.+|+|+  ++|||+|+|+.|+|+.       +|++|+|+.+      +++||+
T Consensus        28 ~i~~l~v~psdTV~~lK~kI~~~~p~dkegiP~~~~qQrLIy~GK~LeD~~-------TLsdy~I~~~~~~~~v~tmhlV  100 (126)
T 1se9_A           28 DIGPKAFPDATTVSALKETVISEWPREKENGPKTVKEVKLISAGKVLENSK-------TVKDYRSPVSNLAGAVTTMHVI  100 (126)
T ss_dssp             EEEEEEECTTCBHHHHHHHHHHHSCTTCSSSCCSGGGEEEEETTEECCTTS-------BGGGGSCCTTSCTTCCEEEEEE
T ss_pred             EEEeeecCccCHHHHHHHHHHhhcccccccCCCChhhEEEEECCeECcCCC-------cHHHcCCCcCCccCCcEEEEEE
Confidence            45 79999999999999999     56789997  8999999999999999       9999999998      679999


Q ss_pred             Ee
Q 041424           69 FC   70 (148)
Q Consensus        69 ~~   70 (148)
                      ++
T Consensus       101 lr  102 (126)
T 1se9_A          101 IQ  102 (126)
T ss_dssp             EC
T ss_pred             ec
Confidence            88

>3u5e_m 60S ribosomal protein L40; translation, ribosome, ribosomal R ribosomal protein, STM1, eukaryotic ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 3u5i_m 4b6a_m 4a18_K 4a19_K 4a1b_K 4a1d_K 4adx_5 3izc_p 3izs_p 3iz5_p 3izr_p

Probab=99.56  E-value=2.2e-16  Score=111.32  Aligned_cols=62  Identities=47%  Similarity=0.745  Sum_probs=0.0

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|++++||++||++|++.+|+|+++|+|+|+|+.|+|+.       +|++|||.+|++|+|+++
T Consensus        11 ~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~-------tL~~~~I~~gsti~l~~r   72 (128)
T 3u5e_m           11 KTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGR-------TLSDYNIQKESTLHLVLR   72 (128)
T ss_dssp             ---------------------------------------------------------------------
T ss_pred             CEEEEEeCCCCCHHHHHHHHHHHhCcChHHEEEEECCEECCCCC-------chhhhccCCCCEEEEEEE
Confidence            46889999999999999999999999999999999999999999       999999999999999999

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

Probab=99.55  E-value=3.6e-15  Score=99.00  Aligned_cols=62  Identities=16%  Similarity=0.291  Sum_probs=59.4

Q ss_pred             eEEEE-EEcCCCcHHHHHHHHHhhhCCCCcccEEE---EcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTL-NVEKSETIKNLKGMVHEKEGTSEDIQDLF---FAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l-~v~~~~tV~~lK~~i~~~~gip~~~Q~L~---~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +++++ ++++++||.+||++|++.+|+|+++|+|+   |+|+.|+|+.       +|++|+|+++++|+|+..
T Consensus        17 ~~~~i~~v~~~~TV~~lK~~I~~~~gip~~~QkLi~~k~~Gk~L~D~~-------~L~~~~i~~g~~l~l~~~   82 (90)
T 1v5t_A           17 QEYSVTTLSEDDTVLDLKQFLKTLTGVLPERQKLLGLKVKGKPAENDV-------KLGALKLKPNTKIMMMGT   82 (90)
T ss_dssp             EEEEECSCCSSSBHHHHHHHHHHHTCCCTTTCEEESCEETTEECCTTS-------BHHHHTCCTTEEEEEECC
T ss_pred             EEEEEEEeCCCCCHHHHHHHHHHHHCcCHHHeEEEeeccCCcCcCCCC-------CHHHcCCCCCCEEEEEec
Confidence            56888 99999999999999999999999999999   9999999999       999999999999999887

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

Probab=99.55  E-value=8.5e-15  Score=104.63  Aligned_cols=62  Identities=47%  Similarity=0.745  Sum_probs=60.2

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +++++++++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.       +|++||++++++|+++.+
T Consensus        87 ~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~qrL~~~g~~L~d~~-------tL~~~~i~~~~~i~l~~r  148 (152)
T 3b08_A           87 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGR-------TLSDYNIQKESTLHLVLR  148 (152)
T ss_dssp             CEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTS-------BTGGGTCCTTCEEEEEEC
T ss_pred             CEEEEEeCCCCcHHHHHHHHHHHhCcChhhEEEEECCEECCCCC-------CHHHcCCCCCCEEEEEEe
Confidence            47899999999999999999999999999999999999999999       999999999999999998

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

Probab=99.55  E-value=6.4e-15  Score=102.05  Aligned_cols=64  Identities=17%  Similarity=0.281  Sum_probs=61.0

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEeeee
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFCAIK   73 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~~~~   73 (148)
                      .++++++++.||++||++++...++|+++|+|+|+|+.|.|+.       +|++|||++|.+|||+.++..
T Consensus        28 k~tv~v~~d~TV~dLKe~ls~~~~iP~e~qrLIy~GKiLKD~e-------TL~~~gIk~g~TIhLvi~s~~   91 (118)
T 2daf_A           28 EIVIPFKVDTILKYLKDHFSHLLGIPHSVLQIRYSGKILKNNE-------TLVQHGVKPQEIVQVEIFSTN   91 (118)
T ss_dssp             EEEEEECSSSCSHHHHHHHHHHHTCCTTTEEEEETTEEECSSC-------CHHHHSCCSSCEEEEEEEESC
T ss_pred             EEEEEeCCCCcHHHHHHHHHhhhCCChHHEEEEECCeEcCCcc-------hHHHcCCCCCCEEEEEEecCC
Confidence            5889999999999999999999999999999999999999999       999999999999999999543

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

Probab=99.55  E-value=3.1e-15  Score=101.30  Aligned_cols=59  Identities=17%  Similarity=0.138  Sum_probs=54.4

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhh-hCCCC-cccEEEEcCeecCCCcccccccccccCC--CcccccceeEE
Q 041424            3 TVTLNVEKSETIKNLKGMVHEK-EGTSE-DIQDLFFAGDRLMNGRLIDYEDMALASP--NVKRESTMQLL   68 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~-~gip~-~~Q~L~~~g~~L~d~~~~~~~~~~L~~~--~i~~~s~i~l~   68 (148)
                      ++++++++++||.+||++|++. +|+|| ++|||+|+|+.|+|+.       +|++|  +|+++++|||+
T Consensus        37 ~i~l~v~~~~TV~~LK~~I~~~~~g~pp~~~QrLIy~Gk~L~D~~-------tL~~y~~~I~~~~tihLv   99 (99)
T 2kdb_A           37 DQTISCFLNWTVGKLKTHLSNVYPSKPLTKDQRLVYSGRLLPDHL-------QLKDILRKQDEYHMVHLV   99 (99)
T ss_dssp             CEEEEECTTSBHHHHHHHHHHHSTTCCCTTTCCEEETTEEECTTS-------BTHHHHTTTCSEEEEEEC
T ss_pred             EEEEEcCCCCHHHHHHHHHHHHhcCCCChhhEEEEECCEECCCCC-------CHHHHhcCCCCCCEEEeC
Confidence            5789999999999999999996 57664 9999999999999999       99999  99999999974

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

Probab=99.55  E-value=6.6e-15  Score=100.42  Aligned_cols=63  Identities=25%  Similarity=0.286  Sum_probs=59.9

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEeee
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFCAI   72 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~~~   72 (148)
                      .++++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.       +|++|+|+++++|+|+.+..
T Consensus        28 ~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~-------tL~~~gi~~g~~i~l~~~~~   90 (106)
T 1wx7_A           28 KEDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPD-------SLAQCGVRDGLTVHLVIKRQ   90 (106)
T ss_dssp             EEEEEEETTCCHHHHHHHHHHHHTCCTTTEEEEETTEECCTTS-------CHHHHTCCTTEEEEEEECCC
T ss_pred             cEEEEECCCCcHHHHHHHHHHHHCcChhhEEEEECCEECCCcC-------cHHHcCCCCCCEEEEEEcCC
Confidence            3689999999999999999999999999999999999999999       99999999999999999844

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

Probab=99.54  E-value=5.1e-16  Score=112.70  Aligned_cols=62  Identities=47%  Similarity=0.745  Sum_probs=0.0

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.       +|++|+|+++++|+|+++
T Consensus        11 ~~~~l~V~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~-------tL~dygI~~gstL~Lvlr   72 (152)
T 3u5c_f           11 KTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGR-------TLSDYNIQKESTLHLVLR   72 (152)
T ss_dssp             ---------------------------------------------------------------------
T ss_pred             CEEEEEECCCCCHHHHHHHHHHHhCCCHHHEEEEECCEEccccC-------cHHHcCCCCCCEEEEEee
Confidence            46889999999999999999999999999999999999999999       999999999999999999

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

Probab=99.53  E-value=4.4e-15  Score=100.73  Aligned_cols=61  Identities=16%  Similarity=0.212  Sum_probs=57.1

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEE--cCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFF--AGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~--~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +++++++++++||.+||++|++++||||++|+|+|  .|+ |+|+.       +|++|+|++|+++||+++
T Consensus        19 k~~~v~v~~~~TV~~LK~~I~~~tgIpp~~QkLi~~~~gk-L~D~~-------tLs~~~I~~gstL~lvl~   81 (100)
T 2dzm_A           19 RNVDVVLEDTCTVGEIKQILENELQIPVSKMLLKGWKTGD-VEDST-------VLKSLHLPKNNSLYVLTP   81 (100)
T ss_dssp             CEEEEEEETTSBHHHHHHHHHHHHCCCTTTCCEECCSSSC-CCTTS-------BHHHHCCCSEEEEEECCS
T ss_pred             eEEEEEECCCCcHHHHHHHHHHHHCCChhHeEEEccCCCC-CCCcC-------CHHHcCCCCCCEEEEEec
Confidence            57899999999999999999999999999999986  555 99999       999999999999999887

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

Probab=99.53  E-value=7.8e-15  Score=103.21  Aligned_cols=63  Identities=17%  Similarity=0.230  Sum_probs=57.8

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHh------hhCCC--CcccEEEEcCeecCCCcccccccccccCCCccccc--ceeEEEee
Q 041424            2 KTVTLNVEKSETIKNLKGMVHE------KEGTS--EDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRES--TMQLLFCA   71 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~------~~gip--~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s--~i~l~~~~   71 (148)
                      ++++++|+|++||++||++|++      ++|+|  +++|||+|+|+.|+|+.       +|++|+|+.++  ++||++++
T Consensus        28 ~~~~lev~~s~TV~~lK~~I~~~~p~dwke~ip~~~~~qrLIy~GK~LeD~~-------TL~~y~I~~~~~~tlhlv~r~  100 (125)
T 2gow_A           28 KTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNV-------TLGALKLPFGKTTVMHLVARE  100 (125)
T ss_dssp             CEEEEEECTTSBHHHHHHHHHSSCCCSCCCCTTCCGGGEEEESSSSEEESSC-------BTGGGCCCTTSEEEEEEEECS
T ss_pred             CEEEEEeCCccHHHHHHHHHHHHCCcccccCCCCChHHEEEEECCcCCCCCC-------cHHHcCCCCCCceEEEEEecC
Confidence            5789999999999999999999      78984  89999999999999999       99999999766  78888883

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

Probab=99.52  E-value=1.3e-14  Score=96.44  Aligned_cols=62  Identities=21%  Similarity=0.342  Sum_probs=57.9

Q ss_pred             eEEEEEEcCC-----CcHHHHHHHHHhhhCCCCcccEEEEcCeecCC-CcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKS-----ETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMN-GRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~-----~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d-~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++++++     +||.+||++|++.+|+|+++|+|+|+|+.|.| +.       +|++|+|+++++|+|+.+
T Consensus        17 ~~~~i~v~~~~~~~~~TV~~LK~~i~~~~gip~~~qrL~~~Gk~L~D~~~-------~L~~~~i~~g~~i~l~~~   84 (92)
T 1wxv_A           17 EKHDLHVTSQQGSSEPVVQDLAQVVEEVIGVPQSFQKLIFKGKSLKEMET-------PLSALGIQDGCRVMLIGK   84 (92)
T ss_dssp             SEEEEEECCCSSSSSCBHHHHHHHHHHHTCCCTTTCEEEETTEEECCSSS-------BHHHHTCCSSEEEEEESC
T ss_pred             EEEEEEECCCcCcccCcHHHHHHHHHHHHCcCHHHEEEEECCeecCCCcc-------cHHHCCCCCCCEEEEEec
Confidence            4678999995     99999999999999999999999999999988 66       899999999999999887

>1v6e_A Cytoskeleton-associated protein 1; tubulin-specific chaperone B, tubulin folding cofactor B, microtubule, ubiquitin-like fold, structural genomics; NMR {Mus musculus} SCOP: d.15.1.1

Probab=99.52  E-value=2.2e-14  Score=96.08  Aligned_cols=61  Identities=16%  Similarity=0.102  Sum_probs=55.5

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcC---ee----cCCCcccccccccccCCCcccccceeEEEe
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAG---DR----LMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g---~~----L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      .+++++++++||++||++|+.++|+|+++|||+|.|   +.    ++|+.       +|++|||++|++||++-.
T Consensus        20 ~~~~~v~~~~TV~~lK~ki~~~~gip~~~qrL~~~~~~g~~~~~l~~D~~-------tL~~y~i~~g~~l~v~d~   87 (95)
T 1v6e_A           20 RSEKRYSRSLTIAEFKCKLELVVGSPASCMELELYGADDKFYSKLDQEDA-------LLGSYPVDDGCRIHVIDH   87 (95)
T ss_dssp             CEEEEECTTSBHHHHHHHHHHHTCSCTTTCBCEEECSSSCEEEECCCSSS-------BTTSSSCCTTCEEEEBCC
T ss_pred             eEEEEcCccCHHHHHHHHHHHHHCCCHHHeEEEEeCCCCccccccCCCcC-------CHhHCCCCCCCEEEEEEC
Confidence            478899999999999999999999999999999987   43    57888       999999999999998764

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

Probab=99.51  E-value=2.2e-14  Score=96.41  Aligned_cols=63  Identities=14%  Similarity=0.173  Sum_probs=58.3

Q ss_pred             eEE-EEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEeee
Q 041424            2 KTV-TLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFCAI   72 (148)
Q Consensus         2 ~~~-~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~~~   72 (148)
                      +++ ++++++++||.+||++|++.+|+|+++|+|+|.|+.|.|+        +|++|||+++++|+|+..+.
T Consensus        17 ~~~~~l~v~~~~TV~~lK~~I~~~tgip~~~QkLi~~Gk~L~D~--------tL~~~~I~~g~~i~l~~~~~   80 (96)
T 1wgg_A           17 EKFEGVELNTDEPPMVFKAQLFALTGVQPARQKVMVKGGTLKDD--------DWGNIKMKNGMTVLMMGSAD   80 (96)
T ss_dssp             EEEEEEEEESSSCHHHHHHHHHHHTCCCTTTSCCEETTEECCSS--------CCCSCCCCSSCEEECCCCCC
T ss_pred             EEEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCcCCCCC--------CHHHCCCCCCCEEEEEecch
Confidence            567 5999999999999999999999999999999999999875        89999999999999998743

>1v86_A DNA segment, CHR 7, wayne state university 128, expressed; ubiquitin fold, structural genomics, D7WSU128E protein; HET: DNA; NMR {Mus musculus} SCOP: d.15.1.1

Probab=99.51  E-value=6.9e-15  Score=98.66  Aligned_cols=61  Identities=16%  Similarity=0.220  Sum_probs=57.9

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +++++++++++||.+||++|++.+|+|+++|+|+|.|+.| |+.       +|++|+|+++++|+|+..
T Consensus        27 ~~~~i~v~~~~TV~~LK~~I~~~tgip~~~QrL~~~Gk~L-dd~-------tL~~~~i~~g~~i~lv~~   87 (95)
T 1v86_A           27 TKHDVKVPLDSTGSELKQKIHSITGLPPAMQKVMYKGLVP-EDK-------TLREIKVTSGAKIMVVGS   87 (95)
T ss_dssp             EEEEEEECTTSBHHHHHHHHHHHHCSCSTTCCCBSSSBCC-SSS-------BHHHHCCCTTEEEEECCS
T ss_pred             EEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCeeC-CcC-------cHHHCCCCCCCEEEEEec
Confidence            5788999999999999999999999999999999999999 677       999999999999999876

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

Probab=99.51  E-value=3.6e-15  Score=102.00  Aligned_cols=62  Identities=15%  Similarity=0.256  Sum_probs=57.7

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCc---------------ccEEEEcCeecC-CCcccccccccccCCCcccccce
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSED---------------IQDLFFAGDRLM-NGRLIDYEDMALASPNVKRESTM   65 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~---------------~Q~L~~~g~~L~-d~~~~~~~~~~L~~~~i~~~s~i   65 (148)
                      ++++++|++++||.+||++|++++|+|+.               +|+|+|+|+.|. |+.       +|++|||+++++|
T Consensus        18 ~~~~v~V~~~~TV~dLK~~I~~~~~i~~~~q~g~~~isw~~~w~q~~Li~~Gk~L~dD~~-------tL~dygI~~g~~l   90 (105)
T 1v2y_A           18 EVMPVVVVQNATVLDLKKAIQRYVQLKQEREGGVQHISWSYVWRTYHLTSAGEKLTEDRK-------KLRDYGIRNRDEV   90 (105)
T ss_dssp             CEEEEEECTTCBHHHHHHHHHHHHHHHHHHTTCCCCCCHHHHHTTEEEESSSCEECCSSS-------BHHHHTCCSSEEE
T ss_pred             CEEEEEECCCChHHHHHHHHHHHhCCCcccccCcceeeeeecceeEEEEeCCcCccCCcC-------CHHHcCCCCCCEE
Confidence            57999999999999999999999999984               569999999996 568       9999999999999


Q ss_pred             eEEEe
Q 041424           66 QLLFC   70 (148)
Q Consensus        66 ~l~~~   70 (148)
                      |++.+
T Consensus        91 ~lv~~   95 (105)
T 1v2y_A           91 SFIKK   95 (105)
T ss_dssp             EEEEC
T ss_pred             EEEeh
Confidence            99998

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

Probab=99.49  E-value=6.2e-14  Score=93.58  Aligned_cols=61  Identities=18%  Similarity=0.215  Sum_probs=57.2

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCC-cccccccccccCCCcccccceeEEEeee
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNG-RLIDYEDMALASPNVKRESTMQLLFCAI   72 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~-~~~~~~~~~L~~~~i~~~s~i~l~~~~~   72 (148)
                      ++++++|++++||.+||++|++.+   +++|+|+|+|+.|+|+ .       +|++|+|+++++|||+.+..
T Consensus        18 ~~~~~~v~~~~TV~~LK~~i~~~~---~~~qrLi~~Gk~L~D~~~-------tL~~y~i~~g~~i~l~~~~~   79 (95)
T 1wia_A           18 TEELAVARPEDTVGTLKSKYFPGQ---ESQMKLIYQGRLLQDPAR-------TLSSLNITNNCVIHCHRSPP   79 (95)
T ss_dssp             EEEEEEECSSSBHHHHHHHHSSST---TTTCEEEETTEECCCSSC-------BTTTTTCCTTEEEEEECCCC
T ss_pred             CEEEEEECCCCcHHHHHHHHHhhC---cCcEEEEECCEEccCCcC-------CHHHcCCCCCCEEEEEECCC
Confidence            468899999999999999999998   8999999999999999 9       99999999999999999843

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

Probab=99.48  E-value=3e-14  Score=97.43  Aligned_cols=62  Identities=21%  Similarity=0.263  Sum_probs=56.9

Q ss_pred             eEEEEE--------EcCC-CcHHHHHHHHHhhh--CCCCcc-cEEEEcCeecCCCcccccccccccCCCcccccceeEEE
Q 041424            2 KTVTLN--------VEKS-ETIKNLKGMVHEKE--GTSEDI-QDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLF   69 (148)
Q Consensus         2 ~~~~l~--------v~~~-~tV~~lK~~i~~~~--gip~~~-Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~   69 (148)
                      ++++++        |+++ +||.+||++|++.+  |+|+++ |+|+|+|+.|+|+.       +|++|+++++++|||+.
T Consensus        26 ~~~~l~v~~~~~~~v~~~~~TV~~LK~~i~~~~~~gip~~~~qrLi~~Gk~L~D~~-------tL~~y~i~~g~~i~lv~   98 (107)
T 1x1m_A           26 PKSILQLPETELGEYSLGGYSISFLKQLIAGKLQESVPDPELIDLIYCGRKLKDDQ-------TLDFYGIQPGSTVHVLR   98 (107)
T ss_dssp             CCEEECCCCCSSCSSCCCCCBHHHHHHHHHHHCTTTCCCSSSEEEEETTEECCTTC-------BHHHHTCCTTCEEEEEE
T ss_pred             cEEEEEecCccccccCcccCCHHHHHHHHHHHhccCCChhhcEEEEECCeECCCCC-------cHHHcCCCCCCEEEEEe
Confidence            356777        4454 99999999999999  999999 99999999999999       99999999999999998


Q ss_pred             e
Q 041424           70 C   70 (148)
Q Consensus        70 ~   70 (148)
                      +
T Consensus        99 ~   99 (107)
T 1x1m_A           99 K   99 (107)
T ss_dssp             S
T ss_pred             C
Confidence            8

>1t0y_A Tubulin folding cofactor B; ubiquitin-like, cytoskeleton, microtubule, CESG, structural genomics, protein structure initiative, PSI; NMR {Caenorhabditis elegans} SCOP: d.15.1.1

Probab=99.47  E-value=1.1e-13  Score=96.72  Aligned_cols=61  Identities=11%  Similarity=0.119  Sum_probs=55.6

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcC---e---e-cCCCcccccccccccCCCcccccceeEEEe
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAG---D---R-LMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g---~---~-L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      .+++++++++||++||++|+..+|+||++|||+|.|   +   . ++|+.       +|++|||++|++|||+..
T Consensus        19 ~~e~~v~~~~TV~~lK~ki~~~~Gip~~~qrL~~~g~~~~~~~~l~~D~~-------tL~~y~i~~g~~ihvvd~   86 (122)
T 1t0y_A           19 PMEKKYPAGMSLNDLKKKLELVVGTTVDSMRIQLFDGDDQLKGELTDGAK-------SLKDLGVRDGYRIHAVDV   86 (122)
T ss_dssp             CEEEEEETTSBHHHHHHHHHHHHCCCTTTEEEEEECSSSSEEEECCCCSS-------BTTTTTCCSSEEEEEEEC
T ss_pred             cEEEEeCCCCcHHHHHHHHHHHhCCCHHHeEEEEecCCCccccccCCCcC-------CHHHCCCCCCCEEEEEeC
Confidence            478899999999999999999999999999999987   3   3 47888       999999999999999875

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

Probab=99.43  E-value=1.3e-13  Score=91.29  Aligned_cols=56  Identities=23%  Similarity=0.250  Sum_probs=52.1

Q ss_pred             EE-EEcCCCcHHHHHHHHHhh-hCCCCcccEEEEc--CeecCCCcccccccccccCCCcccccceeE
Q 041424            5 TL-NVEKSETIKNLKGMVHEK-EGTSEDIQDLFFA--GDRLMNGRLIDYEDMALASPNVKRESTMQL   67 (148)
Q Consensus         5 ~l-~v~~~~tV~~lK~~i~~~-~gip~~~Q~L~~~--g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l   67 (148)
                      ++ +|+|++||.+||++|++. .|+||++|||+|.  |+.|+|+.       +|++|+|.++++|++
T Consensus        26 ~l~~v~~~~TV~~lK~~I~~~~~~i~~~~QrL~~~~~Gk~L~D~~-------tL~~y~i~~~stl~~   85 (88)
T 2dzj_A           26 FLDKVEPHATIAEIKNLFTKTHPQWYPARQSLRLDPKGKSLKDED-------VLQKLPVGTTATLYF   85 (88)
T ss_dssp             EEEEECSSCBHHHHHHHHHHHCSSSCTTTCCEESSTTSCCCCTTC-------BTTTSSCCSEEEEEE
T ss_pred             EEeEcCCCCcHHHHHHHHHHHhcCCChHHeEEEecCCCcCcCCCC-------CHHHcCCCCCCEEEE
Confidence            57 899999999999999994 8999999999976  89999999       999999999998764

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

Probab=99.40  E-value=4.4e-13  Score=106.96  Aligned_cols=62  Identities=47%  Similarity=0.745  Sum_probs=59.2

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.       +|++|+|+++++|+|++|
T Consensus       244 k~~~leV~~s~TV~dLK~kI~~~~GIp~~~QRLi~~Gk~L~D~~-------TLsdygI~~gstL~LvlR  305 (307)
T 3ai5_A          244 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGR-------TLSDYNIQKESTLHLVLR  305 (307)
T ss_dssp             CEEEEEECTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTS-------BTGGGTCCTTCEEEEEC-
T ss_pred             CEEEEEECCCCcHHHHHHHHHHHHCcChHHEEEEeCCeecCCCC-------CHHHcCCCCCCEEEEEEe
Confidence            57899999999999999999999999999999999999999999       999999999999999987

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

Probab=99.38  E-value=3e-13  Score=88.77  Aligned_cols=70  Identities=19%  Similarity=0.180  Sum_probs=51.7

Q ss_pred             cccccceeEEEeeeeeccccccCCchhhhhheeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCe
Q 041424           59 VKRESTMQLLFCAIKVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGM  121 (148)
Q Consensus        59 i~~~s~i~l~~~~~~~~~~~~~~p~~~~~~~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~  121 (148)
                      ..++++++++.+                ....|+|+||..+|+.+.++|+       +|++|++          |+|+|+
T Consensus         2 ~~~~~~~~~~~~----------------~~~~m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~qrLi~~Gk   65 (88)
T 4eew_A            2 MEPNDSTSTAVE----------------EPDSLEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGR   65 (88)
T ss_dssp             -----------------------------CCEEEEEEEETTSCEEEEEEETTCBHHHHHHHHHHHHTCCGGGEEEEETTE
T ss_pred             CCCCCceEEeec----------------CCCeEEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHhCCCHHHEEEEECCE
Confidence            345666666665                4456899999999999888777       8888885          999999


Q ss_pred             eeCCCCchhhhCCCCCCEEEEEee
Q 041424          122 KLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus       122 ~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      .|+|+.+|++||| +|++|||++|
T Consensus        66 ~L~D~~tL~~~~i-~g~~i~lv~R   88 (88)
T 4eew_A           66 VLQDDKKLQEYNV-GGKVIHLVER   88 (88)
T ss_dssp             ECCTTSBGGGGTC-TTEEEEEEEC
T ss_pred             ECCCCCcHHHcCC-CCcEEEEEEC
Confidence            9999999999999 8999999986

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

Probab=99.38  E-value=3.8e-14  Score=105.96  Aligned_cols=57  Identities=19%  Similarity=0.211  Sum_probs=0.0

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++|+|++++||.+||++|++.+|+|+++|+|+|+|++|+|+.       +|+     ++++|||+++
T Consensus        11 ktitLeV~~sdTV~~LK~kI~~keGIP~~qQRLIf~GK~LeD~~-------TLs-----~~STLhLvlR   67 (189)
T 2xzm_9           11 ETKIYTLEQGTSVLDLKSQISQDMGFEIDMMTLVNNGFIAPNTE-------LVT-----DDVTYYLSLK   67 (189)
T ss_dssp             ---------------------------------------------------------------------
T ss_pred             CEEEEEECCcChHHHHHHHHHHHhCcChhHEEEEecCeECCCCC-------ccc-----CCCEEEEEEe
Confidence            47899999999999999999999999999999999999999999       998     8999999999

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

Probab=99.36  E-value=5.4e-13  Score=107.17  Aligned_cols=65  Identities=12%  Similarity=0.248  Sum_probs=59.0

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEE---EcCeecCCCcccccccccccCCCcccccceeEEEeeee
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLF---FAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFCAIK   73 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~---~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~~~~   73 (148)
                      +++++++++++||++||++|++.+||||++|+|+   |+|+.|.|+.       +|++|||++|++|+|+..+..
T Consensus        15 ~~~~v~v~~~~Tv~~lK~~I~~~tgVpp~~QkLi~~k~~Gk~l~D~~-------~L~~~~ik~g~~l~L~gs~~~   82 (320)
T 3shq_A           15 KEYPVDLTDQDTVEVLRHEIFRKTQVRPERQKLLNLKYKGKTAADNV-------KISALELKPNFKLMMVGSTEA   82 (320)
T ss_dssp             EEEEEEEETTSBHHHHHHHHHHHHCCCGGGCEETTCBSSSSBCCTTS-------BTTSSCCC--CEEEEECCCC-
T ss_pred             EEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEeecccCCcccCccc-------cHHHcCCCCCCEEEEEccchh
Confidence            5789999999999999999999999999999999   8999999999       999999999999999987543

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

Probab=99.32  E-value=8.7e-13  Score=90.17  Aligned_cols=61  Identities=16%  Similarity=0.146  Sum_probs=55.8

Q ss_pred             EEEEEEc-CCCcHHHHHHHHHhhhCCCCcccEEEEcCe-----------e----cCCCcccccccccccCCCccccccee
Q 041424            3 TVTLNVE-KSETIKNLKGMVHEKEGTSEDIQDLFFAGD-----------R----LMNGRLIDYEDMALASPNVKRESTMQ   66 (148)
Q Consensus         3 ~~~l~v~-~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~-----------~----L~d~~~~~~~~~~L~~~~i~~~s~i~   66 (148)
                      +.+++|+ +++||.+||++|++++|+|+++|+|+|.|+           .    ++|+.       +|++|||++|++||
T Consensus        18 ~~~v~v~~~~~Tv~~LK~kI~~~~gip~~~QrL~~~~~~~~~k~~~~~~~l~~~l~d~~-------tL~~~gi~~G~~L~   90 (107)
T 1wf9_A           18 LERVSVDGPHITVSQLKTLIQDQLQIPIHNQTLSTNRNLLLAKSPSDFLAFTDMADPNL-------RISSLNLAHGSMVY   90 (107)
T ss_dssp             EEEEEECCTTSBHHHHHHHHHHHSCCCTTTCCCBSSGGGGTCCSHHHHTTCCSSCCTTC-------BGGGTCCCTTCEEE
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHhCcCcccCEEEECCccccccCccccccccccCCCCC-------CHHHCCCCCCCEEE
Confidence            3578999 999999999999999999999999998888           4    47888       99999999999999


Q ss_pred             EEEe
Q 041424           67 LLFC   70 (148)
Q Consensus        67 l~~~   70 (148)
                      |...
T Consensus        91 l~~~   94 (107)
T 1wf9_A           91 LAYE   94 (107)
T ss_dssp             CCCS
T ss_pred             EEeC
Confidence            9876

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

Probab=99.30  E-value=1.6e-12  Score=86.69  Aligned_cols=55  Identities=22%  Similarity=0.230  Sum_probs=51.4

Q ss_pred             heeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEE
Q 041424           89 LKVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACF  143 (148)
Q Consensus        89 ~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~  143 (148)
                      ..|+|+||+.+|++++++++       +|++|++          |+|+|++|+|+.||++|+|++|++|+|.
T Consensus        20 ~mIqI~Vk~~~Gkk~~v~v~p~DTI~~LK~~I~~k~Gip~~qQrLif~Gk~LkD~~TL~dY~I~dgstLhL~   91 (93)
T 3plu_A           20 HMIEVVVNDRLGKKVRVKCLGEDSVGDFKKVLSLQIGTQPNKIVLQKGGSVLKDHISLEDYEVHDQTNLELY   91 (93)
T ss_dssp             CEEEEEEECTTSCEEEEEEETTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEE
T ss_pred             ceEEEEEECCCCCEEEEEECCcCHHHHHHHHHHHHhCCCHHHEEEEeCCEEccCcCCHHHcCCCCCCEEEEE
Confidence            45899999999999999988       9999986          9999999999999999999999999985

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

Probab=99.30  E-value=2.3e-12  Score=82.83  Aligned_cols=57  Identities=21%  Similarity=0.215  Sum_probs=51.9

Q ss_pred             heeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           89 LKVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        89 ~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      ..|+|+||..+|+++.++|+       +|++|++          |+|+|+.|+|+.+|++|||++|++|+++++
T Consensus         3 ~~m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~qrL~~~G~~L~d~~tL~~~~i~~~~~l~l~~r   76 (79)
T 3phx_B            3 EPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNLR   76 (79)
T ss_dssp             CCEEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEEC
T ss_pred             CCEEEEEEeCCCCEEEEEECCcChHHHHHHHHHhhcCCCHHHEEEEECCEECCCCCcHHHCCCCCCCEEEEEEe
Confidence            34889999999999988877       8888875          999999999999999999999999999986

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

Probab=99.30  E-value=2e-12  Score=105.52  Aligned_cols=63  Identities=19%  Similarity=0.299  Sum_probs=58.0

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHh---hhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccce-eEEEee
Q 041424            2 KTVTLNVEKSETIKNLKGMVHE---KEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTM-QLLFCA   71 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~---~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i-~l~~~~   71 (148)
                      ++++++|++++||.+||++|+.   ++|+|+++|||+|+|+.|+|+.       +|++|+|+++++| +|+.+.
T Consensus        18 k~~~leV~~~~TV~~LK~~I~~~~~~~gip~~~QrLiy~GK~L~D~~-------tL~dygI~~gstIv~lv~k~   84 (368)
T 1oqy_A           18 QTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDV-------PIRDYRIDEKNFVVVMVTKT   84 (368)
T ss_dssp             EEEEECCCTTCBHHHHHHHHHHHTCSSSCCSTEEEEESSSSEECSSS-------BTTTTCCCTTSCEEEEEECC
T ss_pred             CEEEEEeCCCChHHHHHHHHHHHhCcCCCChhheEEEECCeecCCcC-------CHHHcCCCCCCEEEEEEecC
Confidence            5789999999999999999999   6789999999999999999999       9999999999999 555554

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

Probab=99.28  E-value=2.2e-12  Score=85.33  Aligned_cols=59  Identities=29%  Similarity=0.475  Sum_probs=53.4

Q ss_pred             hhheeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           87 LKLKVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        87 ~~~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      ....|+|+||..+|+++.++|+       +|++|++          |+|+|+.|+|+.+|++|||++|++|+++++
T Consensus        14 ~~~~m~i~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~i~l~~r   89 (91)
T 3v6c_B           14 PRGSMQIFVNTLTGTHITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR   89 (91)
T ss_dssp             CCCSEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTCBTGGGTCCTTCEEEEECC
T ss_pred             CCCeEEEEEEeCCCCEEEEEECCCCCHHHHHHHHHhhhCCChhhEEEEECCeECCCcCcHHHCCCCCCCEEEEEEe
Confidence            3456999999999999988877       8988886          999999999999999999999999999986

>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=99.26  E-value=1.4e-11  Score=82.48  Aligned_cols=62  Identities=16%  Similarity=0.256  Sum_probs=60.2

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +++.+.|.+++++..|+++.+++.|+|+++||++|.|++|.++.       |.++|++.++++|+++.+
T Consensus        18 ~~i~~~v~~~t~l~kl~~~y~~~~gi~~~~~rf~FdG~~l~~~~-------Tp~dl~medgD~Idv~~~   79 (94)
T 2io1_B           18 SVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETD-------TPAQLEMEDEDTIDVFQQ   79 (94)
T ss_dssp             CEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTC-------CTTTTTCCTTCEEEEEEC
T ss_pred             CEEEEEECCCCHHHHHHHHHHHHhCCCcccEEEEECCEEcCCCC-------CHHHcCCCCCCEEEEEEe
Confidence            46899999999999999999999999999999999999999999       999999999999999998

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

Probab=99.26  E-value=4.6e-12  Score=81.11  Aligned_cols=57  Identities=19%  Similarity=0.310  Sum_probs=50.4

Q ss_pred             heeeeeeeeeeeeee-ehh-hh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           89 LKVKIFVKMLTEEIV-KLK-VK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        89 ~~i~I~Vk~~~gk~~-~l~-v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      |+|+|+|+..+|+.+ .++ |+       +|++|++          |+|+|+.|+|+++|++|||++|++|+++++
T Consensus         1 g~m~i~Vk~~~g~~~~~l~~v~~~~tv~~lK~~i~~~~gip~~~qrL~~~g~~L~d~~tL~~~~i~~g~~i~l~~r   76 (78)
T 2faz_A            1 GSMWIQVRTMDGRQTHTVDSLSRLTKVEELRRKIQELFHVEPGLQRLFYRGKQMEDGHTLFDYEVRLNDTIQLLVR   76 (78)
T ss_dssp             -CEEEEEEETTSSCEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTCBTTTTTCCTTCEEEEEEC
T ss_pred             CcEEEEEEECCCCEEEEEeccCCCCCHHHHHHHHHHHHCcChhhEEEEECCEECCCCCCHHHcCCCCCCEEEEEEe
Confidence            468899999989885 777 66       8888886          999999999999999999999999999986

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

Probab=99.22  E-value=9.2e-12  Score=81.97  Aligned_cols=55  Identities=22%  Similarity=0.341  Sum_probs=50.4

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      |+|+||..+|+++.++|+       +|++|++          |+|+|+.|+|+.+|++|+|++|++|+|+++
T Consensus         1 M~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~~i~~g~~l~l~~r   72 (88)
T 4fbj_B            1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLA   72 (88)
T ss_dssp             CEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTSBTTTTTCCTTCEEEEECB
T ss_pred             CEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHHCcChhHEEEEECCeECCCCCcHHHcCCCCCCEEEEEEE
Confidence            578999999999988877       8888885          999999999999999999999999999986

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

Probab=99.22  E-value=6.8e-12  Score=84.89  Aligned_cols=56  Identities=16%  Similarity=0.151  Sum_probs=51.3

Q ss_pred             heeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEe
Q 041424           89 LKVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFI  144 (148)
Q Consensus        89 ~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l  144 (148)
                      ..|+|+||+.+|+++.++|+       ||++|++          |+|+|+.|+|++||.+|+|++|++|+|+-
T Consensus        27 ~mm~I~VKtl~Gk~i~lev~p~dTV~~lK~~Ia~k~Gip~~qQrLi~~Gk~L~D~~TL~dygI~~gstlhL~~   99 (100)
T 1uh6_A           27 TMIEVVCNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTRWNKIVLKKWYTIFKDHVSLGDYEIHDGMNLELYY   99 (100)
T ss_dssp             CEEEEEEECSSSSCEEEEEETTSBHHHHHHHHHHHHCCCGGGCEEEETTEECCSSCBHHHHTCCTTEEEEEEC
T ss_pred             CeEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCHHHEEEEECCEECCCCCCHHHcCCCCCCEEEEEe
Confidence            34899999999999998887       9999986          99999999999999999999999999873

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

Probab=99.22  E-value=8.4e-12  Score=81.70  Aligned_cols=56  Identities=21%  Similarity=0.284  Sum_probs=51.6

Q ss_pred             eeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCee-eCCCCchhhhCCCCCCEEEEEee
Q 041424           90 KVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMK-LKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        90 ~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~-L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      -|+|+|+..+|+++.++|+       +|++|++          |+|+|+. |+|+++|++|||++|++|+|+++
T Consensus        10 ~~~i~vk~l~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~lL~D~~tL~~y~I~~gs~i~lv~~   83 (84)
T 2kk8_A           10 HMKFLVENLNGSSFELEVDYRDTLLVVKQKIERSQHIPVSKQTLIVDGIVILREDLTVEQCQIVPTSDIQLEVS   83 (84)
T ss_dssp             CEEEEEEETTSCEEEEEECTTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCCSSSBHHHHTCCTTSCEEEEEC
T ss_pred             ceEEEEEecCCcEEEEEECCCChHHHHHHHHHHHHCcChHHEEEEECCEEecCCcCCHHHcCCCCCCEEEEEEc
Confidence            4889999999999988877       9999886          9999999 99999999999999999999875

>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=99.20  E-value=1.2e-11  Score=79.39  Aligned_cols=55  Identities=16%  Similarity=0.265  Sum_probs=50.2

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      |+|+|++.+|+.+.++|+       +|+.+++          |+|+|+.|+|++||++|+|++||+|+++++
T Consensus         4 m~i~vk~~~g~~~~~~v~~~~tv~~lk~~i~~~~gi~~~~qrL~~~G~~L~d~~tl~~~~i~~~~~i~l~~~   75 (79)
T 2uyz_B            4 IKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQE   75 (79)
T ss_dssp             EEEEEECTTCCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCHHHHTCCTTEEEEEEEC
T ss_pred             EEEEEECCCCCEEEEEECCCChHHHHHHHHHHHHCCCcccEEEEECCEEeCCCCCHHHcCCCCCCEEEEEEe
Confidence            678999989998888877       8888875          999999999999999999999999999986

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

Probab=99.20  E-value=1.7e-11  Score=81.47  Aligned_cols=56  Identities=32%  Similarity=0.549  Sum_probs=50.9

Q ss_pred             eeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           90 KVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        90 ~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      ||+|+|+..+|+.+.++|+       ||++|++          |+|+|+.|+|+.+|++|+|++|++|+++++
T Consensus         1 gm~i~vk~~~g~~~~~~v~~~~TV~~LK~~i~~~~gip~~~qrL~~~G~~L~d~~tL~~~~i~~~~~i~l~~r   73 (96)
T 3k9o_B            1 GMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR   73 (96)
T ss_dssp             -CEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEEC
T ss_pred             CcEEEEEeCCCCEEEEEECCCCCHHHHHHHHHhhhCCChhHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEE
Confidence            5889999999999888877       8888886          999999999999999999999999999986

>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=99.19  E-value=1.4e-11  Score=82.57  Aligned_cols=58  Identities=16%  Similarity=0.217  Sum_probs=52.9

Q ss_pred             hheeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           88 KLKVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        88 ~~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      ...|+|+|++.+|+.+.++|+       ||+.|++          |+|+|+.|+|++||++|+|++|++|+++++
T Consensus        19 ~~~m~I~Vk~~~g~~~~l~v~~~~tv~~lK~~i~~~~gip~~~qrLif~Gk~L~d~~tl~dy~i~~g~~I~l~~~   93 (97)
T 1wyw_B           19 GEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQE   93 (97)
T ss_dssp             CCEEEEEEECTTCCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCHHHHTCCTTCEEEEEES
T ss_pred             CCcEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCChhhEEEEECCeEcCCCCCHHHCCCCCCCEEEEEEe
Confidence            346999999999999988887       8888876          999999999999999999999999999986

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

Probab=99.19  E-value=1.4e-11  Score=83.94  Aligned_cols=56  Identities=29%  Similarity=0.421  Sum_probs=50.5

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEeec
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFISD  146 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~~  146 (148)
                      |+|+||..+|+.+.++|+       ||++|++          |+|+|+.|+|+++|++|||++|++|+|+++.
T Consensus         2 m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~~~i~~g~~i~lv~~~   74 (106)
T 3m62_B            2 VSLTFKNFKKEKVPLDLEPSNTILETKTKLAQSISCEESQIKLIYSGKVLQDSKTVSECGLKDGDQVVFMVSQ   74 (106)
T ss_dssp             -CEEEECTTCCEEEECCCTTSBHHHHHHHHHHTTTSCGGGCEEEETTEECCTTSBTTTTTCCTTCEEEEECCC
T ss_pred             EEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCChhhEEEEECCEECCCcCCHHHcCCCCCCEEEEEEcC
Confidence            678999999999988887       8988886          9999999999999999999999999999863

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

Probab=99.19  E-value=1.8e-11  Score=80.58  Aligned_cols=58  Identities=22%  Similarity=0.441  Sum_probs=50.7

Q ss_pred             heeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEeec
Q 041424           89 LKVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFISD  146 (148)
Q Consensus        89 ~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~~  146 (148)
                      .||+|+|+..+|+++.++++       +|++|++          |+|+|+.|+|+.+|++|+|++|++|+++++-
T Consensus         8 ~~~~i~v~~~~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~i~l~~r~   82 (88)
T 1sif_A            8 QGLQLFIKTLTGKTFTVEMEPSDTIENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRL   82 (88)
T ss_dssp             --CEEEEEETTSCEEEEECCTTSBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTSBSGGGTCCTTCEEEEEC--
T ss_pred             cceEEEEEeCCCCEEEEEECCCChHHHHHHHHHHHHCcChhhEEEEECCEECCCCCcHHHcCCCCCCEEEEEEeC
Confidence            57999999999999988877       8888876          9999999999999999999999999999863

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

Probab=99.18  E-value=1.8e-11  Score=80.45  Aligned_cols=56  Identities=23%  Similarity=0.272  Sum_probs=51.1

Q ss_pred             eeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEeec
Q 041424           90 KVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFISD  146 (148)
Q Consensus        90 ~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~~  146 (148)
                      .|+|+||..+|+++.++|+       ||++|++          |+|+|+.|+|+++|++|+| +|++|||+++.
T Consensus         5 ~m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~qrLi~~Gk~L~d~~tL~~~~i-~g~~i~l~~~~   77 (90)
T 4dwf_A            5 SLEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEYNV-GGKVIHLVERA   77 (90)
T ss_dssp             EEEEEEEETTCCEEEEEEETTCBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBGGGGTC-TTEEEEEEECC
T ss_pred             EEEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHhCCCHHHEEEEECCeECCCCCCHHHcCC-CCcEEEEEecC
Confidence            4889999999999988877       8888886          9999999999999999999 89999999874

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

Probab=99.17  E-value=1.9e-11  Score=79.81  Aligned_cols=57  Identities=21%  Similarity=0.297  Sum_probs=52.0

Q ss_pred             heeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           89 LKVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        89 ~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      ..|+|+|+..+|+.+.++|+       +|++|++          |+|+|+.|+|+.+|++|+|++|++|+++++
T Consensus        11 ~~m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~qrL~~~G~~L~d~~tL~~~~i~~~~~i~l~~r   84 (88)
T 3dbh_I           11 GSMLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLR   84 (88)
T ss_dssp             CCEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCCEEETTEECCTTSBGGGGTCCTTCEEEECCC
T ss_pred             CcEEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHHCcCHHHEEEEECCeECCCCCcHHHcCCCCCCEEEEEEe
Confidence            45899999999999888877       8888886          999999999999999999999999999876

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

Probab=99.17  E-value=2.8e-11  Score=81.60  Aligned_cols=59  Identities=15%  Similarity=0.201  Sum_probs=50.6

Q ss_pred             hhheeeeeeeeeeeeeeehhh--h-------Hhhhh-he----------eeecCeeeCCCCchhhhCC-CCCCEEEEEee
Q 041424           87 LKLKVKIFVKMLTEEIVKLKV--K-------VLLTI-RD----------LFCTGMKLKDCKTLACYGV-KDDRGVACFIS  145 (148)
Q Consensus        87 ~~~~i~I~Vk~~~gk~~~l~v--~-------lK~~i-~e----------L~f~g~~L~d~~tL~~y~I-~~gstI~l~l~  145 (148)
                      ..+.|+|+||+.+|+++++++  .       +|++| ++          |+|+|+.|+|+.+|++|+| ++|++|+|+++
T Consensus        16 ~~~~m~I~VKtl~g~~~~i~v~v~~~~TV~~lK~~I~~~~~gip~~~QrLi~~Gk~L~D~~tL~dy~I~~~g~ti~lmvs   95 (98)
T 4a20_A           16 DNAAVHLTLKKIQAPKFSIEHDFSPSDTILQIKQHLISEEKASHISEIKLLLKGKVLHDNLFLSDLKVTPANSTITVMIK   95 (98)
T ss_dssp             --CCEEEEEEECSSSCEEEEEEECTTCBHHHHHHHHHHTTSCSCGGGEEEEETTEEECTTCBGGGSCCBTTBCEEEEEEC
T ss_pred             CCCCEEEEEEcCCCCEEEEEEecCCCChHHHHHHHHHHHhcCCChhhEEEEECCEECcCcCCHHHcCcCCCCCEEEEEEe
Confidence            446699999999999877744  2       99998 53          9999999999999999999 99999999986

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

Probab=99.17  E-value=6.2e-11  Score=79.35  Aligned_cols=61  Identities=13%  Similarity=0.127  Sum_probs=52.6

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcC-------eec-CCCcccccccccccCCCcccccceeEEEe
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAG-------DRL-MNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g-------~~L-~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      .+...+++++||++||.+|+..+|+|+..|+|+|.+       ..| +|..       +|++|++.+|++||+...
T Consensus        24 ~~e~~l~~~~TV~~LK~~i~~~~gip~~~q~L~~~~~~~~~~~~~L~~d~~-------~L~~y~i~~G~~I~V~d~   92 (97)
T 1wjn_A           24 ILEKQLPDSMTVQKVKGLLSRLLKVPVSELLLSYESSKMPGREIELENDLQ-------PLQFYSVENGDCLLVRWS   92 (97)
T ss_dssp             CEEEEEETTSBHHHHHHHHHTTTTCCTTTCEEEEECTTSCSCEEECCCSSS-------BSGGGTCCTTCEEEEECC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCChhHeEEEEEcCCCCceeeccCCCcc-------cHhhcCCCCCCEEEEEec
Confidence            456778899999999999999999999999999873       225 4556       999999999999998865

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

Probab=99.16  E-value=3.2e-11  Score=76.24  Aligned_cols=56  Identities=21%  Similarity=0.312  Sum_probs=49.4

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEeec
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFISD  146 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~~  146 (148)
                      |+|+|+..+|+.+.++++       +|++|++          |+|+|+.|+|+.+|++|||++|++|+++++-
T Consensus         1 M~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~~i~~~~q~L~~~g~~L~d~~tL~~~~i~~g~~i~l~~~~   73 (76)
T 1ndd_A            1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLAL   73 (76)
T ss_dssp             CEEEEECTTSCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEECC
T ss_pred             CEEEEECCCCCEEEEEECCCChHHHHHHHHHHHHCcChHHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEeC
Confidence            568888888888877776       8888875          9999999999999999999999999999874

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

Probab=99.16  E-value=2.1e-11  Score=80.45  Aligned_cols=55  Identities=16%  Similarity=0.246  Sum_probs=49.3

Q ss_pred             eeeeeeeeeeeeeehhhh---------Hhhhh-he----------eeecCeeeCCCCchhhhCC-CCCCEEEEEee
Q 041424           91 VKIFVKMLTEEIVKLKVK---------VLLTI-RD----------LFCTGMKLKDCKTLACYGV-KDDRGVACFIS  145 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~---------lK~~i-~e----------L~f~g~~L~d~~tL~~y~I-~~gstI~l~l~  145 (148)
                      |+|+||+.+|++++++|+         +|++| ++          |+|+|+.|+|+.+|++|+| ++|++|++.++
T Consensus         2 mqI~VKtl~g~~~~i~v~v~~~~TV~~lK~~I~~~~~gip~~~QrLi~~Gk~L~D~~tL~~y~I~~~~stl~v~~~   77 (87)
T 2lxa_A            2 VHLTLKKIQAPKFSIEHDFSPSDTILQIKQHLISEEKASHISEIKLLLKGKVLHDNLFLSDLKVTPANSTITVMIK   77 (87)
T ss_dssp             CEEEEEECSSSCEECCEECCTTCBHHHHHHHHHHTTSCSSSTTEEEEETTEECCTTCBHHHHCCCGGGCEEEEEEC
T ss_pred             EEEEEEcCCCCEEEEEEcCCCCCcHHHHHHHHHHHhcCCChHHEEEEECCEECcCcCCHHHcCCCCCCCEEEEEcC
Confidence            679999999998887643         99999 64          9999999999999999999 79999999876

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

Probab=99.16  E-value=2.6e-11  Score=81.33  Aligned_cols=58  Identities=31%  Similarity=0.509  Sum_probs=51.9

Q ss_pred             hheeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           88 KLKVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        88 ~~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      ...|+|+||..+|+.+.++|+       ||++|++          |+|+|+.|+|+.+|++|+|++|++|+|+++
T Consensus        20 ~~~m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~~i~~g~~i~l~~r   94 (98)
T 4hcn_B           20 GRPMQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR   94 (98)
T ss_dssp             --CCEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTCBSGGGTCCTTEEEEEECB
T ss_pred             CCeEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHhCCChhHEEEEECCEECCCCCcHHHCCCCCCCEEEEEEe
Confidence            345899999999999988887       8888886          999999999999999999999999999986

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

Probab=99.15  E-value=4.3e-11  Score=78.42  Aligned_cols=60  Identities=12%  Similarity=0.168  Sum_probs=52.9

Q ss_pred             EEEE-EcCCCcHHHHHHHHHhhhCCCCcccEEEEc--CeecC---CCcccccccccccCCCcccccceeEEEe
Q 041424            4 VTLN-VEKSETIKNLKGMVHEKEGTSEDIQDLFFA--GDRLM---NGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         4 ~~l~-v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~--g~~L~---d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ..++ +++++||.+||++|++.+|+|+++|+|+|+  ++.|.   ++.       +|++|||.+|++|++...
T Consensus        12 ~~v~~l~~~~Tv~~Lk~~I~~~~gi~~~~qrL~~~~p~k~l~l~~~~~-------tL~~~gl~~g~~l~v~~~   77 (86)
T 2kzr_A           12 HLLQGLSSRTRLRELQGQIAAITGIAPGSQRILVGYPPECLDLSDRDI-------TLGDLPIQSGDMLIVEED   77 (86)
T ss_dssp             EEECSCCTTCBHHHHHHHHHHHTCCCTTTCCCEESSCCCCCCCCCSSC-------BTTTSSCCTTCEEECCCC
T ss_pred             EEeeecCCCCCHHHHHHHHHHHhCCCccceEEEeCCCCcccccCCCCC-------CHHHcCCCCCCEEEEEeC
Confidence            3466 899999999999999999999999999987  46764   577       999999999999998765

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

Probab=99.15  E-value=1.8e-11  Score=82.80  Aligned_cols=55  Identities=25%  Similarity=0.365  Sum_probs=48.8

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEeec
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFISD  146 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~~  146 (148)
                      +.|+|+. +|+.+.++|+       +|++|++          |+|+|+.|+|+.+|++|||++|++|+|+.++
T Consensus        29 i~I~Vk~-~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~~gI~~g~tI~lv~~~  100 (101)
T 3m63_B           29 LNIHIKS-GQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESYHIQDGHSVHLVKSQ  100 (101)
T ss_dssp             CCEEEEC-SSCCCCBCCCTTSBHHHHHHHHHHHHSCCSTTCCEEETTEECCTTSBTTTTTCCTTEEEEECCCC
T ss_pred             EEEEEEE-CCEEEEEEeCCCCCHHHHHHHHHHHHCcChHHEEEEECCEECCCcCcHHHCCCCCCCEEEEEeCC
Confidence            5667776 8888888877       8988886          9999999999999999999999999999874

>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=99.14  E-value=1.5e-10  Score=77.05  Aligned_cols=62  Identities=16%  Similarity=0.256  Sum_probs=60.0

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +.+.+.|.+++++..|+...+++.|+|+++++++|.|++|.++.       |.++|++.+|++|+++..
T Consensus        16 ~~v~~~vk~~t~l~kl~~~y~~~~gi~~~~~rf~FdG~~l~~~~-------Tp~dl~medgD~Idv~~~   77 (91)
T 2io0_B           16 SVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETD-------TPAQLEMEDEDTIDVFQQ   77 (91)
T ss_dssp             CEEEEEEETTSCTHHHHHHHHHHTTCCSTTEEEEETTEECCTTC-------CTTTTTCCTTEEEEEEEC
T ss_pred             CEEEEEECCCChHHHHHHHHHHHhCCCcccEEEEECCEEcCCCC-------CHHHcCCCCCCEEEEEEe
Confidence            46899999999999999999999999999999999999999999       999999999999999988

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

Probab=99.13  E-value=2.8e-11  Score=79.57  Aligned_cols=56  Identities=21%  Similarity=0.235  Sum_probs=50.8

Q ss_pred             eeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           90 KVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        90 ~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      .|+|+|+..+|+.+.++|+       +|++|++          |+|+|+.|+|+++|++|+|++|++|+++++
T Consensus         4 ~m~I~Vk~~~g~~~~~~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~tL~~~~I~~g~~i~l~~~   76 (88)
T 2hj8_A            4 PLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNLR   76 (88)
T ss_dssp             EEEEEEEETTSCEEEEEEESSSBHHHHHHHHHHHTCSCTTTEEEESSSSCCCTTSBHHHHHCSTTCEEEEEEC
T ss_pred             cEEEEEECCCCCEEEEEECCCCcHHHHHHHHHHHhCCChhHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEE
Confidence            5789999988888888777       8988886          999999999999999999999999999876

>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=99.12  E-value=2.3e-10  Score=76.30  Aligned_cols=62  Identities=16%  Similarity=0.256  Sum_probs=59.6

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +.+.+.|.+++++..|+...+++.|+|+++++++|.|++|.++.       |.++|++.++++|+++..
T Consensus        28 ~~i~~~v~~~t~l~kl~~~y~~~~gi~~~~~rf~fdG~~l~~~~-------Tp~dl~medgD~Idv~~~   89 (93)
T 2d07_B           28 SVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETD-------TPAQLEMEDEDTIDVFQQ   89 (93)
T ss_dssp             CEEEEEEETTSCHHHHHHHHHHHHTCCGGGEEEEETTEECCTTC-------CTTTTTCCTTEEEEEEEC
T ss_pred             CEEEEEEccCCHHHHHHHHHHHHhCCCccceEEEECCEEcCCCC-------CHHHcCCCCCCEEEEEee
Confidence            45889999999999999999999999999999999999999999       999999999999999987

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

Probab=99.12  E-value=5.6e-11  Score=76.91  Aligned_cols=55  Identities=29%  Similarity=0.500  Sum_probs=49.9

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      |+|+|+..+|+++.++++       +|++|++          |+|+|+.|+|+.+|++|+|++|++|+++++
T Consensus         4 m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~~ip~~~qrL~~~g~~L~d~~tL~~~~i~~~~~i~l~~r   75 (85)
T 3n3k_B            4 MRIVVKTLMGRTIILEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIHNHSALYLLLK   75 (85)
T ss_dssp             CEEEEECGGGCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETBEECCTTCBTTTTTCCTTCEEEEEEC
T ss_pred             EEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCeECCCCCCHHHCCCCCCCEEEEEEe
Confidence            778899888888888777       8888875          999999999999999999999999999986

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

Probab=99.11  E-value=7.9e-11  Score=74.39  Aligned_cols=55  Identities=33%  Similarity=0.561  Sum_probs=48.6

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      |+|+|+..+|+.+.++++       +|+.|++          |+|+|+.|+|+.+|++|+|++|++|+++++
T Consensus         1 M~i~vk~~~g~~~~i~v~~~~tv~~lK~~i~~~~~i~~~~q~L~~~g~~L~d~~tL~~~~i~~g~~i~l~~~   72 (76)
T 3a9j_A            1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQRESTLHLVLR   72 (76)
T ss_dssp             CEEEEEETTSCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTCBTGGGTCCTTCEEEEEEC
T ss_pred             CEEEEEcCCCCEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEEe
Confidence            568888888888777766       8888875          999999999999999999999999999886

>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=99.11  E-value=2.9e-10  Score=72.20  Aligned_cols=60  Identities=17%  Similarity=0.292  Sum_probs=57.6

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEE
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLL   68 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~   68 (148)
                      +.+.+.|.+++++..|+.+.+++.|+|+++++++|.|++|.++.       |.++|++.+|++|+++
T Consensus        12 ~~v~~~v~~~t~l~kl~~~y~~~~gi~~~~~rf~fdG~~l~~~~-------Tp~~l~medgD~Idv~   71 (72)
T 1wm3_A           12 SVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETD-------TPAQLEMEDEDTIDVF   71 (72)
T ss_dssp             CEEEEEECTTSCTHHHHHHHHHHHTCCTTTCEEEETTEECCTTC-------CTTTTTCCTTEEEEEE
T ss_pred             CEEEEEECCCChHHHHHHHHHHHhCCCcceEEEEECCEEcCCCC-------CHHHcCCCCCCEEEEE
Confidence            46899999999999999999999999999999999999999999       9999999999999985

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

Probab=99.11  E-value=8.8e-11  Score=76.14  Aligned_cols=59  Identities=20%  Similarity=0.346  Sum_probs=49.5

Q ss_pred             hheeeeeeeeeeeeeeehhhh-------Hhhhhhe-------------eeecCeeeCCCCchhhhCCCCCCEEEEEeec
Q 041424           88 KLKVKIFVKMLTEEIVKLKVK-------VLLTIRD-------------LFCTGMKLKDCKTLACYGVKDDRGVACFISD  146 (148)
Q Consensus        88 ~~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e-------------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~~  146 (148)
                      +..|+|+|+..+|+.+.++|+       +|++|++             |+|+|+.|+|+++|++|||++|++|+++++.
T Consensus         3 ~~~m~i~vk~~~g~~~~~~v~~~~TV~~lK~~i~~~~~~~gip~~~qrLi~~Gk~L~D~~tL~~~~i~~g~~i~l~~~~   81 (85)
T 2wyq_A            3 PMAVTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIRDYRIDEKNFVVVMVTK   81 (85)
T ss_dssp             -CCEEEEEEETTSCEEEEEECTTSBHHHHHHHHHHHHCTTTCCGGGEEEEETTEECCTTSBGGGGCCCTTSEEEEEEC-
T ss_pred             CceEEEEEEECCCCEEEEEECCCCCHHHHHHHHHhhccccCCCHHHeEEEECCEECcCCCCHHHcCCCCCCEEEEEEcC
Confidence            356889999988888887776       6666542             9999999999999999999999999999863

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

Probab=99.10  E-value=6.3e-11  Score=77.23  Aligned_cols=58  Identities=22%  Similarity=0.289  Sum_probs=51.7

Q ss_pred             heeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEeec
Q 041424           89 LKVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFISD  146 (148)
Q Consensus        89 ~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~~  146 (148)
                      +.|+|+|+..+|+.+.++|+       +|++|++          |+|+|+.|+|+++|++|+|++|++|+++++-
T Consensus         6 ~~m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi~~~~qrL~~~Gk~L~d~~tL~~~~i~~g~~i~l~~~~   80 (87)
T 1wh3_A            6 SGIQVFVKNPDGGSYAYAINPNSFILGLKQQIEDQQGLPKKQQQLEFQGQVLQDWLGLGIYGIQDSDTLILSKKK   80 (87)
T ss_dssp             SSEEEEEEETTTEEEEEEECSSSBHHHHHHHHHHHTCCCTTTEEEEETTEECCSSSBHHHHTCCTTEEEEEEECS
T ss_pred             CCEEEEEEcCCCCEEEEEeCCCChHHHHHHHHHHHhCCChHHEEEEECCEEccCCCCHHHCCCCCCCEEEEEEec
Confidence            45889999988888887777       8888876          9999999999999999999999999999863

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

Probab=99.09  E-value=6.1e-11  Score=76.09  Aligned_cols=57  Identities=21%  Similarity=0.312  Sum_probs=50.0

Q ss_pred             heeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           89 LKVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        89 ~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      ..|+|+|+..+|+.+.++++       +|++|++          |+|+|+.|+|+.+|++|||++|++|+++++
T Consensus         6 ~~m~i~vk~~~g~~~~~~v~~~~tV~~LK~~i~~~~~i~~~~qrL~~~gk~L~d~~tL~~~~i~~g~~i~l~~~   79 (81)
T 2dzi_A            6 SGMQLTVKALQGRECSLQVPEDELVSTLKQLVSEKLNVPVRQQRLLFKGKALADGKRLSDYSIGPNSKLNLVVK   79 (81)
T ss_dssp             SSEEEEEEETTSCEEEEEECSSCBHHHHHHHHHHHTCCCTTTCEEEETTEECCTTSBGGGGTCCSSBCCEEECC
T ss_pred             CcEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcCHHHEEEEECCeECCCCCcHHHcCCCCCCEEEEEEe
Confidence            34788888888888777776       8888876          999999999999999999999999999875

>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=98.68  E-value=9.9e-12  Score=79.07  Aligned_cols=55  Identities=13%  Similarity=0.170  Sum_probs=49.2

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      |+|+|+..+|+++.++++       +|++|++          |+|+|+.|+|+.+|++|||++|++|+++++
T Consensus         1 M~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi~~~~qrL~~~gk~L~d~~tL~~~~i~~g~~i~l~~r   72 (76)
T 3b1l_X            1 MIVFVRFNSSYGFPVEVDSDTSILQLKEVVAKQQGVPADQLRVIFAGKELPNHLTVQNCDLEQQSIVHIVQR   72 (76)
Confidence            578889888988888777       8888876          999999999999999999999999999876

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

Probab=99.09  E-value=7.9e-11  Score=78.29  Aligned_cols=60  Identities=18%  Similarity=0.269  Sum_probs=48.3

Q ss_pred             hhhhhheeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           84 DDILKLKVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        84 ~~~~~~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      +..+...|+|+||.  |+.+.++|+       +|++|++          |+|+|+.|+|+++|++|+|++|++|+|+++
T Consensus        13 ~~~~~~~m~I~Vk~--g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~y~I~~gstI~lv~r   89 (93)
T 2l7r_A           13 GLVPRGSMQLFVRA--QELHTFEVTGQETVAQIKAHVASLEGIAPEDQVVLLAGAPLEDEATLGQCGVEALTTLEVAGR   89 (93)
T ss_dssp             -------CEEEEES--SSEEEEECCSSCBHHHHHHHHHHHHTCCGGGCEEEETTEECCTTSBHHHHTCCSSCEEEEECC
T ss_pred             CCCCCCcEEEEEEC--CCEEEEEeCCCCcHHHHHHHHHHHhCcChhHEEEEECCEECCCCCcHHHCCCCCCCEEEEEEe
Confidence            33355668999998  788887777       8888886          999999999999999999999999999986

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

Probab=99.09  E-value=7.1e-11  Score=80.56  Aligned_cols=56  Identities=25%  Similarity=0.351  Sum_probs=49.1

Q ss_pred             eeeeeeeeeeeeeeehhhh-------Hhhhhhe-------------------------eeecCeeeC-CCCchhhhCCCC
Q 041424           90 KVKIFVKMLTEEIVKLKVK-------VLLTIRD-------------------------LFCTGMKLK-DCKTLACYGVKD  136 (148)
Q Consensus        90 ~i~I~Vk~~~gk~~~l~v~-------lK~~i~e-------------------------L~f~g~~L~-d~~tL~~y~I~~  136 (148)
                      .|.|+|++.+|++++++|.       ||+.|++                         |+|+|+.|. |++||++|||++
T Consensus         7 ~M~I~Vk~l~g~~~~v~V~~~~TV~dLK~~I~~~~~i~~~~q~g~~~isw~~~w~q~~Li~~Gk~L~dD~~tL~dygI~~   86 (105)
T 1v2y_A            7 GMTVRVCKMDGEVMPVVVVQNATVLDLKKAIQRYVQLKQEREGGVQHISWSYVWRTYHLTSAGEKLTEDRKKLRDYGIRN   86 (105)
T ss_dssp             SEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHHHHHHHTTCCCCCCHHHHHTTEEEESSSCEECCSSSBHHHHTCCS
T ss_pred             cEEEEEEecCCCEEEEEECCCChHHHHHHHHHHHhCCCcccccCcceeeeeecceeEEEEeCCcCccCCcCCHHHcCCCC
Confidence            3899999999999999888       6666553                         889999996 679999999999


Q ss_pred             CCEEEEEee
Q 041424          137 DRGVACFIS  145 (148)
Q Consensus       137 gstI~l~l~  145 (148)
                      |++||++++
T Consensus        87 g~~l~lv~~   95 (105)
T 1v2y_A           87 RDEVSFIKK   95 (105)
T ss_dssp             SEEEEEEEC
T ss_pred             CCEEEEEeh
Confidence            999999986

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

Probab=99.08  E-value=1.4e-10  Score=73.65  Aligned_cols=54  Identities=26%  Similarity=0.367  Sum_probs=47.8

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      |+|+|+. +|+.+.++++       +|++|++          |+|+|+.|+|+.+|++|||++|++|+++.+
T Consensus         5 m~i~vk~-~g~~~~~~v~~~~tV~~LK~~i~~~~~i~~~~qrL~~~gk~L~d~~tL~~~~i~~g~~i~l~~~   75 (77)
T 2bwf_A            5 LNIHIKS-GQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESYHIQDGHSVHLVKS   75 (77)
T ss_dssp             EEEEEEE-TTEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEEC
T ss_pred             EEEEEEE-CCEEEEEEECCCCcHHHHHHHHHHHhCCCHHHEEEEECCeEcCCCCCHHHcCCCCCCEEEEEEc
Confidence            6788888 7888877766       8888875          999999999999999999999999999876

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

Probab=99.08  E-value=1e-10  Score=75.56  Aligned_cols=55  Identities=33%  Similarity=0.520  Sum_probs=49.6

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      |+|+|+..+|+++.++++       +|++|++          |+|+|+.|+|+.+|++|+|++|++|+++++
T Consensus         4 m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~~i~~~~qrL~~~g~~L~d~~tL~~~~i~~~~~l~l~~r   75 (85)
T 3mtn_B            4 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKWSTLFLLLR   75 (85)
T ss_dssp             EEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTSBTGGGTCCTTCEEEEECC
T ss_pred             EEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHHCcChHHEEEEECCEECCCCCCHHHcCCCCCCEEEEEEE
Confidence            778888888888887776       8888875          999999999999999999999999999986

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

Probab=99.08  E-value=8.1e-11  Score=80.04  Aligned_cols=58  Identities=19%  Similarity=0.272  Sum_probs=52.3

Q ss_pred             heeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEeec
Q 041424           89 LKVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFISD  146 (148)
Q Consensus        89 ~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~~  146 (148)
                      ..|+|+||..+|+.+.++|.       ||.+|++          |+|+|+.|+|+++|++|||++|++|+|+++.
T Consensus        22 ~~m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~g~ti~lv~~~   96 (106)
T 1ttn_A           22 YECQLRLRLSTGKDLKLVVRSTDTVFHMKRRLHAAEGVEPGSQRWFFSGRPLTDKMKFEELKIPKDYVVQVIVSQ   96 (106)
T ss_dssp             CSEEEEEEETTTEEEEEEECTTSHHHHHHHHHHHTTCCCSTTCEEEETTEECCTTSHHHHCCCSSSCEEEEECCC
T ss_pred             CeEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHHCcCcccEEEEECCEECCCCCcHHHcCCCCCCEEEEEEeC
Confidence            45899999999999888777       8988875          9999999999999999999999999999864

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

Probab=99.07  E-value=1.4e-10  Score=76.02  Aligned_cols=58  Identities=19%  Similarity=0.233  Sum_probs=51.0

Q ss_pred             heeeeeeeeeee-eeeehh-hh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEeec
Q 041424           89 LKVKIFVKMLTE-EIVKLK-VK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFISD  146 (148)
Q Consensus        89 ~~i~I~Vk~~~g-k~~~l~-v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~~  146 (148)
                      +.|+|+|+..+| +++.++ |+       +|++|++          |+|+|+.|+|+++|++|+|++|++|+|+++.
T Consensus         6 ~~m~i~Vk~~~g~~~~~l~~v~~~~tV~~lK~~i~~~~gip~~~qrL~~~gk~L~d~~tL~~~~i~~g~~i~l~~~~   82 (89)
T 1wy8_A            6 SGMWIQVRTIDGSKTCTIEDVSRKATIEELRERVWALFDVRPECQRLFYRGKQLENGYTLFDYDVGLNDIIQLLVRP   82 (89)
T ss_dssp             SCEEEEEEETTCSCEEEEEEECTTCBHHHHHHHHHHHSCCCTTTEEEEETTEECCSSSBHHHHTCCTTCEEEEEECC
T ss_pred             CcEEEEEEECCCCceEEEEecCCCCCHHHHHHHHHHHHCcChhhEEEEECCeECCCCCCHHHCCCCCCCEEEEEEeC
Confidence            458899999888 688884 76       8888876          9999999999999999999999999999874

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

Probab=99.07  E-value=1.3e-10  Score=77.59  Aligned_cols=57  Identities=23%  Similarity=0.420  Sum_probs=49.7

Q ss_pred             hheeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCC-CchhhhCCCCCCEEEEEee
Q 041424           88 KLKVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDC-KTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        88 ~~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~-~tL~~y~I~~gstI~l~l~  145 (148)
                      ...|+|+||..+| ++.++|+       ||++|++          |+|+|+.|+|+ ++|++|||++|++|+|+++
T Consensus        13 ~~~~~I~Vk~~~~-~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~~tL~~ygI~~gstl~lv~r   87 (94)
T 2kan_A           13 VRKIHVTVKFPSK-QFTVEVDRTETVSSLKDKIHIVENTPIKRMQLYYSGIELADDYRNLNEYGITEFSEIVVFLK   87 (94)
T ss_dssp             SCCEEEEEECSSC-EEEEEECTTCBHHHHHHHHHHHSSSCTTTEEEEETTEEECCTTSBHHHHTCCTTEEEEEEEC
T ss_pred             CCCEEEEEEcCCc-EEEEEECCCCcHHHHHHHHHHHHCcCHHHEEEEECCEECCCCcccHHHCCCCCCCEEEEEEe
Confidence            3458899998877 6777666       9998886          99999999999 9999999999999999986

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

Probab=99.06  E-value=1.2e-10  Score=80.98  Aligned_cols=55  Identities=18%  Similarity=0.236  Sum_probs=46.4

Q ss_pred             eeeeeeeeeee-eeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCC-------CCCEEEEEee
Q 041424           91 VKIFVKMLTEE-IVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVK-------DDRGVACFIS  145 (148)
Q Consensus        91 i~I~Vk~~~gk-~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~-------~gstI~l~l~  145 (148)
                      |.++++...++ ++.++|+       +|++|++          |+|+|+.|+|++||++|||+       .++||+|+++
T Consensus         1 M~mfl~ir~~ktti~lev~~sdTV~~lK~kI~~~egIP~~qQrLi~~Gk~LeD~~TLsdy~I~~~~a~~q~~stL~L~lr   80 (118)
T 2fnj_B            1 MDVFLMIRRHKTTIFTDAKESSTVFELKRIVEGILKRPPEEQRLYKDDQLLDDGKTLGECGFTSQTARPQAPATVGLAFR   80 (118)
T ss_dssp             CEEEEEEEEBTEEEEEEEETTSBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBHHHHTCCTTTSBTTBCEEEEEEEB
T ss_pred             CcEEEEEecCCEEEEEEeCCcChHHHHHHHHHHHhCCCHHHeEEEECCeECCCCCCHHHcCcccccccCCCCCEEEEEec
Confidence            34566665665 4777776       9999986          99999999999999999999       7999999998

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

Probab=99.05  E-value=1.9e-10  Score=76.88  Aligned_cols=56  Identities=32%  Similarity=0.532  Sum_probs=49.8

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEeec
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFISD  146 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~~  146 (148)
                      |+|+|+..+|+.+.++|+       +|++|++          |+|+|+.|+|+.+|++|||++|++|+++.+.
T Consensus         1 M~I~Vk~~~g~~~~~~v~~~~TV~~LK~~I~~~~gi~~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~i~l~~~~   73 (98)
T 1yx5_B            1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRL   73 (98)
T ss_dssp             CEEEEEETTSCEEEEECCTTCBHHHHHHHHHHHTCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEECC
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcChhhEEEEECCEECCCCCCHHHcCCCCCCEEEEEEeC
Confidence            578888888888877776       8888875          9999999999999999999999999999875

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

Probab=99.05  E-value=1.6e-10  Score=76.82  Aligned_cols=58  Identities=17%  Similarity=0.236  Sum_probs=51.2

Q ss_pred             heeeeeeeeeeeeeeehhhh-------Hhhhhhe-------eeecCeeeCCC-CchhhhCCCCCCEEEEEeec
Q 041424           89 LKVKIFVKMLTEEIVKLKVK-------VLLTIRD-------LFCTGMKLKDC-KTLACYGVKDDRGVACFISD  146 (148)
Q Consensus        89 ~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e-------L~f~g~~L~d~-~tL~~y~I~~gstI~l~l~~  146 (148)
                      ..|+|+||..+|+.+.++|+       ||++|++       |+|+|+.|+|+ ++|++|+|++|++|||+++.
T Consensus         6 ~~m~i~Vk~~~g~~~~~~v~~~~TV~~LK~~i~~~~~~~qrLi~~Gk~L~D~~~tL~~y~i~~g~~i~l~~~~   78 (95)
T 1wia_A            6 SGINVRLKFLNDTEELAVARPEDTVGTLKSKYFPGQESQMKLIYQGRLLQDPARTLSSLNITNNCVIHCHRSP   78 (95)
T ss_dssp             CSEEEEEEETTTEEEEEEECSSSBHHHHHHHHSSSTTTTCEEEETTEECCCSSCBTTTTTCCTTEEEEEECCC
T ss_pred             CeEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHhhCcCcEEEEECCEEccCCcCCHHHcCCCCCCEEEEEECC
Confidence            34889999888888887777       8888874       99999999999 99999999999999999864

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

Probab=99.04  E-value=3.1e-10  Score=77.78  Aligned_cols=57  Identities=33%  Similarity=0.567  Sum_probs=52.2

Q ss_pred             heeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           89 LKVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        89 ~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      ..|+|+||..+|+.+.++|+       ||++|++          |+|+|+.|+|+.+|++|+|++|++|+|+++
T Consensus        34 ~~m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~~gI~~gs~I~l~~r  107 (111)
T 3vdz_A           34 LAMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR  107 (111)
T ss_dssp             GCEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTTTTTCCTTCEEEEEEC
T ss_pred             ccEEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCChHHEEEEECCEECCCCCcHHHCCCCCCCEEEEEEe
Confidence            46899999999999988877       8888875          999999999999999999999999999986

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

Probab=99.04  E-value=2.3e-10  Score=76.25  Aligned_cols=56  Identities=20%  Similarity=0.370  Sum_probs=48.0

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe-------------eeecCeeeCCCCchhhhCCCCCCEEEEEeec
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD-------------LFCTGMKLKDCKTLACYGVKDDRGVACFISD  146 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e-------------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~~  146 (148)
                      |+|+||..+|+.+.++|+       +|++|++             |+|+|+.|+|+++|++|||++|++|+++++.
T Consensus         1 M~I~Vk~~~g~~~~~~v~~~~TV~~LK~~I~~~~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~g~~i~l~~~~   76 (95)
T 1uel_A            1 MQVTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALKEYKIDEKNFVVVMVTK   76 (95)
T ss_dssp             CEEEEEETTCCEEEEECCTTSBHHHHHHHHHHHHCTTTCCTTTEEEEETTEECCTTSBGGGGTCCSSSEEEEEESS
T ss_pred             CEEEEEeCCCCEEEEEECCCCHHHHHHHHHHhhcccCCCChhhEEEEECCEECCCcCcHHHCCCCCCCEEEEEEeC
Confidence            578889888888887776       6666542             9999999999999999999999999999864

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

Probab=99.03  E-value=2.2e-10  Score=84.19  Aligned_cols=55  Identities=33%  Similarity=0.560  Sum_probs=50.9

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      |+|+||+.+|+++.++|+       +|++|++          |+|+|+.|+|+++|++|+|++|++|||+++
T Consensus         1 MqI~Vk~~~Gk~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~y~I~~gstI~Lvlr   72 (169)
T 3l0w_B            1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR   72 (169)
T ss_dssp             CEEEEEETTSCEEEEECCTTCBHHHHHHHHHHHHCCCTTTEEEEETTEECCTTSBGGGGTCCTTCEEEEEEC
T ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHHCcCHHHEEEEECCccccCcCcHHHcCCCCCCEEEEEEE
Confidence            578999999999998887       8998886          999999999999999999999999999986

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

Probab=99.03  E-value=1.9e-10  Score=79.72  Aligned_cols=55  Identities=18%  Similarity=0.230  Sum_probs=44.7

Q ss_pred             eeeeeeeeee-eeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCC-------CCEEEEEeec
Q 041424           92 KIFVKMLTEE-IVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKD-------DRGVACFISD  146 (148)
Q Consensus        92 ~I~Vk~~~gk-~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~-------gstI~l~l~~  146 (148)
                      .+|++...++ ++.++++       +|++|++          |+|+|+.|+|++||++|||++       ++||+|+++.
T Consensus         2 ~vFl~Ikr~ktTI~ldve~sdTV~~lK~kI~~~~giPp~qQrLI~~Gk~LeD~kTL~dy~I~~~ta~~q~~atl~Lvlr~   81 (118)
T 4ajy_B            2 DVFLMIRRHKTTIFTDAKESSTVFELKRIVEGILKRPPDEQRLYKDDQLLDDGKTLGECGFTSQTARPQAPATVGLAFRA   81 (118)
T ss_dssp             EEEEEEEEBTEEEEEEEETTSBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTTTTTCCGGGSBTTBCEEEEEEECC
T ss_pred             ceEEEEecCCEEEEEEcCCCChHHHHHHHHHHHHCCCHHHeEEEeCCeECCCcCCHHHcCCCcCcccCCCCCEEEEEEec
Confidence            3455554444 5655655       8999886          999999999999999999999       9999999873

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

Probab=99.03  E-value=2.2e-10  Score=79.44  Aligned_cols=58  Identities=10%  Similarity=0.099  Sum_probs=49.9

Q ss_pred             heeeeeeeeeeeeeeehhhh-------Hhhhhhe------------------eeecCeeeCCCCchhhhCCCCC--CEEE
Q 041424           89 LKVKIFVKMLTEEIVKLKVK-------VLLTIRD------------------LFCTGMKLKDCKTLACYGVKDD--RGVA  141 (148)
Q Consensus        89 ~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e------------------L~f~g~~L~d~~tL~~y~I~~g--stI~  141 (148)
                      ..|.|+||+.+|++++++|+       ||++|++                  |+|+|+.|+|++||++|+|+.|  +|||
T Consensus        15 ~~m~I~vKtl~G~t~~lev~~s~TV~~lK~kI~~~~p~dwke~~p~p~~qqrLIy~GK~LeD~~TL~~y~I~~~~~~tlh   94 (116)
T 1wgh_A           15 DMINLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVTLGALKLPFGKTTVMH   94 (116)
T ss_dssp             SSEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHSSSCCSSCCCCCCTTTEEEEETTEEECSSCBTTTTTCCSSCEEEEE
T ss_pred             CeEEEEEEeCCCCEEEEEECCcCHHHHHHHHHHHhcccccccCCCCChHHEEEEECCcCCCCCCcHHHcCCCCCCceEEE
Confidence            34889999999999999888       7777661                  9999999999999999999877  6799


Q ss_pred             EEeec
Q 041424          142 CFISD  146 (148)
Q Consensus       142 l~l~~  146 (148)
                      |+++-
T Consensus        95 Lvlr~   99 (116)
T 1wgh_A           95 LVARE   99 (116)
T ss_dssp             EEECS
T ss_pred             EEccC
Confidence            99873

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

Probab=99.02  E-value=1e-10  Score=78.95  Aligned_cols=55  Identities=15%  Similarity=0.106  Sum_probs=46.5

Q ss_pred             heeeeeeeeeeee--eeehhhh-------Hhhhhhe------------eeecCeeeCCCCchhhh--CCCCCCEEEEE
Q 041424           89 LKVKIFVKMLTEE--IVKLKVK-------VLLTIRD------------LFCTGMKLKDCKTLACY--GVKDDRGVACF  143 (148)
Q Consensus        89 ~~i~I~Vk~~~gk--~~~l~v~-------lK~~i~e------------L~f~g~~L~d~~tL~~y--~I~~gstI~l~  143 (148)
                      +.|+|+||..+|+  .++++++       ||++|++            |+|+|+.|+|+++|++|  +|++|++|+|+
T Consensus        22 ~~m~I~VK~~~g~~~~i~l~v~~~~TV~~LK~~I~~~~~g~pp~~~QrLIy~Gk~L~D~~tL~~y~~~I~~~~tihLv   99 (99)
T 2kdb_A           22 HPVTLIIKAPNQKYSDQTISCFLNWTVGKLKTHLSNVYPSKPLTKDQRLVYSGRLLPDHLQLKDILRKQDEYHMVHLV   99 (99)
T ss_dssp             -CEEEEEECTTSSSCCEEEEECTTSBHHHHHHHHHHHSTTCCCTTTCCEEETTEEECTTSBTHHHHTTTCSEEEEEEC
T ss_pred             CeEEEEEEcCCCCEEEEEEEcCCCCHHHHHHHHHHHHhcCCCChhhEEEEECCEECCCCCCHHHHhcCCCCCCEEEeC
Confidence            4589999998887  4566545       8888774            99999999999999999  99999999985

>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=99.02  E-value=8.2e-10  Score=75.36  Aligned_cols=62  Identities=10%  Similarity=0.253  Sum_probs=59.7

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +.+.+.|.+++++..|+...+++.|+++++++++|.|++|.++.       |.++|++.++++|+++..
T Consensus        41 ~~i~fkIk~tt~l~kL~~ay~ek~gi~~~~~rF~FdG~rl~~~~-------Tp~dl~medgD~Idv~~~  102 (106)
T 2eke_C           41 SEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQ-------TPEDLDMEDNDIIEAHRE  102 (106)
T ss_dssp             CEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTC-------CTTTTTCCTTEEEEEEEC
T ss_pred             cEEEEEeCCCCHHHHHHHHHHHHhCCCcccEEEEECCeEcCCCC-------CHHHcCCCCCCEEEEEee
Confidence            46889999999999999999999999999999999999999999       999999999999999987

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

Probab=99.01  E-value=2.8e-10  Score=78.46  Aligned_cols=58  Identities=29%  Similarity=0.457  Sum_probs=52.7

Q ss_pred             heeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEeec
Q 041424           89 LKVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFISD  146 (148)
Q Consensus        89 ~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~~  146 (148)
                      |.++|+|+..+|+.+.++|+       ||++|++          |+|+|+.|+|+++|++|+|++|++|+|+++.
T Consensus         8 ~~~~i~vk~l~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~~~   82 (114)
T 2kdi_A            8 GEFQIFAKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIWAGKQLEDGRTLSDYNIQRESTLHLVLRL   82 (114)
T ss_dssp             CCCEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTCBTTTTTCCSSCEEEEEECC
T ss_pred             CcEEEEEEeCCCcEEEEEECCCCcHHHHHHHHHHHHCcChHHEEEEECCEECCCCCcHHHCCCCCCCEEEEEEEc
Confidence            56889999999999988877       8888886          9999999999999999999999999999863

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

Probab=99.01  E-value=4.4e-10  Score=76.47  Aligned_cols=62  Identities=16%  Similarity=0.256  Sum_probs=59.7

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +.+.+.|.+++++..|+...+++.|+|++++||+|.|++|.++.       |.++|++.++++|+++..
T Consensus        35 ~~i~~kVk~~t~l~kL~~~y~ek~gi~~~~~rf~FdG~~l~~~~-------Tp~dl~medgD~Idv~~~   96 (104)
T 1wz0_A           35 SVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETD-------TPAQLEMEDEDTIDVFQQ   96 (104)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHTCCTTTSCEESSSSBCCTTS-------CTTTTTCCTTEEEEECCC
T ss_pred             CEEEEEEcCCChHHHHHHHHHHHhCCCcceEEEEECCEEcCCCC-------CHHHcCCCCCCEEEEEEe
Confidence            46889999999999999999999999999999999999999999       999999999999999987

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

Probab=99.00  E-value=3.6e-10  Score=79.30  Aligned_cols=57  Identities=18%  Similarity=0.233  Sum_probs=48.1

Q ss_pred             heeeeeeeeeeeeee-ehhhh-------Hhhhh-----he------------eeecCeeeCCCCchhhhCCCCC------
Q 041424           89 LKVKIFVKMLTEEIV-KLKVK-------VLLTI-----RD------------LFCTGMKLKDCKTLACYGVKDD------  137 (148)
Q Consensus        89 ~~i~I~Vk~~~gk~~-~l~v~-------lK~~i-----~e------------L~f~g~~L~d~~tL~~y~I~~g------  137 (148)
                      .-|.|+||+.+|+.+ +++++       ||++|     ++            |+|+|+.|+|++||++|+|+.|      
T Consensus        15 ~~~~i~~kt~~G~~i~~l~v~psdTV~~lK~kI~~~~p~dkegiP~~~~qQrLIy~GK~LeD~~TLsdy~I~~~~~~~~v   94 (126)
T 1se9_A           15 NQLEIKFRLTDGSDIGPKAFPDATTVSALKETVISEWPREKENGPKTVKEVKLISAGKVLENSKTVKDYRSPVSNLAGAV   94 (126)
T ss_dssp             CCEEEEEEETTSCEEEEEEECTTCBHHHHHHHHHHHSCTTCSSSCCSGGGEEEEETTEECCTTSBGGGGSCCTTSCTTCC
T ss_pred             ccEEEEEEECCCCEEEeeecCccCHHHHHHHHHHhhcccccccCCCChhhEEEEECCeECcCCCcHHHcCCCcCCccCCc
Confidence            347889999999877 56555       88888     21            9999999999999999999999      


Q ss_pred             CEEEEEee
Q 041424          138 RGVACFIS  145 (148)
Q Consensus       138 stI~l~l~  145 (148)
                      +|+||+++
T Consensus        95 ~tmhlVlr  102 (126)
T 1se9_A           95 TTMHVIIQ  102 (126)
T ss_dssp             EEEEEEEC
T ss_pred             EEEEEEec
Confidence            68999986

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

Probab=99.00  E-value=9.4e-10  Score=71.13  Aligned_cols=59  Identities=17%  Similarity=0.274  Sum_probs=57.0

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEE
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLL   68 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~   68 (148)
                      .+.+.|.+++++..|+...+++.|+|+++++++|.|++|.++.       |.++|++.+|++|+++
T Consensus        20 ~i~~~i~~~t~l~kl~~~y~~~~gi~~~~~rf~fdG~~l~~~~-------Tp~~l~medgD~Idv~   78 (79)
T 3a4r_A           20 MLEISLSPDSPLKVLMSHYEEAMGLSGHKLSFFFDGTKLSGKE-------LPADLGLESGDLIEVW   78 (79)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHTCTTCCCEEEETTEECCSCC-------CHHHHTCCTTCEEEEE
T ss_pred             EEEEEECCCChHHHHHHHHHHHhCCCcccEEEEECCEEcCCCC-------CHHHcCCCCCCEEEEe
Confidence            6889999999999999999999999999999999999999999       9999999999999975

>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=98.99  E-value=3.3e-10  Score=76.91  Aligned_cols=57  Identities=30%  Similarity=0.339  Sum_probs=49.2

Q ss_pred             hheeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           88 KLKVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        88 ~~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      ...|.|+|+..+|+ +.++|+       ||++|++          |+|+|+.|+|+++|.+|+|++|++|+|+++
T Consensus        15 ~~~m~I~Vk~~~g~-~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~gi~~g~~i~l~~~   88 (106)
T 1wx7_A           15 PHLIKVTVKTPKDK-EDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQCGVRDGLTVHLVIK   88 (106)
T ss_dssp             SSEEEEEEECSSCE-EEEEEETTCCHHHHHHHHHHHHTCCTTTEEEEETTEECCTTSCHHHHTCCTTEEEEEEEC
T ss_pred             CceEEEEEEeCCCc-EEEEECCCCcHHHHHHHHHHHHCcChhhEEEEECCEECCCcCcHHHcCCCCCCEEEEEEc
Confidence            35588999988776 566665       8888875          999999999999999999999999999976

>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=98.98  E-value=4.1e-10  Score=75.87  Aligned_cols=58  Identities=29%  Similarity=0.321  Sum_probs=49.7

Q ss_pred             hhheeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           87 LKLKVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        87 ~~~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      ....|+|+|+..+|+ +.++|+       ||++|++          |+|+|+.|+|+++|++|+|++|++|+|+++
T Consensus        19 ~~~~m~I~Vk~~~g~-~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r   93 (100)
T 1yqb_A           19 SPHLIKVTVKTPKDK-EDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQCGVRDGLTVHLVIK   93 (100)
T ss_dssp             CTTEEEEEEECSSCE-EEEEEETTCBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBHHHHTCCTTCEEEEEEC
T ss_pred             CCCeEEEEEEcCCCc-EEEEECCCCcHHHHHHHHHHHHCcChhhEEEEECCEECCCcCcHHHCCCCCCCEEEEEEc
Confidence            345688999988776 566665       8888876          999999999999999999999999999986

>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=98.96  E-value=3.4e-10  Score=76.47  Aligned_cols=44  Identities=18%  Similarity=0.188  Sum_probs=37.7

Q ss_pred             eeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEE
Q 041424          100 EEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACF  143 (148)
Q Consensus       100 gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~  143 (148)
                      +++++++|+       ||++|++          |+|+|++|+|++||++|+|++|++|+++
T Consensus        29 ~~~~~lev~~~~TV~~lK~kI~~k~gip~~qQrLI~~GKiL~D~~TL~~y~I~~gsti~vl   89 (100)
T 1wju_A           29 DRKNLLETRLHITGRELRSKIAETFGLQENYIKIVINKKQLQLGKTLEEQGVAHNVKAMVL   89 (100)
T ss_dssp             SSSEEEEEESSSBHHHHHHHHHHHTTCCSTTCEEEETTEECCTTSBHHHHTCCSSEEEEEE
T ss_pred             CcEEEEEeCCcCHHHHHHHHHHHHHCcCHHHeEEEeCCeECCCCCcHHHcCCCCCCEEEEE
Confidence            566666665       8999886          9999999999999999999999999443

>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=98.96  E-value=2.7e-10  Score=75.80  Aligned_cols=56  Identities=21%  Similarity=0.267  Sum_probs=49.8

Q ss_pred             heeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           89 LKVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        89 ~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      ..|+|+|+.. |+.+.++|+       ||++|++          |+|+|+.|+|+++|++|+|++|++|||+++
T Consensus        16 ~~m~i~Vk~~-g~~~~~~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~i~l~~~   88 (96)
T 1wx8_A           16 RIIRVSVKTP-QDCHEFFLAENSNVRRFKKQISKYLHCNADRLVLIFTGKILRDQDILSQRGILDGSTVHVVVR   88 (96)
T ss_dssp             CEEEEEEECS-SSEEEEEEETTCCHHHHHHHHHHHTCSCTTTBCCEETTEECCTTSCHHHHTCCTTEEEECCBC
T ss_pred             CcEEEEEEEC-CeEEEEEECCCCCHHHHHHHHHHHhCCCHHHEEEEECCEECCCcCCHHHCCCCCCCEEEEEEe
Confidence            4588999887 888877776       8888876          999999999999999999999999999876

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

Probab=98.94  E-value=5.1e-10  Score=83.68  Aligned_cols=56  Identities=32%  Similarity=0.520  Sum_probs=52.0

Q ss_pred             eeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           90 KVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        90 ~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      .|+|+||..+|++++++|+       ||++|++          |+|+|+.|+|+.+|++|+|++|++|+|+++
T Consensus       105 eMqI~VKtl~Gkt~~l~V~~s~TV~~LK~kI~~~~gIp~~~QrLi~~Gk~L~D~~tL~dygI~~gstI~Lvlr  177 (189)
T 3q3f_A          105 GGQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR  177 (189)
T ss_dssp             CEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCCEEETTEECCTTCBGGGGTCCTTCEEEECCC
T ss_pred             ceeeeeecCCCCEEEEEeCCCCcHHHHHHHHHhccCCCHHHEEEEECCEECCCCCCHHHCCCCCCCEEEEEEE
Confidence            3899999999999998887       8999886          999999999999999999999999999876

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

Probab=98.94  E-value=6.9e-10  Score=77.84  Aligned_cols=58  Identities=10%  Similarity=0.116  Sum_probs=49.4

Q ss_pred             heeeeeeeeeeeeeeehhhh-------Hhhhhhe------------------eeecCeeeCCCCchhhhCCCCCC--EEE
Q 041424           89 LKVKIFVKMLTEEIVKLKVK-------VLLTIRD------------------LFCTGMKLKDCKTLACYGVKDDR--GVA  141 (148)
Q Consensus        89 ~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e------------------L~f~g~~L~d~~tL~~y~I~~gs--tI~  141 (148)
                      ..|.|+||+.+|++++++|+       ||++|++                  |+|+|+.|+|++||++|+|+.|+  |+|
T Consensus        16 ~~m~I~vktl~G~~~~lev~~s~TV~~lK~~I~~~~p~dwke~ip~~~~~qrLIy~GK~LeD~~TL~~y~I~~~~~~tlh   95 (125)
T 2gow_A           16 DMINLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVTLGALKLPFGKTTVMH   95 (125)
T ss_dssp             TCEEEEEECTTSCEEEEEECTTSBHHHHHHHHHSSCCCSCCCCTTCCGGGEEEESSSSEEESSCBTGGGCCCTTSEEEEE
T ss_pred             CeEEEEEEeCCCCEEEEEeCCccHHHHHHHHHHHHCCcccccCCCCChHHEEEEECCcCCCCCCcHHHcCCCCCCceEEE
Confidence            34788999999999998888       7777661                  99999999999999999999777  789


Q ss_pred             EEeec
Q 041424          142 CFISD  146 (148)
Q Consensus       142 l~l~~  146 (148)
                      |+++-
T Consensus        96 lv~r~  100 (125)
T 2gow_A           96 LVARE  100 (125)
T ss_dssp             EEECS
T ss_pred             EEecC
Confidence            88863

>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=98.94  E-value=8.7e-11  Score=82.49  Aligned_cols=56  Identities=32%  Similarity=0.526  Sum_probs=0.0

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEeec
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFISD  146 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~~  146 (148)
                      |+|+|+..+|+++.++|+       +|+.|++          |+|+|+.|+|+.+|++|||++|++|+|+++-
T Consensus         1 M~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~~~I~~gsti~l~~rl   73 (128)
T 3u5e_m            1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRL   73 (128)
T ss_dssp             -------------------------------------------------------------------------
T ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCcChHHEEEEECCEECCCCCchhhhccCCCCEEEEEEEc
Confidence            568899999999988887       8888876          9999999999999999999999999999863

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

Probab=98.94  E-value=1e-09  Score=73.96  Aligned_cols=55  Identities=31%  Similarity=0.311  Sum_probs=47.9

Q ss_pred             eeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           90 KVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        90 ~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      .|.|+|+.. |+.+.++|+       ||++|++          |+|+|+.|+|+.+|++|||++|++|+|+++
T Consensus        25 ~m~I~Vk~~-g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~gI~~g~~I~l~~~   96 (101)
T 2klc_A           25 IMKVTVKTP-KEKEEFAVPENSSVQQFKEEISKRFKSHTDQLVLIFAGKILKDQDTLSQHGIHDGLTVHLVIK   96 (101)
T ss_dssp             CEEEEEECS-SCEEEEEECSCCCHHHHHHHHHHHHTCCGGGEEEEETTEEECTTCCTGGGTCCTTCEEEEEEC
T ss_pred             eEEEEEEeC-CcEEEEEECCCCCHHHHHHHHHHHHCcChhhEEEEECCEECCCcCcHHHcCCCCCCEEEEEEc
Confidence            477888877 777777666       8888875          999999999999999999999999999876

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

Probab=98.94  E-value=8.3e-10  Score=77.34  Aligned_cols=57  Identities=30%  Similarity=0.288  Sum_probs=49.9

Q ss_pred             heeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEeec
Q 041424           89 LKVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFISD  146 (148)
Q Consensus        89 ~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~~  146 (148)
                      ..|+|+|+.. |+.+.++|+       ||.+|++          |+|+|+.|+|+++|.+|+|++|++|+|+++.
T Consensus        31 ~~m~I~Vk~~-g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~dygI~~gstI~lv~~~  104 (125)
T 1j8c_A           31 KIIKVTVKTP-KEKEEFAVPENSSVQQFKEAISKRFKSQTDQLVLIFAGKILKDQDTLIQHGIHDGLTVHLVIKR  104 (125)
T ss_dssp             CCEEEEEECS-SCEEEEEECTTCCHHHHHHHHHHHHCSCSSSEEEEETTEEESTTSCGGGTTCSSSEEEEEEEC-
T ss_pred             CcEEEEEEeC-CeEEEEEECCCCcHHHHHHHHHHHHCcCcceEEEEECCEEcCCCCCHHHcCCCCCCEEEEEecc
Confidence            3588999988 888877776       8888886          9999999999999999999999999999863

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

Probab=98.93  E-value=9.2e-10  Score=75.34  Aligned_cols=57  Identities=33%  Similarity=0.567  Sum_probs=50.9

Q ss_pred             heeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           89 LKVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        89 ~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      ..|+|+|+..+|+.+.++|+       ||++|++          |+|+|+.|+|+.+|++|+|++|++|+++++
T Consensus        34 ~~m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~gI~~gs~I~l~~r  107 (111)
T 2ojr_A           34 LAMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR  107 (111)
T ss_dssp             SCEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHCCCTTTEEEEETTEECCSSCBTTTTTCCTTCEEEEEEC
T ss_pred             CeEEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHHHHCcCcccEEEEECCEECCCCCcHHHcCCCCCCEEEEEEe
Confidence            35889999888888877776       8888876          999999999999999999999999999986

>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=98.92  E-value=6.4e-10  Score=73.64  Aligned_cols=56  Identities=16%  Similarity=0.150  Sum_probs=46.8

Q ss_pred             eeeeeeeeeeee--eeehhhh-------Hhhhhhe------------eeecCeeeCCCCchhhh--CCCCCCEEEEEee
Q 041424           90 KVKIFVKMLTEE--IVKLKVK-------VLLTIRD------------LFCTGMKLKDCKTLACY--GVKDDRGVACFIS  145 (148)
Q Consensus        90 ~i~I~Vk~~~gk--~~~l~v~-------lK~~i~e------------L~f~g~~L~d~~tL~~y--~I~~gstI~l~l~  145 (148)
                      .|+|+||..+|+  .+.++++       ||++|++            |+|+|+.|+|+++|++|  +|++|++|||+++
T Consensus         7 ~m~i~Vk~~~~~~~~~~v~v~~~~TV~~lK~~I~~~~~~~i~~~~QrLi~~Gk~L~D~~tL~~~~~~i~~~~~i~lv~~   85 (93)
T 1wgd_A            7 GVTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLLDHQCLRDLLPKQEKRHVLHLVCN   85 (93)
T ss_dssp             CCEEEEECSSSSCCCEEEECCTTSCHHHHHHHHHHHSTTCCCTTTCEEEETTEECCSSSCHHHHSCSSSCSEEEEEECC
T ss_pred             EEEEEEEeCCCCeEEEEEecCCCCcHHHHHHHHHHHhcCCCChHHeEEEECCEECcCcCCHHHHhcCCCCCCEEEEEeC
Confidence            477888888777  5555543       7777764            99999999999999999  9999999999976

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

Probab=98.92  E-value=5.4e-10  Score=76.76  Aligned_cols=62  Identities=11%  Similarity=0.260  Sum_probs=59.6

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +.+.+.|.+++++..|+...+++.|+|+++|+++|.|++|.++.       |.++|++.++++|+++..
T Consensus        37 ~~i~fkVk~~t~l~kL~~ay~ek~gi~~~~~rfiFdG~~L~~~~-------Tp~dl~mEDgD~Idv~~~   98 (110)
T 2k8h_A           37 AEMFFRIKSRTALKKLIDTYCKKQGISRNSVRFLFDGTPIDETK-------TPEELGMEDDDVIDAMVE   98 (110)
T ss_dssp             CCEEEEECTTSSHHHHHHHHHHHHTCCSSSCEEESSSCBCCSSS-------HHHHHHCSSEEEEEEECC
T ss_pred             CEEEEEECCCChHHHHHHHHHHHhCCCcccEEEEECCEEcCCCC-------CHHHcCCCCCCEEEEEEc
Confidence            35789999999999999999999999999999999999999999       999999999999999988

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

Probab=98.89  E-value=1.6e-09  Score=74.96  Aligned_cols=56  Identities=21%  Similarity=0.171  Sum_probs=45.5

Q ss_pred             eeeeee-eeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEeec
Q 041424           91 VKIFVK-MLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFISD  146 (148)
Q Consensus        91 i~I~Vk-~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~~  146 (148)
                      +++.|+ ...|+.++++++       ||+.+.+          |+|+|+.|.|+.||.+|||++|.||||+.+.
T Consensus        16 itvkv~l~~~~~k~tv~v~~d~TV~dLKe~ls~~~~iP~e~qrLIy~GKiLKD~eTL~~~gIk~g~TIhLvi~s   89 (118)
T 2daf_A           16 ATVKVVLIPVGQEIVIPFKVDTILKYLKDHFSHLLGIPHSVLQIRYSGKILKNNETLVQHGVKPQEIVQVEIFS   89 (118)
T ss_dssp             EEEEEEETTTCCEEEEEECSSSCSHHHHHHHHHHHTCCTTTEEEEETTEEECSSCCHHHHSCCSSCEEEEEEEE
T ss_pred             EEEEEEEcCCCcEEEEEeCCCCcHHHHHHHHHhhhCCChHHEEEEECCeEcCCcchHHHcCCCCCCEEEEEEec
Confidence            455555 345666666665       8888776          9999999999999999999999999999864

>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=98.88  E-value=1.9e-10  Score=83.26  Aligned_cols=55  Identities=33%  Similarity=0.560  Sum_probs=0.0

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      |+|+|+..+|+++.++|+       ||++|++          |+|+|+.|+|+.+|++|+|++|++|+|+++
T Consensus         1 MqI~VK~l~G~~~~l~V~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~dygI~~gstL~Lvlr   72 (152)
T 3u5c_f            1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR   72 (152)
T ss_dssp             ------------------------------------------------------------------------
T ss_pred             CEEEEEeCCCCEEEEEECCCCCHHHHHHHHHHHhCCCHHHEEEEECCEEccccCcHHHcCCCCCCEEEEEee
Confidence            578899989999888887       8888886          999999999999999999999999999886

>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=98.88  E-value=9.7e-10  Score=75.17  Aligned_cols=57  Identities=21%  Similarity=0.142  Sum_probs=47.8

Q ss_pred             heeeeeeeee---eeeeeehhhh--------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           89 LKVKIFVKML---TEEIVKLKVK--------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        89 ~~i~I~Vk~~---~gk~~~l~v~--------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      +.|+|+|+..   +|+.+.++|.        +|++|++          |+|+|+.|+|+++|++|+|++|++|+|+++
T Consensus        26 ~~i~i~Vk~~~~~~g~~~~l~v~~l~~TV~~LK~~I~~~~gip~~~QrL~~~Gk~L~D~~tL~~y~I~~g~~l~l~~r  103 (111)
T 1we6_A           26 GPATIRVSKPNENDGQFMEITVQSLSENVGSLKEKIAGEIQIPANKQKLSGKAGFLKDNMSLAHYNVGAGEILTLSLR  103 (111)
T ss_dssp             SCEEEEECCTTCSSSCCEEEEESCSSSBHHHHHHHHHHHTTCCTTTSEEECSSSBCCTTSBTTTTTCSSSCEEEEECS
T ss_pred             CcEEEEEEecccCCCcEEEEEecCCCCcHHHHHHHHHHHHCCCHHHeEEEECCEECCCCCcHHHCCCCCCCEEEEEEE
Confidence            4578888877   6776654433        8888886          999999999999999999999999999986

>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=98.86  E-value=2.9e-09  Score=73.27  Aligned_cols=47  Identities=17%  Similarity=0.311  Sum_probs=41.4

Q ss_pred             eeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           99 TEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        99 ~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      +|+++.++|+       +|++|++          |+|+|+.|+|+++|++|+|++|++|+|+++
T Consensus        44 ~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrL~~~Gk~L~D~~tL~~y~i~~g~~i~lv~r  107 (115)
T 1we7_A           44 NGQGLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDSNSLAYYNMASGAVIHLALK  107 (115)
T ss_dssp             SSEEEEEEECSCSBTHHHHHHHHHHSSCCTTTEEEEETTEEECTTSBHHHHTCCSSCEEEEEEC
T ss_pred             CCeEEEEEECCCCCHHHHHHHHHHHHCCChHHEEEEECCEECCCCCCHHHCCCCCCCEEEEEEE
Confidence            4667776666       8888886          999999999999999999999999999986

>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=98.86  E-value=1.9e-09  Score=72.64  Aligned_cols=57  Identities=23%  Similarity=0.223  Sum_probs=47.8

Q ss_pred             eeeeeeeeeee----eeeehhhh-------Hhhhhhe----------eeecCeeeCCC-CchhhhCCCCCCEEEEEeec
Q 041424           90 KVKIFVKMLTE----EIVKLKVK-------VLLTIRD----------LFCTGMKLKDC-KTLACYGVKDDRGVACFISD  146 (148)
Q Consensus        90 ~i~I~Vk~~~g----k~~~l~v~-------lK~~i~e----------L~f~g~~L~d~-~tL~~y~I~~gstI~l~l~~  146 (148)
                      .|+|+|+..++    +.+.++|+       ||++|++          |+|+|+.|+|+ ++|.+|+|++|++|+|+.+.
T Consensus         7 ~m~I~Vk~~~~~~~~~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~gk~L~D~~~tL~~ygI~~g~~l~l~~~~   85 (102)
T 1v5o_A            7 GMLITVYCVRRDLTEVTFSLQVNPDFELSNFRVLCELESGVPAEEAQIVYMEQLLTDDHCSLGSYGLKDGDMVVLLQKD   85 (102)
T ss_dssp             CEEEEEEECCCCCCCCEEEEEECTTCBHHHHHHHHHHHTCCCGGGBCEEETTEEECCSSSBHHHHTCCTTEEEEECBCC
T ss_pred             eEEEEEEECCCCcCceEEEEEcCCCCCHHHHHHHHHHHHCcChHHeEEEECCEECCCCcccHHHCCCCCCCEEEEEECC
Confidence            47788887644    67777666       9999886          99999999988 79999999999999998764

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

Probab=98.84  E-value=3.7e-09  Score=71.94  Aligned_cols=56  Identities=14%  Similarity=0.079  Sum_probs=48.4

Q ss_pred             eeeeeeeeee--eeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCC-CCCCEEEEEeec
Q 041424           91 VKIFVKMLTE--EIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGV-KDDRGVACFISD  146 (148)
Q Consensus        91 i~I~Vk~~~g--k~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I-~~gstI~l~l~~  146 (148)
                      ++++|+...+  .+++++|+       +|++|++          ++|+|+.++|++||.+||| ++|+++||++-.
T Consensus        25 l~v~v~d~~s~~~~i~l~V~ps~TV~~LK~~I~~k~Gipp~~QRli~ggkll~D~~TL~~ygI~~~G~t~hL~l~~  100 (105)
T 4dbg_A           25 LWVSVEDAQMHTVTIWLTVRPDMTVASLKDMVFLDYGFPPVLQQWVIGQRLARDQETLHSHGVRQNGDSAYLYLLS  100 (105)
T ss_dssp             EEEEEEESSSCCEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEEECTTCBTGGGTCCSTTCEEEEEECC
T ss_pred             EEEEEEccCCCCceEEEEECCcChHHHHHHHHHHHhCCCHHHEEEeccCeEccCcCcHHHcCCCCCCCEEEEEEEe
Confidence            6778888764  67777776       9999986          9999999999999999999 699999999854

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

Probab=98.80  E-value=4.4e-09  Score=68.65  Aligned_cols=53  Identities=17%  Similarity=0.164  Sum_probs=44.7

Q ss_pred             eeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           93 IFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        93 I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      .+++.++|+.+.++++       ||++|++          |+|+|+.|+|+.+|++|+|++|++|+++.+
T Consensus        14 ~~~~~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~l~l~~s   83 (85)
T 2kd0_A           14 KLTVKFGGKSIPLSVSPDCTVKDLKSQLQPITNVLPRGQKLIFKGKVLVETSTLKQSDVGSGAKLMLMAS   83 (85)
T ss_dssp             EEEEEETTEEEEEEECTTSBHHHHHHHHHHHHCCCTTTCEEEETTEECCTTCBTTTTTCCTTEEEEEECC
T ss_pred             EEEEEECCEEEEEEECCCCcHHHHHHHHHHHHCcChHHEEEEECCeECCCcCCHHHCCCCCCCEEEEEEe
Confidence            3455667777777666       8888875          999999999999999999999999999864

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

Probab=98.78  E-value=2.8e-09  Score=71.98  Aligned_cols=57  Identities=14%  Similarity=0.233  Sum_probs=48.8

Q ss_pred             eeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eee--cCeeeCCCCchhhhCCCCCCEEEEEeecc
Q 041424           90 KVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFC--TGMKLKDCKTLACYGVKDDRGVACFISDI  147 (148)
Q Consensus        90 ~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f--~g~~L~d~~tL~~y~I~~gstI~l~l~~~  147 (148)
                      .|.++++.++|++++++|+       +|++|++          |+|  +|+ |+|+.+|++|+|++|++|+|+++|+
T Consensus         8 ~m~~~~vk~~Gk~~~v~v~~~~TV~~LK~~I~~~tgIpp~~QkLi~~~~gk-L~D~~tLs~~~I~~gstL~lvl~~~   83 (100)
T 2dzm_A            8 RMLDFRVEYRDRNVDVVLEDTCTVGEIKQILENELQIPVSKMLLKGWKTGD-VEDSTVLKSLHLPKNNSLYVLTPDL   83 (100)
T ss_dssp             CEEEEEEECSSCEEEEEEETTSBHHHHHHHHHHHHCCCTTTCCEECCSSSC-CCTTSBHHHHCCCSEEEEEECCSSS
T ss_pred             ceEEEEEEeCCeEEEEEECCCCcHHHHHHHHHHHHCCChhHeEEEccCCCC-CCCcCCHHHcCCCCCCEEEEEecCC
Confidence            3666777778999988877       9999986          765  566 9999999999999999999999886

>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=98.75  E-value=7.7e-09  Score=68.16  Aligned_cols=55  Identities=13%  Similarity=0.179  Sum_probs=48.1

Q ss_pred             eeeeeeeeeeeeeeeh-hhh-------Hhhhhhe----------ee---ecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           90 KVKIFVKMLTEEIVKL-KVK-------VLLTIRD----------LF---CTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        90 ~i~I~Vk~~~gk~~~l-~v~-------lK~~i~e----------L~---f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      .|+|+||. .|+.+.+ ++.       +|++|++          |+   |+|+.|+|+.+|++|+|++|++|+|+-+
T Consensus         7 ~m~i~Vk~-~g~~~~i~~v~~~~TV~~lK~~I~~~~gip~~~QkLi~~k~~Gk~L~D~~~L~~~~i~~g~~l~l~~~   82 (90)
T 1v5t_A            7 GLPIIVKW-GGQEYSVTTLSEDDTVLDLKQFLKTLTGVLPERQKLLGLKVKGKPAENDVKLGALKLKPNTKIMMMGT   82 (90)
T ss_dssp             SCCEEEEE-TTEEEEECSCCSSSBHHHHHHHHHHHTCCCTTTCEEESCEETTEECCTTSBHHHHTCCTTEEEEEECC
T ss_pred             eEEEEEEE-CCEEEEEEEeCCCCCHHHHHHHHHHHHCcCHHHeEEEeeccCCcCcCCCCCHHHcCCCCCCEEEEEec
Confidence            47788885 7888888 777       9999886          88   9999999999999999999999999754

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

Probab=98.69  E-value=1.1e-08  Score=81.47  Aligned_cols=58  Identities=31%  Similarity=0.512  Sum_probs=52.0

Q ss_pred             hheeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           88 KLKVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        88 ~~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      .+.|+|+||..+|+.+.++|+       ||++|++          |+|+|+.|+|+++|++|+|++|++|+|+++
T Consensus       231 ~~~MqI~VKtl~Gk~~~leV~~s~TV~dLK~kI~~~~GIp~~~QRLi~~Gk~L~D~~TLsdygI~~gstL~LvlR  305 (307)
T 3ai5_A          231 TGSMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR  305 (307)
T ss_dssp             CCCEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTSBTGGGTCCTTCEEEEEC-
T ss_pred             CCeEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcChHHEEEEeCCeecCCCCCHHHcCCCCCCEEEEEEe
Confidence            456899999999998888777       9998886          999999999999999999999999999986

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

Probab=98.69  E-value=3.4e-08  Score=65.83  Aligned_cols=62  Identities=16%  Similarity=0.229  Sum_probs=47.7

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecC--CCcccccccccccCCCc-ccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLM--NGRLIDYEDMALASPNV-KRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~--d~~~~~~~~~~L~~~~i-~~~s~i~l~~~   70 (148)
                      ..+++.+.|.+|+..||++|++++||||++|+|+|.|+.|.  .+.       .-..|.- .+.+.+.|+.+
T Consensus        24 ~~h~v~I~~~etv~~~ke~V~eqTgIp~~~Q~LL~eg~~l~l~p~~-------~a~~~p~Tt~~~Pl~L~s~   88 (94)
T 4efo_A           24 TAHKIYIHSYNTATIFHELVYKQTKIISSNQELIYEGRRLVLEPGR-------LAQHFPKTTEENPIFVVSL   88 (94)
T ss_dssp             EEEEEEEETTCBHHHHHHHHHHHHCCCGGGEEEEETTEEECCCTTC-------BGGGSCCCBTTBCEEEEEC
T ss_pred             eEEEEEeccchHHHHHHHHHHHHhCCCHHHHHHHhCCCccccCCCC-------ccccCCCCCCCCCEEEEec
Confidence            45789999999999999999999999999999999998764  333       4444433 34455665554

>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=98.69  E-value=7.4e-09  Score=69.16  Aligned_cols=54  Identities=19%  Similarity=0.145  Sum_probs=46.3

Q ss_pred             eeeeeeeeeeeeee-ehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           90 KVKIFVKMLTEEIV-KLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        90 ~i~I~Vk~~~gk~~-~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      .|+|+||. .|+.+ .++++       ||++|++          |+|.|+.|+|+ +|++|+|++|++|+|+.+
T Consensus         7 ~m~i~Vk~-~g~~~~~l~v~~~~TV~~lK~~I~~~tgip~~~QkLi~~Gk~L~D~-tL~~~~I~~g~~i~l~~~   78 (96)
T 1wgg_A            7 GYSVTVKW-GKEKFEGVELNTDEPPMVFKAQLFALTGVQPARQKVMVKGGTLKDD-DWGNIKMKNGMTVLMMGS   78 (96)
T ss_dssp             EEEEEEEE-TTEEEEEEEEESSSCHHHHHHHHHHHTCCCTTTSCCEETTEECCSS-CCCSCCCCSSCEEECCCC
T ss_pred             EEEEEEEE-CCEEEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCcCCCCC-CHHHCCCCCCCEEEEEec
Confidence            37788884 67888 47777       9999886          99999999999 999999999999998754

>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=98.62  E-value=2.1e-08  Score=81.86  Aligned_cols=57  Identities=21%  Similarity=0.287  Sum_probs=49.4

Q ss_pred             heeeeeeeeeeeeeeehhhh-------Hhhhhhe-------------eeecCeeeCCCCchhhhCCCCCCEE-EEEee
Q 041424           89 LKVKIFVKMLTEEIVKLKVK-------VLLTIRD-------------LFCTGMKLKDCKTLACYGVKDDRGV-ACFIS  145 (148)
Q Consensus        89 ~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e-------------L~f~g~~L~d~~tL~~y~I~~gstI-~l~l~  145 (148)
                      ..|.|+||..+|+++.++|+       ||.+|++             |+|+|+.|+|+++|.+|+|++|++| +|+.+
T Consensus         6 ~~M~I~VKtl~Gk~~~leV~~~~TV~~LK~~I~~~~~~~gip~~~QrLiy~GK~L~D~~tL~dygI~~gstIv~lv~k   83 (368)
T 1oqy_A            6 SAVTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIRDYRIDEKNFVVVMVTK   83 (368)
T ss_dssp             CCCCEEEEETTTEEEEECCCTTCBHHHHHHHHHHHTCSSSCCSTEEEEESSSSEECSSSBTTTTCCCTTSCEEEEEEC
T ss_pred             ceEEEEEEeCCCCEEEEEeCCCChHHHHHHHHHHHhCcCCCChhheEEEECCeecCCcCCHHHcCCCCCCEEEEEEec
Confidence            34889999999999998887       7777653             9999999999999999999999999 66654

>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=98.61  E-value=4.2e-08  Score=65.37  Aligned_cols=57  Identities=16%  Similarity=0.267  Sum_probs=48.8

Q ss_pred             heeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           89 LKVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        89 ~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      ..|+|.|+..+|+.+.++|+       |+..+++          |+|.|+.|+++.|..+|++++||+|+++++
T Consensus         6 ~~i~ikVk~~~g~~i~~~v~~~t~l~kl~~~y~~~~gi~~~~~rf~FdG~~l~~~~Tp~dl~medgD~Idv~~~   79 (94)
T 2io1_B            6 DHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQQ   79 (94)
T ss_dssp             CEEEEEEECTTSCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCTTTTTCCTTCEEEEEEC
T ss_pred             CeEEEEEECCCCCEEEEEECCCCHHHHHHHHHHHHhCCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEEEEe
Confidence            34788888888888888777       5555554          999999999999999999999999999985

>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=98.60  E-value=4.3e-08  Score=66.57  Aligned_cols=32  Identities=38%  Similarity=0.545  Sum_probs=29.9

Q ss_pred             eeeecCeeeCCCCchhhhCCCCCCEEEEEeec
Q 041424          115 DLFCTGMKLKDCKTLACYGVKDDRGVACFISD  146 (148)
Q Consensus       115 eL~f~g~~L~d~~tL~~y~I~~gstI~l~l~~  146 (148)
                      .|+|+|+.|+|+++|++|+|++|++|||+++.
T Consensus        69 rLi~~Gk~L~D~~tL~~y~i~~g~~i~lv~~~  100 (107)
T 1x1m_A           69 DLIYCGRKLKDDQTLDFYGIQPGSTVHVLRKS  100 (107)
T ss_dssp             EEEETTEECCTTCBHHHHTCCTTCEEEEEESS
T ss_pred             EEEECCeECCCCCcHHHcCCCCCCEEEEEeCC
Confidence            38999999999999999999999999999864

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

Probab=98.58  E-value=2.3e-08  Score=65.77  Aligned_cols=53  Identities=19%  Similarity=0.085  Sum_probs=42.2

Q ss_pred             eeeeeeeeeeeeeee--h-hhh-------Hhhhhhe-----------eeec--CeeeCCCCchhhhCCCCCCEEEE
Q 041424           90 KVKIFVKMLTEEIVK--L-KVK-------VLLTIRD-----------LFCT--GMKLKDCKTLACYGVKDDRGVAC  142 (148)
Q Consensus        90 ~i~I~Vk~~~gk~~~--l-~v~-------lK~~i~e-----------L~f~--g~~L~d~~tL~~y~I~~gstI~l  142 (148)
                      .|.|+|++.+|+.+.  + +|+       +|++|++           |+|.  |+.|+|++||++|+|++|++|++
T Consensus        10 ~M~I~Vk~~~g~~~~~~l~~v~~~~TV~~lK~~I~~~~~~i~~~~QrL~~~~~Gk~L~D~~tL~~y~i~~~stl~~   85 (88)
T 2dzj_A           10 HYEVEILDAKTREKLCFLDKVEPHATIAEIKNLFTKTHPQWYPARQSLRLDPKGKSLKDEDVLQKLPVGTTATLYF   85 (88)
T ss_dssp             CEEEEEEESSSCCCCEEEEEECSSCBHHHHHHHHHHHCSSSCTTTCCEESSTTSCCCCTTCBTTTSSCCSEEEEEE
T ss_pred             EEEEEEECCCCCEEeeEEeEcCCCCcHHHHHHHHHHHhcCCChHHeEEEecCCCcCcCCCCCHHHcCCCCCCEEEE
Confidence            378899998877653  4 444       8888775           6655  99999999999999999999654

>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=98.55  E-value=3.4e-08  Score=65.73  Aligned_cols=54  Identities=20%  Similarity=0.199  Sum_probs=45.1

Q ss_pred             eeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           90 KVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        90 ~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      .|+|+|+ ..|+++.+++.       ||++|++          |+|+|+.|+| .+|.+|+|++|++|+|+.+
T Consensus        17 ~~~i~Vk-~~g~~~~i~v~~~~TV~~LK~~I~~~tgip~~~QrL~~~Gk~Ldd-~tL~~~~i~~g~~i~lv~~   87 (95)
T 1v86_A           17 LVDLKII-WNKTKHDVKVPLDSTGSELKQKIHSITGLPPAMQKVMYKGLVPED-KTLREIKVTSGAKIMVVGS   87 (95)
T ss_dssp             CEEEEEE-ETTEEEEEEECTTSBHHHHHHHHHHHHCSCSTTCCCBSSSBCCSS-SBHHHHCCCTTEEEEECCS
T ss_pred             eEEEEEE-ECCEEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCeeCCc-CcHHHCCCCCCCEEEEEec
Confidence            3778887 46788777776       9999886          9999999955 5999999999999999764

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

Probab=98.53  E-value=3.7e-07  Score=68.61  Aligned_cols=64  Identities=11%  Similarity=0.265  Sum_probs=60.7

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEeee
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFCAI   72 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~~~   72 (148)
                      +.+.+.|.+++++..|+...+++.|+|++++|++|.|++|.++.       |.+++++.+|++|+++..+.
T Consensus        39 ~~v~fkIk~~t~l~kL~~ay~er~Gi~~~~~RF~FdG~rI~~~~-------TP~dL~MEdgD~Idv~~~q~  102 (200)
T 3pge_A           39 SEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQ-------TPEDLDMEDNDIIEAHREQI  102 (200)
T ss_dssp             CEEEEEECTTSCTHHHHHHHHHHHSSCGGGEEEEETTEECCTTC-------CTTTTTCCTTEEEEEEECCS
T ss_pred             CEEEEEEecCCHHHHHHHHHHHHhCCChhhEEEEECCEEcCCCC-------CHHHcCCCCCCEEEEEeccC
Confidence            46789999999999999999999999999999999999999999       99999999999999999854

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

Probab=98.52  E-value=1.2e-08  Score=76.21  Aligned_cols=50  Identities=18%  Similarity=0.202  Sum_probs=0.0

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      |+|+|++++|++++++|+       ||++|++          |+|+|++|+|++||+     +||||||+++
T Consensus         1 MqI~VKtL~GktitLeV~~sdTV~~LK~kI~~keGIP~~qQRLIf~GK~LeD~~TLs-----~~STLhLvlR   67 (189)
T 2xzm_9            1 MQVQVKTLEGETKIYTLEQGTSVLDLKSQISQDMGFEIDMMTLVNNGFIAPNTELVT-----DDVTYYLSLK   67 (189)
T ss_dssp             ------------------------------------------------------------------------
T ss_pred             CEEEEEcCCCCEEEEEECCcChHHHHHHHHHHHhCcChhHEEEEecCeECCCCCccc-----CCCEEEEEEe
Confidence            678999999999999988       8988886          999999999999999     9999999986

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

Probab=98.48  E-value=6.1e-07  Score=61.84  Aligned_cols=62  Identities=15%  Similarity=0.331  Sum_probs=58.8

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +.+.+.|.+++++..|+...+++.|+|+++++++|.|.+|.++.       |.+++++.+|++|.++..
T Consensus        51 ~ev~fkIk~tt~L~KLm~aY~er~Gl~~~~irFlFDG~rI~~~~-------TP~dL~MEDgD~IdV~~~  112 (115)
T 3kyd_D           51 SEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNH-------TPKELGMEEEDVIEVYQE  112 (115)
T ss_dssp             CEEEEEEETTSCTHHHHHHHHHHHTCCTTSEEEEETTEECCTTC-------CTTTTTCCTTCEEEEEEC
T ss_pred             CEEEEEEccCChHHHHHHHHHHHhCCChhhEEEEECCeECCCCC-------CHHHcCCCCCCEEEEEee
Confidence            35789999999999999999999999999999999999999999       999999999999999876

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

Probab=98.48  E-value=9.4e-08  Score=62.63  Aligned_cols=38  Identities=13%  Similarity=0.115  Sum_probs=34.5

Q ss_pred             Hhhhhhe----------eee-------cCeeeCCCCchhhhCCCCCCEEEEEeec
Q 041424          109 VLLTIRD----------LFC-------TGMKLKDCKTLACYGVKDDRGVACFISD  146 (148)
Q Consensus       109 lK~~i~e----------L~f-------~g~~L~d~~tL~~y~I~~gstI~l~l~~  146 (148)
                      ||++|++          |+|       .|+.++|+++|++|||++|++|||+-.|
T Consensus        30 lK~ki~~~~Gip~~~QrLi~~~~~~~~~g~~l~d~~tL~~Y~i~~g~~ihlvd~~   84 (86)
T 4b6w_A           30 IKENVFTHFATPPEYMQLQLIDDRGITIEKNMANDKQLGYYQCRDEFVIHVVDLQ   84 (86)
T ss_dssp             HHHHHHTTSCCCGGGEEEEEECTTSCEEESSCCTTSBGGGGTCCTTCEEEEEECC
T ss_pred             HHHHHHHHHCCCHHHEEEEEecCCCCceeeEcCCCCCHHHCCCCCCCEEEEEeCC
Confidence            9999987          775       6899999999999999999999999765

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

Probab=98.48  E-value=1.3e-07  Score=63.12  Aligned_cols=54  Identities=11%  Similarity=0.107  Sum_probs=40.4

Q ss_pred             eeeeeeeeee--eeeehhhh-------Hhhhhhe----------eeec--Ce---ee-CCCCchhhhCCCCCCEEEEEe
Q 041424           91 VKIFVKMLTE--EIVKLKVK-------VLLTIRD----------LFCT--GM---KL-KDCKTLACYGVKDDRGVACFI  144 (148)
Q Consensus        91 i~I~Vk~~~g--k~~~l~v~-------lK~~i~e----------L~f~--g~---~L-~d~~tL~~y~I~~gstI~l~l  144 (148)
                      ++++|+...+  +.++++++       ||++|++          |+|.  |+   .| +|+++|++|||++|++|+|+-
T Consensus        16 v~l~It~s~~~~~~~~~~v~~~~TV~~LK~kI~~~~GiP~~~QrL~~~~~g~~~~~L~~D~~tL~~Y~i~~gstihlvD   94 (95)
T 2kjr_A           16 IKVNVSNSHNDAVAFEVKLAKDLTVAQLKTKLEILTGGCAGTMKVQVFKGDTCVSTMDNNDAQLGYYANSDGLRLHVVD   94 (95)
T ss_dssp             EEEEEEESSCSCEEEEEEEETTCBHHHHHHHHHHHHCSCTTTEEEEEEETTEEEEECCCTTSBHHHHCCSSSCEEEEEE
T ss_pred             EEEEEEECCCCceEEEEEeCccCHHHHHHHHHHHHHCcCHHHeEEEEecCCcccceeCCCCCCHhHCCcCCCCEEEEEC
Confidence            4566655443  35555444       9999987          8887  45   45 999999999999999999974

>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=98.47  E-value=1.3e-07  Score=62.18  Aligned_cols=37  Identities=22%  Similarity=0.345  Sum_probs=33.2

Q ss_pred             Hhhhhhe----------eeecCeeeCC-CCchhhhCCCCCCEEEEEee
Q 041424          109 VLLTIRD----------LFCTGMKLKD-CKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus       109 lK~~i~e----------L~f~g~~L~d-~~tL~~y~I~~gstI~l~l~  145 (148)
                      ||++|++          |+|+|+.|+| ..+|++|+|++|++|+|+.+
T Consensus        37 LK~~i~~~~gip~~~qrL~~~Gk~L~D~~~~L~~~~i~~g~~i~l~~~   84 (92)
T 1wxv_A           37 LAQVVEEVIGVPQSFQKLIFKGKSLKEMETPLSALGIQDGCRVMLIGK   84 (92)
T ss_dssp             HHHHHHHHTCCCTTTCEEEETTEEECCSSSBHHHHTCCSSEEEEEESC
T ss_pred             HHHHHHHHHCcCHHHEEEEECCeecCCCcccHHHCCCCCCCEEEEEec
Confidence            8888875          9999999998 56899999999999999865

>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=98.41  E-value=2.4e-07  Score=58.55  Aligned_cols=54  Identities=17%  Similarity=0.301  Sum_probs=44.2

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEe
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFI  144 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l  144 (148)
                      |+|.|+..+|+.+.+.|+       ++...++          ++|.|+.|.++.|.++|++++||+|+++.
T Consensus         2 i~lkV~~~~g~~v~~~v~~~t~l~kl~~~y~~~~gi~~~~~rf~fdG~~l~~~~Tp~~l~medgD~Idv~~   72 (72)
T 1wm3_A            2 INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQ   72 (72)
T ss_dssp             EEEEEECTTSCEEEEEECTTSCTHHHHHHHHHHHTCCTTTCEEEETTEECCTTCCTTTTTCCTTEEEEEEC
T ss_pred             EEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCCCcceEEEEECCEEcCCCCCHHHcCCCCCCEEEEEC
Confidence            467777777887777777       4444443          99999999999999999999999999863

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

Probab=98.39  E-value=2.2e-07  Score=60.09  Aligned_cols=59  Identities=14%  Similarity=0.197  Sum_probs=49.6

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCee-----cCCCcccccccccccCCCcccccceeEE
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDR-----LMNGRLIDYEDMALASPNVKRESTMQLL   68 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~-----L~d~~~~~~~~~~L~~~~i~~~s~i~l~   68 (148)
                      ++.+++++++|+.+|+++|++.+++|++.|.+.++..+     +..+.       +|+++|++.|+.+++.
T Consensus        15 ~~Ri~v~~~~t~~~L~~~I~~~~~i~~~~~~l~~~~~p~~~l~~~~~~-------~l~~lgl~hGd~l~l~   78 (80)
T 2pjh_A           15 VKRITATKRETAATFLKKVAKEFGFQNNGFSVYINRNKTGEITASSSK-------SLHLLKIKHGDLLFLF   78 (80)
T ss_dssp             EEECCCCSSCCHHHHHHHHHHHTCCCTTTCCCCCSCCGGGGSSSCCCC-------TTTTTCCCTTCCEEC-
T ss_pred             CEEEEcCCcChHHHHHHHHHHHcCCCCCcceEEecCCCCCcccCCCCC-------CHHHcCCCCCCEEEEe
Confidence            57788999999999999999999999999888765444     23556       9999999999999864

>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=98.39  E-value=3e-07  Score=60.86  Aligned_cols=56  Identities=16%  Similarity=0.295  Sum_probs=47.1

Q ss_pred             eeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           90 KVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        90 ~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      .|.|.|+..+|+.+.++|+       |+...++          |+|.|+.|.++.|.++|++++||+|++++.
T Consensus         5 ~i~ikVk~~~g~~v~~~vk~~t~l~kl~~~y~~~~gi~~~~~rf~FdG~~l~~~~Tp~dl~medgD~Idv~~~   77 (91)
T 2io0_B            5 HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQQ   77 (91)
T ss_dssp             EEEEEEECTTSCEEEEEEETTSCTHHHHHHHHHHTTCCSTTEEEEETTEECCTTCCTTTTTCCTTEEEEEEEC
T ss_pred             eEEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEEEEe
Confidence            4677888888888887777       5544444          999999999999999999999999999875

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

Probab=98.33  E-value=8.1e-07  Score=66.27  Aligned_cols=63  Identities=8%  Similarity=0.227  Sum_probs=60.0

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEee
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFCA   71 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~~   71 (148)
                      +.+.+.|.+++++..|+...+++.|+|+.+++++|.|+.|.++.       |.+++++.++++|+++...
T Consensus        67 ~eV~FKIKrtTpL~KLmeAYcERqGL~~~sIRFLFDGqRI~~dd-------TPeDLdMEDGDtIDV~leQ  129 (207)
T 3tix_A           67 SEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLTFLYDGIEIQADQ-------TPEDLDMEDNDIIEAHREQ  129 (207)
T ss_dssp             CEEEEEEETTSCTHHHHHHHHHHTTCCGGGSCEEETTEECCSSC-------CTTTTTCCTTEEEEECCCC
T ss_pred             CEEEEEEccCChHHHHHHHHHHHhCCCcccEEEEECCeecCCCC-------CHHHcCCCCCCEEEEEEec
Confidence            46789999999999999999999999999999999999999999       9999999999999999983

>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=98.30  E-value=6.2e-07  Score=59.46  Aligned_cols=56  Identities=16%  Similarity=0.295  Sum_probs=46.7

Q ss_pred             eeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           90 KVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        90 ~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      .|.|.|+..+|+.+.+.|+       |+..+++          |+|.|+.|.++.|..+|++.+||+|++++.
T Consensus        17 ~i~ikV~~~~g~~i~~~v~~~t~l~kl~~~y~~~~gi~~~~~rf~fdG~~l~~~~Tp~dl~medgD~Idv~~~   89 (93)
T 2d07_B           17 HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQQ   89 (93)
T ss_dssp             EEEEEEECTTSCEEEEEEETTSCHHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCTTTTTCCTTEEEEEEEC
T ss_pred             eEEEEEECCCCCEEEEEEccCCHHHHHHHHHHHHhCCCccceEEEECCEEcCCCCCHHHcCCCCCCEEEEEee
Confidence            4778888878887777776       4444443          999999999999999999999999999875

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

Probab=98.29  E-value=3.8e-07  Score=61.03  Aligned_cols=38  Identities=18%  Similarity=0.070  Sum_probs=33.0

Q ss_pred             Hhhhhhe----------eeecCe---e----eCCCCchhhhCCCCCCEEEEEeec
Q 041424          109 VLLTIRD----------LFCTGM---K----LKDCKTLACYGVKDDRGVACFISD  146 (148)
Q Consensus       109 lK~~i~e----------L~f~g~---~----L~d~~tL~~y~I~~gstI~l~l~~  146 (148)
                      ||++|++          |+|.|+   .    ++|+++|++|+|++|++|+++-.|
T Consensus        42 LK~kIe~~~Gip~~~QrLi~~g~~g~~~~~L~~D~~tL~~Y~I~~g~~Ihlvd~~   96 (97)
T 2kj6_A           42 VKEKLWKKCGTSVNSMALELYDDSGSKVAVLSDDSRPLGFFSPFDGFRLHIIDLD   96 (97)
T ss_dssp             HHHHHHHHHCCCTTSEEEEEECSSSCBCCCSSGGGSCHHHHCCCSCCEEEEEECC
T ss_pred             HHHHHHHHHCcCHHHeEEEEecCCCcccceecCCcCCHHHCCCCCCCEEEEEeCC
Confidence            9999886          999883   3    499999999999999999998764

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

Probab=98.24  E-value=9.4e-07  Score=56.81  Aligned_cols=55  Identities=13%  Similarity=0.288  Sum_probs=45.0

Q ss_pred             heeeeeeeeeeee-eeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEE
Q 041424           89 LKVKIFVKMLTEE-IVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACF  143 (148)
Q Consensus        89 ~~i~I~Vk~~~gk-~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~  143 (148)
                      ..|.|.|+..+|+ .+.+.|+       |+...++          |+|.|+.|.++.|..+|++++||+|+++
T Consensus         6 ~~i~ikV~~~~g~~~i~~~i~~~t~l~kl~~~y~~~~gi~~~~~rf~fdG~~l~~~~Tp~~l~medgD~Idv~   78 (79)
T 3a4r_A            6 QELRLRVQGKEKHQMLEISLSPDSPLKVLMSHYEEAMGLSGHKLSFFFDGTKLSGKELPADLGLESGDLIEVW   78 (79)
T ss_dssp             CCEEEEEECSSTTCEEEEEECTTSCHHHHHHHHHHHHTCTTCCCEEEETTEECCSCCCHHHHTCCTTCEEEEE
T ss_pred             CEEEEEEEeCCCCEEEEEEECCCChHHHHHHHHHHHhCCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEEe
Confidence            3477888888885 7777776       4444443          9999999999999999999999999875

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

Probab=98.23  E-value=6.1e-07  Score=60.79  Aligned_cols=57  Identities=16%  Similarity=0.267  Sum_probs=47.7

Q ss_pred             heeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           89 LKVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        89 ~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      ..|.|.|+..+|+.+.+.|+       |+..+++          |+|.|+.|.++.|..+|++++||+|++++.
T Consensus        23 ~~I~IkVk~~~g~~i~~kVk~~t~l~kL~~~y~ek~gi~~~~~rf~FdG~~l~~~~Tp~dl~medgD~Idv~~~   96 (104)
T 1wz0_A           23 DHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQQ   96 (104)
T ss_dssp             CCEEEEEECSSSCEEEEEECTTSCHHHHHHHHHHHHTCCTTTSCEESSSSBCCTTSCTTTTTCCTTEEEEECCC
T ss_pred             CeEEEEEECCCCCEEEEEEcCCChHHHHHHHHHHHhCCCcceEEEEECCEEcCCCCCHHHcCCCCCCEEEEEEe
Confidence            34778888888888887777       5544444          999999999999999999999999999875

>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=98.22  E-value=1.2e-06  Score=59.48  Aligned_cols=56  Identities=11%  Similarity=0.212  Sum_probs=47.8

Q ss_pred             heeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           89 LKVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        89 ~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      ..|.|.|+. +|+.+.++|+       |+...++          |+|.|+.|.++.|.++|++++||+|++++.
T Consensus        30 ~~I~IkV~~-~g~~i~fkIk~tt~l~kL~~ay~ek~gi~~~~~rF~FdG~rl~~~~Tp~dl~medgD~Idv~~~  102 (106)
T 2eke_C           30 THINLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHRE  102 (106)
T ss_dssp             SEEEEEEEC-SSCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCTTTTTCCTTEEEEEEEC
T ss_pred             CeEEEEEec-CCcEEEEEeCCCCHHHHHHHHHHHHhCCCcccEEEEECCeEcCCCCCHHHcCCCCCCEEEEEee
Confidence            458888998 8988888877       5544444          999999999999999999999999999875

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

Probab=98.22  E-value=5.2e-07  Score=61.18  Aligned_cols=55  Identities=11%  Similarity=-0.010  Sum_probs=42.6

Q ss_pred             eeeeeeeeeeee-eehh-hh-----Hhhhhhe----------eeecCe-----------e----eCCCCchhhhCCCCCC
Q 041424           91 VKIFVKMLTEEI-VKLK-VK-----VLLTIRD----------LFCTGM-----------K----LKDCKTLACYGVKDDR  138 (148)
Q Consensus        91 i~I~Vk~~~gk~-~~l~-v~-----lK~~i~e----------L~f~g~-----------~----L~d~~tL~~y~I~~gs  138 (148)
                      |.|.||..+|+. +.++ -+     ||++|++          |+|.|+           .    ++|+++|++|||++|+
T Consensus         8 M~irvrs~~G~~~v~v~~~~~Tv~~LK~kI~~~~gip~~~QrL~~~~~~~~~k~~~~~~~l~~~l~d~~tL~~~gi~~G~   87 (107)
T 1wf9_A            8 TMLRVRSRDGLERVSVDGPHITVSQLKTLIQDQLQIPIHNQTLSTNRNLLLAKSPSDFLAFTDMADPNLRISSLNLAHGS   87 (107)
T ss_dssp             EEEEEECSSCEEEEEECCTTSBHHHHHHHHHHHSCCCTTTCCCBSSGGGGTCCSHHHHTTCCSSCCTTCBGGGTCCCTTC
T ss_pred             EEEEEECCCCCEEEEECCCCCcHHHHHHHHHHHhCcCcccCEEEECCccccccCccccccccccCCCCCCHHHCCCCCCC
Confidence            677888777754 3333 22     8888886          778777           4    5899999999999999


Q ss_pred             EEEEEee
Q 041424          139 GVACFIS  145 (148)
Q Consensus       139 tI~l~l~  145 (148)
                      +|||+..
T Consensus        88 ~L~l~~~   94 (107)
T 1wf9_A           88 MVYLAYE   94 (107)
T ss_dssp             EEECCCS
T ss_pred             EEEEEeC
Confidence            9998754

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

Probab=98.12  E-value=8.7e-07  Score=60.63  Aligned_cols=56  Identities=18%  Similarity=0.260  Sum_probs=47.4

Q ss_pred             eeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           90 KVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        90 ~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      .|.|.|+..+|+.+.+.|+       |+...++          |+|.|+.|.++.|..+|++++||+|++++.
T Consensus        26 ~I~IkVk~~~g~~i~fkVk~~t~l~kL~~ay~ek~gi~~~~~rfiFdG~~L~~~~Tp~dl~mEDgD~Idv~~~   98 (110)
T 2k8h_A           26 LVAVKVVNADGAEMFFRIKSRTALKKLIDTYCKKQGISRNSVRFLFDGTPIDETKTPEELGMEDDDVIDAMVE   98 (110)
T ss_dssp             CEEEEEEETTSCCEEEEECTTSSHHHHHHHHHHHHTCCSSSCEEESSSCBCCSSSHHHHHHCSSEEEEEEECC
T ss_pred             eEEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEEEEc
Confidence            4778888888888887777       5545444          999999999999999999999999999875

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

Probab=98.11  E-value=1.7e-05  Score=50.80  Aligned_cols=60  Identities=18%  Similarity=0.208  Sum_probs=56.2

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCc-ccEEEEcCeecCCCcccccccccccCCCcccccceeEEE
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSED-IQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLF   69 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~-~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~   69 (148)
                      .+.+.|.++.+|.+|-+.-..+.|||++ ..+|.|.|..|..+.       ++++|++.+++.|.+++
T Consensus        21 dl~f~I~~~t~v~kLi~ayc~~~~I~~~~~IrllFDGdRLdp~~-------tp~DlemeD~D~IDvmL   81 (82)
T 3goe_A           21 DLRLSIPVDFTVKDLIKRYCTEVKISFHERIRLEFEGEWLDPND-------QVQSTELEDEDQVSVVL   81 (82)
T ss_dssp             CEEEEEETTSBHHHHHHHHHHHHTCCCCTTCEEEETTEECCTTS-------BGGGSSCCTTCEEEEEC
T ss_pred             CeEEEecCCCCHHHHHHHHHHHcCCCcCceEEEEEcCcccCccC-------ChhhhCCcCCceeeeee
Confidence            3678899999999999999999999999 899999999999999       99999999999998774

>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=98.10  E-value=1.8e-06  Score=57.15  Aligned_cols=38  Identities=16%  Similarity=0.053  Sum_probs=32.2

Q ss_pred             Hhhhhhe----------eeecC---ee----eCCCCchhhhCCCCCCEEEEEeec
Q 041424          109 VLLTIRD----------LFCTG---MK----LKDCKTLACYGVKDDRGVACFISD  146 (148)
Q Consensus       109 lK~~i~e----------L~f~g---~~----L~d~~tL~~y~I~~gstI~l~l~~  146 (148)
                      ||++|++          |+|.|   +.    ++|+++|.+|||++|++||++-.+
T Consensus        34 lK~ki~~~~gip~~~qrL~~~~~~g~~~~~l~~D~~tL~~y~i~~g~~l~v~d~~   88 (95)
T 1v6e_A           34 FKCKLELVVGSPASCMELELYGADDKFYSKLDQEDALLGSYPVDDGCRIHVIDHS   88 (95)
T ss_dssp             HHHHHHHHTCSCTTTCBCEEECSSSCEEEECCCSSSBTTSSSCCTTCEEEEBCCS
T ss_pred             HHHHHHHHHCCCHHHeEEEEeCCCCccccccCCCcCCHhHCCCCCCCEEEEEECC
Confidence            8988886          88876   43    589999999999999999997543

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

Probab=98.08  E-value=1.9e-06  Score=68.95  Aligned_cols=53  Identities=15%  Similarity=0.149  Sum_probs=44.7

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe----------ee---ecCeeeCCCCchhhhCCCCCCEEEEEe
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LF---CTGMKLKDCKTLACYGVKDDRGVACFI  144 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~---f~g~~L~d~~tL~~y~I~~gstI~l~l  144 (148)
                      ++|.||. +|++++++++       +|++|++          |+   |+|+.|+|+.+|++|+|++|++|+|+-
T Consensus         6 i~i~Vk~-~g~~~~v~v~~~~Tv~~lK~~I~~~tgVpp~~QkLi~~k~~Gk~l~D~~~L~~~~ik~g~~l~L~g   78 (320)
T 3shq_A            6 VVVIVKW-SGKEYPVDLTDQDTVEVLRHEIFRKTQVRPERQKLLNLKYKGKTAADNVKISALELKPNFKLMMVG   78 (320)
T ss_dssp             EEEEEEE-TTEEEEEEEETTSBHHHHHHHHHHHHCCCGGGCEETTCBSSSSBCCTTSBTTSSCCC--CEEEEEC
T ss_pred             EEEEEEE-CCEEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEeecccCCcccCccccHHHcCCCCCCEEEEEc
Confidence            6677885 7888888777       9999986          88   899999999999999999999999974

>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=98.05  E-value=4e-06  Score=58.09  Aligned_cols=38  Identities=13%  Similarity=0.102  Sum_probs=32.6

Q ss_pred             Hhhhhhe----------eeecC---e---e-eCCCCchhhhCCCCCCEEEEEeec
Q 041424          109 VLLTIRD----------LFCTG---M---K-LKDCKTLACYGVKDDRGVACFISD  146 (148)
Q Consensus       109 lK~~i~e----------L~f~g---~---~-L~d~~tL~~y~I~~gstI~l~l~~  146 (148)
                      ||++|++          |+|.|   +   . ++|+++|.+|||++|++||++..+
T Consensus        33 lK~ki~~~~Gip~~~qrL~~~g~~~~~~~~l~~D~~tL~~y~i~~g~~ihvvd~~   87 (122)
T 1t0y_A           33 LKKKLELVVGTTVDSMRIQLFDGDDQLKGELTDGAKSLKDLGVRDGYRIHAVDVT   87 (122)
T ss_dssp             HHHHHHHHHCCCTTTEEEEEECSSSSEEEECCCCSSBTTTTTCCSSEEEEEEECT
T ss_pred             HHHHHHHHhCCCHHHeEEEEecCCCccccccCCCcCCHHHCCCCCCCEEEEEeCC
Confidence            8988886          89977   4   3 489999999999999999998754

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

Probab=98.03  E-value=3.1e-06  Score=54.93  Aligned_cols=54  Identities=11%  Similarity=-0.004  Sum_probs=41.0

Q ss_pred             eeeeeeeeeeeeeehh-hh-------Hhhhhhe----------eeec--CeeeC---CCCchhhhCCCCCCEEEEEee
Q 041424           91 VKIFVKMLTEEIVKLK-VK-------VLLTIRD----------LFCT--GMKLK---DCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~-v~-------lK~~i~e----------L~f~--g~~L~---d~~tL~~y~I~~gstI~l~l~  145 (148)
                      |.|.|+..+|+.+ +. ++       ||+.|++          |+|+  ++.++   |+.+|++|||++|++|++.-+
T Consensus         1 m~i~vr~~~G~~~-v~~l~~~~Tv~~Lk~~I~~~~gi~~~~qrL~~~~p~k~l~l~~~~~tL~~~gl~~g~~l~v~~~   77 (86)
T 2kzr_A            1 WRVRCKAKGGTHL-LQGLSSRTRLRELQGQIAAITGIAPGSQRILVGYPPECLDLSDRDITLGDLPIQSGDMLIVEED   77 (86)
T ss_dssp             CCEEEEETTEEEE-ECSCCTTCBHHHHHHHHHHHTCCCTTTCCCEESSCCCCCCCCCSSCBTTTSSCCTTCEEECCCC
T ss_pred             CEEEEEcCCCCEE-eeecCCCCCHHHHHHHHHHHhCCCccceEEEeCCCCcccccCCCCCCHHHcCCCCCCEEEEEeC
Confidence            4677888888644 44 44       8888875          6665  58874   789999999999999998643

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

Probab=98.02  E-value=7.1e-07  Score=67.45  Aligned_cols=62  Identities=10%  Similarity=0.253  Sum_probs=0.0

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +.+.+.|.+++++..|+...+++.|+|++++|++|.|+++.++.       |.+++++.+|++|+++..
T Consensus        31 seV~FKIKrtTpL~KLM~AYcERqGLs~~siRFLFDGqRI~ddd-------TPadL~MEDGDtIDV~le   92 (227)
T 3v7o_A           31 SEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQ-------TPEDLDMEDNDIIEAHRE   92 (227)
T ss_dssp             ---------------------------------------------------------------------
T ss_pred             CEEEEEEccCChHHHHHHHHHHHhCCCccceEEEECCEecCCCC-------CHHHcCCCCCCEEEEEec
Confidence            35678899999999999999999999999999999999999999       999999999999999998

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

Probab=97.62  E-value=0.00017  Score=54.27  Aligned_cols=64  Identities=11%  Similarity=0.258  Sum_probs=59.5

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEeeee
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFCAIK   73 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~~~~   73 (148)
                      .+.+.|.+++++..|+...+++.|+|+++++++|.|+.+.++.       +-.++.+.+++.|.+...+.+
T Consensus        32 ~v~~~i~~~~~l~kl~~~y~~~~g~~~~~~~f~fdG~~i~~~~-------Tpk~L~~ed~d~I~~~~eq~G   95 (209)
T 3uf8_A           32 EIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQ-------TPEDLDMEDNDIIEAHREQIG   95 (209)
T ss_dssp             EEEEEEETTSCTHHHHHHHHHHHTCCGGGCEEEETTEECCTTC-------CTTTTTCCTTEEEEEECSCTT
T ss_pred             EEEEEEeeCCHHHHHHHHHHHhhCCChheEEEEECCEeccCCC-------ChHHhhhcccccchhhccccc
Confidence            4678999999999999999999999999999999999999999       999999999999999877443

>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=97.58  E-value=8.3e-05  Score=51.11  Aligned_cols=57  Identities=16%  Similarity=0.248  Sum_probs=45.9

Q ss_pred             eeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEeec
Q 041424           90 KVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFISD  146 (148)
Q Consensus        90 ~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~~  146 (148)
                      .+.|.|+..+|+.+.+.|+       |+...++          ++|.|+.|.++.|..++++.+||+|.+++.-
T Consensus        40 ~I~LKV~~qdg~ev~fkIk~tt~L~KLm~aY~er~Gl~~~~irFlFDG~rI~~~~TP~dL~MEDgD~IdV~~~Q  113 (115)
T 3kyd_D           40 YIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQEQ  113 (115)
T ss_dssp             EEEEEEECTTSCEEEEEEETTSCTHHHHHHHHHHHTCCTTSEEEEETTEECCTTCCTTTTTCCTTCEEEEEECC
T ss_pred             eEEEEEEcCCCCEEEEEEccCChHHHHHHHHHHHhCCChhhEEEEECCeECCCCCCHHHcCCCCCCEEEEEeec
Confidence            4677777777887777766       3333333          9999999999999999999999999998753

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

Probab=97.57  E-value=1e-05  Score=65.67  Aligned_cols=65  Identities=11%  Similarity=0.238  Sum_probs=0.0

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEeeeee
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFCAIKV   74 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~~~~~   74 (148)
                      .+.+.|.+++++..|+...+++.|++++++++.|.|+.+.++.       |.+++++.+|++|.++....++
T Consensus        32 ~v~FkIk~~t~l~kLm~aY~~r~G~~~~~~rFlFdG~rI~~~~-------TP~~L~MEDgD~Idv~~~Q~g~   96 (360)
T 3ix6_A           32 EIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQ-------TPEDLDMEDNDIIEAHREQIGG   96 (360)
T ss_dssp             ------------------------------------------------------------------------
T ss_pred             EEEEEEecCChHHHHHHHHHHHhCCCcceEEEEECCeECCCCC-------ChHHcCCCccchhhhhhccCch
Confidence            4678899999999999999999999999999999999999999       9999999999999999985443

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

Probab=97.53  E-value=0.00023  Score=47.41  Aligned_cols=59  Identities=19%  Similarity=0.315  Sum_probs=55.6

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEE
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLL   68 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~   68 (148)
                      .+.+.|.+++++..|...-+++.|++++.-+++|.|..+..+.       |.+++++.+|++|.+.
T Consensus        38 ~v~fkIk~~t~l~kLm~aY~~~~g~~~~~vrF~FDG~rI~~~~-------TP~dLdMEDgD~IDv~   96 (97)
T 2jxx_A           38 TLEVSLSRDSPLKTLMSHYEEAMGLSGRKLSFFFDGTKLSGRE-------LPADLGMESGDLIEVW   96 (97)
T ss_dssp             EEEEEEETTSCHHHHHHHHHHHTTCSSSCCEEEETTEECCSCS-------CHHHHTCCTTEEEEEE
T ss_pred             EEEEEECCCChHHHHHHHHHHHHCCCcccEEEEECCEEcCCCC-------CHHHcCCCCCCEEEEe
Confidence            5788999999999999999999999999999999999999999       9999999999998764

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

Probab=97.31  E-value=0.00026  Score=46.65  Aligned_cols=38  Identities=21%  Similarity=0.229  Sum_probs=30.1

Q ss_pred             Hhhhhhe----------eeecC-------eee-CCCCchhhhCCCCCCEEEEEeec
Q 041424          109 VLLTIRD----------LFCTG-------MKL-KDCKTLACYGVKDDRGVACFISD  146 (148)
Q Consensus       109 lK~~i~e----------L~f~g-------~~L-~d~~tL~~y~I~~gstI~l~l~~  146 (148)
                      ||.+|++          |.|.+       ..| +|.++|.+|++.+|++||+...+
T Consensus        38 LK~~i~~~~gip~~~q~L~~~~~~~~~~~~~L~~d~~~L~~y~i~~G~~I~V~d~~   93 (97)
T 1wjn_A           38 VKGLLSRLLKVPVSELLLSYESSKMPGREIELENDLQPLQFYSVENGDCLLVRWSG   93 (97)
T ss_dssp             HHHHHHTTTTCCTTTCEEEEECTTSCSCEEECCCSSSBSGGGTCCTTCEEEEECCS
T ss_pred             HHHHHHHHHCCChhHeEEEEEcCCCCceeeccCCCcccHhhcCCCCCCEEEEEecC
Confidence            8888886          66552       224 78899999999999999998654

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

Probab=97.29  E-value=3.7e-05  Score=62.66  Aligned_cols=65  Identities=12%  Similarity=0.247  Sum_probs=0.0

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEeeeee
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFCAIKV   74 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~~~~~   74 (148)
                      .+.+.|.+++++..|+...+++.|++++++++.|.|+++.++.       |.+++++.+|++|.++....+.
T Consensus        41 ~~~~~i~~~~~~~~l~~~y~~~~g~~~~~~~f~f~G~~i~~~~-------Tp~~l~med~d~i~~~~~q~gg  105 (389)
T 4da1_A           41 EIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQ-------APEDLDMEDNDIIEAHREQIGG  105 (389)
T ss_dssp             ------------------------------------------------------------------------
T ss_pred             EEEEEECCCChHHHHHHHHHHHhCCCcceEEEEECCEEcCCCC-------CHHHcCCCCCCEeeeeeccccc
Confidence            4678899999999999999999999999999999999999999       9999999999999999885433

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

Probab=97.15  E-value=0.00044  Score=51.83  Aligned_cols=57  Identities=12%  Similarity=0.244  Sum_probs=46.0

Q ss_pred             eeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEeecc
Q 041424           90 KVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFISDI  147 (148)
Q Consensus        90 ~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~~~  147 (148)
                      .++|.|+. +|+.+.++|+       |+...++          ++|.|+.+.++.|..++++.+||+|++++.-+
T Consensus        29 ~I~LkV~~-~g~~v~fkIk~~t~l~kL~~ay~er~Gi~~~~~RF~FdG~rI~~~~TP~dL~MEdgD~Idv~~~q~  102 (200)
T 3pge_A           29 HINLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHREQI  102 (200)
T ss_dssp             CEEEEEEC-SSCEEEEEECTTSCTHHHHHHHHHHHSSCGGGEEEEETTEECCTTCCTTTTTCCTTEEEEEEECCS
T ss_pred             eEEEEEec-CCCEEEEEEecCCHHHHHHHHHHHHhCCChhhEEEEECCEEcCCCCCHHHcCCCCCCEEEEEeccC
Confidence            46777764 7888777777       4444443          99999999999999999999999999988643

>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=96.99  E-value=0.00053  Score=51.15  Aligned_cols=56  Identities=11%  Similarity=0.203  Sum_probs=45.0

Q ss_pred             heeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           89 LKVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        89 ~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      ..|+|.|+. +|+.+.++|+       |+...++          ++|.|+.+.++.|..++++.+||+|.+++.
T Consensus        56 e~InLKVk~-dG~eV~FKIKrtTpL~KLmeAYcERqGL~~~sIRFLFDGqRI~~ddTPeDLdMEDGDtIDV~le  128 (207)
T 3tix_A           56 THINLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLTFLYDGIEIQADQTPEDLDMEDNDIIEAHRE  128 (207)
T ss_dssp             CEEEEEEEC-SSCEEEEEEETTSCTHHHHHHHHHHTTCCGGGSCEEETTEECCSSCCTTTTTCCTTEEEEECCC
T ss_pred             CcEEEEEec-CCCEEEEEEccCChHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCHHHcCCCCCCEEEEEEe
Confidence            347778864 7888887777       3333333          999999999999999999999999998864

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

Probab=96.90  E-value=0.0025  Score=42.18  Aligned_cols=61  Identities=15%  Similarity=0.147  Sum_probs=57.0

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      .+.+.+..++....|...-+++.|++++..|+.|.|..+..+.       |-+++++.++++|.++.-
T Consensus        32 ev~FkIK~tt~l~KL~~aYc~r~gv~~~sirFlfDG~rI~~~~-------TP~~L~meD~DiID~~~~   92 (95)
T 2l76_A           32 LVRLPLRMSEPLQSVVDHMATHLGVSPSRILLLFGETELSPTA-------TPRTLKLGVADIIDCVVL   92 (95)
T ss_dssp             EEEEEECSSSCTHHHHHHHHHHHTSCGGGEEEEETTEECCTTS-------CHHHHTCCSSCEEEEEEC
T ss_pred             EEEEEEecCChHHHHHHHHHhhcCCChhhEEEEECCcCCCCCC-------CHhHcCCCCCCEEEEEEe
Confidence            5678889999999999999999999999999999999999999       999999999999988764

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

Probab=96.75  E-value=0.0016  Score=41.89  Aligned_cols=59  Identities=7%  Similarity=0.121  Sum_probs=49.1

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCc-----ccEEEEcCeecCCCcccccccccccCCCcccccceeE
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSED-----IQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQL   67 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~-----~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l   67 (148)
                      +++-|.++...|+..|++.+-+..+++..     +.|..-.+..|.++.       .|++|++.+|+.+.+
T Consensus        17 ~~~DLRIP~~~tvK~Li~~l~ea~~l~~~~~~~~~irv~NK~~~L~~~~-------~L~d~~ItnGD~Lei   80 (81)
T 2bps_A           17 SVFDLRLSDYHPVKKVIDIAWQAQSVSMPPREGHWIRVVNKDKVFSGEC-------KLSDCGITNGDRLEI   80 (81)
T ss_dssp             CEEEEEEETTSBTTHHHHHHHHHSCCCSCCCTTCEEEEGGGTEEEETTS-------BTGGGTCCTTCEEEE
T ss_pred             ceEEEECCCchhHHHHHHHHHHHhCCCcCCCCCCEEEEecCCEEEcCCC-------EEeeCCcCCCCEEEE
Confidence            57889999999999999999999987642     234445677888888       999999999998875

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

Probab=96.63  E-value=0.0038  Score=40.90  Aligned_cols=62  Identities=13%  Similarity=0.108  Sum_probs=56.8

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +..++.|.|+.++.++=+.-.+++|+.+++-.|.|+++.++-..       .+.-.|+.+|+.+.|+..
T Consensus        20 rr~~VKvtp~t~L~~VL~eaC~K~gl~~~~~~Lkh~~k~lDLSl-------pfRlsgLpnnAkLELv~~   81 (90)
T 2al3_A           20 RRHTVKVTPSTVLLQVLEDTCRRQDFNPSEYDLKFQRTVLDLSL-------QWRFANLPNNAKLEMVPV   81 (90)
T ss_dssp             CEEEECCCTTSBHHHHHHHHHHHTTCCGGGCEEEETTEEESSSC-------BHHHHCCCSSCEEEEECS
T ss_pred             cEEEEEECCCCCHHHHHHHHHHHhCCChhhCeEEeCCEeccccc-------eeEecCCCCCCEEEEEEc
Confidence            35788999999999999999999999999999999999998887       888899999999999876

>2kc2_A Talin-1, F1; FERM, adhesion, cell membrane, cell projection, cytoplasm, cytoskeleton, membrane, phosphoprotein, structural protein; NMR {Mus musculus}

Probab=96.62  E-value=0.0016  Score=45.42  Aligned_cols=61  Identities=23%  Similarity=0.283  Sum_probs=46.0

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCc-------------------------------------ccEEEE--cCeecC
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSED-------------------------------------IQDLFF--AGDRLM   42 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~-------------------------------------~Q~L~~--~g~~L~   42 (148)
                      ...++.|+.+.||++++..|+.+.||+..                                     .|+|..  .+.-|+
T Consensus        22 ~~ktl~VD~S~~V~~lv~~Ic~kigI~n~~ey~L~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~k~kL~~dd~~~WLD  101 (128)
T 2kc2_A           22 TVKTIMVDDSKTVTDMLMTICARIGITNHDEYSLVRELMEEKKDEGTGTLRKDKTLLRDEKKMEKLKQKLHTDDELNWLD  101 (128)
T ss_dssp             CEEEEEEEECSSHHHHHHHHHHHHTCCCCSSEEEEEECCCCCCCCCSSCCSSSSSCSCCSCCSCSSCCSCCCSSSEEEEC
T ss_pred             CEEEEEeCCCcCHHHHHHHHHHHhCCCCcccccccccccccccccCchhhccccccccchhHHHHHHHHhcccCCCCccc
Confidence            45789999999999999999999999855                                     233321  113345


Q ss_pred             CCcccccccccccCCCcccccceeEEE
Q 041424           43 NGRLIDYEDMALASPNVKRESTMQLLF   69 (148)
Q Consensus        43 d~~~~~~~~~~L~~~~i~~~s~i~l~~   69 (148)
                      +.+       +|.++||.+++++.|-.
T Consensus       102 ~sr-------tL~EQGI~e~~tllLRr  121 (128)
T 2kc2_A          102 HGR-------TLREQGVEEHETLLLRR  121 (128)
T ss_dssp             SSS-------CHHHHTCCTTSEEEEEE
T ss_pred             CCC-------cHHHcCCCCCCEEEEEE
Confidence            566       99999999999866543

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

Probab=96.33  E-value=0.0006  Score=51.50  Aligned_cols=56  Identities=11%  Similarity=0.197  Sum_probs=0.0

Q ss_pred             heeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           89 LKVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        89 ~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      ..|+|.| ..+|+.+.++|+       ++...++          ++|.|+.+.++.|-.++++++||+|.+++.
T Consensus        20 e~InLKV-~qdGseV~FKIKrtTpL~KLM~AYcERqGLs~~siRFLFDGqRI~dddTPadL~MEDGDtIDV~le   92 (227)
T 3v7o_A           20 THINLKV-SDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHRE   92 (227)
T ss_dssp             --------------------------------------------------------------------------
T ss_pred             CeEEEEE-eCCCCEEEEEEccCChHHHHHHHHHHHhCCCccceEEEECCEecCCCCCHHHcCCCCCCEEEEEec
Confidence            3467777 567888887777       3333333          999999999999999999999999998864

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

Probab=96.11  E-value=0.093  Score=42.01  Aligned_cols=115  Identities=23%  Similarity=0.228  Sum_probs=78.0

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhC----CCCcccEEEE------cCeecCCCcccccccccccCCCcccccceeEEEeee
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEG----TSEDIQDLFF------AGDRLMNGRLIDYEDMALASPNVKRESTMQLLFCAI   72 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~g----ip~~~Q~L~~------~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~~~   72 (148)
                      +-++.++|+.||.+.-.+|.++..    .++++=-|+.      .|.=|.+++       +|+.|++++++.++...+  
T Consensus        14 ~~~~~f~~~~~v~~~~~~i~e~~~~~~~~~~~~y~l~~~~~~~~~~~Wl~~~~-------~l~~y~~~~~~~l~~~~~--   84 (371)
T 3ivf_A           14 VKTMQFEPSTMVYDACRMIRERIPEALAGPPNDFGLFLSDDDPKKGIWLEAGK-------ALDYYMLRNGDTMEYRKK--   84 (371)
T ss_dssp             EEEEEECTTCBHHHHHHHHHTTCGGGGSSCGGGEEEEECCSSGGGCEECCTTS-------BGGGGTCCTTCEEEEEEC--
T ss_pred             eEEEEECCCCCHHHHHHHHHHhcccccCCCHHHCeEeccCCCCCcCEeccCCC-------CHHHhCCCCCceeeccCc--
Confidence            457889999999999999988764    3566666766      234488888       999999999998776544  


Q ss_pred             eeccccccCCchhhhhheeeeeeeeeeeeeeehhhh----Hh---hhhh------e-----eeecC---------eeeCC
Q 041424           73 KVLSISVKAPSDDILKLKVKIFVKMLTEEIVKLKVK----VL---LTIR------D-----LFCTG---------MKLKD  125 (148)
Q Consensus        73 ~~~~~~~~~p~~~~~~~~i~I~Vk~~~gk~~~l~v~----lK---~~i~------e-----L~f~g---------~~L~d  125 (148)
                                       .+.+.|..++|....+.++    .+   ..+.      +     |.+..         .-|+.
T Consensus        85 -----------------~~~~~V~l~dg~~~~~~vd~~tt~~el~~~v~~~l~L~e~~~FgL~~~~~~~~~~~~~~wL~~  147 (371)
T 3ivf_A           85 -----------------QRPLKIRMLDGTVKTIMVDDSKTVTDMLMTICARIGITNHDEYSLVRELMEEKKDDELNWLDH  147 (371)
T ss_dssp             -----------------EEEEEEECTTSCEEEEEEETTSBHHHHHHHHHHHTTCSCGGGEEEECCC----------CCCT
T ss_pred             -----------------eeEEEEECcCCCEEEEEECCCCCHHHHHHHHHHHcCCCCccccEEEEEecccccchHHHHHhc
Confidence                             2456677777777766666    11   1111      1     44321         23455


Q ss_pred             CCchhhhCCCCCCEEEEE
Q 041424          126 CKTLACYGVKDDRGVACF  143 (148)
Q Consensus       126 ~~tL~~y~I~~gstI~l~  143 (148)
                      .+++.+.+.....++++.
T Consensus       148 ~k~l~~q~~~~~~~l~fr  165 (371)
T 3ivf_A          148 GRTLREQGVEEHETLLLR  165 (371)
T ss_dssp             TSBTGGGTCCTTCEEEEE
T ss_pred             CchhHhhCCCCCceEEEE
Confidence            677888777667776654

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

Probab=95.81  E-value=0.0055  Score=39.37  Aligned_cols=27  Identities=7%  Similarity=0.084  Sum_probs=24.2

Q ss_pred             eeecCeeeCCCCchhhhCCCCCCEEEE
Q 041424          116 LFCTGMKLKDCKTLACYGVKDDRGVAC  142 (148)
Q Consensus       116 L~f~g~~L~d~~tL~~y~I~~gstI~l  142 (148)
                      +.-+|..|.++.+|++|+|.+||.|.+
T Consensus        54 v~NK~~~L~~~~~L~d~~ItnGD~Lei   80 (81)
T 2bps_A           54 VVNKDKVFSGECKLSDCGITNGDRLEI   80 (81)
T ss_dssp             EGGGTEEEETTSBTGGGTCCTTCEEEE
T ss_pred             EecCCEEEcCCCEEeeCCcCCCCEEEE
Confidence            556788999999999999999999875

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

Probab=95.75  E-value=0.013  Score=38.89  Aligned_cols=28  Identities=21%  Similarity=0.337  Sum_probs=26.5

Q ss_pred             eeecCeeeCCCCchhhhCCCCCCEEEEE
Q 041424          116 LFCTGMKLKDCKTLACYGVKDDRGVACF  143 (148)
Q Consensus       116 L~f~g~~L~d~~tL~~y~I~~gstI~l~  143 (148)
                      ++|.|..+..+.|-.+.++.+||+|.++
T Consensus        69 F~FDG~rI~~~~TP~dLdMEDgD~IDv~   96 (97)
T 2jxx_A           69 FFFDGTKLSGRELPADLGMESGDLIEVW   96 (97)
T ss_dssp             EEETTEECCSCSCHHHHTCCTTEEEEEE
T ss_pred             EEECCEEcCCCCCHHHcCCCCCCEEEEe
Confidence            9999999999999999999999999764

>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=95.60  E-value=0.022  Score=36.31  Aligned_cols=29  Identities=17%  Similarity=0.212  Sum_probs=27.8

Q ss_pred             eeecCeeeCCCCchhhhCCCCCCEEEEEe
Q 041424          116 LFCTGMKLKDCKTLACYGVKDDRGVACFI  144 (148)
Q Consensus       116 L~f~g~~L~d~~tL~~y~I~~gstI~l~l  144 (148)
                      |.|.|.-|+.+.++.+|++.+||.|.+++
T Consensus        53 llFDGdRLdp~~tp~DlemeD~D~IDvmL   81 (82)
T 3goe_A           53 LEFEGEWLDPNDQVQSTELEDEDQVSVVL   81 (82)
T ss_dssp             EEETTEECCTTSBGGGSSCCTTCEEEEEC
T ss_pred             EEEcCcccCccCChhhhCCcCCceeeeee
Confidence            99999999999999999999999998876

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

Probab=94.93  E-value=0.036  Score=36.20  Aligned_cols=58  Identities=12%  Similarity=-0.000  Sum_probs=44.1

Q ss_pred             hheeeeeeeeeeeeeeehhhh----Hhhhhhe-------------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           88 KLKVKIFVKMLTEEIVKLKVK----VLLTIRD-------------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        88 ~~~i~I~Vk~~~gk~~~l~v~----lK~~i~e-------------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      .+||.+.|-..+++..+++|.    +.+.+++             |.|+++.++-..+++-.|+.+|+.+.|+-+
T Consensus         7 ~~~m~v~Vl~~n~rr~~VKvtp~t~L~~VL~eaC~K~gl~~~~~~Lkh~~k~lDLSlpfRlsgLpnnAkLELv~~   81 (90)
T 2al3_A            7 GGGSAVSVLAPNGRRHTVKVTPSTVLLQVLEDTCRRQDFNPSEYDLKFQRTVLDLSLQWRFANLPNNAKLEMVPV   81 (90)
T ss_dssp             ---CCEEEECTTSCEEEECCCTTSBHHHHHHHHHHHTTCCGGGCEEEETTEEESSSCBHHHHCCCSSCEEEEECS
T ss_pred             CCccEEEEEcCCCcEEEEEECCCCCHHHHHHHHHHHhCCChhhCeEEeCCEeccccceeEecCCCCCCEEEEEEc
Confidence            356788887778887777776    2222222             999999999999999999999999999754

>3jyu_A Ubiquitin carboxyl-terminal hydrolase; domain in ubiquitin-specific peptidases (DUSP), proto- oncogene, ubiquitin-fold, UBL, protease, thioesterase; HET: 1PS; 2.37A {Mus musculus}

Probab=94.50  E-value=0.19  Score=38.01  Aligned_cols=60  Identities=8%  Similarity=0.122  Sum_probs=49.9

Q ss_pred             EEEEEcCCCcHHHHHHHHHhhhCCCCc-ccEEEE-c----CeecCC-CcccccccccccCCCcccccceeEEEe
Q 041424            4 VTLNVEKSETIKNLKGMVHEKEGTSED-IQDLFF-A----GDRLMN-GRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         4 ~~l~v~~~~tV~~lK~~i~~~~gip~~-~Q~L~~-~----g~~L~d-~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++..++..+|+.+|+.++...+++|++ .-||-. .    ...|.| +.       +|.++++..+..|.+-.+
T Consensus       154 ~~~~~Sk~~ti~~l~~~~~~~~~i~~~~~~RLW~~~~~~~~~~L~~~~~-------tl~d~~L~~~Q~illE~r  220 (231)
T 3jyu_A          154 LSCHFSKADTIATIEKEMRKLFNIPAERETRLWNKYMSNTYEQLSKLDN-------TIQDAGLYQGQVLVIEPQ  220 (231)
T ss_dssp             EEEEECTTCBHHHHHHHHHHHTTCCTTSCEEEEECSSSSSCEECCCTTS-------BTTTTTCCTTEEEEEEEC
T ss_pred             EEEEecccCcHHHHHHHHHHHhCCCCCCeEEEEEecCCCCHhhhcCCCC-------CHHHhCCCCCCEEEEEEe
Confidence            567789999999999999999999997 578753 3    234665 46       999999999999988887

>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=94.27  E-value=0.23  Score=31.38  Aligned_cols=59  Identities=15%  Similarity=0.138  Sum_probs=46.4

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEE--EcCeecC---CCcccccccccccCCCcccccceeEEE
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLF--FAGDRLM---NGRLIDYEDMALASPNVKRESTMQLLF   69 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~--~~g~~L~---d~~~~~~~~~~L~~~~i~~~s~i~l~~   69 (148)
                      .+.-...+++||.+|..-|.. .|.++....|.  |-.+.+.   .+.       +|.+.|+.+.+++.+-.
T Consensus        19 r~~~~F~~~~tl~~v~~fv~~-~~~~~~~f~L~t~fPrk~l~~~d~~~-------TL~e~gL~p~a~L~ve~   82 (84)
T 3qx1_A           19 FLERRFLASNKLQIVFDFVAS-KGFPWDEYKLLSTFPRRDVTQLDPNK-------SLLEVKLFPQETLFLEA   82 (84)
T ss_dssp             EEEEEEETTSBHHHHHHHHHH-TTCCTTTEEEECSSSCCBGGGSCTTS-------BTTTTTCCSEEEEEEEE
T ss_pred             EEEEEeCCCCCHHHHHHHHHH-cCCCCCCeEEEeCCCCCCCcCCCCCC-------CHHHCCCCCCCEEEEEe
Confidence            345567789999999999998 67777888887  4356673   346       99999999999888754

>4e71_A Plexin-B2, MM1; transmembrane, signaling, RBD, structural genomics consortium, SGC, signaling protein; 2.26A {Homo sapiens}

Probab=94.16  E-value=0.18  Score=34.12  Aligned_cols=66  Identities=18%  Similarity=0.166  Sum_probs=43.6

Q ss_pred             EEEEEcCCCcHHHHHHHHHhhh--CCCCc------ccEEEEc----CeecCCCccccc-------ccccccCCCcccccc
Q 041424            4 VTLNVEKSETIKNLKGMVHEKE--GTSED------IQDLFFA----GDRLMNGRLIDY-------EDMALASPNVKREST   64 (148)
Q Consensus         4 ~~l~v~~~~tV~~lK~~i~~~~--gip~~------~Q~L~~~----g~~L~d~~~~~~-------~~~~L~~~~i~~~s~   64 (148)
                      +.+.|-..+||.++|+||-...  |.|-+      ...|-+.    |+.|.|.. ..+       .--||+.|++.+|++
T Consensus        26 i~vkVLdCDTItQvKeKiLd~vyk~~pyS~rP~~~~~dLEwr~g~~~~iL~D~D-~ts~~~~~wkrLNTL~HY~V~dgat  104 (111)
T 4e71_A           26 IPVKVLNCDTISQVKEKIIDQVYRGQPCSCWPRPDSVVLEWRPGSTAQILSDLD-LTSQREGRWKRVNTLMHYNVRDGAT  104 (111)
T ss_dssp             EEEEEETTCBHHHHHHHHHHHHTC---------CCSEEEEEC--CCCEECCSSC-TTSCC---CCCCCBHHHHTCCTTCE
T ss_pred             eeeeeeccCcHHHHHHHHHHHHHcCCccccCCCCCceeeEEecCCCCccccccC-ccceecCcceEecchhhcCCCCCCE
Confidence            5666778999999999998763  56543      4445552    45566643 111       455899999999999


Q ss_pred             eeEEEe
Q 041424           65 MQLLFC   70 (148)
Q Consensus        65 i~l~~~   70 (148)
                      +.|+.+
T Consensus       105 l~l~~~  110 (111)
T 4e71_A          105 LILSKV  110 (111)
T ss_dssp             EEEEEC
T ss_pred             EEEEeC
Confidence            988754

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

Probab=94.12  E-value=0.077  Score=34.94  Aligned_cols=29  Identities=14%  Similarity=0.170  Sum_probs=27.4

Q ss_pred             eeecCeeeCCCCchhhhCCCCCCEEEEEe
Q 041424          116 LFCTGMKLKDCKTLACYGVKDDRGVACFI  144 (148)
Q Consensus       116 L~f~g~~L~d~~tL~~y~I~~gstI~l~l  144 (148)
                      ++|.|..+.+..|-.+.++.+||+|.+++
T Consensus        63 FlfDG~rI~~~~TP~~L~meD~DiID~~~   91 (95)
T 2l76_A           63 LLFGETELSPTATPRTLKLGVADIIDCVV   91 (95)
T ss_dssp             EEETTEECCTTSCHHHHTCCSSCEEEEEE
T ss_pred             EEECCcCCCCCCCHhHcCCCCCCEEEEEE
Confidence            88999999999999999999999998765

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

Probab=94.03  E-value=0.0094  Score=48.27  Aligned_cols=56  Identities=11%  Similarity=0.212  Sum_probs=0.0

Q ss_pred             heeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           89 LKVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        89 ~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      ..++|.|+. +|+.+.++|+       |+...++          ++|.|+.+.++.|.+++++++||+|.+++.
T Consensus        20 ~~I~LKV~~-~g~~v~FkIk~~t~l~kLm~aY~~r~G~~~~~~rFlFdG~rI~~~~TP~~L~MEDgD~Idv~~~   92 (360)
T 3ix6_A           20 THINLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHRE   92 (360)
T ss_dssp             --------------------------------------------------------------------------
T ss_pred             CeEEEEEec-CCcEEEEEEecCChHHHHHHHHHHHhCCCcceEEEEECCeECCCCCChHHcCCCccchhhhhhc
Confidence            346667766 5666666666       3333333          999999999999999999999999998764

>2juo_A GA-binding protein alpha chain; OST, ubiquitin, transcription factor, ensemble, DNA-binding, nucleus, transcription regulation; NMR {Mus musculus}

Probab=93.68  E-value=0.3  Score=31.42  Aligned_cols=60  Identities=27%  Similarity=0.335  Sum_probs=53.5

Q ss_pred             EEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            4 VTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         4 ~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +.-.++-.++++.||+.++.+.|++-+.-.+...+..|+.+.       +|.+.+++-...+++.+.
T Consensus         5 i~qhmDI~epL~~Lk~LLe~Rl~i~L~~y~f~LQd~~L~~~k-------~LvdQcVqgeGlVQinvq   64 (89)
T 2juo_A            5 VSQAIDINEPIGNLKKLLEPRLQCSLDAHEICLQDIQLDPDR-------SLFDQGVKTDGTVQLSVQ   64 (89)
T ss_dssp             EEEEEESSSBGGGHHHHSHHHHCSCCSSCEEEETTEECCTTS-------BTTTSSCCCCSEEEEEEE
T ss_pred             hhhhccccCcHHHHHHHHHHHhcCCcccCeEEeeccccCCCc-------cHHHhhcccccEEEEEEE
Confidence            455778889999999999999999999888888888899999       999999998888888776

>3h6n_A Plexin-D1; structural genomics consortium, SGC, membrane, transmembrane, receptor, alternative splicing, cell membrane, glycoprotein, polymorphism; 2.00A {Homo sapiens}

Probab=93.66  E-value=0.6  Score=32.22  Aligned_cols=66  Identities=12%  Similarity=0.096  Sum_probs=47.2

Q ss_pred             EEEEEcCCCcHHHHHHHHHhhh--CCCC------cccEEEEc----Ce-ecCCCccccc-------ccccccCCCccccc
Q 041424            4 VTLNVEKSETIKNLKGMVHEKE--GTSE------DIQDLFFA----GD-RLMNGRLIDY-------EDMALASPNVKRES   63 (148)
Q Consensus         4 ~~l~v~~~~tV~~lK~~i~~~~--gip~------~~Q~L~~~----g~-~L~d~~~~~~-------~~~~L~~~~i~~~s   63 (148)
                      +.+.|-..+||.++|+||-...  |.|-      +...|-+.    |. .|.|... .+       .--||+.|++.+|+
T Consensus        19 i~VkVLdCDTItQvKeKiLd~vyk~~p~S~rP~~~~~dLEwr~g~~~~~iL~D~D~-ts~~~~~~krLNTL~HY~V~dga   97 (127)
T 3h6n_A           19 LSVRAMDTDTLTQVKEKILEAFCKNVPYSQWPRAEDVDLEWFASSTQSYILRDLDD-TSVVEDGRKKLNTLAHYKIPEGA   97 (127)
T ss_dssp             EEEEEETTSBHHHHHHHHHHHHSTTSCGGGSCCGGGEEEEEECSSSCEEECCSSST-TSCEETTEECCCBTTTTTCCTTC
T ss_pred             eeeeeeccCchhhhhHHHHHHHhccCCcccCCCCcccceEEecCCCCceEeecCCC-cceecCceeEeccccccCCCCCC
Confidence            5667778999999999998863  5553      45556652    33 3665431 11       55689999999999


Q ss_pred             ceeEEEe
Q 041424           64 TMQLLFC   70 (148)
Q Consensus        64 ~i~l~~~   70 (148)
                      ++.|..+
T Consensus        98 tv~l~~~  104 (127)
T 3h6n_A           98 SLAMSLI  104 (127)
T ss_dssp             EEEEEEC
T ss_pred             EEEEEEc
Confidence            9998876

>4a3p_A Ubiquitin carboxyl-terminal hydrolase 15; 1.40A {Homo sapiens} PDB: 4a3o_A 3pv1_A 3ppa_A* 3t9l_A 3lmn_A

Probab=93.65  E-value=0.14  Score=38.25  Aligned_cols=60  Identities=12%  Similarity=0.227  Sum_probs=49.7

Q ss_pred             EEEEEcCCCcHHHHHHHHHhhhCCCCc-ccEEE--E-cC--eecCC-CcccccccccccCCCcccccceeEEEe
Q 041424            4 VTLNVEKSETIKNLKGMVHEKEGTSED-IQDLF--F-AG--DRLMN-GRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         4 ~~l~v~~~~tV~~lK~~i~~~~gip~~-~Q~L~--~-~g--~~L~d-~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +++.++..+|+.+|+.++...+++|++ .-||-  + .+  ..|.| +.       +|.++++.++..|.+-.+
T Consensus       142 ~~~~~Sk~~ti~~l~~~~~~~~~i~~~~~~RlW~~~~~~~~~~L~~~~~-------tl~~~~l~~~Q~illE~r  208 (217)
T 4a3p_A          142 VTRRFSKADTIDTIEKEIRKIFSIPDEKETRLWNKYMSNTFEPLNKPDS-------TIQDAGLYQGQVLVIEQK  208 (217)
T ss_dssp             EEEEECTTSBHHHHHHHHHHHTTCCTTSCEEEEEEEETTEEEECCCTTS-------BHHHHTCCTTCEEEEEEC
T ss_pred             eEEEEcccchHHHHHHHHHHHhCCCCCCceEEEEecCCCCeeecCCCCC-------CHHHhCCCCCCEEEEEEe
Confidence            678889999999999999999999987 57774  3 22  24655 46       999999999999998887

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

Probab=93.45  E-value=0.077  Score=36.82  Aligned_cols=34  Identities=15%  Similarity=0.218  Sum_probs=30.4

Q ss_pred             EEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEc
Q 041424            4 VTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFA   37 (148)
Q Consensus         4 ~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~   37 (148)
                      .++.|-.++|+.+||..|++..|+|+++|||-.-
T Consensus        58 ~~~rv~k~~~~~~~~~~va~~lg~~~~~~RlW~~   91 (130)
T 2kvr_A           58 TVFKVLKNSSLAEFVQSLSQTMGFPQDQIRLWPM   91 (130)
T ss_dssp             EEEECCTTSBHHHHHHHHHHHHCCCGGGCEEEEC
T ss_pred             ceEEEeccCcHHHHHHHHHHHhCCCcccEEEEEe
Confidence            3678889999999999999999999999999543

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

Probab=92.82  E-value=0.059  Score=34.12  Aligned_cols=21  Identities=19%  Similarity=0.169  Sum_probs=17.4

Q ss_pred             CCCCchhhhCCCCCCEEEEEe
Q 041424          124 KDCKTLACYGVKDDRGVACFI  144 (148)
Q Consensus       124 ~d~~tL~~y~I~~gstI~l~l  144 (148)
                      ..+.+|+++||+.||+|++..
T Consensus        59 ~~~~~l~~lgl~hGd~l~l~~   79 (80)
T 2pjh_A           59 SSSKSLHLLKIKHGDLLFLFP   79 (80)
T ss_dssp             CCCCTTTTTCCCTTCCEEC--
T ss_pred             CCCCCHHHcCCCCCCEEEEec
Confidence            478899999999999999753

>2kc2_A Talin-1, F1; FERM, adhesion, cell membrane, cell projection, cytoplasm, cytoskeleton, membrane, phosphoprotein, structural protein; NMR {Mus musculus}

Probab=92.31  E-value=0.14  Score=35.54  Aligned_cols=24  Identities=21%  Similarity=0.116  Sum_probs=20.9

Q ss_pred             eeeCCCCchhhhCCCCCCEEEEEe
Q 041424          121 MKLKDCKTLACYGVKDDRGVACFI  144 (148)
Q Consensus       121 ~~L~d~~tL~~y~I~~gstI~l~l  144 (148)
                      .-|++++||.++||.+++++.|..
T Consensus        98 ~WLD~srtL~EQGI~e~~tllLRr  121 (128)
T 2kc2_A           98 NWLDHGRTLREQGVEEHETLLLRR  121 (128)
T ss_dssp             EEECSSSCHHHHTCCTTSEEEEEE
T ss_pred             CcccCCCcHHHcCCCCCCEEEEEE
Confidence            556889999999999999988764

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

Probab=92.05  E-value=0.28  Score=31.42  Aligned_cols=37  Identities=16%  Similarity=0.198  Sum_probs=34.2

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCe
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGD   39 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~   39 (148)
                      |+.+.|++..+..+|.++|.++.++|++.-.|.|...
T Consensus        15 tvairvp~~~~y~~L~~~l~~kL~l~~~~~~LsYk~~   51 (83)
T 1oey_A           15 TVVMKTQPGLPYSQVRDMVSKKLELRLEHTKLSYRPR   51 (83)
T ss_dssp             EEEEEECTTCCHHHHHHHHHHHTTCCGGGCCEEECCT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCcceeEEEeeCC
Confidence            7899999999999999999999999999989998753

>4e74_A Plexin-A4; RBD, structural genomics, structural genomics consor SGC, signaling protein; 1.58A {Homo sapiens} PDB: 3q3j_A*

Probab=91.90  E-value=0.49  Score=32.25  Aligned_cols=67  Identities=21%  Similarity=0.215  Sum_probs=46.0

Q ss_pred             EEEEEcCCCcHHHHHHHHHhhh--CCCCc------ccEEEE-cC---e-ecCCCcc---ccc---ccccccCCCcccccc
Q 041424            4 VTLNVEKSETIKNLKGMVHEKE--GTSED------IQDLFF-AG---D-RLMNGRL---IDY---EDMALASPNVKREST   64 (148)
Q Consensus         4 ~~l~v~~~~tV~~lK~~i~~~~--gip~~------~Q~L~~-~g---~-~L~d~~~---~~~---~~~~L~~~~i~~~s~   64 (148)
                      +.+.|-..+||.++|+||-...  |.|.+      ...|-+ .|   + .|.|...   +..   .--||+.|++.+|++
T Consensus        29 i~VkVLdCDTItQvKeKiLd~vyk~~p~S~rP~~~~~dLEwr~g~~~~~iL~D~D~ts~~~~~wkrLNTL~HY~V~dgat  108 (117)
T 4e74_A           29 VPVKILNCDTITQVKEKILDAIFKNVPCSHRPKAADMDLEWRQGSGARMILQDEDITTKIENDWKRLNTLAHYQVPDGSV  108 (117)
T ss_dssp             EEEEEETTSBHHHHHHHHHHHHTTTSCGGGSCCGGGEEEEEECTTSCEEEECSSSTTCCC---CCCCCBHHHHTCCTTCE
T ss_pred             eEeeeecCCchHHHHHHHHHHHhcCCCcccCCCCCceeEEEecCCCCceEeecCCCccEecCcceEeccccccCCCCCCE
Confidence            5667778999999999998763  66644      345554 23   2 3555331   111   455899999999999


Q ss_pred             eeEEEe
Q 041424           65 MQLLFC   70 (148)
Q Consensus        65 i~l~~~   70 (148)
                      +.|+.+
T Consensus       109 l~l~~~  114 (117)
T 4e74_A          109 VALVSK  114 (117)
T ss_dssp             EEEEEC
T ss_pred             EEEEeC
Confidence            998876

>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=91.55  E-value=0.2  Score=37.23  Aligned_cols=55  Identities=11%  Similarity=0.224  Sum_probs=41.7

Q ss_pred             eeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           90 KVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        90 ~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      .+.|.|+. +|+.+.+.++       |+...++          ++|.|+.+.+..|-.+.++.++|+|.+...
T Consensus        21 ~i~ikv~~-~~~~v~~~i~~~~~l~kl~~~y~~~~g~~~~~~~f~fdG~~i~~~~Tpk~L~~ed~d~I~~~~e   92 (209)
T 3uf8_A           21 HINLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHRE   92 (209)
T ss_dssp             EEEEEEEC-SSCEEEEEEETTSCTHHHHHHHHHHHTCCGGGCEEEETTEECCTTCCTTTTTCCTTEEEEEECS
T ss_pred             cEEEEEEc-CCCEEEEEEeeCCHHHHHHHHHHHhhCCChheEEEEECCEeccCCCChHHhhhcccccchhhcc
Confidence            45666665 5555555555       4444443          999999999999999999999999998764

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

Probab=91.47  E-value=0.035  Score=44.90  Aligned_cols=56  Identities=9%  Similarity=0.214  Sum_probs=0.0

Q ss_pred             eeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEeec
Q 041424           90 KVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFISD  146 (148)
Q Consensus        90 ~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~~  146 (148)
                      .+.|.|+. +|..+.++|+       |+...++          ++|.|+.+.++.|-.+.++.+||+|.+++.-
T Consensus        30 ~i~lkv~~-~~~~~~~~i~~~~~~~~l~~~y~~~~g~~~~~~~f~f~G~~i~~~~Tp~~l~med~d~i~~~~~q  102 (389)
T 4da1_A           30 HINLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQAPEDLDMEDNDIIEAHREQ  102 (389)
T ss_dssp             --------------------------------------------------------------------------
T ss_pred             cEEEEEec-CCcEEEEEECCCChHHHHHHHHHHHhCCCcceEEEEECCEEcCCCCCHHHcCCCCCCEeeeeecc
Confidence            46666766 6676666666       3333333          8999999999999999999999999987653

>3kuz_A Plexin-C1; structural genomics, structural genomics consortium, SGC; 2.30A {Homo sapiens}

Probab=91.09  E-value=1.3  Score=30.55  Aligned_cols=66  Identities=18%  Similarity=0.275  Sum_probs=44.3

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhh----hCCCCc----ccEEEEc-C---eecCCCcc---c-cc---ccccccCCCccccc
Q 041424            3 TVTLNVEKSETIKNLKGMVHEK----EGTSED----IQDLFFA-G---DRLMNGRL---I-DY---EDMALASPNVKRES   63 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~----~gip~~----~Q~L~~~-g---~~L~d~~~---~-~~---~~~~L~~~~i~~~s   63 (148)
                      .+.+.|-..+||.++|+||-..    .|.|-+    ...|-+. |   ..|.|...   . ..   .--||+.|++.+|+
T Consensus        40 ~v~VkVLdCDTItQVKEKILdavYk~k~~pys~r~~d~dLEwr~g~~~~~L~D~D~tS~~~e~~wkrLNTL~HY~V~Dga  119 (126)
T 3kuz_A           40 NISVNVLDCDTIGQAKEKIFQAFLSKNGSPYGLQLNEIGLELQMGTRQKELLDIDSSSVILEDGITKLNTIGHYEISNGS  119 (126)
T ss_dssp             EEEEEEETTCBHHHHHHHHHHHHHHHHSSCCSSCGGGEEEEEEETTEEEEECSSCTTCCBCTTSCBCCCBTGGGTCCTTC
T ss_pred             ceEeeeecCCcHHHHHHHHHHHHhccCCCcCCCCccccceEEecCCCcceeeccCCcceEecCCeeEeccccccCCCCCC
Confidence            4677788899999999998764    377653    3444441 2   34544321   1 11   44589999999999


Q ss_pred             ceeEE
Q 041424           64 TMQLL   68 (148)
Q Consensus        64 ~i~l~   68 (148)
                      ++.|+
T Consensus       120 tlal~  124 (126)
T 3kuz_A          120 TIKVF  124 (126)
T ss_dssp             EEEEE
T ss_pred             EEEEe
Confidence            99775

>2r2o_A Plexin-B1; effector domain, structural genomics, structural GEN consortium, SGC, glycoprotein, membrane, phosphorylation, R secreted, transmembrane; 2.00A {Homo sapiens} PDB: 2rex_A* 2jph_A

Probab=90.88  E-value=0.59  Score=32.73  Aligned_cols=67  Identities=22%  Similarity=0.261  Sum_probs=46.2

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhh--CCCCc------ccEEEE----cCe-ecCCCccccc-------ccccccCCCcccc
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKE--GTSED------IQDLFF----AGD-RLMNGRLIDY-------EDMALASPNVKRE   62 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~--gip~~------~Q~L~~----~g~-~L~d~~~~~~-------~~~~L~~~~i~~~   62 (148)
                      .+.+.|-..+||.++|+||-+..  |.|-+      ..-|-+    +|+ .|.|... .+       ..-||+.|++.+|
T Consensus        42 ~i~VkVLdCDTItQvKeKiLDavYk~~PySqRP~~~d~dLEwr~g~~g~liL~D~D~-tS~~~~~wkrLNTL~HY~V~Dg  120 (138)
T 2r2o_A           42 GVPVKVLDCDTISQAKEKMLDQLYKGVPLTQRPDPRTLDVEWRSGVAGHLILSDEDV-TSEVQGLWRRLNTLQHYKVPDG  120 (138)
T ss_dssp             CEEEEEETTCBHHHHHHHHHHHHTTTSCGGGCCCGGGEEEEEECSSSCEEEECSSST-TCCEETTEEECCBHHHHTCCTT
T ss_pred             ceeEEEeccccHHHHHHHHHHHHHcCCccccCCCccceeEEEecCCcCceEeeccCC-cccccCCceeecchhccCCCCC
Confidence            35666778899999999999874  56643      223433    133 3666531 11       3448999999999


Q ss_pred             cceeEEEe
Q 041424           63 STMQLLFC   70 (148)
Q Consensus        63 s~i~l~~~   70 (148)
                      +++.|+.+
T Consensus       121 a~l~l~~~  128 (138)
T 2r2o_A          121 ATVALVPC  128 (138)
T ss_dssp             CEEEEEEC
T ss_pred             CEEEEEEC
Confidence            99999877

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

Probab=89.96  E-value=1.2  Score=29.61  Aligned_cols=61  Identities=13%  Similarity=0.188  Sum_probs=48.0

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEE--EcCeecC--C-CcccccccccccCCCcccccceeEEEe
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLF--FAGDRLM--N-GRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~--~~g~~L~--d-~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      .+.-....++||.++..-|....+.+...-.|+  |-.+.+.  | +.       +|.+.|+.+.+++.+...
T Consensus        25 rl~~rF~~~~tl~~v~~fV~~~~~~~~~~f~L~t~fPrk~l~~~d~~~-------TL~elgL~psa~L~v~~~   90 (109)
T 2dzk_A           25 SFTNQFPSDAPLEEARQFAAQTVGNTYGNFSLATMFPRREFTREDYKR-------RLLDLELAPSASVVLLPA   90 (109)
T ss_dssp             EEEEEECTTSBHHHHHHHHHHHHTTSSCSCEEECSSSCCBCCTTTTTS-------BTGGGTCSSEEEEEEECC
T ss_pred             EEEEEeCCCCCHHHHHHHHHhccCCCCCceEEEcCCCCcCCcccccCC-------CHHHCCCCCceEEEEEEC
Confidence            456678899999999999999988876777776  4455665  3 46       999999999988877654

>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=88.93  E-value=1.5  Score=29.81  Aligned_cols=60  Identities=15%  Similarity=0.242  Sum_probs=46.8

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEE--EcCeec--CC-CcccccccccccCCCcccccceeEEEe
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLF--FAGDRL--MN-GRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~--~~g~~L--~d-~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      .+.-...+++||.+|..-|... |.++..-.|+  |-.+.|  .| +.       +|.+.|+.+.+++.+...
T Consensus        55 rl~~rF~~~~tl~~V~~fV~~~-~~~~~~F~L~t~fPrk~l~~~d~~~-------TL~e~gL~psa~Liv~~~  119 (124)
T 1wj4_A           55 REQITLPEQAKLLALVKHVQSK-GYPNERFELLTNFPRRKLSHLDYDI-------TLQEAGLCPQETVFVQES  119 (124)
T ss_dssp             EEEEEEETTSCHHHHHHHHHHH-HCCTTTEEEECSSSCCEETSSCSSS-------CTTTTTCCSSBCCEEEEC
T ss_pred             EEEEEeCCCCCHHHHHHHHHhc-CCCCCCeEEecCCCCcCCccCCCCC-------CHHHCCCCCceEEEEEEc
Confidence            4566778899999999999887 7777777776  446677  33 56       999999999888877643

>4eut_A Serine/threonine-protein kinase TBK1; ATP binding, phosphorylation, transferase-transferas inhibitor complex; HET: BX7; 2.60A {Homo sapiens}

Probab=88.39  E-value=1.3  Score=35.08  Aligned_cols=38  Identities=16%  Similarity=0.274  Sum_probs=34.1

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCee
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDR   40 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~   40 (148)
                      ...+.+++..|+.++++++++.+|++++.|.|++.+..
T Consensus       323 ~~~~~~~~~~~~~~~~~~~~~~t~i~~~~q~~l~~~~~  360 (396)
T 4eut_A          323 AHKIYIHSYNTATIFHELVYKQTKIISSNQELIYEGRR  360 (396)
T ss_dssp             EEEEEECTTCBHHHHHHHHHHHHCCCSTTEEEESSSSE
T ss_pred             EEEEEcCchhHHHHHHHHHHHhcCCChhhhHHHhcCCC
Confidence            45678889999999999999999999999999998843

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

Probab=84.67  E-value=0.88  Score=38.41  Aligned_cols=32  Identities=16%  Similarity=0.278  Sum_probs=29.7

Q ss_pred             EEEEEcCCCcHHHHHHHHHhhhCCCCcccEEE
Q 041424            4 VTLNVEKSETIKNLKGMVHEKEGTSEDIQDLF   35 (148)
Q Consensus         4 ~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~   35 (148)
                      .++.|..++|+.+||+.+++..|+|+++|||-
T Consensus        38 ~~~rv~k~~~~~~l~~~va~~lg~~~~~~RlW   69 (530)
T 2ylm_A           38 TVFKVLKNSSLAEFVQSLSQTMGFPQDQIRLW   69 (530)
T ss_dssp             EEEEEETTSBHHHHHHHHHHHHTSCGGGEEEE
T ss_pred             ceEEEcCcCCHHHHHHHHHHHhCcCcccEEEE
Confidence            36789999999999999999999999999984

>3ig3_A Plxna3 protein; plexin intracellular GAP RBD inactive, membrane, transmembra membrane protein, signaling protein; 1.99A {Mus musculus} PDB: 3ryt_A*

Probab=81.75  E-value=6.9  Score=33.72  Aligned_cols=68  Identities=21%  Similarity=0.175  Sum_probs=47.2

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhh--CCCC------cccEEEEc----Ce-ecCCCccccc-------ccccccCCCcccc
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKE--GTSE------DIQDLFFA----GD-RLMNGRLIDY-------EDMALASPNVKRE   62 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~--gip~------~~Q~L~~~----g~-~L~d~~~~~~-------~~~~L~~~~i~~~   62 (148)
                      .+.+.|-..+||.++|+||-...  |+|-      +...|-+.    |+ .|.|.. ..+       ..-||+.|++.+|
T Consensus       248 ~i~vkVLdCDTItQVKeKiLdavYk~~pyS~rP~~~~~dLEwr~g~~g~~iL~D~D-~ts~~~~~wkrLNTL~HY~V~Dg  326 (627)
T 3ig3_A          248 QVPVKVLNCDSITQAKDKLLDTVYKGIPYSQRPKAEDMDLEWRQGRMARIILQDED-ITTKIECDWKRVNSLAHYQVTDG  326 (627)
T ss_dssp             EEEEEEETTCBHHHHHHHHHHHHTTTSCGGGSCCGGGEEEEEESCSSCEEEECSSS-TTCCEETTEEECCBTTTTTCCTT
T ss_pred             ceeeEeeccCcHHHHHHHHHHHHHcCCCcccCCCCCccceeEeeCCCCceeeccCC-ccccccCceeEecchhhcCCCCC
Confidence            46677778999999999998763  5553      34455542    33 355543 111       5568999999999


Q ss_pred             cceeEEEee
Q 041424           63 STMQLLFCA   71 (148)
Q Consensus        63 s~i~l~~~~   71 (148)
                      +++.++.+.
T Consensus       327 a~v~L~p~~  335 (627)
T 3ig3_A          327 SLVALVPKQ  335 (627)
T ss_dssp             CEEEEEEC-
T ss_pred             ceEEEEecc
Confidence            999998764

---

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	148
d1uh6a_	100	d.15.1.1 (A:) Ubiquitin-like protein 5, ubl5 {Mous	9e-10
d1zkha1	86	d.15.1.1 (A:1-86) Splicing factor 3 subunit 1, C-t	3e-08
d2c9wb1	103	d.15.1.1 (B:2-104) Elongin B {Human (Homo sapiens)	4e-08
d1v5oa_	102	d.15.1.1 (A:) 1700011n24rik protein {Mouse (Mus mu	5e-08
d1wjna_	97	d.15.1.1 (A:) Tubulin-folding protein TbcE {Mouse	7e-08
d1ogwa_	76	d.15.1.1 (A:) Ubiquitin {Human (Homo sapiens) [Tax	3e-07
d1wiaa_	95	d.15.1.1 (A:) Ubiquitin-like protein bab25500 (201	4e-07
d1bt0a_	73	d.15.1.1 (A:) Rub1 {Mouse-ear cress (Arabidopsis t	1e-06
d1z2ma2	76	d.15.1.1 (A:79-154) Interferon-induced 15 kDa prot	3e-06
d1z2ma1	76	d.15.1.1 (A:3-78) Interferon-induced 15 kDa protei	3e-06
d1ttna1	80	d.15.1.1 (A:21-100) Dendritic cell-derived ubiquit	3e-06
d1t0ya_	90	d.15.1.1 (A:) Ubiquitin-like domain of tubulin fol	3e-06
d1wjua_	100	d.15.1.1 (A:) NEDD8 ultimate buster-1, NUB1 {Human	4e-06
d2zeqa1	78	d.15.1.1 (A:1-78) Ubiquitin-like domain of parkin	4e-06
d1v86a_	95	d.15.1.1 (A:) hypothetical D7wsu128e protein {Mous	5e-06
d1wx9a1	73	d.15.1.1 (A:8-80) Large proline-rich protein BAT3	5e-06
d2bwfa1	73	d.15.1.1 (A:2-74) DSK2 {Baker's yeast (Saccharomyc	8e-06
d1wy8a1	76	d.15.1.1 (A:8-83) Ubiquitin-like PHD and RING fing	1e-05
d1v2ya_	105	d.15.1.1 (A:) Ubiquitin-like protein 3300001g02rik	2e-05
d1v6ea_	95	d.15.1.1 (A:) Ubiquitin-like domain of tubulin fol	3e-05
d1j8ca_	103	d.15.1.1 (A:) Ubiquitin-like N-terminal domain of	8e-05
d1wgda_	93	d.15.1.1 (A:) Homocysteine-responsive endoplasmic	9e-05
d1wgha_	116	d.15.1.1 (A:) Ubiquitin-like protein 3, Ubl3 {Mous	1e-04
d1m94a_	73	d.15.1.1 (A:) Ubiquitin-like modifier protein hub1	1e-04
d1wxva1	81	d.15.1.1 (A:7-87) Bag-family molecular chaperone r	2e-04
d1wx8a1	83	d.15.1.1 (A:8-90) 4931431F19Rik {Mouse (Mus muscul	2e-04
d1wgga_	96	d.15.1.1 (A:) Ubiquitin carboxyl-terminal hydrolas	3e-04
d1oqya4	77	d.15.1.1 (A:1-77) Ubiquitin-like domain of Rad23 h	3e-04
d1oqya4	77	d.15.1.1 (A:1-77) Ubiquitin-like domain of Rad23 h	0.001
d2faza1	76	d.15.1.1 (A:1-76) Ubiquitin-like PHD and RING fing	4e-04
d1yqba1	84	d.15.1.1 (A:15-98) Ubiquilin-3 {Human (Homo sapien	6e-04
d1euvb_	79	d.15.1.1 (B:) SUMO-1 (smt3 homologue) {Baker's yea	8e-04
d1v5ta_	90	d.15.1.1 (A:) 8430435i17rik protein {Mouse (Mus mu	0.004

>d1uh6a_ d.15.1.1 (A:) Ubiquitin-like protein 5, ubl5 {Mouse (Mus musculus) [TaxId: 10090]} Length = 100

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]

 Score = 50.8 bits (121), Expect = 9e-10
 Identities = 13/69 (18%), Positives = 25/69 (36%), Gaps = 9/69 (13%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          K V +     +TI +LK ++  + GT  +   L        +   L DY         + 
Sbjct: 39 KKVRVKCNTDDTIGDLKKLIAAQTGTRWNKIVLKKWYTIFKDHVSLGDY--------EIH 90

Query: 61 RESTMQLLF 69
              ++L +
Sbjct: 91 DGMNLELYY 99

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

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]

 Score = 46.0 bits (109), Expect = 3e-08
 Identities = 11/67 (16%), Positives = 25/67 (37%), Gaps = 9/67 (13%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          + +   +  ++ +  +K  +HE  G     Q L + G  + +   L  Y        N+ 
Sbjct: 22 QVLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDSNSLAYY--------NMA 73

Query: 61 RESTMQL 67
            + + L
Sbjct: 74 NGAVIHL 80

>d2c9wb1 d.15.1.1 (B:2-104) Elongin B {Human (Homo sapiens) [TaxId: 9606]} Length = 103

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]

 Score = 46.4 bits (110), Expect = 4e-08
 Identities = 14/68 (20%), Positives = 28/68 (41%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKR 61
           T+  + ++S T+  LK +V        D Q L+     L +G+ +        +   + 
Sbjct: 11 TTIFTDAKESSTVFELKRIVEGILKRPPDEQRLYKDDQLLDDGKTLGECGFTSQTARPQA 70

Query: 62 ESTMQLLF 69
           +T+ L F
Sbjct: 71 PATVGLAF 78

>d1v5oa_ d.15.1.1 (A:) 1700011n24rik protein {Mouse (Mus musculus) [TaxId: 10090]} Length = 102

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]

 Score = 46.2 bits (109), Expect = 5e-08
 Identities = 14/82 (17%), Positives = 28/82 (34%), Gaps = 6/82 (7%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKR 61
           T +L V     + N + +   + G   +   + +    L +      +  +L S  +K 
Sbjct: 22 VTFSLQVNPDFELSNFRVLCELESGVPAEEAQIVYMEQLLTD------DHCSLGSYGLKD 75

Query: 62 ESTMQLLFCAIKVLSISVKAPS 83
             + LL      L    + PS
Sbjct: 76 GDMVVLLQKDNVGLRTPGRTPS 97

>d1wjna_ d.15.1.1 (A:) Tubulin-folding protein TbcE {Mouse (Mus musculus) [TaxId: 10090]} Length = 97

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]

 Score = 45.3 bits (107), Expect = 7e-08
 Identities = 7/67 (10%), Positives = 26/67 (38%), Gaps = 1/67 (1%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRL-IDYEDMALASPNVK 60
          + +   +  S T++ +KG++            L +   ++    + ++ +   L   +V+
Sbjct: 23 QILEKQLPDSMTVQKVKGLLSRLLKVPVSELLLSYESSKMPGREIELENDLQPLQFYSVE 82

Query: 61 RESTMQL 67
              + +
Sbjct: 83 NGDCLLV 89

>d1ogwa_ d.15.1.1 (A:) Ubiquitin {Human (Homo sapiens) [TaxId: 9606]} Length = 76

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

 Score = 43.4 bits (102), Expect = 3e-07
 Identities = 31/68 (45%), Positives = 44/68 (64%), Gaps = 9/68 (13%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          KT+TL VE S+TI+N+K  + +KEG   D Q L FAG +L +GR L DY        N++
Sbjct: 11 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY--------NIQ 62

Query: 61 RESTMQLL 68
          +EST+ L+
Sbjct: 63 KESTLHLV 70

>d1wiaa_ d.15.1.1 (A:) Ubiquitin-like protein bab25500 (2010008E23Rik) {Mouse (Mus musculus) [TaxId: 10090]} Length = 95

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]

 Score = 43.4 bits (102), Expect = 4e-07
 Identities = 10/67 (14%), Positives = 18/67 (26%), Gaps = 9/67 (13%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKR 61
                    +T+  LK      +        L +       GRL+      L+S N+  
Sbjct: 18 TEELAVARPEDTVGTLKSKYFPGQE---SQMKLIY------QGRLLQDPARTLSSLNITN 68

Query: 62 ESTMQLL 68
             +   
Sbjct: 69 NCVIHCH 75

>d1bt0a_ d.15.1.1 (A:) Rub1 {Mouse-ear cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 73

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]

 Score = 41.4 bits (97), Expect = 1e-06
 Identities = 20/68 (29%), Positives = 35/68 (51%), Gaps = 9/68 (13%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          K + +++E ++TI  +K  V EKEG     Q L +AG +L + +   DY        N++
Sbjct: 11 KEIEIDIEPTDTIDRIKERVEEKEGIPPVQQRLIYAGKQLADDKTAKDY--------NIE 62

Query: 61 RESTMQLL 68
            S + L+
Sbjct: 63 GGSVLHLV 70

>d1z2ma2 d.15.1.1 (A:79-154) Interferon-induced 15 kDa protein {Human (Homo sapiens) [TaxId: 9606]} Length = 76

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Interferon-induced 15 kDa protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.6 bits (95), Expect = 3e-06
 Identities = 18/68 (26%), Positives = 31/68 (45%), Gaps = 9/68 (13%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          ++ T  V  ++T+ +LK  V   EG  +D+  L F G  L +   L +Y         +K
Sbjct: 14 RSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEY--------GLK 65

Query: 61 RESTMQLL 68
            ST+ + 
Sbjct: 66 PLSTVFMN 73

>d1z2ma1 d.15.1.1 (A:3-78) Interferon-induced 15 kDa protein {Human (Homo sapiens) [TaxId: 9606]} Length = 76

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Interferon-induced 15 kDa protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.7 bits (95), Expect = 3e-06
 Identities = 13/67 (19%), Positives = 26/67 (38%), Gaps = 5/67 (7%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKR 61
              +++  S ++  LK  + +K G     Q L      +        + + LAS  +  
Sbjct: 11 NEFQVSLSSSMSVSELKAQITQKIGVHAFQQRLAVHPSGVAL-----QDRVPLASQGLGP 65

Query: 62 ESTMQLL 68
           ST+ L+
Sbjct: 66 GSTVLLV 72

>d1ttna1 d.15.1.1 (A:21-100) Dendritic cell-derived ubiquitin-like protein {Human (Homo sapiens) [TaxId: 9606]} Length = 80

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]

 Score = 40.7 bits (95), Expect = 3e-06
 Identities = 14/68 (20%), Positives = 30/68 (44%), Gaps = 9/68 (13%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          K + L V  ++T+ ++K  +H  EG     Q  FF+G  L +     +          + 
Sbjct: 14 KDLKLVVRSTDTVFHMKRRLHAAEGVEPGSQRWFFSGRPLTDKMKFEEL--------KIP 65

Query: 61 RESTMQLL 68
          ++  +Q++
Sbjct: 66 KDYVVQVI 73

>d1t0ya_ d.15.1.1 (A:) Ubiquitin-like domain of tubulin folding cofactor B {Nematode (Caenorhabditis elegans) [TaxId: 6239]} Length = 90

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]

 Score = 40.6 bits (95), Expect = 3e-06
 Identities = 7/66 (10%), Positives = 18/66 (27%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKR 61
            +        ++ +LK  +    GT+ D   +            +     +L    V+ 
Sbjct: 16 FPMEKKYPAGMSLNDLKKKLELVVGTTVDSMRIQLFDGDDQLKGELTDGAKSLKDLGVRD 75

Query: 62 ESTMQL 67
             +  
Sbjct: 76 GYRIHA 81

>d1wjua_ d.15.1.1 (A:) NEDD8 ultimate buster-1, NUB1 {Human (Homo sapiens) [TaxId: 9606]} Length = 100

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]

 Score = 41.1 bits (96), Expect = 4e-06
 Identities = 10/67 (14%), Positives = 18/67 (26%), Gaps = 7/67 (10%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKR 61
          +   L      T + L+  + E  G  E+   +     +L            L    V  
Sbjct: 30 RKNLLETRLHITGRELRSKIAETFGLQENYIKIVINKKQLQL-------GKTLEEQGVAH 82

Query: 62 ESTMQLL 68
               +L
Sbjct: 83 NVKAMVL 89

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

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]

 Score = 40.3 bits (94), Expect = 4e-06
 Identities = 13/67 (19%), Positives = 31/67 (46%), Gaps = 7/67 (10%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKR 61
              + V+   +I  LK +V +++G   D   + FAG  L N          + + ++++
Sbjct: 13 YGFPVEVDSDTSILQLKEVVAKRQGVPADQLRVIFAGKELPNHLT-------VQNCDLEQ 65

Query: 62 ESTMQLL 68
          +S + ++
Sbjct: 66 QSIVHIV 72

>d1v86a_ d.15.1.1 (A:) hypothetical D7wsu128e protein {Mouse (Mus musculus) [TaxId: 10090]} Length = 95

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]

 Score = 40.7 bits (95), Expect = 5e-06
 Identities = 10/67 (14%), Positives = 21/67 (31%), Gaps = 8/67 (11%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKR 61
              + V    T   LK  +H   G    +Q + + G    +  L +          V  
Sbjct: 27 TKHDVKVPLDSTGSELKQKIHSITGLPPAMQKVMYKGLVPEDKTLREI--------KVTS 78

Query: 62 ESTMQLL 68
           + + ++
Sbjct: 79 GAKIMVV 85

>d1wx9a1 d.15.1.1 (A:8-80) Large proline-rich protein BAT3 {Human (Homo sapiens) [TaxId: 9606]} Length = 73

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]

 Score = 39.8 bits (93), Expect = 5e-06
 Identities = 11/49 (22%), Positives = 19/49 (38%), Gaps = 1/49 (2%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDY 49
          +T T  V     +K  K  +        + Q L + G  L + + L +Y
Sbjct: 11 QTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEY 59

>d2bwfa1 d.15.1.1 (A:2-74) DSK2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 73

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

 Score = 39.4 bits (92), Expect = 8e-06
 Identities = 11/66 (16%), Positives = 26/66 (39%), Gaps = 7/66 (10%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKR 61
              +NV    T+   K  +++  G     Q L ++G  L + +        + S +++ 
Sbjct: 11 DKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQT-------VESYHIQD 63

Query: 62 ESTMQL 67
            ++ L
Sbjct: 64 GHSVHL 69

>d1wy8a1 d.15.1.1 (A:8-83) Ubiquitin-like PHD and RING finger domain-containing protein 2 {Human (Homo sapiens) [TaxId: 9606]} Length = 76

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

 Score = 39.1 bits (91), Expect = 1e-05
 Identities = 22/69 (31%), Positives = 32/69 (46%), Gaps = 10/69 (14%)

Query: 2  KTVTL-NVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNV 59
          KT T+ +V +  TI+ L+  V        + Q LF+ G +L NG  L DY        +V
Sbjct: 12 KTCTIEDVSRKATIEELRERVWALFDVRPECQRLFYRGKQLENGYTLFDY--------DV 63

Query: 60 KRESTMQLL 68
               +QLL
Sbjct: 64 GLNDIIQLL 72

>d1v2ya_ d.15.1.1 (A:) Ubiquitin-like protein 3300001g02rik {Mouse (Mus musculus) [TaxId: 10090]} Length = 105

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein 3300001g02rik
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 39.3 bits (91), Expect = 2e-05
 Identities = 6/75 (8%), Positives = 22/75 (29%), Gaps = 9/75 (12%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDR---------LMNGRLIDYEDM 52
          + + + V ++ T+ +LK  +       ++ +                    G  +  +  
Sbjct: 18 EVMPVVVVQNATVLDLKKAIQRYVQLKQEREGGVQHISWSYVWRTYHLTSAGEKLTEDRK 77

Query: 53 ALASPNVKRESTMQL 67
           L    ++    +  
Sbjct: 78 KLRDYGIRNRDEVSF 92

>d1v6ea_ d.15.1.1 (A:) Ubiquitin-like domain of tubulin folding cofactor B {Mouse (Mus musculus) [TaxId: 10090]} Length = 95

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]

 Score = 38.4 bits (89), Expect = 3e-05
 Identities = 13/66 (19%), Positives = 20/66 (30%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKR 61
                  +S TI   K  +    G+     +L   G        +D ED  L S  V  
Sbjct: 19 FRSEKRYSRSLTIAEFKCKLELVVGSPASCMELELYGADDKFYSKLDQEDALLGSYPVDD 78

Query: 62 ESTMQL 67
             + +
Sbjct: 79 GCRIHV 84

>d1j8ca_ d.15.1.1 (A:) Ubiquitin-like N-terminal domain of PLIC-2 {Human (Homo sapiens) [TaxId: 9606]} Length = 103

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]

 Score = 37.3 bits (86), Expect = 8e-05
 Identities = 12/68 (17%), Positives = 27/68 (39%), Gaps = 9/68 (13%)

Query: 2   KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
           +     V ++ +++  K  + ++  +  D   L FAG  L +   LI +         + 
Sbjct: 42  EKEEFAVPENSSVQQFKEAISKRFKSQTDQLVLIFAGKILKDQDTLIQH--------GIH 93

Query: 61  RESTMQLL 68
              T+ L+
Sbjct: 94  DGLTVHLV 101

>d1wgda_ d.15.1.1 (A:) Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain member 1 protein, HERPUD1 {Human (Homo sapiens) [TaxId: 9606]} Length = 93

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain member 1 protein, HERPUD1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.1 bits (86), Expect = 9e-05
 Identities = 9/51 (17%), Positives = 24/51 (47%), Gaps = 3/51 (5%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGT--SEDIQDLFFAGDRLMNGR-LIDY 49
          + + L+ ++  ++ +LK  +          + Q L ++G  L++ + L D 
Sbjct: 20 RDLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLLDHQCLRDL 70

>d1wgha_ d.15.1.1 (A:) Ubiquitin-like protein 3, Ubl3 {Mouse (Mus musculus) [TaxId: 10090]} Length = 116

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

 Score = 37.3 bits (86), Expect = 1e-04
 Identities = 11/74 (14%), Positives = 25/74 (33%), Gaps = 15/74 (20%)

Query: 2  KTVTLNVEKSETIKNLKGMVH--------EKEGTSEDIQDLFFAGDRLMNGRLIDYEDMA 53
          KT       +++  ++   V+        E++ +S +I  L + G  L            
Sbjct: 27 KTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVT------- 79

Query: 54 LASPNVKRESTMQL 67
          L +  +    T  +
Sbjct: 80 LGALKLPFGKTTVM 93

>d1m94a_ d.15.1.1 (A:) Ubiquitin-like modifier protein hub1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 73

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

 Score = 36.2 bits (83), Expect = 1e-04
 Identities = 13/69 (18%), Positives = 28/69 (40%), Gaps = 9/69 (13%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNVK 60
          K V +     +++ + K ++  + GT  +   L   G  L +   L DY         V 
Sbjct: 12 KKVRVKCLAEDSVGDFKKVLSLQIGTQPNKIVLQKGGSVLKDHISLEDY--------EVH 63

Query: 61 RESTMQLLF 69
           ++ ++L +
Sbjct: 64 DQTNLELYY 72

>d1wxva1 d.15.1.1 (A:7-87) Bag-family molecular chaperone regulator-1 {Human (Homo sapiens) [TaxId: 9606]} Length = 81

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]

 Score = 36.0 bits (83), Expect = 2e-04
 Identities = 11/65 (16%), Positives = 24/65 (36%), Gaps = 6/65 (9%)

Query: 4  VTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRES 63
           +        +++L  +V E  G  +  Q L F G  L         +  L++  ++   
Sbjct: 18 TSQQGSSEPVVQDLAQVVEEVIGVPQSFQKLIFKGKSLK------EMETPLSALGIQDGC 71

Query: 64 TMQLL 68
           + L+
Sbjct: 72 RVMLI 76

>d1wx8a1 d.15.1.1 (A:8-90) 4931431F19Rik {Mouse (Mus musculus) [TaxId: 10090]} Length = 83

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]

 Score = 36.1 bits (83), Expect = 2e-04
 Identities = 9/67 (13%), Positives = 23/67 (34%), Gaps = 7/67 (10%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKR 61
                + ++  ++  K  + +    + D   L F G  L +          L+   +  
Sbjct: 20 DCHEFFLAENSNVRRFKKQISKYLHCNADRLVLIFTGKILRDQD-------ILSQRGILD 72

Query: 62 ESTMQLL 68
           ST+ ++
Sbjct: 73 GSTVHVV 79

>d1wgga_ d.15.1.1 (A:) Ubiquitin carboxyl-terminal hydrolase 14 {Mouse (Mus musculus) [TaxId: 10090]} Length = 96

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]

 Score = 35.7 bits (82), Expect = 3e-04
 Identities = 12/82 (14%), Positives = 23/82 (28%), Gaps = 8/82 (9%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKR 61
          K   + +   E     K  +    G     Q +   G  L        +D    +  +K 
Sbjct: 18 KFEGVELNTDEPPMVFKAQLFALTGVQPARQKVMVKGGTL--------KDDDWGNIKMKN 69

Query: 62 ESTMQLLFCAIKVLSISVKAPS 83
            T+ ++  A  +        S
Sbjct: 70 GMTVLMMGSADALPEEPSAKTS 91

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

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

 Score = 35.2 bits (81), Expect = 3e-04
 Identities = 13/70 (18%), Positives = 29/70 (41%), Gaps = 10/70 (14%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSE---DIQDLFFAGDRLMNGRLIDYEDMALASPN 58
          +T  + +E  ET+K LK  +  ++G        Q L +AG  L +          +    
Sbjct: 13 QTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVP-------IRDYR 65

Query: 59 VKRESTMQLL 68
          +  ++ + ++
Sbjct: 66 IDEKNFVVVM 75

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

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

 Score = 33.7 bits (77), Expect = 0.001
 Identities = 12/84 (14%), Positives = 29/84 (34%), Gaps = 8/84 (9%)

Query: 63  STMQLLFCAIKVLSISVKA-PSDDILKLKVKIFVKMLTEEIVKLKVKVLLTIRDLFCTGM 121
           S + +    ++  +  ++  P + +  LK KI  +   +       K+          G 
Sbjct: 1   SAVTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKL-------IYAGK 53

Query: 122 KLKDCKTLACYGVKDDRGVACFIS 145
            L D   +  Y + +   V   ++
Sbjct: 54  ILSDDVPIRDYRIDEKNFVVVMVT 77

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

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

 Score = 35.3 bits (81), Expect = 4e-04
 Identities = 17/69 (24%), Positives = 33/69 (47%), Gaps = 10/69 (14%)

Query: 2  KTVTL-NVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGR-LIDYEDMALASPNV 59
          +T T+ ++ +   ++ L+  + E       +Q LF+ G ++ +G  L DY         V
Sbjct: 12 QTHTVDSLSRLTKVEELRRKIQELFHVEPGLQRLFYRGKQMEDGHTLFDY--------EV 63

Query: 60 KRESTMQLL 68
          +   T+QLL
Sbjct: 64 RLNDTIQLL 72

>d1yqba1 d.15.1.1 (A:15-98) Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]} Length = 84

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]

 Score = 34.6 bits (79), Expect = 6e-04
 Identities = 16/67 (23%), Positives = 27/67 (40%), Gaps = 7/67 (10%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKR 61
               +V  + TI+ LK  + ++     D   L FAG  L +         +LA   V+ 
Sbjct: 17 DKEDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPD-------SLAQCGVRD 69

Query: 62 ESTMQLL 68
            T+ L+
Sbjct: 70 GLTVHLV 76

>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 = 34.0 bits (78), Expect = 8e-04
 Identities = 8/51 (15%), Positives = 21/51 (41%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDM 52
            +   ++K+  ++ L     +++G   D     + G R+   +  +  DM
Sbjct: 14 SEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDM 64

>d1v5ta_ d.15.1.1 (A:) 8430435i17rik protein {Mouse (Mus musculus) [TaxId: 10090]} Length = 90

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]

 Score = 32.7 bits (74), Expect = 0.004
 Identities = 10/70 (14%), Positives = 24/70 (34%), Gaps = 10/70 (14%)

Query: 2  KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQ---DLFFAGDRLMNGRLIDYEDMALASPN 58
          +     + + +T+ +LK  +    G   + Q    L   G    N          L +  
Sbjct: 18 EYSVTTLSEDDTVLDLKQFLKTLTGVLPERQKLLGLKVKGKPAENDVK-------LGALK 70

Query: 59 VKRESTMQLL 68
          +K  + + ++
Sbjct: 71 LKPNTKIMMM 80

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	148
d2zeqa1	78	Ubiquitin-like domain of parkin {Mouse (Mus muscul	99.79
d1ogwa_	76	Ubiquitin {Human (Homo sapiens) [TaxId: 9606]}	99.78
d1bt0a_	73	Rub1 {Mouse-ear cress (Arabidopsis thaliana) [TaxI	99.78
d1z2ma2	76	Interferon-induced 15 kDa protein {Human (Homo sap	99.77
d2bwfa1	73	DSK2 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.76
d1wh3a_	87	2'-5'-oligoadenylate synthetase-like protein, OASL	99.75
d2faza1	76	Ubiquitin-like PHD and RING finger domain-containi	99.74
d1zkha1	86	Splicing factor 3 subunit 1, C-terminal domain {Hu	99.73
d1ttna1	80	Dendritic cell-derived ubiquitin-like protein {Hum	99.73
d1m94a_	73	Ubiquitin-like modifier protein hub1 {Baker's yeas	99.73
d1z2ma1	76	Interferon-induced 15 kDa protein {Human (Homo sap	99.73
d1wy8a1	76	Ubiquitin-like PHD and RING finger domain-containi	99.72
d1wx9a1	73	Large proline-rich protein BAT3 {Human (Homo sapie	99.71
d1we6a_	111	Splicing factor 3 subunit 1, C-terminal domain {Th	99.71
d1yqba1	84	Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]}	99.7
d1oqya4	77	Ubiquitin-like domain of Rad23 homolog A (Hhr23a)	99.69
d1uh6a_	100	Ubiquitin-like protein 5, ubl5 {Mouse (Mus musculu	99.68
d1uela_	95	Ubiquitin-like domain of Rad23 homolog B (Hhr23B)	99.68
d1j8ca_	103	Ubiquitin-like N-terminal domain of PLIC-2 {Human	99.68
d1wx8a1	83	4931431F19Rik {Mouse (Mus musculus) [TaxId: 10090]	99.66
d1v5oa_	102	1700011n24rik protein {Mouse (Mus musculus) [TaxId	99.66
d2c9wb1	103	Elongin B {Human (Homo sapiens) [TaxId: 9606]}	99.61
d1wgga_	96	Ubiquitin carboxyl-terminal hydrolase 14 {Mouse (M	99.6
d1wjua_	100	NEDD8 ultimate buster-1, NUB1 {Human (Homo sapiens	99.6
d1v86a_	95	hypothetical D7wsu128e protein {Mouse (Mus musculu	99.59
d1wgha_	116	Ubiquitin-like protein 3, Ubl3 {Mouse (Mus musculu	99.58
d1se9a_	101	Hypothetical protein At3g01050 {Thale cress (Arabi	99.56
d1wxva1	81	Bag-family molecular chaperone regulator-1 {Human	99.55
d1v5ta_	90	8430435i17rik protein {Mouse (Mus musculus) [TaxId	99.53
d1bt0a_	73	Rub1 {Mouse-ear cress (Arabidopsis thaliana) [TaxI	99.5
d2zeqa1	78	Ubiquitin-like domain of parkin {Mouse (Mus muscul	99.5
d1wgda_	93	Homocysteine-responsive endoplasmic reticulum-resi	99.5
d1z2ma2	76	Interferon-induced 15 kDa protein {Human (Homo sap	99.48
d1v2ya_	105	Ubiquitin-like protein 3300001g02rik {Mouse (Mus m	99.48
d1v6ea_	95	Ubiquitin-like domain of tubulin folding cofactor	99.47
d1wiaa_	95	Ubiquitin-like protein bab25500 (2010008E23Rik) {M	99.46
d1wh3a_	87	2'-5'-oligoadenylate synthetase-like protein, OASL	99.43
d1ttna1	80	Dendritic cell-derived ubiquitin-like protein {Hum	99.43
d1ogwa_	76	Ubiquitin {Human (Homo sapiens) [TaxId: 9606]}	99.41
d1t0ya_	90	Ubiquitin-like domain of tubulin folding cofactor	99.4
d2faza1	76	Ubiquitin-like PHD and RING finger domain-containi	99.4
d1euvb_	79	SUMO-1 (smt3 homologue) {Baker's yeast (Saccharomy	99.38
d1wjna_	97	Tubulin-folding protein TbcE {Mouse (Mus musculus)	99.38
d1x1ma1	94	Ubiquitin-like protein 7 {Mouse (Mus musculus) [Ta	99.37
d1wy8a1	76	Ubiquitin-like PHD and RING finger domain-containi	99.35
d1uela_	95	Ubiquitin-like domain of Rad23 homolog B (Hhr23B)	99.35
d1m94a_	73	Ubiquitin-like modifier protein hub1 {Baker's yeas	99.33
d1wx9a1	73	Large proline-rich protein BAT3 {Human (Homo sapie	99.32
d1z2ma1	76	Interferon-induced 15 kDa protein {Human (Homo sap	99.31
d1oqya4	77	Ubiquitin-like domain of Rad23 homolog A (Hhr23a)	99.29
d2bwfa1	73	DSK2 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.25
d1uh6a_	100	Ubiquitin-like protein 5, ubl5 {Mouse (Mus musculu	99.24
d1yqba1	84	Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]}	99.23
d1wiaa_	95	Ubiquitin-like protein bab25500 (2010008E23Rik) {M	99.2
d1j8ca_	103	Ubiquitin-like N-terminal domain of PLIC-2 {Human	99.19
d1wx8a1	83	4931431F19Rik {Mouse (Mus musculus) [TaxId: 10090]	99.18
d1zkha1	86	Splicing factor 3 subunit 1, C-terminal domain {Hu	99.13
d1v2ya_	105	Ubiquitin-like protein 3300001g02rik {Mouse (Mus m	99.09
d1se9a_	101	Hypothetical protein At3g01050 {Thale cress (Arabi	99.03
d1v5oa_	102	1700011n24rik protein {Mouse (Mus musculus) [TaxId	99.02
d1we6a_	111	Splicing factor 3 subunit 1, C-terminal domain {Th	99.0
d1wgha_	116	Ubiquitin-like protein 3, Ubl3 {Mouse (Mus musculu	99.0
d2uyzb1	77	SUMO-1 (smt3 homologue) {Human (Homo sapiens) [Tax	99.0
d1x1ma1	94	Ubiquitin-like protein 7 {Mouse (Mus musculus) [Ta	98.93
d1wjua_	100	NEDD8 ultimate buster-1, NUB1 {Human (Homo sapiens	98.87
d1wgga_	96	Ubiquitin carboxyl-terminal hydrolase 14 {Mouse (M	98.87
d1v5ta_	90	8430435i17rik protein {Mouse (Mus musculus) [TaxId	98.71
d1wgda_	93	Homocysteine-responsive endoplasmic reticulum-resi	98.71
d2c9wb1	103	Elongin B {Human (Homo sapiens) [TaxId: 9606]}	98.68
d1v86a_	95	hypothetical D7wsu128e protein {Mouse (Mus musculu	98.68
d1wxva1	81	Bag-family molecular chaperone regulator-1 {Human	98.63
d1euvb_	79	SUMO-1 (smt3 homologue) {Baker's yeast (Saccharomy	98.54
d1wf9a1	94	NPL4-like protein 1 {Thale cress (Arabidopsis thal	98.41
d2uyzb1	77	SUMO-1 (smt3 homologue) {Human (Homo sapiens) [Tax	98.4
d1v6ea_	95	Ubiquitin-like domain of tubulin folding cofactor	98.25
d1wm3a_	72	SUMO-2 {Human (Homo sapiens) [TaxId: 9606]}	98.13
d1wjna_	97	Tubulin-folding protein TbcE {Mouse (Mus musculus)	97.98
d1t0ya_	90	Ubiquitin-like domain of tubulin folding cofactor	97.48
d2al3a1	76	Tether containing UBX domain for GLUT4 (Tug) {Mous	96.97
d1wm3a_	72	SUMO-2 {Human (Homo sapiens) [TaxId: 9606]}	96.86
d2al3a1	76	Tether containing UBX domain for GLUT4 (Tug) {Mous	91.25
d1oeya_	82	Neutrophil cytosol factor 2 (p67phox component of	89.93
d1h8ca_	82	Fas-associated factor 1, Faf1 {Human (Homo sapiens	89.89
d1wj4a_	124	Hypothetical protein KIAA0794 {Human (Homo sapiens	84.81
d1i42a_	89	p47 {Rat (Rattus norvegicus) [TaxId: 10116]}	81.78

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

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

Probab=99.79  E-value=1.1e-19  Score=116.73  Aligned_cols=62  Identities=21%  Similarity=0.370  Sum_probs=60.8

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|++++||++||++|++++|+||++|+|+|+|+.|+|+.       +|++|+|+++++||++.|
T Consensus        13 ~t~~l~v~~~~tV~~lK~~i~~~~gip~~~qrLi~~Gk~L~d~~-------tL~~y~I~~~sti~lv~R   74 (78)
T d2zeqa1          13 YGFPVEVDSDTSILQLKEVVAKRQGVPADQLRVIFAGKELPNHL-------TVQNCDLEQQSIVHIVQR   74 (78)
T ss_dssp             SCEEEEECTTCBHHHHHHHHHHHHTCCGGGEEEEETTEEECTTC-------BGGGSSCCTTCEEEEEES
T ss_pred             CEEEEEEcccccHHHHHHHHHHHHCcChhHeEEEEeeeEcCCCC-------CHHHcCCCCCCEEEEEec
Confidence            67999999999999999999999999999999999999999999       999999999999999998

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

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

Probab=99.78  E-value=1.7e-19  Score=115.08  Aligned_cols=62  Identities=47%  Similarity=0.745  Sum_probs=60.9

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|++++||.+||++|+..+|+|+++|+|+|+|+.|+|+.       +|++|||+++++|+|+.|
T Consensus        11 ~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~qrL~~~Gk~L~d~~-------tL~~y~i~~~s~I~L~~r   72 (76)
T d1ogwa_          11 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGR-------TLSDYNIQKESTLHLVLR   72 (76)
T ss_dssp             CEEEEECCTTSBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTS-------BGGGGTCCTTCEEEEEEC
T ss_pred             CEEEEEECCCCcHHHHHHhhhhhcCCChHHEEeEECCeEcCCCC-------CHHHcCCCCCCEEEEEEe
Confidence            58999999999999999999999999999999999999999999       999999999999999999

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

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

Probab=99.78  E-value=2.2e-19  Score=113.77  Aligned_cols=62  Identities=29%  Similarity=0.520  Sum_probs=60.6

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|+|++||++||++|++.+|+|+++|+|+|+|+.|+|+.       +|++|||++|++||+++|
T Consensus        11 ~~~~l~V~~~~tV~~lK~~i~~~~gi~~~~qrLi~~Gk~L~d~~-------tL~~y~I~~~sti~lvlr   72 (73)
T d1bt0a_          11 KEIEIDIEPTDTIDRIKERVEEKEGIPPVQQRLIYAGKQLADDK-------TAKDYNIEGGSVLHLVLA   72 (73)
T ss_dssp             CEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTS-------BTGGGTCCTTCEEEEEEC
T ss_pred             CEEEEEECCCCcHHHHHHHHHHHhCCChHHEEEEECCeEcCCCC-------cHHHcCCCCCCEEEEEee
Confidence            68999999999999999999999999999999999999999999       999999999999999987

>d1z2ma2 d.15.1.1 (A:79-154) Interferon-induced 15 kDa protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Interferon-induced 15 kDa protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.77  E-value=4.8e-19  Score=112.94  Aligned_cols=62  Identities=27%  Similarity=0.319  Sum_probs=60.5

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|++++||++||++|++++|+|+++|+|+|+|+.|+|+.       +|++|||++|++|||+.|
T Consensus        14 ~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~qrL~~~gk~L~d~~-------tL~~y~I~~~sti~l~lR   75 (76)
T d1z2ma2          14 RSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQL-------PLGEYGLKPLSTVFMNLR   75 (76)
T ss_dssp             CEEEEEECTTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTS-------BGGGGTCCTTCEEEEEEC
T ss_pred             CEEEEEECCCCcHHHHHHHHHHHhcCChhHeEEEECCeECCCCC-------cHHHcCCCCCCEEEEEEe
Confidence            68999999999999999999999999999999999999999999       999999999999999987

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

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

Probab=99.76  E-value=9.5e-19  Score=110.82  Aligned_cols=62  Identities=18%  Similarity=0.322  Sum_probs=59.8

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.       +|++|||++|++|||+.+
T Consensus        11 ~~~~i~v~~~~tV~~lK~~I~~~~gip~~~qrLi~~Gk~L~D~~-------tL~~~~I~~g~~i~lV~~   72 (73)
T d2bwfa1          11 DKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQ-------TVESYHIQDGHSVHLVKS   72 (73)
T ss_dssp             EEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTS-------BTGGGTCCTTCEEEEEEC
T ss_pred             eEEEEEECCCChHHHHHHHHHHHHCcChHHeEEEECCeEccCCC-------cHHHCCCCCCCEEEEEee
Confidence            46899999999999999999999999999999999999999999       999999999999999875

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

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

Probab=99.75  E-value=9.1e-19  Score=114.46  Aligned_cols=62  Identities=19%  Similarity=0.238  Sum_probs=60.7

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|++++||.+||++|+.++|||+++|+|+|+|+.|+|+.       +|++|+|+++++|||+.+
T Consensus        18 ~~~~l~v~~~~tV~~lK~~I~~~~gip~~~qrLi~~Gk~L~d~~-------tL~~y~I~~~stl~l~~r   79 (87)
T d1wh3a_          18 GSYAYAINPNSFILGLKQQIEDQQGLPKKQQQLEFQGQVLQDWL-------GLGIYGIQDSDTLILSKK   79 (87)
T ss_dssp             EEEEEEECSSSBHHHHHHHHHHHTCCCTTTEEEEETTEECCSSS-------BHHHHTCCTTEEEEEEEC
T ss_pred             CEEEEEECCcCcHHHHHHHHHHHHCcChHHeEEEeeceEcCCCC-------cHHHcCCCCCCEEEEEec
Confidence            67999999999999999999999999999999999999999999       999999999999999998

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

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

Probab=99.74  E-value=3.1e-18  Score=109.31  Aligned_cols=62  Identities=24%  Similarity=0.431  Sum_probs=59.4

Q ss_pred             eEEEEE-EcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLN-VEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~-v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++ +++++||++||++|++++|+|+++|+|+|+|+.|+|+.       +|++|||+++++|||+.|
T Consensus        12 ~t~~l~~v~~~~tV~~lK~~I~~~~gip~~~qrLi~~Gk~L~D~~-------tL~~y~I~~~sti~lv~r   74 (76)
T d2faza1          12 QTHTVDSLSRLTKVEELRRKIQELFHVEPGLQRLFYRGKQMEDGH-------TLFDYEVRLNDTIQLLVR   74 (76)
T ss_dssp             CEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTC-------BTTTTTCCTTCEEEEEEC
T ss_pred             cEEEEecCCCCCCHHHHHHHHHHHHCcChHHeEEEEeeEeccCCC-------cHHHcCCCCCCEEEEEEE
Confidence            378885 89999999999999999999999999999999999999       999999999999999988

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

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

Probab=99.73  E-value=1.7e-18  Score=113.04  Aligned_cols=62  Identities=18%  Similarity=0.300  Sum_probs=60.5

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|++++||++||++|++++|+|+++|+|+|+|+.|.|+.       +|++|||.+|++|||+.+
T Consensus        22 ~~~~l~v~~~~tV~~lK~~I~~~~~ip~~~q~Li~~Gk~L~D~~-------tL~dY~I~~gsti~l~~r   83 (86)
T d1zkha1          22 QVLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDSN-------SLAYYNMANGAVIHLALK   83 (86)
T ss_dssp             CEEEEEECTTSBHHHHHHHHHHHTCCCTTTEEEEETTEEECTTS-------BHHHHTCCTTEEEEEEES
T ss_pred             eEEEEEECCCChHHHHHHHHHhhhcCChHHEEEEeCCcCcCCCC-------CHHHcCCCCCCEEEEEEe
Confidence            57899999999999999999999999999999999999999999       999999999999999998

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

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

Probab=99.73  E-value=2.2e-18  Score=110.93  Aligned_cols=62  Identities=23%  Similarity=0.419  Sum_probs=60.6

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|++++||++||++|++++|+|+++|+|+|+|+.|+|+.       +|++|||+++++|||+++
T Consensus        14 ~~~~l~V~~~~tV~~lK~~I~~~~~ip~~~qrLi~~Gk~L~d~~-------tL~~y~I~~~sti~lvi~   75 (80)
T d1ttna1          14 KDLKLVVRSTDTVFHMKRRLHAAEGVEPGSQRWFFSGRPLTDKM-------KFEELKIPKDYVVQVIVS   75 (80)
T ss_dssp             EEEEEEECTTSHHHHHHHHHHHTTCCCSTTCEEEETTEECCTTS-------HHHHCCCSSSCEEEEECC
T ss_pred             CEEEEEECCcCcHHHHHHHHHHHhCCCcccEEEEECceEcCCCC-------cHHHcCCCCCCEEEEEec
Confidence            68999999999999999999999999999999999999999999       999999999999999987

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

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

Probab=99.73  E-value=2.2e-18  Score=109.17  Aligned_cols=61  Identities=18%  Similarity=0.280  Sum_probs=59.1

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEE
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLF   69 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~   69 (148)
                      ++++++|+|++||++||++|++++|+||++|+|+|+|+.|+|+.       +|++|||++|++++|..
T Consensus        12 k~~~v~V~~~~tV~~lK~~I~~~~~i~~~~q~Li~~Gk~L~d~~-------tL~~y~I~~gstl~L~~   72 (73)
T d1m94a_          12 KKVRVKCLAEDSVGDFKKVLSLQIGTQPNKIVLQKGGSVLKDHI-------SLEDYEVHDQTNLELYY   72 (73)
T ss_dssp             EEEEEEECTTSBHHHHHHHHHHHHCCTTTSEEEESSSCEECTTS-------BHHHHTCCTTEEEEEEE
T ss_pred             CEEEEEECCcCcHHHHHHHHHHhhcccccEEEEEEEeEEecccC-------cHHHcCCCCCCEEEEEE
Confidence            68999999999999999999999999999999999999999999       99999999999999874

>d1z2ma1 d.15.1.1 (A:3-78) Interferon-induced 15 kDa protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Interferon-induced 15 kDa protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.73  E-value=3.9e-18  Score=108.81  Aligned_cols=62  Identities=24%  Similarity=0.266  Sum_probs=59.8

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEE--cCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFF--AGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~--~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|++++||.+||++|+..+|+||++|+|+|  +|+.|.|+.       +|++|||++|++|+|+.+
T Consensus        11 ~~~~v~V~~~~tV~~lK~~I~~~~gip~~~QrLi~~~~Gk~L~D~~-------tL~~y~i~~g~~i~lv~~   74 (76)
T d1z2ma1          11 NEFQVSLSSSMSVSELKAQITQKIGVHAFQQRLAVHPSGVALQDRV-------PLASQGLGPGSTVLLVVD   74 (76)
T ss_dssp             CEEEEECCSSCCHHHHHHHHHHHHCCCGGGEEEEEETTCCBCCSSS-------CSGGGTCCTTCEEEEEEC
T ss_pred             CEEEEEECCCCcHHHHHHHHHHHhccCCccEEEEEcCCCeeccCCC-------cHHHcCCCCCCEEEEEEE
Confidence            57899999999999999999999999999999999  699999999       999999999999999987

>d1wy8a1 d.15.1.1 (A:8-83) Ubiquitin-like PHD and RING finger domain-containing protein 2 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=99.72  E-value=3.5e-18  Score=109.09  Aligned_cols=62  Identities=32%  Similarity=0.437  Sum_probs=59.5

Q ss_pred             eEEEE-EEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTL-NVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l-~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +++++ +|++++||++||++|++++|+|+++|+|+|+|+.|+|+.       +|++|||++|++|||+.|
T Consensus        12 ~t~~~~~v~~~~TV~~lK~~I~~~~gip~~~qrLi~~Gk~L~d~~-------tL~~y~I~~~s~i~lv~r   74 (76)
T d1wy8a1          12 KTCTIEDVSRKATIEELRERVWALFDVRPECQRLFYRGKQLENGY-------TLFDYDVGLNDIIQLLVR   74 (76)
T ss_dssp             CEEEEEEECTTCBHHHHHHHHHHHSCCCTTTEEEEETTEECCSSS-------BHHHHTCCTTCEEEEEEC
T ss_pred             ceEEEeccCCCChHHHHHHHHHHHHCCCchhcEEEEEeeEecCCC-------CHHHcCCCCCCEEEEEEc
Confidence            47787 599999999999999999999999999999999999999       999999999999999988

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

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

Probab=99.71  E-value=2.1e-18  Score=109.26  Aligned_cols=61  Identities=21%  Similarity=0.277  Sum_probs=58.5

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|++++||++||++|++++|+|+++|+|+|+|+.|+|+.       +|++|+| +++++||+.|
T Consensus        11 ~~~~l~V~~~~tV~~lK~~I~~~~gip~~~qrLi~~Gk~L~d~~-------tL~dy~i-~~~ti~lv~r   71 (73)
T d1wx9a1          11 QTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDK-------KLQEYNV-GGKVIHLVER   71 (73)
T ss_dssp             CEEEEEECTTSBHHHHHHHHHHHHCCCTTTCCCEETTEECCSSS-------BHHHHTC-TTEEEBCCCS
T ss_pred             CEEEEEECCCChHHHHHHHHHHHhCCChHHEEEEECCeEccCCC-------CHHHhCC-CCCEEEEEec
Confidence            68999999999999999999999999999999999999999999       9999999 5899999887

>d1we6a_ d.15.1.1 (A:) Splicing factor 3 subunit 1, C-terminal domain {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Splicing factor 3 subunit 1, C-terminal domain
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.71  E-value=6.2e-18  Score=115.22  Aligned_cols=62  Identities=21%  Similarity=0.191  Sum_probs=60.0

Q ss_pred             eEEEEEEcC-CCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEK-SETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~-~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|.| ++||.+||++|++++|+|+++|+|+|+|+.|+|+.       +|++|||++|++|||++|
T Consensus        41 ~~i~l~v~~~sdtV~~lK~~I~~~~gip~~~QrLi~~Gk~L~D~~-------tL~~ynI~~gsti~L~lr  103 (111)
T d1we6a_          41 QFMEITVQSLSENVGSLKEKIAGEIQIPANKQKLSGKAGFLKDNM-------SLAHYNVGAGEILTLSLR  103 (111)
T ss_dssp             CCEEEEESCSSSBHHHHHHHHHHHTTCCTTTSEEECSSSBCCTTS-------BTTTTTCSSSCEEEEECS
T ss_pred             eEEEEEecCCccHHHHHHHHHHHHHCCCccceEEEEeeEEccccC-------CHHHcCCCCCCEEEEEee
Confidence            478999987 99999999999999999999999999999999999       999999999999999999

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

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

Probab=99.70  E-value=1.3e-17  Score=108.26  Aligned_cols=62  Identities=26%  Similarity=0.306  Sum_probs=59.9

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      .+++++|++++||.+||++|++.+|+|++.|+|+|+|+.|+|+.       +|++|||.+|++|+|+++
T Consensus        17 ~~~~~~V~~~~tV~~lK~~i~~~~gi~~~~qrL~~~Gk~L~D~~-------tL~~y~i~~gsti~lv~r   78 (84)
T d1yqba1          17 DKEDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPD-------SLAQCGVRDGLTVHLVIK   78 (84)
T ss_dssp             CEEEEEEETTCBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTS-------BHHHHTCCTTCEEEEEEC
T ss_pred             CcEEEEECCCCcHHHHHHHHHHHHCcCchhEEEEEeeeeccccC-------cHHHcCCCCCCEEEEEEC
Confidence            35789999999999999999999999999999999999999999       999999999999999998

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

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

Probab=99.69  E-value=2.3e-17  Score=105.32  Aligned_cols=61  Identities=21%  Similarity=0.350  Sum_probs=58.5

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhC---CCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEE
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEG---TSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLF   69 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~g---ip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~   69 (148)
                      ++++++|+|++||++||++|++..|   +|+++|||+|+|+.|.|+.       +|++|||+++++|++++
T Consensus        13 ~~~~l~v~~~~TV~~lK~~i~~~~g~~~i~~~~qrLi~~Gk~L~D~~-------tL~~y~I~~~s~i~~~v   76 (77)
T d1oqya4          13 QTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDV-------PIRDYRIDEKNFVVVMV   76 (77)
T ss_dssp             EEEEECCCTTCBHHHHHHHHHHHTCSSSCCSTEEEEESSSSEECSSS-------BTTTTCCCTTSCEEEEE
T ss_pred             CEEEEEECCCCcHHHHHHHHHHhcCCCCCChHHEEeEECCcCccCCC-------cHHHcCCCCCCEEEEEE
Confidence            5899999999999999999999988   9999999999999999999       99999999999999876

>d1uh6a_ d.15.1.1 (A:) Ubiquitin-like protein 5, ubl5 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein 5, ubl5
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.68  E-value=1.4e-17  Score=111.40  Aligned_cols=62  Identities=18%  Similarity=0.201  Sum_probs=59.5

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|+|++||.+||++|++++|+|+++|+|+|+|+.|.|+.       +|++|||++|++|+|.++
T Consensus        39 k~~~v~V~p~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~-------tL~dygI~~GstI~L~~~  100 (100)
T d1uh6a_          39 KKVRVKCNTDDTIGDLKKLIAAQTGTRWNKIVLKKWYTIFKDHV-------SLGDYEIHDGMNLELYYQ  100 (100)
T ss_dssp             SCEEEEEETTSBHHHHHHHHHHHHCCCGGGCEEEETTEECCSSC-------BHHHHTCCTTEEEEEECC
T ss_pred             CEEEEEECCcChHHHHHHHHHHHHCCCcceEEEEEEeecccCcC-------CHHHcCCCCCCEEEEEEC
Confidence            67899999999999999999999999999999999999999999       999999999999999753

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

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

Probab=99.68  E-value=5.3e-17  Score=107.44  Aligned_cols=63  Identities=22%  Similarity=0.382  Sum_probs=60.0

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhC---CCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEee
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEG---TSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFCA   71 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~g---ip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~~   71 (148)
                      ++++++|++++||.+||++|++++|   +|+++|+|+|+|+.|+|+.       +|++|||.++++|+|+.+.
T Consensus        11 ~~~~l~v~~~~TV~~lK~~i~~~~~~~~i~~~~qrLi~~Gk~L~d~~-------tL~~y~I~~~s~i~lv~~~   76 (95)
T d1uela_          11 QTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDT-------ALKEYKIDEKNFVVVMVTK   76 (95)
T ss_dssp             CEEEEECCTTSBHHHHHHHHHHHHCTTTCCTTTEEEEETTEECCTTS-------BGGGGTCCSSSEEEEEESS
T ss_pred             CEEEEEECCCccHHHHHHHHHhhhcccCCCccceEEEECCeEccCCC-------cHHHcCCCCCCEEEEEECC
Confidence            6899999999999999999999876   8999999999999999999       9999999999999999874

>d1j8ca_ d.15.1.1 (A:) Ubiquitin-like N-terminal domain of PLIC-2 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=99.68  E-value=5.3e-17  Score=109.04  Aligned_cols=62  Identities=18%  Similarity=0.292  Sum_probs=59.3

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      .+++++|++++||.+||++|++.+|+|++.|+|+|+|+.|.|+.       +|++|||++|++|||++|
T Consensus        42 ~~~~i~V~~~~tV~~LK~~I~~~~gi~~~~qrLi~~Gk~L~D~~-------tL~~~~I~~g~~I~lvlr  103 (103)
T d1j8ca_          42 EKEEFAVPENSSVQQFKEAISKRFKSQTDQLVLIFAGKILKDQD-------TLIQHGIHDGLTVHLVIK  103 (103)
T ss_dssp             CEEEEEECTTCCHHHHHHHHHHHHCSCSSSEEEEETTEEESTTS-------CGGGTTCSSSEEEEEEEC
T ss_pred             ccEEEEECCCChHHHHHHHHHHHHCcCHHHeeeeeeeecccCCC-------cHHHcCCCCCCEEEEEEC
Confidence            35789999999999999999999999999999999999999999       999999999999999875

>d1wx8a1 d.15.1.1 (A:8-90) 4931431F19Rik {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: 4931431F19Rik
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.66  E-value=2.4e-17  Score=106.70  Aligned_cols=61  Identities=15%  Similarity=0.218  Sum_probs=59.0

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      .++++|++++||.+||++|++.+|+|+++|+|+|+|+.|.|+.       +|++|||++|++|||++|
T Consensus        21 ~~~i~v~~~~tV~~lK~~I~~~~~v~~~~qrL~f~Gk~L~d~~-------tL~~~gI~~gs~I~lv~r   81 (83)
T d1wx8a1          21 CHEFFLAENSNVRRFKKQISKYLHCNADRLVLIFTGKILRDQD-------ILSQRGILDGSTVHVVVR   81 (83)
T ss_dssp             EEEEEEETTCCHHHHHHHHHHHTCSCTTTBCCEETTEECCTTS-------CHHHHTCCTTEEEECCBC
T ss_pred             cEEEEECCCChHHHHHHHHHHHhCCChhHEEEEEEhhccccCC-------cHHHcCCCCCCEEEEEEe
Confidence            4689999999999999999999999999999999999999999       999999999999999987

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

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

Probab=99.66  E-value=4.3e-17  Score=109.44  Aligned_cols=64  Identities=17%  Similarity=0.213  Sum_probs=59.5

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecC-CCcccccccccccCCCcccccceeEEEeee
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLM-NGRLIDYEDMALASPNVKRESTMQLLFCAI   72 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~-d~~~~~~~~~~L~~~~i~~~s~i~l~~~~~   72 (148)
                      ++++++|++++||.+||++|+.++|+|+++|+|+|+|+.|. |..       +|++|||++|++|+|+.+..
T Consensus        22 ~t~~l~V~~~~tV~~LK~~Ie~~~gip~~~Q~Li~~Gk~L~dd~~-------tL~~~gI~~g~~i~l~~r~~   86 (102)
T d1v5oa_          22 VTFSLQVNPDFELSNFRVLCELESGVPAEEAQIVYMEQLLTDDHC-------SLGSYGLKDGDMVVLLQKDN   86 (102)
T ss_dssp             CEEEEEECTTCBHHHHHHHHHHHTCCCGGGBCEEETTEEECCSSS-------BHHHHTCCTTEEEEECBCCC
T ss_pred             CEEEEEECCcccHHHHHHHHHHHhCCCcceEEEEeCCeEeecccC-------CHHHcCCCCCCEEEEEECCC
Confidence            47999999999999999999999999999999999999995 567       99999999999999998743

>d2c9wb1 d.15.1.1 (B:2-104) Elongin B {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=99.61  E-value=5.9e-16  Score=103.85  Aligned_cols=65  Identities=25%  Similarity=0.267  Sum_probs=58.8

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcc-------cccceeEEEeeee
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVK-------RESTMQLLFCAIK   73 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~-------~~s~i~l~~~~~~   73 (148)
                      .|++++|++++||.+||++|++++|+|+++|+|+|+|+.|+|++       +|++|||.       ..+++++.+++.+
T Consensus        11 ~Ti~l~v~~~~TV~~lK~~I~~~~gip~~~QrLi~~Gk~L~D~~-------TL~dYgI~~~~~~~~~~~~~~l~~~~~~   82 (103)
T d2c9wb1          11 TTIFTDAKESSTVFELKRIVEGILKRPPDEQRLYKDDQLLDDGK-------TLGECGFTSQTARPQAPATVGLAFRADD   82 (103)
T ss_dssp             EEEEEEECTTSBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTS-------BHHHHTCCTTTSBTTBCEEEEEEEEETT
T ss_pred             EEEEEEeCCCCcHHHHHHHHHHHhCCCcccEEEEECCEEcCCCC-------CHHHcCCCcccccccCCcEEEEEEecCC
Confidence            47899999999999999999999999999999999999999999       99999994       4557888877543

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

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

Probab=99.60  E-value=7e-16  Score=102.32  Aligned_cols=60  Identities=13%  Similarity=0.157  Sum_probs=56.8

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      .++++|++++||.+||++|++.+|+|+++|+|+|.|+.|.| .       +|++|||++|++|+|+..
T Consensus        19 ~~~v~v~~~~tV~~lK~~i~~~~gvp~~~QkLi~~Gk~L~d-~-------tL~~~gi~~g~~i~lv~t   78 (96)
T d1wgga_          19 FEGVELNTDEPPMVFKAQLFALTGVQPARQKVMVKGGTLKD-D-------DWGNIKMKNGMTVLMMGS   78 (96)
T ss_dssp             EEEEEEESSSCHHHHHHHHHHHTCCCTTTSCCEETTEECCS-S-------CCCSCCCCSSCEEECCCC
T ss_pred             EEEEEECCCCcHHHHHHHhhhhcCccceeeEEeecCcccCC-C-------cHHHCCCCCCCEEEEEee
Confidence            46899999999999999999999999999999999999987 4       899999999999999876

>d1wjua_ d.15.1.1 (A:) NEDD8 ultimate buster-1, NUB1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: NEDD8 ultimate buster-1, NUB1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.60  E-value=4.5e-16  Score=104.00  Aligned_cols=62  Identities=18%  Similarity=0.213  Sum_probs=59.7

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.       +|++|||+++++|+++..
T Consensus        30 ~~~~lev~~~~TV~~LK~~I~~~~gi~~~~qkLi~~Gk~L~d~~-------tL~~~gI~~~s~i~vi~~   91 (100)
T d1wjua_          30 RKNLLETRLHITGRELRSKIAETFGLQENYIKIVINKKQLQLGK-------TLEEQGVAHNVKAMVLEL   91 (100)
T ss_dssp             SSEEEEEESSSBHHHHHHHHHHHTTCCSTTCEEEETTEECCTTS-------BHHHHTCCSSEEEEEECC
T ss_pred             eEEEEEECCCcHHHHHHHHHHHHHCCCCeeEEEEEcccCcCCCc-------CHHHcCCCCCCEEEEEEc
Confidence            57899999999999999999999999999999999999999999       999999999999998865

>d1v86a_ d.15.1.1 (A:) hypothetical D7wsu128e protein {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: hypothetical D7wsu128e protein
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.59  E-value=2.8e-16  Score=104.07  Aligned_cols=61  Identities=16%  Similarity=0.240  Sum_probs=58.5

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      ++++++|++++||.+||++|++.+|+|+++|+|+|+|+ |.|+.       +|++|+|+++++|+|+.+
T Consensus        27 k~~~i~v~~~~TV~~LK~~I~~~tgvp~~~q~Li~~g~-l~D~~-------tL~~~~I~~gs~i~lvgs   87 (95)
T d1v86a_          27 TKHDVKVPLDSTGSELKQKIHSITGLPPAMQKVMYKGL-VPEDK-------TLREIKVTSGAKIMVVGS   87 (95)
T ss_dssp             EEEEEEECTTSBHHHHHHHHHHHHCSCSTTCCCBSSSB-CCSSS-------BHHHHCCCTTEEEEECCS
T ss_pred             EEEEEEECCCCcHHHHHHHHHHHhCCChhHEEEEeccc-ccCCC-------cHHHCCCCCCCEEEEEec
Confidence            57999999999999999999999999999999999986 89999       999999999999999987

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

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

Probab=99.58  E-value=1.7e-15  Score=103.70  Aligned_cols=62  Identities=21%  Similarity=0.268  Sum_probs=57.1

Q ss_pred             eEEEEEEcCCCcHHHHHHHH--------HhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccc--eeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMV--------HEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKREST--MQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i--------~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~--i~l~~~   70 (148)
                      ++++++|+|++||.+||++|        ++..|+||++|||+|.|+.|.|+.       +|++|+|.+|++  +||+.|
T Consensus        27 k~~~~~v~p~~TV~~lK~~I~~~~p~~~~e~~~~~~~~qRLiy~Gk~L~D~~-------tL~~~~i~~g~~~~lhlv~r   98 (116)
T d1wgha_          27 KTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNV-------TLGALKLPFGKTTVMHLVAR   98 (116)
T ss_dssp             CEEEEEECTTCBHHHHHHHHHHSSSCCSSCCCCCCTTTEEEEETTEEECSSC-------BTTTTTCCSSCEEEEEEEEC
T ss_pred             CEEEEEECCcchHHHHHHHHHhhcccccccccCCChHHeEEEECCEEecCCC-------CHHHcCCCCCCEEEEEEEeC
Confidence            57899999999999999999        578899999999999999999999       999999999987  666665

>d1se9a_ d.15.1.1 (A:) Hypothetical protein At3g01050 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Hypothetical protein At3g01050
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.56  E-value=3.7e-15  Score=99.42  Aligned_cols=62  Identities=19%  Similarity=0.222  Sum_probs=57.1

Q ss_pred             eEE-EEEEcCCCcHHHHHHHHHhh-----hCCC--CcccEEEEcCeecCCCcccccccccccCCCccccc------ceeE
Q 041424            2 KTV-TLNVEKSETIKNLKGMVHEK-----EGTS--EDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRES------TMQL   67 (148)
Q Consensus         2 ~~~-~l~v~~~~tV~~lK~~i~~~-----~gip--~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s------~i~l   67 (148)
                      +++ .+.+++++||.+||++|++.     .|+|  +++|||+|+|+.|+|+.       +|++|++..|+      ++||
T Consensus        18 ~~i~~~~v~~s~TV~~lK~~I~~~~~~~k~~iP~~~~~qRLIf~Gk~L~D~~-------tL~dy~i~~g~~~~~~~tmHl   90 (101)
T d1se9a_          18 SDIGPKAFPDATTVSALKETVISEWPREKENGPKTVKEVKLISAGKVLENSK-------TVKDYRSPVSNLAGAVTTMHV   90 (101)
T ss_dssp             CEEEEEEECTTCBHHHHHHHHHHHSCTTCSSSCCSGGGEEEEETTEECCTTS-------BGGGGSCCTTSCTTCCEEEEE
T ss_pred             CeecceecCccCHHHHHHHHHHHhccccccCCCCCcccEEEEECCeEecCCC-------CHHHcCCCCCCcCCCceEEEE
Confidence            345 69999999999999999875     7898  88999999999999999       99999999997      9999


Q ss_pred             EEe
Q 041424           68 LFC   70 (148)
Q Consensus        68 ~~~   70 (148)
                      ++|
T Consensus        91 Vvr   93 (101)
T d1se9a_          91 IIQ   93 (101)
T ss_dssp             EEC
T ss_pred             EeC
Confidence            998

>d1wxva1 d.15.1.1 (A:7-87) Bag-family molecular chaperone regulator-1 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=99.55  E-value=2.8e-15  Score=96.41  Aligned_cols=61  Identities=21%  Similarity=0.326  Sum_probs=55.6

Q ss_pred             EEEEEE-----cCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecC-CCcccccccccccCCCcccccceeEEEe
Q 041424            3 TVTLNV-----EKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLM-NGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         3 ~~~l~v-----~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~-d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      .++++|     ++++||++||++|++.+|+|+++|+|+|+|+.|. |+.       +|++||+++|++|+|+.+
T Consensus        12 ~~~i~v~~~~~~~~~Tv~~LK~~I~~~tgvp~~~QkL~~~G~~L~~d~~-------tL~~~gi~~g~~i~lv~~   78 (81)
T d1wxva1          12 KHDLHVTSQQGSSEPVVQDLAQVVEEVIGVPQSFQKLIFKGKSLKEMET-------PLSALGIQDGCRVMLIGK   78 (81)
T ss_dssp             EEEEEECCCSSSSSCBHHHHHHHHHHHTCCCTTTCEEEETTEEECCSSS-------BHHHHTCCSSEEEEEESC
T ss_pred             eEEEEEecCCCCCccHHHHHHHHHHHHHCcCHHHEEeeecCeEeCcCCC-------ChHHCCCCCCCEEEEEEe
Confidence            466777     4688999999999999999999999999999995 568       999999999999999987

>d1v5ta_ d.15.1.1 (A:) 8430435i17rik protein {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: 8430435i17rik protein
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.53  E-value=3.3e-15  Score=97.76  Aligned_cols=62  Identities=16%  Similarity=0.291  Sum_probs=58.1

Q ss_pred             eEEEE-EEcCCCcHHHHHHHHHhhhCCCCcccEEE---EcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTL-NVEKSETIKNLKGMVHEKEGTSEDIQDLF---FAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l-~v~~~~tV~~lK~~i~~~~gip~~~Q~L~---~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +.+++ +|++++||.+||++|++++|+||++|+|+   |.|+.|.|+.       +|++|+|++|++|+|+.+
T Consensus        17 ~~~~i~~v~~~~tV~~LK~~i~~~t~vp~~~QkLi~~~~~Gk~L~D~~-------tL~~~~i~~g~~i~lv~s   82 (90)
T d1v5ta_          17 QEYSVTTLSEDDTVLDLKQFLKTLTGVLPERQKLLGLKVKGKPAENDV-------KLGALKLKPNTKIMMMGT   82 (90)
T ss_dssp             EEEEECSCCSSSBHHHHHHHHHHHTCCCTTTCEEESCEETTEECCTTS-------BHHHHTCCTTEEEEEECC
T ss_pred             eEEEEEEeCCCCcHHHHHHHHHHHHcCCHHHhhhhhhccCCcCCCCcC-------cHHHcCCCCCCEEEEEee
Confidence            45667 69999999999999999999999999999   6899999999       999999999999999987

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

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

Probab=99.50  E-value=7.8e-15  Score=92.32  Aligned_cols=55  Identities=22%  Similarity=0.347  Sum_probs=51.6

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      |.|+||+.+|++++++|+       +|++|++          |+|+|+.|+|++||++|||++||+|||++|
T Consensus         1 M~I~Vk~~~G~~~~l~V~~~~tV~~lK~~i~~~~gi~~~~qrLi~~Gk~L~d~~tL~~y~I~~~sti~lvlr   72 (73)
T d1bt0a_           1 MLIKVKTLTGKEIEIDIEPTDTIDRIKERVEEKEGIPPVQQRLIYAGKQLADDKTAKDYNIEGGSVLHLVLA   72 (73)
T ss_dssp             CEEEEECTTSCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEEC
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHhCCChHHEEEEECCeEcCCCCcHHHcCCCCCCEEEEEee
Confidence            678999999999999998       8888886          999999999999999999999999999986

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

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

Probab=99.50  E-value=8.7e-15  Score=93.38  Aligned_cols=56  Identities=13%  Similarity=0.161  Sum_probs=52.8

Q ss_pred             eeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           90 KVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        90 ~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      ||.|+||+.+|++++++|+       +|++|++          |+|+|++|+|+++|++|+|++||+|||++|
T Consensus         2 ~M~I~Vk~~~g~t~~l~v~~~~tV~~lK~~i~~~~gip~~~qrLi~~Gk~L~d~~tL~~y~I~~~sti~lv~R   74 (78)
T d2zeqa1           2 GMIVFVRFNSSYGFPVEVDSDTSILQLKEVVAKRQGVPADQLRVIFAGKELPNHLTVQNCDLEQQSIVHIVQR   74 (78)
T ss_dssp             CEEEEEESSSSSCEEEEECTTCBHHHHHHHHHHHHTCCGGGEEEEETTEEECTTCBGGGSSCCTTCEEEEEES
T ss_pred             ceEEEEEcCCCCEEEEEEcccccHHHHHHHHHHHHCcChhHeEEEEeeeEcCCCCCHHHcCCCCCCEEEEEec
Confidence            6899999999999999988       8988876          999999999999999999999999999986

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

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain member 1 protein, HERPUD1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.50  E-value=9.7e-15  Score=96.17  Aligned_cols=61  Identities=18%  Similarity=0.277  Sum_probs=55.2

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhC--CCCcccEEEEcCeecCCCcccccccccccCCCcccc--cceeEEEe
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEG--TSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRE--STMQLLFC   70 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~g--ip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~--s~i~l~~~   70 (148)
                      .+++++++++||.+||++|++..|  +|+++|||+|+|+.|.|+.       +|++|..+.+  .+|||+.+
T Consensus        21 ~~~~~v~~~~TV~~LK~~I~~~~~~~~~~~~qrLIy~Gk~L~D~~-------~L~d~~~~~~~~~viHLV~~   85 (93)
T d1wgda_          21 DLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLLDHQ-------CLRDLLPKQEKRHVLHLVCN   85 (93)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHSTTCCCTTTCEEEETTEECCSSS-------CHHHHSCSSSCSEEEEEECC
T ss_pred             eEEEEcCCCCcHHHHHHHHHHHcCCCCChHHEEEEECCeEccCCC-------CHHHhCcccCCCCEEEEEec
Confidence            488999999999999999999965  9999999999999999999       9999976644  48999877

>d1z2ma2 d.15.1.1 (A:79-154) Interferon-induced 15 kDa protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Interferon-induced 15 kDa protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.48  E-value=1.5e-14  Score=91.66  Aligned_cols=56  Identities=21%  Similarity=0.235  Sum_probs=52.5

Q ss_pred             eeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           90 KVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        90 ~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      .|+|+||+.+|++++++|+       +|++|++          |+|+|+.|+|++||++|||++|++|||++|
T Consensus         3 ~~qi~Vk~~~G~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~qrL~~~gk~L~d~~tL~~y~I~~~sti~l~lR   75 (76)
T d1z2ma2           3 PLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNLR   75 (76)
T ss_dssp             CEEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEEC
T ss_pred             CEEEEEEcCCCCEEEEEECCCCcHHHHHHHHHHHhcCChhHeEEEECCeECCCCCcHHHcCCCCCCEEEEEEe
Confidence            4789999999999999888       9999886          999999999999999999999999999986

>d1v2ya_ d.15.1.1 (A:) Ubiquitin-like protein 3300001g02rik {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein 3300001g02rik
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.48  E-value=2.7e-15  Score=100.96  Aligned_cols=63  Identities=14%  Similarity=0.252  Sum_probs=58.9

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccE---------------EEEcCeecCCC-cccccccccccCCCcccccce
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQD---------------LFFAGDRLMNG-RLIDYEDMALASPNVKRESTM   65 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~---------------L~~~g~~L~d~-~~~~~~~~~L~~~~i~~~s~i   65 (148)
                      ++++++|++++||.+||++|++.+|+|+++||               |+|+|+.|.|+ .       +|++|||++|++|
T Consensus        18 ~~~~v~V~~~~TV~~LK~~I~~~~~ip~~~Qr~~~~~~~~~~~~~~~Li~~G~~L~d~~~-------tL~~~gI~~g~~l   90 (105)
T d1v2ya_          18 EVMPVVVVQNATVLDLKKAIQRYVQLKQEREGGVQHISWSYVWRTYHLTSAGEKLTEDRK-------KLRDYGIRNRDEV   90 (105)
T ss_dssp             CEEEEEECTTCBHHHHHHHHHHHHHHHHHHTTCCCCCCHHHHHTTEEEESSSCEECCSSS-------BHHHHTCCSSEEE
T ss_pred             CEEEEEECCCChHHHHHHHHHHHHCcCHHHhcccccccccccccceEEEECCEECcccCC-------CHHHcCCCCCCEE
Confidence            57899999999999999999999999999998               99999999765 6       8999999999999


Q ss_pred             eEEEee
Q 041424           66 QLLFCA   71 (148)
Q Consensus        66 ~l~~~~   71 (148)
                      ||+.+.
T Consensus        91 ~lv~r~   96 (105)
T d1v2ya_          91 SFIKKL   96 (105)
T ss_dssp             EEEECS
T ss_pred             EEEEec
Confidence            999883

>d1v6ea_ d.15.1.1 (A:) Ubiquitin-like domain of tubulin folding cofactor B {Mouse (Mus musculus) [TaxId: 10090]}

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

Probab=99.47  E-value=2.8e-14  Score=94.30  Aligned_cols=60  Identities=17%  Similarity=0.105  Sum_probs=55.9

Q ss_pred             EEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCe-------ecCCCcccccccccccCCCcccccceeEEEe
Q 041424            4 VTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGD-------RLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         4 ~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~-------~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      .+..+++++||.+||++|+..+|+|+++|+|+|.|+       .++|+.       +|++|++.+|++|||+.+
T Consensus        21 ~E~r~~~~~TV~~LK~kle~~tGip~~~qrL~~~~~~~~~~~~l~~d~~-------~L~~y~i~dg~~ihlvd~   87 (95)
T d1v6ea_          21 SEKRYSRSLTIAEFKCKLELVVGSPASCMELELYGADDKFYSKLDQEDA-------LLGSYPVDDGCRIHVIDH   87 (95)
T ss_dssp             EEEEECTTSBHHHHHHHHHHHTCSCTTTCBCEEECSSSCEEEECCCSSS-------BTTSSSCCTTCEEEEBCC
T ss_pred             EEEEeCCCCCHHHHHHHHHHHhCcCchhEEEEEeCCCCceeecccCCcC-------CHHHCCCCCCCEEEEEeC
Confidence            567899999999999999999999999999999887       467888       999999999999999987

>d1wiaa_ d.15.1.1 (A:) Ubiquitin-like protein bab25500 (2010008E23Rik) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein bab25500 (2010008E23Rik)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.46  E-value=7.5e-14  Score=92.19  Aligned_cols=61  Identities=18%  Similarity=0.196  Sum_probs=54.8

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecC-CCcccccccccccCCCcccccceeEEEeee
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLM-NGRLIDYEDMALASPNVKRESTMQLLFCAI   72 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~-d~~~~~~~~~~L~~~~i~~~s~i~l~~~~~   72 (148)
                      +++.++|++++||.+||++|+   .+++++|+|+|+|+.|. |.+       +|++|+|.+|++|||+.+..
T Consensus        18 ~~~~v~v~~~~TV~~lK~~i~---~~~~~~qrLi~~Gk~L~dd~~-------tL~~y~i~~g~~v~l~~~~~   79 (95)
T d1wiaa_          18 TEELAVARPEDTVGTLKSKYF---PGQESQMKLIYQGRLLQDPAR-------TLSSLNITNNCVIHCHRSPP   79 (95)
T ss_dssp             EEEEEEECSSSBHHHHHHHHS---SSTTTTCEEEETTEECCCSSC-------BTTTTTCCTTEEEEEECCCC
T ss_pred             CEEEEEECCcCcHHHHHHHHh---cCCcceeEEEECCEEcccCCC-------CHHHcCCCCCCEEEEEEcCC
Confidence            568999999999999999986   46889999999999996 568       99999999999999998743

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

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

Probab=99.43  E-value=3.9e-14  Score=91.98  Aligned_cols=59  Identities=22%  Similarity=0.285  Sum_probs=54.3

Q ss_pred             hheeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEeec
Q 041424           88 KLKVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFISD  146 (148)
Q Consensus        88 ~~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~~  146 (148)
                      ..+|+|+||+.+|++++++|+       +|++|++          |+|+|+.|+|+++|++|+|++|++|||+++.
T Consensus         5 s~~mqI~Vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gip~~~qrLi~~Gk~L~d~~tL~~y~I~~~stl~l~~r~   80 (87)
T d1wh3a_           5 SSGIQVFVKNPDGGSYAYAINPNSFILGLKQQIEDQQGLPKKQQQLEFQGQVLQDWLGLGIYGIQDSDTLILSKKK   80 (87)
T ss_dssp             SSSEEEEEEETTTEEEEEEECSSSBHHHHHHHHHHHTCCCTTTEEEEETTEECCSSSBHHHHTCCTTEEEEEEECS
T ss_pred             CCcEEEEEECCCCCEEEEEECCcCcHHHHHHHHHHHHCcChHHeEEEeeceEcCCCCcHHHcCCCCCCEEEEEecC
Confidence            356999999999999999888       9999886          9999999999999999999999999999873

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

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

Probab=99.43  E-value=4.5e-14  Score=90.32  Aligned_cols=57  Identities=19%  Similarity=0.277  Sum_probs=52.8

Q ss_pred             eeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEeec
Q 041424           90 KVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFISD  146 (148)
Q Consensus        90 ~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~~  146 (148)
                      .++|+||+.+|++++++|+       +|++|++          |+|+|+.|+|++||++|||++|++|||+++.
T Consensus         3 e~qi~Vk~~~G~~~~l~V~~~~tV~~lK~~I~~~~~ip~~~qrLi~~Gk~L~d~~tL~~y~I~~~sti~lvi~~   76 (80)
T d1ttna1           3 ECQLRLRLSTGKDLKLVVRSTDTVFHMKRRLHAAEGVEPGSQRWFFSGRPLTDKMKFEELKIPKDYVVQVIVSQ   76 (80)
T ss_dssp             SEEEEEEETTTEEEEEEECTTSHHHHHHHHHHHTTCCCSTTCEEEETTEECCTTSHHHHCCCSSSCEEEEECCC
T ss_pred             eEEEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhCCCcccEEEEECceEcCCCCcHHHcCCCCCCEEEEEecC
Confidence            3789999999999999988       9999886          9999999999999999999999999999874

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

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

Probab=99.41  E-value=9.6e-14  Score=87.84  Aligned_cols=55  Identities=33%  Similarity=0.565  Sum_probs=51.6

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      |+|+||+.+|++++++|+       +|++|++          |+|+|+.|+|+.||++|||++||+|+|+++
T Consensus         1 MqI~Vk~l~G~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~qrL~~~Gk~L~d~~tL~~y~i~~~s~I~L~~r   72 (76)
T d1ogwa_           1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR   72 (76)
T ss_dssp             CEEEEEETTSCEEEEECCTTSBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEEC
T ss_pred             CEEEEEcCCCCEEEEEECCCCcHHHHHHhhhhhcCCChHHEEeEECCeEcCCCCCHHHcCCCCCCEEEEEEe
Confidence            679999999999999888       8998886          999999999999999999999999999987

>d1t0ya_ d.15.1.1 (A:) Ubiquitin-like domain of tubulin folding cofactor B {Nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like domain of tubulin folding cofactor B
species: Nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=99.40  E-value=3.8e-13  Score=87.87  Aligned_cols=60  Identities=12%  Similarity=0.102  Sum_probs=53.9

Q ss_pred             EEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCe-------ecCCCcccccccccccCCCcccccceeEEEe
Q 041424            4 VTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGD-------RLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         4 ~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~-------~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +...+++++||.+||++|+..+|+||+.|+|+|.|+       ..+|++       +|++||+.+|++||++-.
T Consensus        18 ~E~r~~~~~TV~~LK~kle~~~Gip~~~q~L~~~~~~~~~~~~l~dd~~-------~L~~ygi~dG~~Ihvvd~   84 (90)
T d1t0ya_          18 MEKKYPAGMSLNDLKKKLELVVGTTVDSMRIQLFDGDDQLKGELTDGAK-------SLKDLGVRDGYRIHAVDV   84 (90)
T ss_dssp             EEEEEETTSBHHHHHHHHHHHHCCCTTTEEEEEECSSSSEEEECCCCSS-------BTTTTTCCSSEEEEEEEC
T ss_pred             EEEecCCCCCHHHHHHHHHHHHCCChhheEEEEeCCCCCcccccccCCC-------CHHHCCCCCCCEEEEEeC
Confidence            566789999999999999999999999999999886       345677       999999999999999865

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

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

Probab=99.40  E-value=1.3e-13  Score=87.43  Aligned_cols=55  Identities=20%  Similarity=0.343  Sum_probs=49.2

Q ss_pred             eeeeeeeeeee-eeehh-hh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           91 VKIFVKMLTEE-IVKLK-VK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        91 i~I~Vk~~~gk-~~~l~-v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      |.|+||+.+|+ +++++ ++       +|++|++          |+|+|+.|+|+++|++|||++|++|||++|
T Consensus         1 M~I~Vktl~Gk~t~~l~~v~~~~tV~~lK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~y~I~~~sti~lv~r   74 (76)
T d2faza1           1 MWIQVRTMDGRQTHTVDSLSRLTKVEELRRKIQELFHVEPGLQRLFYRGKQMEDGHTLFDYEVRLNDTIQLLVR   74 (76)
T ss_dssp             EEEEEEETTSSCEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTCBTTTTTCCTTCEEEEEEC
T ss_pred             CEEEEEeCCCCcEEEEecCCCCCCHHHHHHHHHHHHCcChHHeEEEEeeEeccCCCcHHHcCCCCCCEEEEEEE
Confidence            67999999996 67764 43       8999886          999999999999999999999999999987

>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=99.38  E-value=6.1e-13  Score=84.72  Aligned_cols=62  Identities=10%  Similarity=0.253  Sum_probs=59.7

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +.+.+.|.+++++..||...+++.|+|+++|+|+|+|+.|.++.       |+++|++.+|++|+++.+
T Consensus        14 ~~~~f~v~~~~~~~~l~~~~~~~~~i~~~~~~l~f~G~~l~~~~-------T~~~~~i~dgd~I~v~~~   75 (79)
T d1euvb_          14 SEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQ-------TPEDLDMEDNDIIEAHRE   75 (79)
T ss_dssp             CEEEEEEETTSCTHHHHHHHHHHTTCCGGGEEEEETTEECCTTC-------CTTTTTCCTTEEEEEEEC
T ss_pred             eEEEEEECCCCcHHHHHHHHHHHhCCChHhEEEEECCEEeCCCC-------CHHHCCCCCCCEEEEEEe
Confidence            35778999999999999999999999999999999999999999       999999999999999998

>d1wjna_ d.15.1.1 (A:) Tubulin-folding protein TbcE {Mouse (Mus musculus) [TaxId: 10090]}

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

Probab=99.38  E-value=3.3e-13  Score=89.29  Aligned_cols=62  Identities=13%  Similarity=0.169  Sum_probs=55.1

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCee-------cC-CCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDR-------LM-NGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~-------L~-d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +++++.+++++||.+||.+|+..+|+|++.|+|+|.|+.       |+ |++       +|.+|||++|++|++...
T Consensus        23 ~~~~~kv~~~~TV~~LK~~i~~~~gip~~~qrL~y~~~~~~~~~~~l~~d~~-------tL~~YgI~dg~~I~V~~~   92 (97)
T d1wjna_          23 QILEKQLPDSMTVQKVKGLLSRLLKVPVSELLLSYESSKMPGREIELENDLQ-------PLQFYSVENGDCLLVRWS   92 (97)
T ss_dssp             CCEEEEEETTSBHHHHHHHHHTTTTCCTTTCEEEEECTTSCSCEEECCCSSS-------BSGGGTCCTTCEEEEECC
T ss_pred             ceEEEEcCCCCCHHHHHHHHHHHHCcChHHeEEEecCCCCCcccceecCCCc-------CHhhccCCCCCEEEEEeC
Confidence            467899999999999999999999999999999999873       43 556       999999999999997643

>d1x1ma1 d.15.1.1 (A:8-101) Ubiquitin-like protein 7 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein 7
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.37  E-value=2.1e-13  Score=89.70  Aligned_cols=54  Identities=22%  Similarity=0.332  Sum_probs=49.6

Q ss_pred             CCCcHHHHHHHHHhhh--CCC-CcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424           10 KSETIKNLKGMVHEKE--GTS-EDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus        10 ~~~tV~~lK~~i~~~~--gip-~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      .++||.+||++|+++.  ++| |++|+|+|+|+.|+|+.       +|++|||++|++|||+.|
T Consensus        36 ~~~tV~~lK~~i~~~~~~~~P~p~~~rLIy~Gk~L~D~~-------tL~~y~I~~gstihLV~r   92 (94)
T d1x1ma1          36 GGYSISFLKQLIAGKLQESVPDPELIDLIYCGRKLKDDQ-------TLDFYGIQPGSTVHVLRK   92 (94)
T ss_dssp             CCCBHHHHHHHHHHHCTTTCCCSSSEEEEETTEECCTTC-------BHHHHTCCTTCEEEEEES
T ss_pred             CccCHHHHHHHHHHHcccCCCChhheEEEECCeEECCCc-------cHHHcCCCCCCEEEEEEe
Confidence            4789999999999885  454 69999999999999999       999999999999999987

>d1wy8a1 d.15.1.1 (A:8-83) Ubiquitin-like PHD and RING finger domain-containing protein 2 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=99.35  E-value=3.7e-13  Score=85.28  Aligned_cols=55  Identities=20%  Similarity=0.265  Sum_probs=48.8

Q ss_pred             eeeeeeeeee-eeeeh-hhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           91 VKIFVKMLTE-EIVKL-KVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        91 i~I~Vk~~~g-k~~~l-~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      |.|+|++.+| +++++ .|+       +|++|++          |+|+|+.|+|++||++|||++|++|||++|
T Consensus         1 M~I~Vk~l~G~~t~~~~~v~~~~TV~~lK~~I~~~~gip~~~qrLi~~Gk~L~d~~tL~~y~I~~~s~i~lv~r   74 (76)
T d1wy8a1           1 MWIQVRTIDGSKTCTIEDVSRKATIEELRERVWALFDVRPECQRLFYRGKQLENGYTLFDYDVGLNDIIQLLVR   74 (76)
T ss_dssp             EEEEEEETTCSCEEEEEEECTTCBHHHHHHHHHHHSCCCTTTEEEEETTEECCSSSBHHHHTCCTTCEEEEEEC
T ss_pred             CEEEEEeCCCCceEEEeccCCCChHHHHHHHHHHHHCCCchhcEEEEEeeEecCCCCHHHcCCCCCCEEEEEEc
Confidence            6799999988 46665 355       9999887          999999999999999999999999999987

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

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

Probab=99.35  E-value=4.1e-13  Score=88.30  Aligned_cols=55  Identities=20%  Similarity=0.373  Sum_probs=50.6

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe-------------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD-------------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e-------------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      |.|+||+.+|++++++|+       +|++|++             |+|+|+.|+|+++|++|||++|++|+|+++
T Consensus         1 M~I~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~~~~i~~~~qrLi~~Gk~L~d~~tL~~y~I~~~s~i~lv~~   75 (95)
T d1uela_           1 MQVTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALKEYKIDEKNFVVVMVT   75 (95)
T ss_dssp             CEEEEEETTCCEEEEECCTTSBHHHHHHHHHHHHCTTTCCTTTEEEEETTEECCTTSBGGGGTCCSSSEEEEEES
T ss_pred             CEEEEEeCCCCEEEEEECCCccHHHHHHHHHhhhcccCCCccceEEEECCeEccCCCcHHHcCCCCCCEEEEEEC
Confidence            679999999999999988       8888763             999999999999999999999999999875

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

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

Probab=99.33  E-value=4e-13  Score=84.42  Aligned_cols=54  Identities=22%  Similarity=0.250  Sum_probs=50.1

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEe
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFI  144 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l  144 (148)
                      |+|+|+...|++++++|+       +|++|++          |+|+|+.|+|+.||++|||++||+|+|..
T Consensus         2 i~i~vk~~~Gk~~~v~V~~~~tV~~lK~~I~~~~~i~~~~q~Li~~Gk~L~d~~tL~~y~I~~gstl~L~~   72 (73)
T d1m94a_           2 IEVVVNDRLGKKVRVKCLAEDSVGDFKKVLSLQIGTQPNKIVLQKGGSVLKDHISLEDYEVHDQTNLELYY   72 (73)
T ss_dssp             EEEEEEETTTEEEEEEECTTSBHHHHHHHHHHHHCCTTTSEEEESSSCEECTTSBHHHHTCCTTEEEEEEE
T ss_pred             eEEEEECCCCCEEEEEECCcCcHHHHHHHHHHhhcccccEEEEEEEeEEecccCcHHHcCCCCCCEEEEEE
Confidence            578999999999999888       9998886          99999999999999999999999999963

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

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

Probab=99.32  E-value=1.7e-13  Score=86.15  Aligned_cols=54  Identities=24%  Similarity=0.284  Sum_probs=49.9

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      |+|+||+.+|++++++|+       +|++|++          |+|+|+.|+|+++|++|+| .|+||||+++
T Consensus         1 m~I~Vk~~~g~~~~l~V~~~~tV~~lK~~I~~~~gip~~~qrLi~~Gk~L~d~~tL~dy~i-~~~ti~lv~r   71 (73)
T d1wx9a1           1 LEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEYNV-GGKVIHLVER   71 (73)
T ss_dssp             EEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHCCCTTTCCCEETTEECCSSSBHHHHTC-TTEEEBCCCS
T ss_pred             CEEEEEcCCCCEEEEEECCCChHHHHHHHHHHHhCCChHHEEEEECCeEccCCCCHHHhCC-CCCEEEEEec
Confidence            679999999999999888       9999887          9999999999999999999 5899999876

>d1z2ma1 d.15.1.1 (A:3-78) Interferon-induced 15 kDa protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Interferon-induced 15 kDa protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.31  E-value=7.4e-13  Score=83.77  Aligned_cols=55  Identities=24%  Similarity=0.317  Sum_probs=50.7

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eee--cCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFC--TGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f--~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      +++.||+++|+.++++|+       +|++|++          |+|  +|+.|+|+.+|++|||++|++|+|+++
T Consensus         1 ~~l~Vk~l~G~~~~v~V~~~~tV~~lK~~I~~~~gip~~~QrLi~~~~Gk~L~D~~tL~~y~i~~g~~i~lv~~   74 (76)
T d1z2ma1           1 WDLTVKMLAGNEFQVSLSSSMSVSELKAQITQKIGVHAFQQRLAVHPSGVALQDRVPLASQGLGPGSTVLLVVD   74 (76)
T ss_dssp             CEEEEEESSSCEEEEECCSSCCHHHHHHHHHHHHCCCGGGEEEEEETTCCBCCSSSCSGGGTCCTTCEEEEEEC
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHhccCCccEEEEEcCCCeeccCCCcHHHcCCCCCCEEEEEEE
Confidence            368899999999999998       9999886          888  799999999999999999999999986

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

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

Probab=99.29  E-value=9.7e-13  Score=83.33  Aligned_cols=56  Identities=21%  Similarity=0.349  Sum_probs=50.8

Q ss_pred             eeeeeeeeeeeeeeehhhh-------Hhhhhhe-------------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           90 KVKIFVKMLTEEIVKLKVK-------VLLTIRD-------------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        90 ~i~I~Vk~~~gk~~~l~v~-------lK~~i~e-------------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      .|+|+||+.+|++++++|+       +|+++++             |+|+|+.|+|+++|++|||++|++|+++++
T Consensus         2 ~~~i~vk~l~g~~~~l~v~~~~TV~~lK~~i~~~~g~~~i~~~~qrLi~~Gk~L~D~~tL~~y~I~~~s~i~~~vs   77 (77)
T d1oqya4           2 AVTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIRDYRIDEKNFVVVMVT   77 (77)
T ss_dssp             CCCEEEEETTTEEEEECCCTTCBHHHHHHHHHHHTCSSSCCSTEEEEESSSSEECSSSBTTTTCCCTTSCEEEEEE
T ss_pred             cEEEEEECCCCCEEEEEECCCCcHHHHHHHHHHhcCCCCCChHHEEeEECCcCccCCCcHHHcCCCCCCEEEEEEC
Confidence            3789999999999999998       8887753             999999999999999999999999999875

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

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

Probab=99.25  E-value=3.8e-12  Score=79.77  Aligned_cols=54  Identities=26%  Similarity=0.346  Sum_probs=46.9

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      |+|.|+.. ++++.++|+       +|++|++          |+|+|+.|+|+.+|++|||++|++|||+.|
T Consensus         2 i~I~Vk~~-~~~~~i~v~~~~tV~~lK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~~I~~g~~i~lV~~   72 (73)
T d2bwfa1           2 LNIHIKSG-QDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESYHIQDGHSVHLVKS   72 (73)
T ss_dssp             EEEEEEET-TEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEEC
T ss_pred             EEEEEEeC-CeEEEEEECCCChHHHHHHHHHHHHCcChHHeEEEECCeEccCCCcHHHCCCCCCCEEEEEee
Confidence            56788875 456777776       8988886          999999999999999999999999999976

>d1uh6a_ d.15.1.1 (A:) Ubiquitin-like protein 5, ubl5 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein 5, ubl5
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.24  E-value=2.2e-12  Score=85.76  Aligned_cols=55  Identities=16%  Similarity=0.161  Sum_probs=51.4

Q ss_pred             eeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEe
Q 041424           90 KVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFI  144 (148)
Q Consensus        90 ~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l  144 (148)
                      -++|+|++..|+++.++|+       ||++|++          |+|+|+.|+|+++|++|||++|++|+|..
T Consensus        28 ~i~V~V~~~~Gk~~~v~V~p~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~dygI~~GstI~L~~   99 (100)
T d1uh6a_          28 MIEVVCNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTRWNKIVLKKWYTIFKDHVSLGDYEIHDGMNLELYY   99 (100)
T ss_dssp             EEEEEEECSSSSCEEEEEETTSBHHHHHHHHHHHHCCCGGGCEEEETTEECCSSCBHHHHTCCTTEEEEEEC
T ss_pred             eEEEEEECCCCCEEEEEECCcChHHHHHHHHHHHHCCCcceEEEEEEeecccCcCCHHHcCCCCCCEEEEEE
Confidence            4789999999999999998       9999986          99999999999999999999999999975

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

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

Probab=99.23  E-value=4.3e-12  Score=81.58  Aligned_cols=56  Identities=30%  Similarity=0.338  Sum_probs=48.8

Q ss_pred             eeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEeec
Q 041424           90 KVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFISD  146 (148)
Q Consensus        90 ~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~~  146 (148)
                      -|+|+||+.++ +++++|+       +|++|++          |+|+|+.|+|+.+|++|||++|+||+|+++-
T Consensus         7 ~i~I~Vkt~~~-~~~~~V~~~~tV~~lK~~i~~~~gi~~~~qrL~~~Gk~L~D~~tL~~y~i~~gsti~lv~r~   79 (84)
T d1yqba1           7 LIKVTVKTPKD-KEDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQCGVRDGLTVHLVIKR   79 (84)
T ss_dssp             EEEEEEECSSC-EEEEEEETTCBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBHHHHTCCTTCEEEEEECC
T ss_pred             EEEEEEEcCCC-cEEEEECCCCcHHHHHHHHHHHHCcCchhEEEEEeeeeccccCcHHHcCCCCCCEEEEEECC
Confidence            47889999755 4677777       8888886          9999999999999999999999999999873

>d1wiaa_ d.15.1.1 (A:) Ubiquitin-like protein bab25500 (2010008E23Rik) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein bab25500 (2010008E23Rik)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.20  E-value=6.1e-12  Score=82.79  Aligned_cols=58  Identities=16%  Similarity=0.230  Sum_probs=52.4

Q ss_pred             hheeeeeeeeeeeeeeehhhh-------Hhhhhhe-------eeecCeeeC-CCCchhhhCCCCCCEEEEEee
Q 041424           88 KLKVKIFVKMLTEEIVKLKVK-------VLLTIRD-------LFCTGMKLK-DCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        88 ~~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e-------L~f~g~~L~-d~~tL~~y~I~~gstI~l~l~  145 (148)
                      ..+|.|+||+.+|+.+.++|+       ||+++++       |+|+|+.|. |.++|++|+|++|++|||+++
T Consensus         5 ~s~m~i~vK~l~~~~~~v~v~~~~TV~~lK~~i~~~~~~~qrLi~~Gk~L~dd~~tL~~y~i~~g~~v~l~~~   77 (95)
T d1wiaa_           5 SSGINVRLKFLNDTEELAVARPEDTVGTLKSKYFPGQESQMKLIYQGRLLQDPARTLSSLNITNNCVIHCHRS   77 (95)
T ss_dssp             CCSEEEEEEETTTEEEEEEECSSSBHHHHHHHHSSSTTTTCEEEETTEECCCSSCBTTTTTCCTTEEEEEECC
T ss_pred             CCcEEEEEEcCCCCEEEEEECCcCcHHHHHHHHhcCCcceeEEEECCEEcccCCCCHHHcCCCCCCEEEEEEc
Confidence            357999999999999999888       9988876       999999996 678999999999999999875

>d1j8ca_ d.15.1.1 (A:) Ubiquitin-like N-terminal domain of PLIC-2 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=99.19  E-value=7.9e-12  Score=83.25  Aligned_cols=55  Identities=31%  Similarity=0.306  Sum_probs=48.6

Q ss_pred             eeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           90 KVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        90 ~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      -|+|+||+.++ +.+++|+       ||++|++          |+|+|+.|+|+++|++|||++|++|||+++
T Consensus        32 ~i~V~Vk~~~~-~~~i~V~~~~tV~~LK~~I~~~~gi~~~~qrLi~~Gk~L~D~~tL~~~~I~~g~~I~lvlr  103 (103)
T d1j8ca_          32 IIKVTVKTPKE-KEEFAVPENSSVQQFKEAISKRFKSQTDQLVLIFAGKILKDQDTLIQHGIHDGLTVHLVIK  103 (103)
T ss_dssp             CEEEEEECSSC-EEEEEECTTCCHHHHHHHHHHHHCSCSSSEEEEETTEEESTTSCGGGTTCSSSEEEEEEEC
T ss_pred             eEEEEEECCCc-cEEEEECCCChHHHHHHHHHHHHCcCHHHeeeeeeeecccCCCcHHHcCCCCCCEEEEEEC
Confidence            38899998765 4677777       9998886          999999999999999999999999999986

>d1wx8a1 d.15.1.1 (A:8-90) 4931431F19Rik {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: 4931431F19Rik
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.18  E-value=3.7e-12  Score=81.74  Aligned_cols=58  Identities=21%  Similarity=0.241  Sum_probs=49.6

Q ss_pred             hheeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEeec
Q 041424           88 KLKVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFISD  146 (148)
Q Consensus        88 ~~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~~  146 (148)
                      ...|+|.||+.+++ .+++|+       +|+.|++          |+|+|+.|+|+++|++|||++|++|+|+++.
T Consensus         8 ~~~i~v~Vk~~~~~-~~i~v~~~~tV~~lK~~I~~~~~v~~~~qrL~f~Gk~L~d~~tL~~~gI~~gs~I~lv~r~   82 (83)
T d1wx8a1           8 SRIIRVSVKTPQDC-HEFFLAENSNVRRFKKQISKYLHCNADRLVLIFTGKILRDQDILSQRGILDGSTVHVVVRS   82 (83)
T ss_dssp             SCEEEEEEECSSSE-EEEEEETTCCHHHHHHHHHHHTCSCTTTBCCEETTEECCTTSCHHHHTCCTTEEEECCBCC
T ss_pred             CCeEEEEEEcCCCc-EEEEECCCChHHHHHHHHHHHhCCChhHEEEEEEhhccccCCcHHHcCCCCCCEEEEEEeC
Confidence            34588999987654 567766       9998886          9999999999999999999999999999873

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

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

Probab=99.13  E-value=2.1e-11  Score=78.72  Aligned_cols=48  Identities=19%  Similarity=0.396  Sum_probs=43.5

Q ss_pred             eeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           98 LTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        98 ~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      ++|++++++|+       +|.+|++          |+|+|+.|+|++||++|||++|++|||+++
T Consensus        19 L~G~~~~l~v~~~~tV~~lK~~I~~~~~ip~~~q~Li~~Gk~L~D~~tL~dY~I~~gsti~l~~r   83 (86)
T d1zkha1          19 LNGQVLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDSNSLAYYNMANGAVIHLALK   83 (86)
T ss_dssp             CSSCEEEEEECTTSBHHHHHHHHHHHTCCCTTTEEEEETTEEECTTSBHHHHTCCTTEEEEEEES
T ss_pred             cCCeEEEEEECCCChHHHHHHHHHhhhcCChHHEEEEeCCcCcCCCCCHHHcCCCCCCEEEEEEe
Confidence            36888888777       8999887          999999999999999999999999999986

>d1v2ya_ d.15.1.1 (A:) Ubiquitin-like protein 3300001g02rik {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein 3300001g02rik
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.09  E-value=3.2e-11  Score=80.59  Aligned_cols=57  Identities=23%  Similarity=0.315  Sum_probs=51.0

Q ss_pred             heeeeeeeeeeeeeeehhhh-------Hhhhhhe-------------------------eeecCeeeCCC-CchhhhCCC
Q 041424           89 LKVKIFVKMLTEEIVKLKVK-------VLLTIRD-------------------------LFCTGMKLKDC-KTLACYGVK  135 (148)
Q Consensus        89 ~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e-------------------------L~f~g~~L~d~-~tL~~y~I~  135 (148)
                      .+|.|+|++.+|+.++++|+       ||++|++                         |+|+|+.|.|+ .||.+|||+
T Consensus         6 s~M~v~Vk~~~G~~~~v~V~~~~TV~~LK~~I~~~~~ip~~~Qr~~~~~~~~~~~~~~~Li~~G~~L~d~~~tL~~~gI~   85 (105)
T d1v2ya_           6 SGMTVRVCKMDGEVMPVVVVQNATVLDLKKAIQRYVQLKQEREGGVQHISWSYVWRTYHLTSAGEKLTEDRKKLRDYGIR   85 (105)
T ss_dssp             CSEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHHHHHHHTTCCCCCCHHHHHTTEEEESSSCEECCSSSBHHHHTCC
T ss_pred             CcEEEEEEeCCCCEEEEEECCCChHHHHHHHHHHHHCcCHHHhcccccccccccccceEEEECCEECcccCCCHHHcCCC
Confidence            57999999999999999988       8888775                         89999999766 599999999


Q ss_pred             CCCEEEEEee
Q 041424          136 DDRGVACFIS  145 (148)
Q Consensus       136 ~gstI~l~l~  145 (148)
                      +|++|||+.+
T Consensus        86 ~g~~l~lv~r   95 (105)
T d1v2ya_          86 NRDEVSFIKK   95 (105)
T ss_dssp             SSEEEEEEEC
T ss_pred             CCCEEEEEEe
Confidence            9999999875

>d1se9a_ d.15.1.1 (A:) Hypothetical protein At3g01050 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Hypothetical protein At3g01050
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.03  E-value=1.3e-10  Score=77.07  Aligned_cols=57  Identities=16%  Similarity=0.182  Sum_probs=48.6

Q ss_pred             heeeeeeeeeeeeee-ehhhh-------Hhhhhh-----------------eeeecCeeeCCCCchhhhCCCCCC-----
Q 041424           89 LKVKIFVKMLTEEIV-KLKVK-------VLLTIR-----------------DLFCTGMKLKDCKTLACYGVKDDR-----  138 (148)
Q Consensus        89 ~~i~I~Vk~~~gk~~-~l~v~-------lK~~i~-----------------eL~f~g~~L~d~~tL~~y~I~~gs-----  138 (148)
                      ..|.|.+|..+|+.+ ++.++       ||.+|+                 .|+|+|+.|+|++||++|+|..|+     
T Consensus         6 ~~i~I~~r~~~G~~i~~~~v~~s~TV~~lK~~I~~~~~~~k~~iP~~~~~qRLIf~Gk~L~D~~tL~dy~i~~g~~~~~~   85 (101)
T d1se9a_           6 NQLEIKFRLTDGSDIGPKAFPDATTVSALKETVISEWPREKENGPKTVKEVKLISAGKVLENSKTVKDYRSPVSNLAGAV   85 (101)
T ss_dssp             CCEEEEEEETTSCEEEEEEECTTCBHHHHHHHHHHHSCTTCSSSCCSGGGEEEEETTEECCTTSBGGGGSCCTTSCTTCC
T ss_pred             ceEEEEEEeCCCCeecceecCccCHHHHHHHHHHHhccccccCCCCCcccEEEEECCeEecCCCCHHHcCCCCCCcCCCc
Confidence            347888999999876 46666       888873                 199999999999999999999998     


Q ss_pred             -EEEEEee
Q 041424          139 -GVACFIS  145 (148)
Q Consensus       139 -tI~l~l~  145 (148)
                       |+||+++
T Consensus        86 ~tmHlVvr   93 (101)
T d1se9a_          86 TTMHVIIQ   93 (101)
T ss_dssp             EEEEEEEC
T ss_pred             eEEEEEeC
Confidence             9999986

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

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

Probab=99.02  E-value=7.7e-11  Score=78.34  Aligned_cols=58  Identities=28%  Similarity=0.280  Sum_probs=50.3

Q ss_pred             heeeeee----eeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeC-CCCchhhhCCCCCCEEEEEeec
Q 041424           89 LKVKIFV----KMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLK-DCKTLACYGVKDDRGVACFISD  146 (148)
Q Consensus        89 ~~i~I~V----k~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~-d~~tL~~y~I~~gstI~l~l~~  146 (148)
                      .||.|+|    +...|.+++++|+       ||+.|++          |+|+|+.|. |.+||.+|||++|++|+|+.+.
T Consensus         6 ~~m~itV~~~~~~~~~~t~~l~V~~~~tV~~LK~~Ie~~~gip~~~Q~Li~~Gk~L~dd~~tL~~~gI~~g~~i~l~~r~   85 (102)
T d1v5oa_           6 SGMLITVYCVRRDLTEVTFSLQVNPDFELSNFRVLCELESGVPAEEAQIVYMEQLLTDDHCSLGSYGLKDGDMVVLLQKD   85 (102)
T ss_dssp             CCEEEEEEECCCCCCCCEEEEEECTTCBHHHHHHHHHHHTCCCGGGBCEEETTEEECCSSSBHHHHTCCTTEEEEECBCC
T ss_pred             CCEEEEEEecccCCCCCEEEEEECCcccHHHHHHHHHHHhCCCcceEEEEeCCeEeecccCCHHHcCCCCCCEEEEEECC
Confidence            4678887    6778899999988       9998886          999999995 6689999999999999998764

>d1we6a_ d.15.1.1 (A:) Splicing factor 3 subunit 1, C-terminal domain {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Splicing factor 3 subunit 1, C-terminal domain
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.00  E-value=6.4e-11  Score=79.89  Aligned_cols=47  Identities=21%  Similarity=0.202  Sum_probs=42.2

Q ss_pred             eeeeeehhhh--------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           99 TEEIVKLKVK--------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        99 ~gk~~~l~v~--------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      +|+++++.|.        +|.+|++          |+|+|+.|+|++||++|||++|++|||+++
T Consensus        39 ~G~~i~l~v~~~sdtV~~lK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~ynI~~gsti~L~lr  103 (111)
T d1we6a_          39 DGQFMEITVQSLSENVGSLKEKIAGEIQIPANKQKLSGKAGFLKDNMSLAHYNVGAGEILTLSLR  103 (111)
T ss_dssp             SSCCEEEEESCSSSBHHHHHHHHHHHTTCCTTTSEEECSSSBCCTTSBTTTTTCSSSCEEEEECS
T ss_pred             CCeEEEEEecCCccHHHHHHHHHHHHHCCCccceEEEEeeEEccccCCHHHcCCCCCCEEEEEee
Confidence            5777777664        8999886          999999999999999999999999999987

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

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

Probab=99.00  E-value=1.8e-10  Score=78.16  Aligned_cols=57  Identities=9%  Similarity=0.155  Sum_probs=50.1

Q ss_pred             eeeeeeeeeeeeeeehhhh-------Hhhhh--------he----------eeecCeeeCCCCchhhhCCCCCCE--EEE
Q 041424           90 KVKIFVKMLTEEIVKLKVK-------VLLTI--------RD----------LFCTGMKLKDCKTLACYGVKDDRG--VAC  142 (148)
Q Consensus        90 ~i~I~Vk~~~gk~~~l~v~-------lK~~i--------~e----------L~f~g~~L~d~~tL~~y~I~~gst--I~l  142 (148)
                      -|.|+|++.+|++..+.|+       ||.+|        ++          |+|.|+.|+|+++|.+|+|++|++  |||
T Consensus        16 ~i~i~v~~l~Gk~~~~~v~p~~TV~~lK~~I~~~~p~~~~e~~~~~~~~qRLiy~Gk~L~D~~tL~~~~i~~g~~~~lhl   95 (116)
T d1wgha_          16 MINLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVTLGALKLPFGKTTVMHL   95 (116)
T ss_dssp             SEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHSSSCCSSCCCCCCTTTEEEEETTEEECSSCBTTTTTCCSSCEEEEEE
T ss_pred             eEEEEEEEcCCCEEEEEECCcchHHHHHHHHHhhcccccccccCCChHHeEEEECCEEecCCCCHHHcCCCCCCEEEEEE
Confidence            4788999999999998888       99999        22          999999999999999999999987  788


Q ss_pred             Eeec
Q 041424          143 FISD  146 (148)
Q Consensus       143 ~l~~  146 (148)
                      +++-
T Consensus        96 v~r~   99 (116)
T d1wgha_          96 VARE   99 (116)
T ss_dssp             EECS
T ss_pred             EeCC
Confidence            7763

>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=99.00  E-value=2.9e-10  Score=71.61  Aligned_cols=62  Identities=15%  Similarity=0.331  Sum_probs=59.5

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +.+.+.|.++.++..|+...++..|+|+++++|+|.|+.|.++.       |++++++.+|++|+++.+
T Consensus        13 ~~v~f~v~~~t~l~kl~~~y~~~~~~~~~~~~f~fdG~~l~~~~-------T~~~l~~edgD~Idv~~~   74 (77)
T d2uyzb1          13 SEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNH-------TPKELGMEEEDVIEVYQE   74 (77)
T ss_dssp             CEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTC-------CHHHHTCCTTEEEEEEEC
T ss_pred             CEEEEEECCCChHHHHHHHHHHHhCCChhHEEEEECCEECCCCC-------CHHHcCCCCCCEEEEEEe
Confidence            46789999999999999999999999999999999999999999       999999999999999987

>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=98.93  E-value=5.1e-10  Score=73.18  Aligned_cols=31  Identities=35%  Similarity=0.513  Sum_probs=30.0

Q ss_pred             eeecCeeeCCCCchhhhCCCCCCEEEEEeec
Q 041424          116 LFCTGMKLKDCKTLACYGVKDDRGVACFISD  146 (148)
Q Consensus       116 L~f~g~~L~d~~tL~~y~I~~gstI~l~l~~  146 (148)
                      |+|+|+.|+|+++|++|||++|+||||+.|.
T Consensus        63 LIy~Gk~L~D~~tL~~y~I~~gstihLV~r~   93 (94)
T d1x1ma1          63 LIYCGRKLKDDQTLDFYGIQPGSTVHVLRKS   93 (94)
T ss_dssp             EEETTEECCTTCBHHHHTCCTTCEEEEEESS
T ss_pred             EEECCeEECCCccHHHcCCCCCCEEEEEEeC
Confidence            9999999999999999999999999999874

>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=98.87  E-value=4e-10  Score=74.50  Aligned_cols=54  Identities=17%  Similarity=0.258  Sum_probs=45.6

Q ss_pred             eeeee--eeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEe
Q 041424           91 VKIFV--KMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFI  144 (148)
Q Consensus        91 i~I~V--k~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l  144 (148)
                      +.|++  +...|++++++|+       ||.+|++          |+|+|+.|+|+.||.+|||++|++|+++.
T Consensus        18 i~V~~~~~~~~g~~~~lev~~~~TV~~LK~~I~~~~gi~~~~qkLi~~Gk~L~d~~tL~~~gI~~~s~i~vi~   90 (100)
T d1wjua_          18 IEVFLPPRLKKDRKNLLETRLHITGRELRSKIAETFGLQENYIKIVINKKQLQLGKTLEEQGVAHNVKAMVLE   90 (100)
T ss_dssp             EEEECCTTTCCSSSEEEEEESSSBHHHHHHHHHHHTTCCSTTCEEEETTEECCTTSBHHHHTCCSSEEEEEEC
T ss_pred             EEEEEeeccCCCeEEEEEECCCcHHHHHHHHHHHHHCCCCeeEEEEEcccCcCCCcCHHHcCCCCCCEEEEEE
Confidence            34444  4457888888887       8888886          99999999999999999999999998875

>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=98.87  E-value=4.8e-10  Score=73.54  Aligned_cols=55  Identities=16%  Similarity=0.104  Sum_probs=48.6

Q ss_pred             heeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEe
Q 041424           89 LKVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFI  144 (148)
Q Consensus        89 ~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l  144 (148)
                      .+++|.||..+++.+.++|+       ||++|++          |+|+|+.|+|+ +|++|||++|++|+|+-
T Consensus         6 ~~~~I~VK~~~~~~~~v~v~~~~tV~~lK~~i~~~~gvp~~~QkLi~~Gk~L~d~-tL~~~gi~~g~~i~lv~   77 (96)
T d1wgga_           6 SGYSVTVKWGKEKFEGVELNTDEPPMVFKAQLFALTGVQPARQKVMVKGGTLKDD-DWGNIKMKNGMTVLMMG   77 (96)
T ss_dssp             CEEEEEEEETTEEEEEEEEESSSCHHHHHHHHHHHTCCCTTTSCCEETTEECCSS-CCCSCCCCSSCEEECCC
T ss_pred             CceEEEEEeCCCCEEEEEECCCCcHHHHHHHhhhhcCccceeeEEeecCcccCCC-cHHHCCCCCCCEEEEEe
Confidence            46889999988887778777       9999886          99999999986 89999999999999964

>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=98.71  E-value=5.6e-09  Score=67.36  Aligned_cols=56  Identities=13%  Similarity=0.164  Sum_probs=46.4

Q ss_pred             heeeeeeeeeeeeeeeh-hhh-------Hhhhhhe----------ee---ecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           89 LKVKIFVKMLTEEIVKL-KVK-------VLLTIRD----------LF---CTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        89 ~~i~I~Vk~~~gk~~~l-~v~-------lK~~i~e----------L~---f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      .+|+|+||. .|+.+.+ +|+       ||++|++          |+   |.|+.|+|+.+|++|+|++|++|+|+-+
T Consensus         6 ~~~~i~Vk~-~~~~~~i~~v~~~~tV~~LK~~i~~~t~vp~~~QkLi~~~~~Gk~L~D~~tL~~~~i~~g~~i~lv~s   82 (90)
T d1v5ta_           6 SGLPIIVKW-GGQEYSVTTLSEDDTVLDLKQFLKTLTGVLPERQKLLGLKVKGKPAENDVKLGALKLKPNTKIMMMGT   82 (90)
T ss_dssp             CSCCEEEEE-TTEEEEECSCCSSSBHHHHHHHHHHHTCCCTTTCEEESCEETTEECCTTSBHHHHTCCTTEEEEEECC
T ss_pred             CcEEEEEEE-CCeEEEEEEeCCCCcHHHHHHHHHHHHcCCHHHhhhhhhccCCcCCCCcCcHHHcCCCCCCEEEEEee
Confidence            468899997 4555554 566       9999986          66   6999999999999999999999999854

>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=98.71  E-value=4.3e-09  Score=68.48  Aligned_cols=57  Identities=18%  Similarity=0.150  Sum_probs=44.7

Q ss_pred             eeeeeeeeeeeee--eehhhh-------Hhhhhhe------------eeecCeeeCCCCchhhhCCCCC--CEEEEEeec
Q 041424           90 KVKIFVKMLTEEI--VKLKVK-------VLLTIRD------------LFCTGMKLKDCKTLACYGVKDD--RGVACFISD  146 (148)
Q Consensus        90 ~i~I~Vk~~~gk~--~~l~v~-------lK~~i~e------------L~f~g~~L~d~~tL~~y~I~~g--stI~l~l~~  146 (148)
                      +|.++||..+++.  ++++++       ||++|++            |+|+|+.|+|+++|++|..+.+  .+|||+++.
T Consensus         7 ~i~l~Ik~~~~~~~~~~~~v~~~~TV~~LK~~I~~~~~~~~~~~~qrLIy~Gk~L~D~~~L~d~~~~~~~~~viHLV~~~   86 (93)
T d1wgda_           7 GVTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLLDHQCLRDLLPKQEKRHVLHLVCNV   86 (93)
T ss_dssp             CCEEEEECSSSSCCCEEEECCTTSCHHHHHHHHHHHSTTCCCTTTCEEEETTEECCSSSCHHHHSCSSSCSEEEEEECCC
T ss_pred             cEEEEEECCCCCceeEEEEcCCCCcHHHHHHHHHHHcCCCCChHHEEEEECCeEccCCCCHHHhCcccCCCCEEEEEecC
Confidence            4778888876654  555544       8888764            9999999999999999987644  499999763

>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=98.68  E-value=8e-09  Score=68.46  Aligned_cols=53  Identities=19%  Similarity=0.229  Sum_probs=41.2

Q ss_pred             eeeeeeee-eeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCC-------CCEEEEEee
Q 041424           93 IFVKMLTE-EIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKD-------DRGVACFIS  145 (148)
Q Consensus        93 I~Vk~~~g-k~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~-------gstI~l~l~  145 (148)
                      |||+...+ .++.++|+       +|++|++          |+|+|++|+|++||++|||.+       ++++++.++
T Consensus         2 ifv~i~~~k~Ti~l~v~~~~TV~~lK~~I~~~~gip~~~QrLi~~Gk~L~D~~TL~dYgI~~~~~~~~~~~~~~l~~~   79 (103)
T d2c9wb1           2 VFLMIRRHKTTIFTDAKESSTVFELKRIVEGILKRPPDEQRLYKDDQLLDDGKTLGECGFTSQTARPQAPATVGLAFR   79 (103)
T ss_dssp             EEEEEEEBTEEEEEEECTTSBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBHHHHTCCTTTSBTTBCEEEEEEEE
T ss_pred             EEEEEeCCCEEEEEEeCCCCcHHHHHHHHHHHhCCCcccEEEEECCEEcCCCCCHHHcCCCcccccccCCcEEEEEEe
Confidence            45555444 46667666       8999886          999999999999999999954       457887765

>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=98.68  E-value=4.4e-09  Score=68.67  Aligned_cols=56  Identities=18%  Similarity=0.168  Sum_probs=47.9

Q ss_pred             heeeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEeec
Q 041424           89 LKVKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFISD  146 (148)
Q Consensus        89 ~~i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~~  146 (148)
                      ..|.|.|+ ++++++.++|+       ||++|++          |+|+|+ |+|+.+|++|+|++|++|+|+.+.
T Consensus        16 ~~i~v~V~-~~~k~~~i~v~~~~TV~~LK~~I~~~tgvp~~~q~Li~~g~-l~D~~tL~~~~I~~gs~i~lvgs~   88 (95)
T d1v86a_          16 ELVDLKII-WNKTKHDVKVPLDSTGSELKQKIHSITGLPPAMQKVMYKGL-VPEDKTLREIKVTSGAKIMVVGST   88 (95)
T ss_dssp             CCEEEEEE-ETTEEEEEEECTTSBHHHHHHHHHHHHCSCSTTCCCBSSSB-CCSSSBHHHHCCCTTEEEEECCSS
T ss_pred             cEEEEEEE-ECCEEEEEEECCCCcHHHHHHHHHHHhCCChhHEEEEeccc-ccCCCcHHHCCCCCCCEEEEEecC
Confidence            34777777 47888888888       9999987          999997 999999999999999999998653

>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=98.63  E-value=1.2e-08  Score=64.56  Aligned_cols=55  Identities=22%  Similarity=0.294  Sum_probs=42.4

Q ss_pred             eeeeeeeeeeeeeeehhh-----------h-Hhhhhhe----------eeecCeeeC-CCCchhhhCCCCCCEEEEEee
Q 041424           90 KVKIFVKMLTEEIVKLKV-----------K-VLLTIRD----------LFCTGMKLK-DCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        90 ~i~I~Vk~~~gk~~~l~v-----------~-lK~~i~e----------L~f~g~~L~-d~~tL~~y~I~~gstI~l~l~  145 (148)
                      ||+|.|+. .++.++++|           . ||++|++          |+|+|+.|. |+.+|++|||++|++|+|+-+
T Consensus         1 gi~i~V~~-~~~~~~i~v~~~~~~~~~Tv~~LK~~I~~~tgvp~~~QkL~~~G~~L~~d~~tL~~~gi~~g~~i~lv~~   78 (81)
T d1wxva1           1 GLTVTVTH-SNEKHDLHVTSQQGSSEPVVQDLAQVVEEVIGVPQSFQKLIFKGKSLKEMETPLSALGIQDGCRVMLIGK   78 (81)
T ss_dssp             SEEEEEEC-SSSEEEEEECCCSSSSSCBHHHHHHHHHHHTCCCTTTCEEEETTEEECCSSSBHHHHTCCSSEEEEEESC
T ss_pred             CEEEEEEE-CCeeEEEEEecCCCCCccHHHHHHHHHHHHHCcCHHHEEeeecCeEeCcCCCChHHCCCCCCCEEEEEEe
Confidence            45666654 344444443           2 8888886          999999995 678999999999999999865

>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=98.54  E-value=3.7e-08  Score=61.86  Aligned_cols=54  Identities=11%  Similarity=0.224  Sum_probs=41.1

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      ++|.|+. +|+.+.++|+       ++..+++          |+|+|+.|.++.|+++|+|++||+|+++++
T Consensus         5 I~ikv~~-~~~~~~f~v~~~~~~~~l~~~~~~~~~i~~~~~~l~f~G~~l~~~~T~~~~~i~dgd~I~v~~~   75 (79)
T d1euvb_           5 INLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHRE   75 (79)
T ss_dssp             EEEEEES-SSCEEEEEEETTSCTHHHHHHHHHHTTCCGGGEEEEETTEECCTTCCTTTTTCCTTEEEEEEEC
T ss_pred             EEEEECC-CCeEEEEEECCCCcHHHHHHHHHHHhCCChHhEEEEECCEEeCCCCCHHHCCCCCCCEEEEEEe
Confidence            3445544 4555555555       4444443          999999999999999999999999999986

>d1wf9a1 d.15.1.1 (A:8-101) NPL4-like protein 1 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: NPL4-like protein 1
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.41  E-value=1.1e-07  Score=61.10  Aligned_cols=62  Identities=16%  Similarity=0.179  Sum_probs=49.8

Q ss_pred             EEEEEEc-CCCcHHHHHHHHHhhhCCCCcccEEEEc--------------CeecCCCcccccccccccCCCcccccceeE
Q 041424            3 TVTLNVE-KSETIKNLKGMVHEKEGTSEDIQDLFFA--------------GDRLMNGRLIDYEDMALASPNVKRESTMQL   67 (148)
Q Consensus         3 ~~~l~v~-~~~tV~~lK~~i~~~~gip~~~Q~L~~~--------------g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l   67 (148)
                      +-.++|+ +..||++||.+|++..++|.+.|+|..+              -..|.|+.      .+|+++||.+|+.+++
T Consensus        11 ~eRv~v~~~~~Tl~~LK~~Ie~~L~VPv~~Q~LSl~~~llL~k~P~~~~~~~~l~d~~------~~L~sl~i~hGsivyL   84 (94)
T d1wf9a1          11 LERVSVDGPHITVSQLKTLIQDQLQIPIHNQTLSTNRNLLLAKSPSDFLAFTDMADPN------LRISSLNLAHGSMVYL   84 (94)
T ss_dssp             EEEEEECCTTSBHHHHHHHHHHHSCCCTTTCCCBSSGGGGTCCSHHHHTTCCSSCCTT------CBGGGTCCCTTCEEEC
T ss_pred             ceEEEecCCCCcHHHHHHHHHHHhCCCcccceeecChhhhccCCccccchhhhccCCc------cCHHHcCccCceEEEE
Confidence            4577885 5789999999999999999999999543              12355544      2799999999999998


Q ss_pred             EEe
Q 041424           68 LFC   70 (148)
Q Consensus        68 ~~~   70 (148)
                      ...
T Consensus        85 ~y~   87 (94)
T d1wf9a1          85 AYE   87 (94)
T ss_dssp             CCS
T ss_pred             Eee
Confidence            765

>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=98.40  E-value=1.3e-07  Score=59.06  Aligned_cols=55  Identities=16%  Similarity=0.265  Sum_probs=45.1

Q ss_pred             eeeeeeeeeeeeeehhhh-------Hhhhhhe----------eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424           91 VKIFVKMLTEEIVKLKVK-------VLLTIRD----------LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus        91 i~I~Vk~~~gk~~~l~v~-------lK~~i~e----------L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      +.|.|+..+|+.+.+.|+       |+...++          |+|.|+.|.++.|++++++++||+|+++++
T Consensus         3 I~ikv~~~dg~~v~f~v~~~t~l~kl~~~y~~~~~~~~~~~~f~fdG~~l~~~~T~~~l~~edgD~Idv~~~   74 (77)
T d2uyzb1           3 IKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQE   74 (77)
T ss_dssp             EEEEEECTTCCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCHHHHTCCTTEEEEEEEC
T ss_pred             EEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCCChhHEEEEECCEECCCCCCHHHcCCCCCCEEEEEEe
Confidence            566777777887776666       4444443          999999999999999999999999999875

>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=98.25  E-value=2.4e-07  Score=60.22  Aligned_cols=38  Identities=16%  Similarity=0.070  Sum_probs=33.8

Q ss_pred             Hhhhhhe----------eeecCe-------eeCCCCchhhhCCCCCCEEEEEeec
Q 041424          109 VLLTIRD----------LFCTGM-------KLKDCKTLACYGVKDDRGVACFISD  146 (148)
Q Consensus       109 lK~~i~e----------L~f~g~-------~L~d~~tL~~y~I~~gstI~l~l~~  146 (148)
                      ||++++.          |+|.|+       .++|+++|.+|+|.+|++|||+.++
T Consensus        34 LK~kle~~tGip~~~qrL~~~~~~~~~~~~l~~d~~~L~~y~i~dg~~ihlvd~~   88 (95)
T d1v6ea_          34 FKCKLELVVGSPASCMELELYGADDKFYSKLDQEDALLGSYPVDDGCRIHVIDHS   88 (95)
T ss_dssp             HHHHHHHHTCSCTTTCBCEEECSSSCEEEECCCSSSBTTSSSCCTTCEEEEBCCS
T ss_pred             HHHHHHHHhCcCchhEEEEEeCCCCceeecccCCcCCHHHCCCCCCCEEEEEeCC
Confidence            9999886          888777       5889999999999999999998765

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

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

Probab=98.13  E-value=6.4e-06  Score=50.47  Aligned_cols=60  Identities=17%  Similarity=0.292  Sum_probs=56.3

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEE
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLL   68 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~   68 (148)
                      +.+.+.|.++.++..|...-++..|++++..+++|.|..+..+.       |.+++++.+|+.|.+.
T Consensus        12 ~~v~f~vk~~t~l~kl~~~y~~~~~~~~~~~~f~fdG~~i~~~~-------Tp~~l~med~D~Idv~   71 (72)
T d1wm3a_          12 SVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETD-------TPAQLEMEDEDTIDVF   71 (72)
T ss_dssp             CEEEEEECTTSCTHHHHHHHHHHHTCCTTTCEEEETTEECCTTC-------CTTTTTCCTTEEEEEE
T ss_pred             CEEEEEEcCCChHHHHHHHHHHHhCCCccceEEEECCEEcCCCC-------CHHHcCCCCCCEEEEE
Confidence            46789999999999999999999999999999999999999999       9999999999998764

>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=97.98  E-value=2.3e-06  Score=55.50  Aligned_cols=37  Identities=24%  Similarity=0.221  Sum_probs=30.9

Q ss_pred             Hhhhhhe----------eeecCee-------eC-CCCchhhhCCCCCCEEEEEee
Q 041424          109 VLLTIRD----------LFCTGMK-------LK-DCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus       109 lK~~i~e----------L~f~g~~-------L~-d~~tL~~y~I~~gstI~l~l~  145 (148)
                      ||.++++          |+|.|+.       |+ |.++|.+|||++|++|++.-+
T Consensus        38 LK~~i~~~~gip~~~qrL~y~~~~~~~~~~~l~~d~~tL~~YgI~dg~~I~V~~~   92 (97)
T d1wjna_          38 VKGLLSRLLKVPVSELLLSYESSKMPGREIELENDLQPLQFYSVENGDCLLVRWS   92 (97)
T ss_dssp             HHHHHHTTTTCCTTTCEEEEECTTSCSCEEECCCSSSBSGGGTCCTTCEEEEECC
T ss_pred             HHHHHHHHHCcChHHeEEEecCCCCCcccceecCCCcCHhhccCCCCCEEEEEeC
Confidence            8888886          8898874       44 789999999999999998643

>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=97.48  E-value=3.5e-05  Score=48.98  Aligned_cols=37  Identities=14%  Similarity=0.053  Sum_probs=31.5

Q ss_pred             Hhhhhhe----------eeecCe-------eeCCCCchhhhCCCCCCEEEEEee
Q 041424          109 VLLTIRD----------LFCTGM-------KLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus       109 lK~~i~e----------L~f~g~-------~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      ||.+++.          |+|.|+       ..+|.++|.+|||.+|++||++-.
T Consensus        31 LK~kle~~~Gip~~~q~L~~~~~~~~~~~~l~dd~~~L~~ygi~dG~~Ihvvd~   84 (90)
T d1t0ya_          31 LKKKLELVVGTTVDSMRIQLFDGDDQLKGELTDGAKSLKDLGVRDGYRIHAVDV   84 (90)
T ss_dssp             HHHHHHHHHCCCTTTEEEEEECSSSSEEEECCCCSSBTTTTTCCSSEEEEEEEC
T ss_pred             HHHHHHHHHCCChhheEEEEeCCCCCcccccccCCCCHHHCCCCCCCEEEEEeC
Confidence            8888886          888776       467889999999999999999754

>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=96.97  E-value=0.00073  Score=41.41  Aligned_cols=62  Identities=13%  Similarity=0.108  Sum_probs=57.2

Q ss_pred             eEEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEcCeecCCCcccccccccccCCCcccccceeEEEe
Q 041424            2 KTVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFAGDRLMNGRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         2 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~g~~L~d~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      +-.++.|+|+.|+.++=+....++|+.+++-.|.|+++.++-..       .+.-.|+.+|+.+.|+..
T Consensus        11 rR~~VKvtP~t~l~~VL~eaC~k~~~~~~~~~Lkh~~k~ldLsl-------~~R~sgLpnnakLELv~~   72 (76)
T d2al3a1          11 RRHTVKVTPSTVLLQVLEDTCRRQDFNPSEYDLKFQRTVLDLSL-------QWRFANLPNNAKLEMVPV   72 (76)
T ss_dssp             CEEEECCCTTSBHHHHHHHHHHHTTCCGGGCEEEETTEEESSSC-------BHHHHCCCSSCEEEEECS
T ss_pred             cEEEEEeCCCcCHHHHHHHHHHHhCCChhHceeeeCCEEcCccc-------eeeecCCCCCCEEEEEEc
Confidence            35788999999999999999999999999999999999999988       888899999999998864

>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=96.86  E-value=0.0006  Score=41.19  Aligned_cols=28  Identities=18%  Similarity=0.326  Sum_probs=26.4

Q ss_pred             eeecCeeeCCCCchhhhCCCCCCEEEEE
Q 041424          116 LFCTGMKLKDCKTLACYGVKDDRGVACF  143 (148)
Q Consensus       116 L~f~g~~L~d~~tL~~y~I~~gstI~l~  143 (148)
                      ++|.|+.+..+.|-+++++++||+|.+.
T Consensus        44 f~fdG~~i~~~~Tp~~l~med~D~Idv~   71 (72)
T d1wm3a_          44 FRFDGQPINETDTPAQLEMEDEDTIDVF   71 (72)
T ss_dssp             EEETTEECCTTCCTTTTTCCTTEEEEEE
T ss_pred             EEECCEEcCCCCCHHHcCCCCCCEEEEE
Confidence            8999999999999999999999999764

>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=91.25  E-value=0.16  Score=30.57  Aligned_cols=30  Identities=7%  Similarity=-0.081  Sum_probs=28.3

Q ss_pred             eeecCeeeCCCCchhhhCCCCCCEEEEEee
Q 041424          116 LFCTGMKLKDCKTLACYGVKDDRGVACFIS  145 (148)
Q Consensus       116 L~f~g~~L~d~~tL~~y~I~~gstI~l~l~  145 (148)
                      |.|+++.++-..+++-.|+.+|+.+.|+-.
T Consensus        43 Lkh~~k~ldLsl~~R~sgLpnnakLELv~~   72 (76)
T d2al3a1          43 LKFQRTVLDLSLQWRFANLPNNAKLEMVPV   72 (76)
T ss_dssp             EEETTEEESSSCBHHHHCCCSSCEEEEECS
T ss_pred             eeeCCEEcCccceeeecCCCCCCEEEEEEc
Confidence            999999999999999999999999999754

>d1oeya_ d.15.2.2 (A:) Neutrophil cytosol factor 2 (p67phox component of NADPH oxidase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: CAD & PB1 domains
family: PB1 domain
domain: Neutrophil cytosol factor 2 (p67phox component of NADPH oxidase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.93  E-value=0.25  Score=30.06  Aligned_cols=35  Identities=17%  Similarity=0.228  Sum_probs=33.7

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEEEc
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLFFA   37 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~~~   37 (148)
                      |+.+.+.+..+.++|.++|.++...+++.-+|-|.
T Consensus        15 TVal~v~~G~~y~~L~~lvs~KL~l~~~~~~LSY~   49 (82)
T d1oeya_          15 TVVMKTQPGLPYSQVRDMVSKKLELRLEHTKLSYR   49 (82)
T ss_dssp             EEEEEECTTCCHHHHHHHHHHHTTCCGGGCCEEEC
T ss_pred             EEEEEccCCCCHHHHHHHHHHHhCCChhheEEEec
Confidence            78999999999999999999999999999999996

>d1h8ca_ d.15.1.2 (A:) Fas-associated factor 1, Faf1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: UBX domain
domain: Fas-associated factor 1, Faf1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.89  E-value=0.42  Score=28.47  Aligned_cols=59  Identities=15%  Similarity=0.138  Sum_probs=45.7

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEE--EcCeecC---CCcccccccccccCCCcccccceeEEE
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLF--FAGDRLM---NGRLIDYEDMALASPNVKRESTMQLLF   69 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~--~~g~~L~---d~~~~~~~~~~L~~~~i~~~s~i~l~~   69 (148)
                      .+.-...+++||.++..-+.. .|.++..-.|+  |-.+.+.   .+.       +|.+.|+.+.+++++-.
T Consensus        17 ~~~~~F~~~~tl~~v~~~v~~-~~~~~~~~~l~~~~Pr~~l~~~d~~~-------TL~e~gL~p~~~L~vq~   80 (82)
T d1h8ca_          17 FLERRFLASNKLQIVFDFVAS-KGFPWDEYKLLSTFPRRDVTQLDPNK-------SLLEVKLFPQETLFLEA   80 (82)
T ss_dssp             EEEEEECTTSBHHHHHHHHHH-HTCCSSSEEEEETTTTEETTTCCTTS-------BHHHHCCCSEEEEEEEE
T ss_pred             EEEEEECCCCcHHHHHHHHHh-cCCCCCceEEEecCcccccccccccC-------CHHHCCCCCCCEEEEEe
Confidence            456678899999999999987 47777777776  3455663   345       99999999998887654

>d1wj4a_ d.15.1.2 (A:) Hypothetical protein KIAA0794 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: UBX domain
domain: Hypothetical protein KIAA0794
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.81  E-value=1.5  Score=28.07  Aligned_cols=60  Identities=15%  Similarity=0.219  Sum_probs=43.8

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhhCCCCcccEEE--EcCeecC--C-CcccccccccccCCCcccccceeEEEe
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKEGTSEDIQDLF--FAGDRLM--N-GRLIDYEDMALASPNVKRESTMQLLFC   70 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~Q~L~--~~g~~L~--d-~~~~~~~~~~L~~~~i~~~s~i~l~~~   70 (148)
                      .+.-.+.+++||.+|...+... +.+...-.|+  |-.+.|.  | ..       +|.+.|+.+.++|++-..
T Consensus        55 r~~r~F~~~~tl~~l~~~v~~~-~~~~~~~~L~~~fPr~~l~~~d~~~-------TL~e~gL~P~~~L~vee~  119 (124)
T d1wj4a_          55 REQITLPEQAKLLALVKHVQSK-GYPNERFELLTNFPRRKLSHLDYDI-------TLQEAGLCPQETVFVQES  119 (124)
T ss_dssp             EEEEEEETTSCHHHHHHHHHHH-HCCTTTEEEECSSSCCEETSSCSSS-------CTTTTTCCSSBCCEEEEC
T ss_pred             EEEEEeCCCCcHHHHHHHHHhc-ccCCcceEEeecccccccccccccC-------cHHHcCCCCCCEEEEEec
Confidence            4566788999999999999875 4455555555  3344553  3 45       999999999998876544

>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=81.78  E-value=1.1  Score=26.90  Aligned_cols=54  Identities=11%  Similarity=0.196  Sum_probs=40.3

Q ss_pred             EEEEEEcCCCcHHHHHHHHHhhh-CCCCcccEEEEc--CeecCC-CcccccccccccCCCccccc
Q 041424            3 TVTLNVEKSETIKNLKGMVHEKE-GTSEDIQDLFFA--GDRLMN-GRLIDYEDMALASPNVKRES   63 (148)
Q Consensus         3 ~~~l~v~~~~tV~~lK~~i~~~~-gip~~~Q~L~~~--g~~L~d-~~~~~~~~~~L~~~~i~~~s   63 (148)
                      .+...+.+++||.++...+.... +.+...-.|+..  .+.+.| +.       +|.+.|+.+.+
T Consensus        26 ~~~~~F~~~~tl~dv~~~v~~~~~~~~~~~f~L~t~~Prr~l~d~~~-------TL~e~gL~~s~   83 (89)
T d1i42a_          26 RLVQKFNHSHRISDIRLFIVDARPAMAATSFVLMTTFPNKELADENQ-------TLKEANLLNAV   83 (89)
T ss_dssp             CEEEEECSSSCGGGHHHHHHHHCTTTSSCCEEEEETTTTEECCCCSS-------CSGGGTTCCSE
T ss_pred             EEEEEECCchhHHHHHHHHHHhCccCCCCCEEEecCCCCcccCCCcC-------cHHHCCCcCce
Confidence            45677889999999999998753 566666677643  456754 45       99999998643