Citrus Sinensis ID: 044874

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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-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------27
Protein Sequence
MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKPQVKTEQSSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVRPSPTATSTTSSGMGPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSVTGGS
Secondary Structure (PSIPRED)
cEEEEEcccccEEEEEEccccHHHHHHHHHHHHHccccccEEEEEccEEccccccccccccccccEEEEEEEccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHcccccccccccEEEcccEEccccccccccccccccEEEEEEccccccccccccccccccccEEEEEEccccEEEEEEcccccHHHHHHHHHHHHHccccccccccEEEEEccccccccccccccccccccEEEEEcccccccc
Secondary Structure Prediction (SSPRO)
cEEEEEEccccEEEEEEccccHHHHHHHHHHHHccccccccEEEEcccEccccccccHcccccccEEEEEEEcccccEEEEEEccccccHHHHEEEEEEEEEEccccEEEEEEcccccHHHHHHHHHHccccccccEEEEEcccEcccccEcHHcccccccEEEEEEEcccccccEcccccccccEEEEEEEccccEEEEEEEcccccHHHHHHHHHHHHHHHccccccccEEEEEEccEccccccHHHcccccccHHHHEHHHccccc
Coil and Loop (DISEMBL)
mdvifepqrgkaftievGFFDTVLEIKEKIEkyqgipvpkqtlvfngqvlqddrdveHCEILQNSRIQLLvasdnkpqvkteqsspskkihlkinipsnskthhhhhhlpldmdvNDTVLRLKEKIHemesipvnrllvqssgaelqdhrslrdcelmdnaeidvhvrpsptatsttssgmgprkLKLLVLTqcgnkripvevnasDNVSELRKELQKLHQRYhfhlpqdgyffiykqnvmdddrsfrwhhvgqgdtieifngsvtggs
Flexible Loop (DISEMBL)
mdvifepqrgkaftievgfFDTVLEIKEKIEkyqgipvpkqTLVFNGQVLQDDRDVEHCEILQNSRIqllvasdnkpqvkteqsspskkihLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHemesipvnrllvqsSGAELQDHRSLRDCELMDNaeidvhvrpsptatsttssgmgprKLKLLVLTQcgnkripvevnasdnVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHhvgqgdtieifngsvtggs
Low Complexity Region (SEG)
MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKPQVKTEQSSPSKKIHLKINIPSNSKThhhhhhLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVRpsptatsttssGMGPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSVTGGS
Disordered region (IsUnstruct)
********RGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLV**************************************************************V*RLL***********************************************LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN*******
Disordered Region (DISOPRED)
MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKPQVKTEQSSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVRPSPTATSTTSSGMGPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSVTG**
Disordered Region (DISEMBL)
MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASD**************KIHLKINIPS*********HLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVR*************GPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSVTGGS
Disordered Region (DISPRO)
MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKPQVKTEQSSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVRPSPTATSTTSSGMGPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSVT***
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKPQVKTEQSSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVRPSPTATSTTSSGMGPRKLKLLVLTQCGNKRIPVxxxxxxxxxxxxxxxxxxxxxYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSVTGGS
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	269	2.2.26 [Sep-21-2011]
P59669	457	Polyubiquitin OS=Geodia c	N/A	no	0.847	0.498	0.241	1e-11
P0CG71	838	Polyubiquitin-A OS=Caenor	no	no	0.847	0.272	0.241	2e-11
Q58G87	381	Polyubiquitin 3 OS=Oryza	no	no	0.847	0.598	0.238	2e-11
P0CG73	229	Polyubiquitin OS=Candida	N/A	no	0.814	0.956	0.240	4e-11
P42739	423	Polyubiquitin (Fragment)	N/A	no	0.847	0.539	0.245	4e-11
P0CG70	305	Polyubiquitin OS=Neurospo	N/A	no	0.847	0.747	0.234	6e-11
P0CG82	381	Polyubiquitin OS=Tetrahym	N/A	no	0.847	0.598	0.234	6e-11
Q8MKD1	305	Polyubiquitin-B OS=Equus	yes	no	0.847	0.747	0.245	8e-11
P0CG63	381	Polyubiquitin OS=Saccharo	yes	no	0.847	0.598	0.227	2e-10
P69315	305	Polyubiquitin (Fragment)	N/A	no	0.847	0.747	0.234	2e-10

>sp|P59669|UBIQP_GEOCY Polyubiquitin OS=Geodia cydonium PE=2 SV=2

 Score = 70.5 bits (171), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 67/277 (24%), Positives = 126/277 (45%), Gaps = 49/277 (17%)

Query: 1   MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
           M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 153 MQIFVKTLTGKTITLEVEASDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 212

Query: 61  ILQNSRIQLLVASDNKPQVKTEQSSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVL 120
           I + S + L++      Q+  +  +               KT      + L+++ +DT+ 
Sbjct: 213 IQKESTLHLVLRLRGGMQIFVKTLT--------------GKT------ITLEVEASDTIE 252

Query: 121 RLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVRPSPTATSTTSSG 180
            +K KI + E IP ++  +  +G +L+D R+L D  +   + + + VR           G
Sbjct: 253 NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVVR--------LRGG 304

Query: 181 MGPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNV 240
           M     ++ V T  G K I +EV ASD +  ++ ++Q         +P D    I+    
Sbjct: 305 M-----QIFVKTLTG-KTITLEVEASDTIENVKAKIQDKE-----GIPPDQQRLIFAGKQ 353

Query: 241 MDDDRSFRWHHVGQGDTI----------EIFNGSVTG 267
           ++D R+   +++ +  T+          +IF  ++TG
Sbjct: 354 LEDGRTLSDYNIQKESTLHLVLRLRGGMQIFVKTLTG 390

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.
Geodia cydonium (taxid: 6047)

>sp|P0CG71|UBIQ1_CAEEL Polyubiquitin-A OS=Caenorhabditis elegans GN=ubq-1 PE=2 SV=1

 Score = 70.1 bits (170), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 67/277 (24%), Positives = 125/277 (45%), Gaps = 49/277 (17%)

Query: 1   MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
           M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 305 MQIFVKTLTGKTITLEVEASDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 364

Query: 61  ILQNSRIQLLVASDNKPQVKTEQSSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVL 120
           I + S + L++      Q           I +K  I            + L+++ +DT+ 
Sbjct: 365 IQKESTLHLVLRLRGGMQ-----------IFVKTLIGKT---------ITLEVEASDTIE 404

Query: 121 RLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVRPSPTATSTTSSG 180
            +K KI + E IP ++  +  +G +L+D R+L D  +   + + + +R           G
Sbjct: 405 NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR--------LRGG 456

Query: 181 MGPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNV 240
           M     ++ V T  G K I +EV ASD +  ++ ++Q         +P D    I+    
Sbjct: 457 M-----QIFVKTLTG-KTITLEVEASDTIENVKAKIQDKE-----GIPPDQQRLIFAGKQ 505

Query: 241 MDDDRSFRWHHVGQGDTI----------EIFNGSVTG 267
           ++D R+   +++ +  T+          +IF  ++TG
Sbjct: 506 LEDGRTLSDYNIQKESTLHLVLRLRGGMQIFVKTLTG 542

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.

Caenorhabditis elegans (taxid: 6239)

>sp|Q58G87|UBQ3_ORYSJ Polyubiquitin 3 OS=Oryza sativa subsp. japonica GN=UBQ3 PE=2 SV=2

 Score = 69.7 bits (169), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 66/277 (23%), Positives = 127/277 (45%), Gaps = 49/277 (17%)

Query: 1   MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
           M +  +   GK  T+EV F DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 1   MQIFVKTLTGKTITLEVEFSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 60

Query: 61  ILQNSRIQLLVASDNKPQVKTEQSSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVL 120
           I + S + L++      Q+  +  +               KT      + L+++ +DT+ 
Sbjct: 61  IQKESTLHLVLRLRGGMQIFVKTLT--------------GKT------ITLEVESSDTID 100

Query: 121 RLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVRPSPTATSTTSSG 180
            +K KI + E IP ++  +  +G +L+D R+L D  +   + + + +R           G
Sbjct: 101 NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR--------LRGG 152

Query: 181 MGPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNV 240
           M     ++ V T  G K I +EV +SD +  ++ ++Q         +P D    I+    
Sbjct: 153 M-----QIFVKTLTG-KTITLEVESSDTIDNVKAKIQDKE-----GIPPDQQRLIFAGKQ 201

Query: 241 MDDDRSFRWHHVGQGDTI----------EIFNGSVTG 267
           ++D R+   +++ +  T+          +IF  ++TG
Sbjct: 202 LEDGRTLADYNIQKESTLHLVLRLRGGMQIFVKTLTG 238

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; 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.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|P0CG73|UBI1P_CANAX Polyubiquitin OS=Candida albicans GN=UBI1 PE=1 SV=1

 Score = 68.9 bits (167), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 62/258 (24%), Positives = 120/258 (46%), Gaps = 39/258 (15%)

Query: 1   MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
           M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 1   MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60

Query: 61  ILQNSRIQLLVASDNKPQVKTEQSSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVL 120
           I + S + L++ S    Q+  +  +               KT      + L+++ +DT+ 
Sbjct: 61  IQKESTLHLVLRSRGGMQIFVKTLT--------------GKT------ITLEVESSDTID 100

Query: 121 RLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVRPSPTATSTTSSG 180
            +K KI + E IP ++  +  +G +L+D R+L D  +   + + + +R           G
Sbjct: 101 NVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR--------LRGG 152

Query: 181 MGPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNV 240
           M     ++ V T  G K I +EV +SD +  ++ ++Q         +P D    I+    
Sbjct: 153 M-----QIFVKTLTG-KTITLEVESSDTIDNVKSKIQDKE-----GIPPDQQRLIFAGKQ 201

Query: 241 MDDDRSFRWHHVGQGDTI 258
           ++D R+   +++ +  T+
Sbjct: 202 LEDGRTLSDYNIQKESTL 219

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, 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.

Candida albicans (taxid: 5476)

>sp|P42739|UBIQP_ACECL Polyubiquitin (Fragment) OS=Acetabularia cliftonii PE=3 SV=2

 Score = 68.6 bits (166), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 68/277 (24%), Positives = 126/277 (45%), Gaps = 49/277 (17%)

Query: 1   MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
           M +  +   GK  T+EV   DTV  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 118 MQIFVKTLTGKTITLEVESSDTVENVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 177

Query: 61  ILQNSRIQLLVASDNKPQVKTEQSSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVL 120
           I + S + L++      Q+  +  +               KT      + L+++ +DTV 
Sbjct: 178 IQKESTLHLVLRLRGGMQIFVKTLT--------------GKT------ITLEVESSDTVE 217

Query: 121 RLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVRPSPTATSTTSSG 180
            +K KI + E IP ++  +  +G +L+D R+L D  +   + + + +R           G
Sbjct: 218 NVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR--------LRGG 269

Query: 181 MGPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNV 240
           M     ++ V T  G K I +EV +SD V  ++ ++Q         +P D    I+    
Sbjct: 270 M-----QIFVKTLTG-KTITLEVESSDTVENVKSKIQDKE-----GIPPDQQRLIFAGKQ 318

Query: 241 MDDDRSFRWHHVGQGDTI----------EIFNGSVTG 267
           ++D R+   +++ +  T+          +IF  ++TG
Sbjct: 319 LEDGRTLADYNIQKESTLHLVLRLRGGMQIFVKTLTG 355

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.

Acetabularia cliftonii (taxid: 35862)

>sp|P0CG70|UBI4P_NEUCR Polyubiquitin OS=Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987) GN=ubi-4 PE=1 SV=1

 Score = 68.2 bits (165), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 65/277 (23%), Positives = 129/277 (46%), Gaps = 49/277 (17%)

Query: 1   MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
           M +  +   GK  T+EV   DT+  +K+KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 1   MQIFVKTLTGKTITLEVESSDTIDNVKQKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60

Query: 61  ILQNSRIQLLVASDNKPQVKTEQSSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVL 120
           I + S + L++      Q+  +  +               KT      + L+++ +DT+ 
Sbjct: 61  IQKESTLHLVLRLRGGMQIFVKTLT--------------GKT------ITLEVESSDTID 100

Query: 121 RLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVRPSPTATSTTSSG 180
            +K+KI + E IP ++  +  +G +L+D R+L D  +   + + + +R           G
Sbjct: 101 NVKQKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR--------LRGG 152

Query: 181 MGPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNV 240
           M     ++ V T  G K I +EV +SD +  +++++Q         +P D    I+    
Sbjct: 153 M-----QIFVKTLTG-KTITLEVESSDTIDNVKQKIQDKE-----GIPPDQQRLIFAGKQ 201

Query: 241 MDDDRSFRWHHVGQGDTI----------EIFNGSVTG 267
           ++D R+   +++ +  T+          +IF  ++TG
Sbjct: 202 LEDGRTLSDYNIQKESTLHLVLRLRGGMQIFVKTLTG 238

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, 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.

Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987) (taxid: 367110)

>sp|P0CG82|UBIQP_TETPY Polyubiquitin OS=Tetrahymena pyriformis GN=TU20 PE=3 SV=1

 Score = 68.2 bits (165), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 65/277 (23%), Positives = 126/277 (45%), Gaps = 49/277 (17%)

Query: 1   MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
           M +  +   GK  T++V   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 1   MQIFVKTLTGKTITLDVEASDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60

Query: 61  ILQNSRIQLLVASDNKPQVKTEQSSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVL 120
           I + S + L++      Q+  +  +               KT      + LD++ +DT+ 
Sbjct: 61  IQKESTLHLVLRLRGGMQIFVKTLT--------------GKT------ITLDVEASDTIE 100

Query: 121 RLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVRPSPTATSTTSSG 180
            +K KI + E IP ++  +  +G +L+D R+L D  +   + + + +R           G
Sbjct: 101 NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR--------LRGG 152

Query: 181 MGPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNV 240
           M     ++ V T  G K I ++V ASD +  ++ ++Q         +P D    I+    
Sbjct: 153 M-----QIFVKTLTG-KTITLDVEASDTIENVKAKIQDKE-----GIPPDQQRLIFAGKQ 201

Query: 241 MDDDRSFRWHHVGQGDTI----------EIFNGSVTG 267
           ++D R+   +++ +  T+          +IF  ++TG
Sbjct: 202 LEDGRTLSDYNIQKESTLHLVLRLRGGMQIFVKTLTG 238

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.

Tetrahymena pyriformis (taxid: 5908)

>sp|Q8MKD1|UBB_HORSE Polyubiquitin-B OS=Equus caballus GN=UBB PE=2 SV=3

 Score = 67.8 bits (164), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 68/277 (24%), Positives = 125/277 (45%), Gaps = 49/277 (17%)

Query: 1   MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
           M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 1   MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60

Query: 61  ILQNSRIQLLVASDNKPQVKTEQSSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVL 120
           I + S + L++      Q+   ++   K I L++  PS                  DT+ 
Sbjct: 61  IQKESTLHLVLRLRGGMQIFV-KTLTGKTITLEVE-PS------------------DTIE 100

Query: 121 RLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVRPSPTATSTTSSG 180
            +K KI + E IP ++  +  +G +L+D R+L D  +   + + + +R           G
Sbjct: 101 NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR--------LRGG 152

Query: 181 MGPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNV 240
           M     ++ V T  G K I +EV  SD +  ++ ++Q         +P D   FI+    
Sbjct: 153 M-----QIFVKTLTG-KTITLEVEPSDTIENVKAKIQDKE-----GIPPDQQRFIFAGKQ 201

Query: 241 MDDDRSFRWHHVGQGDTI----------EIFNGSVTG 267
           ++D R+   +++ +  T+          +IF  ++TG
Sbjct: 202 LEDGRTLSDYNIQKESTLHLVLRLRGGMQIFVKTLTG 238

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.

Equus caballus (taxid: 9796)

>sp|P0CG63|UBI4P_YEAST Polyubiquitin OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=UBI4 PE=1 SV=1

 Score = 66.6 bits (161), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 63/277 (22%), Positives = 124/277 (44%), Gaps = 49/277 (17%)

Query: 1   MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
           M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 1   MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60

Query: 61  ILQNSRIQLLVASDNKPQVKTEQSSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVL 120
           I + S + L++      Q+  +  +                       + L+++ +DT+ 
Sbjct: 61  IQKESTLHLVLRLRGGMQIFVKTLT--------------------GKTITLEVESSDTID 100

Query: 121 RLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVRPSPTATSTTSSG 180
            +K KI + E IP ++  +  +G +L+D R+L D  +   + + + +R           G
Sbjct: 101 NVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR--------LRGG 152

Query: 181 MGPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNV 240
           M     ++ V T  G K I +EV +SD +  ++ ++Q         +P D    I+    
Sbjct: 153 M-----QIFVKTLTG-KTITLEVESSDTIDNVKSKIQDKE-----GIPPDQQRLIFAGKQ 201

Query: 241 MDDDRSFRWHHVGQGDTI----------EIFNGSVTG 267
           ++D R+   +++ +  T+          +IF  ++TG
Sbjct: 202 LEDGRTLSDYNIQKESTLHLVLRLRGGMQIFVKTLTG 238

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, 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.

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

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

 Score = 66.6 bits (161), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 65/277 (23%), Positives = 126/277 (45%), Gaps = 49/277 (17%)

Query: 1   MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
           M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 42  MQIFLKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 101

Query: 61  ILQNSRIQLLVASDNKPQVKTEQSSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVL 120
           I + S + L++      Q+  +  +               KT      + L+++ +DT+ 
Sbjct: 102 IQKESTLHLVLRLRGGMQIFVKTLT--------------GKT------ITLEVESSDTID 141

Query: 121 RLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVRPSPTATSTTSSG 180
            +K KI + E IP ++  +  +G +L+D R+L D  +   + + + +R           G
Sbjct: 142 NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR--------LRGG 193

Query: 181 MGPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNV 240
           M     ++ V T  G K I +EV +SD +  ++ ++Q         +P D    I+    
Sbjct: 194 M-----QIFVKTLTG-KTITLEVESSDTIDNVKAKIQDKE-----GIPPDQQRLIFAGKQ 242

Query: 241 MDDDRSFRWHHVGQGDTI----------EIFNGSVTG 267
           ++D R+   +++ +  T+          +IF  ++TG
Sbjct: 243 LEDGRTLADYNIQKESTLHLVLRLRGGMQIFVKTLTG 279

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)

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	269
255554995	269	ubiquitin, putative [Ricinus communis] g	0.977	0.977	0.72	1e-110
224078748	260	predicted protein [Populus trichocarpa]	0.955	0.988	0.656	3e-91
225444387	284	PREDICTED: uncharacterized protein LOC10	0.959	0.908	0.549	3e-85
147781462	284	hypothetical protein VITISV_033883 [Viti	0.959	0.908	0.549	3e-85
357462215	265	hypothetical protein MTR_3g080180 [Medic	0.970	0.984	0.567	7e-85
356577793	267	PREDICTED: uncharacterized protein LOC10	0.973	0.981	0.620	4e-82
302144066	204	unnamed protein product [Vitis vinifera]	0.758	1.0	0.539	1e-72
225439205	265	PREDICTED: polyubiquitin [Vitis vinifera	0.947	0.962	0.5	7e-66
297809715	205	hypothetical protein ARALYDRAFT_490171 [	0.736	0.965	0.445	2e-46
356548435	196	PREDICTED: uncharacterized protein LOC10	0.568	0.780	0.522	9e-42

>gi|255554995|ref|XP_002518535.1| ubiquitin, putative [Ricinus communis] gi|223542380|gb|EEF43922.1| ubiquitin, putative [Ricinus communis]

 Score =  402 bits (1033), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 198/275 (72%), Positives = 233/275 (84%), Gaps = 12/275 (4%)

Query: 1   MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
           MDV FE  +G+ F+IE+G+FDTVLEIKEKI+KYQ IP+ KQTLVFNGQVLQD+RD+E+CE
Sbjct: 1   MDVFFETPKGRQFSIELGYFDTVLEIKEKIQKYQDIPINKQTLVFNGQVLQDERDIEYCE 60

Query: 61  ILQNSRIQLLVASDN---KPQVKTEQSSP-SKKIHLKINIPSNSKTHHHHHHLPLDMDVN 116
           IL NS IQLL+A DN   KPQ+KTE+SSP SKKI L I IPS+        H+P++MDVN
Sbjct: 61  ILHNSHIQLLIAPDNDETKPQIKTEESSPPSKKIQLSIKIPSSKL------HVPIEMDVN 114

Query: 117 DTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVRPSPTATST 176
           DT+LRLKEKIHE+ES+PV+RL++QSS  EL D+RSLR+ EL+DN+EI V++RPSPT   T
Sbjct: 115 DTILRLKEKIHEIESVPVSRLVLQSSNGELLDNRSLRESELLDNSEISVNIRPSPTGLGT 174

Query: 177 TSSG--MGPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFF 234
            S G   G +KLKL+VLT+CG ++IPVEVNASDNV ELRKELQKLHQR HFHLPQ+GYFF
Sbjct: 175 GSGGPTAGTKKLKLMVLTKCGTQKIPVEVNASDNVGELRKELQKLHQRLHFHLPQEGYFF 234

Query: 235 IYKQNVMDDDRSFRWHHVGQGDTIEIFNGSVTGGS 269
           IYKQNVMDDDRSFRWHHV QGDTIEIFNGSVTGGS
Sbjct: 235 IYKQNVMDDDRSFRWHHVCQGDTIEIFNGSVTGGS 269

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224078748|ref|XP_002305613.1| predicted protein [Populus trichocarpa] gi|222848577|gb|EEE86124.1| predicted protein [Populus trichocarpa]

 Score =  340 bits (873), Expect = 3e-91,   Method: Compositional matrix adjust.
 Identities = 174/265 (65%), Positives = 215/265 (81%), Gaps = 8/265 (3%)

Query: 1   MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
           MDVIFEPQRG  F+IEVGFFDTV EIKEK+ KY GIP+ KQTLVF+GQVLQDD+DVE+CE
Sbjct: 1   MDVIFEPQRGGPFSIEVGFFDTVSEIKEKVHKYHGIPINKQTLVFHGQVLQDDKDVEYCE 60

Query: 61  ILQNSRIQLLVA--SDNKPQVKTEQSSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDT 118
           ILQNSRIQLL+   +D  PQ K EQ+S SKK+ L+I IPSN         +PL+MD++DT
Sbjct: 61  ILQNSRIQLLITPETDQIPQDKVEQTSHSKKVQLRIKIPSNQTL------VPLEMDMSDT 114

Query: 119 VLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVRPSPTATSTTS 178
           VL LKEKI E+E +PV RL++QS+GAELQDH+SL +CEL  N+EI V+V+PSP+ + +  
Sbjct: 115 VLHLKEKIREIEPVPVKRLVLQSNGAELQDHQSLHECELKYNSEISVNVKPSPSGSGSKG 174

Query: 179 SGMGPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQ 238
              G +KL+++V+T+CG K+IPVEVN SDNV ELRKELQ L Q+  FHLPQ+GYFFI+KQ
Sbjct: 175 GSTGFKKLRVIVVTKCGTKKIPVEVNPSDNVGELRKELQDLQQKNQFHLPQEGYFFIHKQ 234

Query: 239 NVMDDDRSFRWHHVGQGDTIEIFNG 263
           +VMDDDRSFRWH V QGDTI++FNG
Sbjct: 235 DVMDDDRSFRWHRVNQGDTIDVFNG 259

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225444387|ref|XP_002265032.1| PREDICTED: uncharacterized protein LOC100252194 [Vitis vinifera]

 Score =  320 bits (821), Expect = 3e-85,   Method: Compositional matrix adjust.
 Identities = 162/295 (54%), Positives = 205/295 (69%), Gaps = 37/295 (12%)

Query: 1   MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
           MDVIFEPQ G+ F++E+GFFDTVLEIKEK++KY GIP  +QTL FNG +LQD+RD+   +
Sbjct: 1   MDVIFEPQGGEPFSLELGFFDTVLEIKEKVQKYHGIPASRQTLFFNGHLLQDNRDIPSMQ 60

Query: 61  ILQNSRIQLLVASDNKPQ-----VKTEQSSPSK---------------------KIHLKI 94
           +  N RIQ++++ D   +     +  E S P                       KI + +
Sbjct: 61  MFYNCRIQMIISPDPPSEMPPPLINIEDSPPPNNLQEDPSPPPPPPLPPPPPSTKIQILL 120

Query: 95  NIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRD 154
            IP++        HL ++MD+  TV RLKEKIHEME IPVNR+++   G ELQD RSLRD
Sbjct: 121 RIPTSKI------HLSIEMDLAHTVGRLKEKIHEMEGIPVNRMVLYWRGRELQDSRSLRD 174

Query: 155 CELMDNAEIDVHVRPSPTATSTTSSGMGPRKLKLLVLTQCGNKRIPVEVNASDNVSELRK 214
           CEL D +EIDV ++P P A     SG G ++LKL+V+++CG K++PVEVN  DNV ELRK
Sbjct: 175 CELSDRSEIDVGIKPLPAA-----SGSGSKRLKLMVMSKCGTKKVPVEVNPLDNVGELRK 229

Query: 215 ELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSVTGGS 269
           EL+KL QR+ FHLP +GYFFIYKQNVMDDDRSFRWHHVGQGDT+EIFNG VTGGS
Sbjct: 230 ELEKLDQRFQFHLPPEGYFFIYKQNVMDDDRSFRWHHVGQGDTVEIFNGCVTGGS 284

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147781462|emb|CAN76119.1| hypothetical protein VITISV_033883 [Vitis vinifera]

 Score =  320 bits (821), Expect = 3e-85,   Method: Compositional matrix adjust.
 Identities = 162/295 (54%), Positives = 205/295 (69%), Gaps = 37/295 (12%)

Query: 1   MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
           MDVIFEPQ G+ F++E+GFFDTVLEIKEK++KY GIP  +QTL FNG +LQD+RD+   +
Sbjct: 1   MDVIFEPQGGEPFSLELGFFDTVLEIKEKVQKYHGIPASRQTLFFNGHLLQDNRDIPSMQ 60

Query: 61  ILQNSRIQLLVASDNKPQ-----VKTEQSSPSK---------------------KIHLKI 94
           +  N RIQ++++ D   +     +  E S P                       KI + +
Sbjct: 61  MFYNCRIQMIISPDPPSEMPPPLINIEDSPPPNNLQEDPSPPPPPPLPPPPPSTKIQILL 120

Query: 95  NIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRD 154
            IP++        HL ++MD+  TV RLKEKIHEME IPVNR+++   G ELQD RSLRD
Sbjct: 121 RIPTSKI------HLSIEMDLAHTVGRLKEKIHEMEXIPVNRMVLYWRGRELQDSRSLRD 174

Query: 155 CELMDNAEIDVHVRPSPTATSTTSSGMGPRKLKLLVLTQCGNKRIPVEVNASDNVSELRK 214
           CEL D +EIDV ++P P A     SG G ++LKL+V+++CG K++PVEVN  DNV ELRK
Sbjct: 175 CELSDRSEIDVGIKPLPAA-----SGSGSKRLKLMVMSKCGTKKVPVEVNPLDNVGELRK 229

Query: 215 ELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSVTGGS 269
           EL+KL QR+ FHLP +GYFFIYKQNVMDDDRSFRWHHVGQGDT+EIFNG VTGGS
Sbjct: 230 ELEKLDQRFQFHLPPEGYFFIYKQNVMDDDRSFRWHHVGQGDTVEIFNGCVTGGS 284

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357462215|ref|XP_003601389.1| hypothetical protein MTR_3g080180 [Medicago truncatula] gi|355490437|gb|AES71640.1| hypothetical protein MTR_3g080180 [Medicago truncatula]

 Score =  319 bits (818), Expect = 7e-85,   Method: Compositional matrix adjust.
 Identities = 155/273 (56%), Positives = 206/273 (75%), Gaps = 12/273 (4%)

Query: 1   MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
           MDVIFE QRG+ F+IEVGFFDT+LEIKEKI+KYQGIP+ KQTL+FNGQ+L +D D+  C 
Sbjct: 1   MDVIFEVQRGRPFSIEVGFFDTILEIKEKIQKYQGIPISKQTLIFNGQILPEDGDIWKCA 60

Query: 61  ILQNSRIQLLVASDNKPQVKTEQSSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVL 120
           I QNSRI L+V +      K  Q     K+HL I  PS+        + P+++  NDTVL
Sbjct: 61  IFQNSRIHLIVTASESDHHK--QPIEDTKLHLNIKTPSSKP------YFPIEIYKNDTVL 112

Query: 121 RLKEKIHEME--SIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVRP--SPTATST 176
           +LKEKIH+++  ++P+N+L++ ++  EL D++ +RDC++ D +EI+V  +P   P  + T
Sbjct: 113 KLKEKIHDIDQNNVPLNQLMLHAADTELHDNQLIRDCDVSDKSEIEVSFKPPAGPAVSPT 172

Query: 177 TSSGMGPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIY 236
              G G +KLK +VL++ G K+IPVE+NA+DNV ELRKELQK++QR  FHLPQ+GYFFI+
Sbjct: 173 MVGGGGSKKLKFMVLSKSGTKKIPVEMNATDNVGELRKELQKMNQRLQFHLPQEGYFFIF 232

Query: 237 KQNVMDDDRSFRWHHVGQGDTIEIFNGSVTGGS 269
           KQNVMDD++SFRWHHV QGDTIEIFNGSVTGGS
Sbjct: 233 KQNVMDDEKSFRWHHVCQGDTIEIFNGSVTGGS 265

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356577793|ref|XP_003557007.1| PREDICTED: uncharacterized protein LOC100790784 [Glycine max]

 Score =  310 bits (794), Expect = 4e-82,   Method: Compositional matrix adjust.
 Identities = 170/274 (62%), Positives = 208/274 (75%), Gaps = 12/274 (4%)

Query: 1   MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
           M++IFE Q G++F++EVG+FDTVLEIKEK++KYQ IPV KQ L+ NGQVL D+ D    E
Sbjct: 1   MNIIFELQGGRSFSMEVGYFDTVLEIKEKVQKYQNIPVSKQILILNGQVLHDNDDPWKVE 60

Query: 61  ILQNSRIQLLVASDNKPQVKTEQSSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVN-DTV 119
           IL N+RIQL V    +   K +    S    +++N+ + SKTH     +PL++DVN DTV
Sbjct: 61  ILHNTRIQLQVTPKKEENSK-DLVVNSTHTKIQLNVKTASKTHV----IPLEVDVNNDTV 115

Query: 120 LRLKEKIHEME--SIPVNRLLV--QSSGAELQDHRSLRDCELMDNAEIDVHVRPSPTATS 175
           LRLKE+IHEME  ++PVNRLL    S+G E+ DH+ LRDC + +NAEIDV  RPSP A +
Sbjct: 116 LRLKERIHEMETVAVPVNRLLFLHSSNGVEMLDHQLLRDCYVSENAEIDVGFRPSPPAAA 175

Query: 176 TTSSGMGPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFI 235
           + S G   ++LKL+VL + G K++PVEVN SDNV ELRKELQKLHQR  FHLPQDGYFFI
Sbjct: 176 SASPGS--KRLKLMVLPKSGTKKVPVEVNPSDNVGELRKELQKLHQRVQFHLPQDGYFFI 233

Query: 236 YKQNVMDDDRSFRWHHVGQGDTIEIFNGSVTGGS 269
           YKQNVMDDDRSFRWHHV QGDTIEIFNGSVTGGS
Sbjct: 234 YKQNVMDDDRSFRWHHVAQGDTIEIFNGSVTGGS 267

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302144066|emb|CBI23171.3| unnamed protein product [Vitis vinifera]

 Score =  278 bits (712), Expect = 1e-72,   Method: Compositional matrix adjust.
 Identities = 145/269 (53%), Positives = 174/269 (64%), Gaps = 65/269 (24%)

Query: 1   MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
           MDVIFEPQ G+ F++E+GFFDTVLEIKEK++KY GIP  +QTL FNG +LQD+RD+   +
Sbjct: 1   MDVIFEPQGGEPFSLELGFFDTVLEIKEKVQKYHGIPASRQTLFFNGHLLQDNRDIPSMQ 60

Query: 61  ILQNSRIQLLVASDNKPQVKTEQSSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVL 120
           I+                       P+ KIHL I                 +MD+  TV 
Sbjct: 61  II-----------------------PTSKIHLSI-----------------EMDLAHTVG 80

Query: 121 RLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVRPSPTATSTTSSG 180
           RLKEKIHEME IPVNR+++   G ELQD RSLRDCEL D                     
Sbjct: 81  RLKEKIHEMEGIPVNRMVLYWRGRELQDSRSLRDCELSD--------------------- 119

Query: 181 MGPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNV 240
               +LKL+V+++CG K++PVEVN  DNV ELRKEL+KL QR+ FHLP +GYFFIYKQNV
Sbjct: 120 ----RLKLMVMSKCGTKKVPVEVNPLDNVGELRKELEKLDQRFQFHLPPEGYFFIYKQNV 175

Query: 241 MDDDRSFRWHHVGQGDTIEIFNGSVTGGS 269
           MDDDRSFRWHHVGQGDT+EIFNG VTGGS
Sbjct: 176 MDDDRSFRWHHVGQGDTVEIFNGCVTGGS 204

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225439205|ref|XP_002270133.1| PREDICTED: polyubiquitin [Vitis vinifera] gi|147834449|emb|CAN76405.1| hypothetical protein VITISV_042107 [Vitis vinifera]

 Score =  256 bits (654), Expect = 7e-66,   Method: Compositional matrix adjust.
 Identities = 136/272 (50%), Positives = 177/272 (65%), Gaps = 17/272 (6%)

Query: 1   MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
           MD+ FEP  G+ F IEVGFFDTVLEIKEKI+KYQ IPV  QTL+FNG+VLQD+ +V   +
Sbjct: 1   MDIFFEPFSGEGFCIEVGFFDTVLEIKEKIQKYQNIPVAAQTLIFNGEVLQDESNVHSSD 60

Query: 61  ILQNSRIQLLVASDNKPQVKTEQSSP----SKKIHLKINIPSNSKTHHHHHHLPLDMDVN 116
           ++ NS IQL+ +   KP  K E S P    + ++ L INIP++          PL M   
Sbjct: 61  LVHNSYIQLISSCPEKPATKAESSPPLSPAASRVQLLINIPTSKS-----QQFPLCMHSR 115

Query: 117 DTVLRLKEKIHE-MESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVRPSPTATS 175
            T+  LKE IH  ME++ V +L++ S G+ELQDH SL    L D +EIDV        +S
Sbjct: 116 GTIRELKENIHAVMETLCVQQLVLYSDGSELQDHWSLHQSGLSDGSEIDVGFMAGAMGSS 175

Query: 176 TTSSGMGPRKLK-LLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFF 234
                   +KLK ++VL +CG K+  VEVN SD V  LR EL KL +   F+LP+DGY+F
Sbjct: 176 CF------KKLKVMVVLPRCGGKKTAVEVNGSDKVRVLRMELDKLQKCLQFYLPKDGYYF 229

Query: 235 IYKQNVMDDDRSFRWHHVGQGDTIEIFNGSVT 266
           IYK++VMD+DRSFRWHHVGQGDTI+I   S++
Sbjct: 230 IYKEHVMDEDRSFRWHHVGQGDTIDISPTSIS 261

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297809715|ref|XP_002872741.1| hypothetical protein ARALYDRAFT_490171 [Arabidopsis lyrata subsp. lyrata] gi|297318578|gb|EFH49000.1| hypothetical protein ARALYDRAFT_490171 [Arabidopsis lyrata subsp. lyrata]

 Score =  191 bits (486), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 123/276 (44%), Positives = 148/276 (53%), Gaps = 78/276 (28%)

Query: 1   MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
           MDV FE + G  F IE+G++DTVLEIK+KIEKYQ IPV KQTL F G VLQD  D+E C 
Sbjct: 1   MDVFFETRSGFTFEIELGYWDTVLEIKQKIEKYQQIPVSKQTLFFQGNVLQDHLDIEQCV 60

Query: 61  ILQNSRIQLLVAS----DNKPQVKTEQSSPSKKIHLKINIPSNSK---THHHHHHLPLDM 113
           IL +SRIQL ++S     N    KTEQS             SNSK   T++ H   P+ M
Sbjct: 61  ILNHSRIQLFISSPDQNRNNQVFKTEQSP-----------QSNSKEQITNNGHQDSPVMM 109

Query: 114 DVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVRPSPTA 173
            +++      +K+         R++V            L  C                  
Sbjct: 110 PMSNNNNNNPKKL---------RVMV------------LPKC------------------ 130

Query: 174 TSTTSSGMGPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYF 233
                   G RK+             PVEVNA DNV ELRKEL K+ QR    LPQ+GYF
Sbjct: 131 --------GTRKI-------------PVEVNAGDNVGELRKELAKIQQRLQLSLPQEGYF 169

Query: 234 FIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSVTGGS 269
           FIYKQNVMD++RSFRWH V  GDTIEIFNGSV+GGS
Sbjct: 170 FIYKQNVMDENRSFRWHRVDHGDTIEIFNGSVSGGS 205

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356548435|ref|XP_003542607.1| PREDICTED: uncharacterized protein LOC100794475 [Glycine max]

 Score =  176 bits (446), Expect = 9e-42,   Method: Compositional matrix adjust.
 Identities = 92/176 (52%), Positives = 114/176 (64%), Gaps = 23/176 (13%)

Query: 117 DTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVRPSPTATS- 175
           DTVL +KEK+ + ++IPV++  +  +G  L D+      +++ N  I + V P       
Sbjct: 21  DTVLEIKEKVQKYQNIPVSKQTLILNGQVLHDNDDPWKVKILHNTCIQLQVTPEKEENKE 80

Query: 176 ---------------TTSSGMGP-------RKLKLLVLTQCGNKRIPVEVNASDNVSELR 213
                          T+ + + P        +LKL+VL + G K++PVEVNASDNV ELR
Sbjct: 81  LITSAHTKIQLNVKITSKTHLIPLEVDVNDTRLKLMVLPKSGTKKVPVEVNASDNVGELR 140

Query: 214 KELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSVTGGS 269
           KELQKLHQR  FHLPQDGYFFIYKQNVMDDDRSFRWHHV QGDTIEIFNGSVTGGS
Sbjct: 141 KELQKLHQRVQFHLPQDGYFFIYKQNVMDDDRSFRWHHVAQGDTIEIFNGSVTGGS 196

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	269
TAIR|locus:2115653	206	AT4G05230 "AT4G05230" [Arabido	0.323	0.422	0.701	2.6e-55
TAIR|locus:2125546	295	AT4G03370 "AT4G03370" [Arabido	0.312	0.284	0.488	3e-33
TAIR|locus:2125532	284	AT4G03360 "AT4G03360" [Arabido	0.345	0.327	0.505	1.6e-32
TAIR|locus:2139355	318	AT4G02950 "AT4G02950" [Arabido	0.353	0.298	0.495	1.9e-32
TAIR|locus:2115688	259	AT4G05260 "AT4G05260" [Arabido	0.315	0.328	0.566	4.8e-31
TAIR|locus:2062566	242	AT2G32350 "AT2G32350" [Arabido	0.858	0.954	0.316	2e-24
TAIR|locus:2125517	263	EVE1 "AT4G03350" [Arabidopsis	0.330	0.338	0.433	2.1e-24
TAIR|locus:2139375	270	AT7SL-1 "AT4G02970" [Arabidops	0.334	0.333	0.455	3.4e-23
TAIR|locus:2115648	415	AT4G05310 "AT4G05310" [Arabido	0.345	0.224	0.405	2.7e-22
TAIR|locus:2115678	318	AT4G05250 "AT4G05250" [Arabido	0.319	0.270	0.565	9.2e-20

TAIR|locus:2115653 AT4G05230 "AT4G05230" [Arabidopsis thaliana (taxid:3702)]

 Score = 341 (125.1 bits), Expect = 2.6e-55, Sum P(2) = 2.6e-55
 Identities = 61/87 (70%), Positives = 75/87 (86%)

Query:   183 PRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMD 242
             P+KL+++VL + G ++IPV+VNA DNV ELRKEL K+ QR+   LPQ+GYFFIYKQNVMD
Sbjct:   120 PKKLRVMVLPKSGTRKIPVDVNAGDNVGELRKELAKIQQRFQLSLPQEGYFFIYKQNVMD 179

Query:   243 DDRSFRWHHVGQGDTIEIFNGSVTGGS 269
             ++RSFRWH V QGDTIEIFNGSV+GGS
Sbjct:   180 ENRSFRWHRVDQGDTIEIFNGSVSGGS 206

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM;IEA

GO:0006289 "nucleotide-excision repair" evidence=IEA

TAIR|locus:2125546 AT4G03370 "AT4G03370" [Arabidopsis thaliana (taxid:3702)]

 Score = 197 (74.4 bits), Expect = 3.0e-33, Sum P(2) = 3.0e-33
 Identities = 41/84 (48%), Positives = 56/84 (66%)

Query:   183 PRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMD 242
             P K+ ++V      +RI VEVN   NV  LRKEL K+ +R   +LP +G+FFI+KQ+V+ 
Sbjct:   197 PLKITVMVQPFEETRRIQVEVNVLSNVEVLRKELVKMQERGELNLPHEGFFFIHKQDVLR 256

Query:   243 DDRSFRWHHVGQGDTIEIFNGSVT 266
             +D+SF  + V  GDTIEIF G VT
Sbjct:   257 EDQSFMANRVAPGDTIEIFQGYVT 280

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

TAIR|locus:2125532 AT4G03360 "AT4G03360" [Arabidopsis thaliana (taxid:3702)]

 Score = 207 (77.9 bits), Expect = 1.6e-32, Sum P(2) = 1.6e-32
 Identities = 50/99 (50%), Positives = 64/99 (64%)

Query:     3 VIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEIL 62
             VI E Q G +FTI+V F+DTVL IK KIE  QG PV KQ L+F  +VLQD  ++  C+I 
Sbjct:     4 VIIENQSGSSFTIDVSFWDTVLMIKRKIEMTQGTPVSKQILIFKRKVLQDHLNMFGCQIR 63

Query:    63 QNSRIQLLVASDNKP---QV-KTEQS--SPSKKIHLKIN 95
              NSRI L ++ D+ P   QV +T QS  +PS  IH  +N
Sbjct:    64 HNSRILLSISPDDNPTQNQVPQTNQSPSTPSNPIHEFVN 102

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM;IEA

GO:0006289 "nucleotide-excision repair" evidence=IEA

TAIR|locus:2139355 AT4G02950 "AT4G02950" [Arabidopsis thaliana (taxid:3702)]

 Score = 208 (78.3 bits), Expect = 1.9e-32, Sum P(2) = 1.9e-32
 Identities = 50/101 (49%), Positives = 65/101 (64%)

Query:     1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
             + VI E Q G +FTI+V F+DTVL IK KIE  QG PV KQ L+F  +VLQD  ++  C+
Sbjct:    36 ISVIIENQSGSSFTIDVSFWDTVLMIKRKIEMTQGTPVSKQILIFKRKVLQDHLNMFGCQ 95

Query:    61 ILQNSRIQLLVASDNKP---QV-KTEQS--SPSKKIHLKIN 95
             I  NSRI L ++ D+ P   QV +T QS  +PS  IH  +N
Sbjct:    96 IRHNSRILLSISPDDNPTQNQVPQTNQSPSTPSNPIHEFVN 136

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=IEA

GO:0006289 "nucleotide-excision repair" evidence=IEA

GO:0009507 "chloroplast" evidence=ISM

TAIR|locus:2115688 AT4G05260 "AT4G05260" [Arabidopsis thaliana (taxid:3702)]

 Score = 237 (88.5 bits), Expect = 4.8e-31, Sum P(2) = 4.8e-31
 Identities = 51/90 (56%), Positives = 63/90 (70%)

Query:     1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
             MDV FE Q G+ F IE+G++DTVLEIK+KIEKYQ IPVP QTL F G  L+D  D+  C+
Sbjct:     1 MDVYFETQNGRKFCIELGYWDTVLEIKKKIEKYQRIPVPNQTLFF-GNALEDHLDIGQCK 59

Query:    61 ILQNSRIQLLVA---SDNKPQV-KTEQSSP 86
             ILQNS + L V    +DN  QV +TE+  P
Sbjct:    60 ILQNSHVVLFVLPDPNDNNDQVLQTEEQPP 89

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM;IEA

GO:0006289 "nucleotide-excision repair" evidence=IEA

TAIR|locus:2062566 AT2G32350 "AT2G32350" [Arabidopsis thaliana (taxid:3702)]

 Score = 279 (103.3 bits), Expect = 2.0e-24, P = 2.0e-24
 Identities = 82/259 (31%), Positives = 136/259 (52%)

Query:    15 IEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQN-SRIQLLVAS 73
             +E+   ++VLE+K+++ ++  IP    TL  +   L D  D+E   I+ + +RI L V  
Sbjct:     1 MEISEQESVLEVKKRLGQFLQIPTSSITLFVSCWELIDGLDIEDYPIISHGTRIDLTVTP 60

Query:    74 -DNKPQVKTEQSSPSKKIHLKINIPSNSKTXXXXXXLPLDMDVNDTVLRLKEKIHEMESI 132
                 P       +  +KIH+ +  PS   T        +++D  +TV  LK+KIH +E+ 
Sbjct:    61 LFTAPSFI---HAAVRKIHVTVKFPSKQFT--------VEVDRTETVSSLKDKIHIVENT 109

Query:   133 PVNRLLVQSSGAEL-QDHRSLRDCELMDNAEIDVHVRXXXXXXXXXXXGMGP-RKLKLLV 190
             P+ R+ +  SG EL  D+R+L +  + + +EI V ++            + P RKL  LV
Sbjct:   110 PIKRMQLYYSGIELADDYRNLNEYGITEFSEIVVFLKSINRAKD-----VAPVRKLCFLV 164

Query:   191 LTQCG---NKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSF 247
              T        RIPVE+  +  +SE+R+ LQ      +  LP+D Y F++KQ +M ++ S 
Sbjct:   165 QTSSSLFNGARIPVEIKDTCTISEMREGLQA-----NKTLPRDEYIFVHKQRIMRENCSL 219

Query:   248 RWHHVGQGDTIEIFNGSVT 266
             RWH V  GDT+ +F GS++
Sbjct:   220 RWHGVENGDTLFVFKGSIS 238

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

TAIR|locus:2125517 EVE1 "AT4G03350" [Arabidopsis thaliana (taxid:3702)]

 Score = 166 (63.5 bits), Expect = 2.1e-24, Sum P(2) = 2.1e-24
 Identities = 39/90 (43%), Positives = 55/90 (61%)

Query:     1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
             M+V  + + G +F+I + F +TVL+IKEKIEK QGIPV KQ L  +G+ L+DD       
Sbjct:     1 MNVDIDTETGSSFSITIDFGETVLQIKEKIEKSQGIPVSKQILYLDGKALEDDLHKIDYM 60

Query:    61 ILQNSRIQLLVASDNKPQVKTEQSSPSKKI 90
             IL  S + L ++ D  P    EQ+  SK+I
Sbjct:    61 ILFESLL-LRISPDADPNQSNEQTEQSKQI 89

GO:0003674 "molecular_function" evidence=ND

GO:0005737 "cytoplasm" evidence=ISM

GO:0005634 "nucleus" evidence=IDA

GO:0010228 "vegetative to reproductive phase transition of meristem" evidence=IMP

GO:0048366 "leaf development" evidence=IMP

TAIR|locus:2139375 AT7SL-1 "AT4G02970" [Arabidopsis thaliana (taxid:3702)]

 Score = 185 (70.2 bits), Expect = 3.4e-23, Sum P(2) = 3.4e-23
 Identities = 41/90 (45%), Positives = 56/90 (62%)

Query:     1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
             M+V  + + G +F+I + F +TVLEIKEKIEK QGIPV KQ L  +G+ L+DD       
Sbjct:     1 MNVYIDTETGSSFSITIDFGETVLEIKEKIEKSQGIPVSKQILYLDGKALEDDLHKIDYM 60

Query:    61 ILQNSRIQLLVASDNKPQVKTEQSSPSKKI 90
             IL  SR+ L ++ D  P    EQ+  SK+I
Sbjct:    61 ILFESRLLLRISPDADPNQSNEQTEQSKQI 90

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0005786 "signal recognition particle, endoplasmic reticulum targeting" evidence=ISS

TAIR|locus:2115648 AT4G05310 "AT4G05310" [Arabidopsis thaliana (taxid:3702)]

 Score = 165 (63.1 bits), Expect = 2.7e-22, Sum P(2) = 2.7e-22
 Identities = 41/101 (40%), Positives = 64/101 (63%)

Query:     1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQ-VLQDDRDVEHC 59
             M  + E   G +F IEV   DT+L +K+KIEK Q +PV KQTL+ +G  +L++D +++ C
Sbjct:     1 MKFVVEILGGSSFEIEVERTDTLLVVKQKIEKSQRVPVSKQTLIVDGIFILREDLNLDQC 60

Query:    60 EILQNSRIQLLVASDNKP------QV-KTEQSSPSKKIHLK 93
             +I  +S+IQL V+ D  P      Q+ +TEQS P+  I ++
Sbjct:    61 QIFHDSQIQLEVSPDVNPIHNNDDQIPQTEQSPPAPWISVE 101

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM;IEA

GO:0006289 "nucleotide-excision repair" evidence=IEA

TAIR|locus:2115678 AT4G05250 "AT4G05250" [Arabidopsis thaliana (taxid:3702)]

 Score = 235 (87.8 bits), Expect = 9.2e-20, P = 9.2e-20
 Identities = 52/92 (56%), Positives = 64/92 (69%)

Query:     1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
             MDV FE Q G  F IE+G++DT+LEIKEKIEKYQ IPV KQTL+F G VLQD  D++ C 
Sbjct:     1 MDVFFETQSGDKFEIELGYWDTMLEIKEKIEKYQCIPVSKQTLIFQGVVLQDHLDIKQCV 60

Query:    61 ILQNSRIQLLVASDNKP-----QV-KTEQSSP 86
             IL +S IQ+ V  +  P     QV +T+ SSP
Sbjct:    61 ILNHSHIQIFVEPNPNPNPNNAQVLQTDISSP 92

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM;IEA

GO:0006289 "nucleotide-excision repair" 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	269
pfam00240	69	pfam00240, ubiquitin, Ubiquitin family	5e-13
smart00213	72	smart00213, UBQ, Ubiquitin homologues	2e-12
cd01769	69	cd01769, UBL, Ubiquitin-like domain of UBL	3e-11
pfam00240	69	pfam00240, ubiquitin, Ubiquitin family	6e-10
smart00213	72	smart00213, UBQ, Ubiquitin homologues	9e-10
cd01805	77	cd01805, RAD23_N, Ubiquitin-like domain of RAD23	2e-09
cd01806	76	cd01806, Nedd8, Nebb8-like ubiquitin protein	3e-09
cd01802	103	cd01802, AN1_N, ubiquitin-like domain of AN1	3e-07
TIGR00601	378	TIGR00601, rad23, UV excision repair protein Rad23	3e-07
cd01809	72	cd01809, Scythe_N, Ubiquitin-like domain of Scythe	5e-07
cd01769	69	cd01769, UBL, Ubiquitin-like domain of UBL	7e-07
cd01803	76	cd01803, Ubiquitin, Ubiquitin	2e-06
cd00196	69	cd00196, UBQ, Ubiquitin-like proteins	6e-06
TIGR00601	378	TIGR00601, rad23, UV excision repair protein Rad23	1e-04
cd01798	70	cd01798, parkin_N, amino-terminal ubiquitin-like o	0.002
cd01807	74	cd01807, GDX_N, ubiquitin-like domain of GDX	0.002
cd01793	74	cd01793, Fubi, Fubi ubiquitin-like protein	0.003
cd00196	69	cd00196, UBQ, Ubiquitin-like proteins	0.004
cd01793	74	cd01793, Fubi, Fubi ubiquitin-like protein	0.004

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

 Score = 62.2 bits (152), Expect = 5e-13
 Identities = 29/62 (46%), Positives = 41/62 (66%)

Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
          GK  T+EV   DTV E+KEKIE  +GIPV +Q L+F+G+VL+DD  +    I   S + L
Sbjct: 5  GKTITLEVDPSDTVSELKEKIEDKEGIPVDQQRLIFSGKVLEDDTTLSEYGIQDGSTLHL 64

Query: 70 LV 71
          ++
Sbjct: 65 VL 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|214563 smart00213, UBQ, Ubiquitin homologues

 Score = 60.7 bits (148), Expect = 2e-12
 Identities = 28/72 (38%), Positives = 43/72 (59%)

Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          +++  +   GK  T+EV   DTV E+KEKI +  GIP  +Q L++ G+VL+DDR +    
Sbjct: 1  IELTVKTLDGKTITLEVKPSDTVSELKEKIAELTGIPPEQQRLIYKGKVLEDDRTLADYG 60

Query: 61 ILQNSRIQLLVA 72
          I   S I L++ 
Sbjct: 61 IQDGSTIHLVLR 72

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

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

 Score = 57.3 bits (139), Expect = 3e-11
 Identities = 23/63 (36%), Positives = 38/63 (60%)

Query: 9  RGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQ 68
           GK F +EV   DTV E+K KI   +G+P  +Q L++ G++L+DD+ +    I   S + 
Sbjct: 6  TGKTFELEVSPDDTVAELKAKIAAKEGVPPEQQRLIYAGKILKDDKTLSDYGIQDGSTLH 65

Query: 69 LLV 71
          L++
Sbjct: 66 LVL 68

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

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

 Score = 53.8 bits (130), Expect = 6e-10
 Identities = 21/65 (32%), Positives = 37/65 (56%)

Query: 106 HHHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDV 165
              + L++D +DTV  LKEKI + E IPV++  +  SG  L+D  +L +  + D + + +
Sbjct: 5   GKTITLEVDPSDTVSELKEKIEDKEGIPVDQQRLIFSGKVLEDDTTLSEYGIQDGSTLHL 64

Query: 166 HVRPS 170
            +R  
Sbjct: 65  VLRLR 69

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|214563 smart00213, UBQ, Ubiquitin homologues

 Score = 53.4 bits (129), Expect = 9e-10
 Identities = 21/61 (34%), Positives = 34/61 (55%)

Query: 108 HLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHV 167
            + L++  +DTV  LKEKI E+  IP  +  +   G  L+D R+L D  + D + I + +
Sbjct: 12  TITLEVKPSDTVSELKEKIAELTGIPPEQQRLIYKGKVLEDDRTLADYGIQDGSTIHLVL 71

Query: 168 R 168
           R
Sbjct: 72  R 72

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

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

 Score = 52.7 bits (127), Expect = 2e-09
 Identities = 26/74 (35%), Positives = 47/74 (63%), Gaps = 2/74 (2%)

Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQG--IPVPKQTLVFNGQVLQDDRDVEH 58
          M + F+  + + F IEV   DTV E+KEKIE+ +G   P  +Q L+++G++L+DD  +E 
Sbjct: 1  MKITFKTLKQQTFPIEVDPDDTVAELKEKIEEEKGCDYPPEQQKLIYSGKILKDDTTLEE 60

Query: 59 CEILQNSRIQLLVA 72
           +I +   + ++V+
Sbjct: 61 YKIDEKDFVVVMVS 74

RAD23 belongs to a family of adaptor molecules having affinity for both the proteasome and ubiquitinylated proteins and thought to shuttle these ubiquitinylated proteins to the proteasome for destruction. RAD23 interacts with ubiquitin through its C-terminal ubiquitin-associated domains (UBA) and with the proteasome through its N-terminal ubiquitin-like domain (UBL). Length = 77

>gnl|CDD|176401 cd01806, Nedd8, Nebb8-like ubiquitin protein

 Score = 52.1 bits (125), Expect = 3e-09
 Identities = 20/63 (31%), Positives = 38/63 (60%)

Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
          GK   I++   D V  IKE++E+ +GIP  +Q L+++G+ + DD+     ++   S + L
Sbjct: 10 GKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDDKTAADYKLEGGSVLHL 69

Query: 70 LVA 72
          ++A
Sbjct: 70 VLA 72

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. Length = 76

>gnl|CDD|176397 cd01802, AN1_N, ubiquitin-like domain of AN1

 Score = 47.6 bits (113), Expect = 3e-07
 Identities = 23/72 (31%), Positives = 43/72 (59%)

Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M++  E   G  F + V  F+TV+ +K KI++ +GIPV +Q L++N   L+D+  +    
Sbjct: 28 MELFIETLTGTCFELRVSPFETVISVKAKIQRLEGIPVAQQHLIWNNMELEDEYCLNDYN 87

Query: 61 ILQNSRIQLLVA 72
          I +   ++L++A
Sbjct: 88 ISEGCTLKLVLA 99

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. Length = 103

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

 Score = 50.7 bits (121), Expect = 3e-07
 Identities = 26/92 (28%), Positives = 50/92 (54%), Gaps = 3/92 (3%)

Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQG---IPVPKQTLVFNGQVLQDDRDVE 57
          M + F+  + + F I++   +TV E+KEKIE  QG    PV +Q L+++G++L DD+ V+
Sbjct: 1  MTLTFKTLQQQKFKIDMEPDETVKELKEKIEAEQGKDAYPVAQQKLIYSGKILSDDKTVK 60

Query: 58 HCEILQNSRIQLLVASDNKPQVKTEQSSPSKK 89
            +I +   + ++V+       K    + +  
Sbjct: 61 EYKIKEKDFVVVMVSKPKTGTGKVAPPAATPT 92

All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University) [DNA metabolism, DNA replication, recombination, and repair]. Length = 378

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

 Score = 46.1 bits (110), Expect = 5e-07
 Identities = 21/50 (42%), Positives = 33/50 (66%), Gaps = 2/50 (4%)

Query: 8  QRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVE 57
           +   FT+E     TVL++KEKI +  GIPV +Q L+++G+VL+DD  + 
Sbjct: 10 SQTHTFTVEEEI--TVLDLKEKIAEEVGIPVEQQRLIYSGRVLKDDETLS 57

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

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

 Score = 45.3 bits (108), Expect = 7e-07
 Identities = 17/62 (27%), Positives = 32/62 (51%)

Query: 107 HHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVH 166
               L++  +DTV  LK KI   E +P  +  +  +G  L+D ++L D  + D + + + 
Sbjct: 8   KTFELEVSPDDTVAELKAKIAAKEGVPPEQQRLIYAGKILKDDKTLSDYGIQDGSTLHLV 67

Query: 167 VR 168
           +R
Sbjct: 68  LR 69

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

>gnl|CDD|176398 cd01803, Ubiquitin, Ubiquitin

 Score = 44.9 bits (106), Expect = 2e-06
 Identities = 24/71 (33%), Positives = 40/71 (56%)

Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60

Query: 61 ILQNSRIQLLV 71
          I + S + L++
Sbjct: 61 IQKESTLHLVL 71

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

>gnl|CDD|176352 cd00196, UBQ, Ubiquitin-like proteins

 Score = 42.9 bits (101), Expect = 6e-06
 Identities = 19/62 (30%), Positives = 32/62 (51%)

Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
          GK   + V    TV ++KEK+ K  G+P  +Q L+ NG++L D   +E   +     + L
Sbjct: 7  GKTVELLVPSGTTVADLKEKLAKKLGLPPEQQRLLVNGKILPDSLTLEDYGLQDGDELVL 66

Query: 70 LV 71
          + 
Sbjct: 67 VP 68

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. Length = 69

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

 Score = 42.2 bits (99), Expect = 1e-04
 Identities = 20/79 (25%), Positives = 36/79 (45%), Gaps = 5/79 (6%)

Query: 108 HLPLDMDVNDTVLRLKEKIHEMES---IPVNRLLVQSSGAELQDHRSLRDCELMDNAEID 164
              +DM+ ++TV  LKEKI   +     PV +  +  SG  L D +++++ ++ +   + 
Sbjct: 12  KFKIDMEPDETVKELKEKIEAEQGKDAYPVAQQKLIYSGKILSDDKTVKEYKIKEKDFVV 71

Query: 165 VHVRPSPTATSTTSSGMGP 183
           V V  S   T T       
Sbjct: 72  VMV--SKPKTGTGKVAPPA 88

All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University) [DNA metabolism, DNA replication, recombination, and repair]. Length = 378

>gnl|CDD|176393 cd01798, parkin_N, amino-terminal ubiquitin-like of parkin protein

 Score = 35.9 bits (83), Expect = 0.002
 Identities = 16/61 (26%), Positives = 34/61 (55%)

Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
          G  F +EV     + ++KE + K QG+P  +  ++F G+ L++   ++ C++ Q S +  
Sbjct: 8  GHTFPVEVDPDTDIKQLKEVVAKRQGVPPDQLRVIFAGKELRNTTTIQECDLGQQSILHA 67

Query: 70 L 70
          +
Sbjct: 68 V 68

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. Length = 70

>gnl|CDD|176402 cd01807, GDX_N, ubiquitin-like domain of GDX

 Score = 35.6 bits (82), Expect = 0.002
 Identities = 17/71 (23%), Positives = 41/71 (57%)

Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +  +G+  +++V   ++V  +K+ + ++  +P  +Q L+F G+ L DD+ +    
Sbjct: 1  MFLTVKLLQGRECSLQVSEKESVSTLKKLVSEHLNVPEEQQRLLFKGKALADDKRLSDYS 60

Query: 61 ILQNSRIQLLV 71
          I  N+++ L+V
Sbjct: 61 IGPNAKLNLVV 71

GDX contains an N-terminal ubiquitin-like domain as well as an uncharacterized c-terminal domain. The function of GDX is unknown. Length = 74

>gnl|CDD|176388 cd01793, Fubi, Fubi ubiquitin-like protein

 Score = 35.5 bits (82), Expect = 0.003
 Identities = 14/58 (24%), Positives = 29/58 (50%)

Query: 111 LDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVR 168
           L++   +TV  +K  +  +E I V   ++  +G  L+D  +L  C + +   ++V  R
Sbjct: 13  LEVTGQETVSDIKAHVAGLEGIDVEDQVLLLAGVPLEDDATLGQCGVEELCTLEVAGR 70

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. Length = 74

>gnl|CDD|176352 cd00196, UBQ, Ubiquitin-like proteins

 Score = 35.2 bits (81), Expect = 0.004
 Identities = 11/67 (16%), Positives = 28/67 (41%), Gaps = 5/67 (7%)

Query: 195 GNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQ 254
             K + + V +   V++L+++L K        LP +    +    ++ D  +   + +  
Sbjct: 6   DGKTVELLVPSGTTVADLKEKLAKKLG-----LPPEQQRLLVNGKILPDSLTLEDYGLQD 60

Query: 255 GDTIEIF 261
           GD + + 
Sbjct: 61  GDELVLV 67

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. Length = 69

>gnl|CDD|176388 cd01793, Fubi, Fubi ubiquitin-like protein

 Score = 34.7 bits (80), Expect = 0.004
 Identities = 17/58 (29%), Positives = 30/58 (51%)

Query: 14 TIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLV 71
          T+EV   +TV +IK  +   +GI V  Q L+  G  L+DD  +  C + +   +++  
Sbjct: 12 TLEVTGQETVSDIKAHVAGLEGIDVEDQVLLLAGVPLEDDATLGQCGVEELCTLEVAG 69

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. Length = 74

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	269
cd01802	103	AN1_N ubiquitin-like domain of AN1. AN1 (also know	99.81
cd01807	74	GDX_N ubiquitin-like domain of GDX. GDX contains a	99.8
cd01793	74	Fubi Fubi ubiquitin-like protein. Fubi is a ubiqui	99.8
PTZ00044	76	ubiquitin; Provisional	99.79
cd01802	103	AN1_N ubiquitin-like domain of AN1. AN1 (also know	99.78
cd01797	78	NIRF_N amino-terminal ubiquitin-like domain of Np9	99.77
cd01803	76	Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40	99.76
cd01806	76	Nedd8 Nebb8-like ubiquitin protein. Nedd8 (also kn	99.76
cd01810	74	ISG15_repeat2 ISG15 ubiquitin-like protein, second	99.75
cd01791	73	Ubl5 UBL5 ubiquitin-like modifier. UBL5 (also know	99.75
cd01804	78	midnolin_N Ubiquitin-like domain of midnolin. midn	99.75
cd01807	74	GDX_N ubiquitin-like domain of GDX. GDX contains a	99.75
cd01793	74	Fubi Fubi ubiquitin-like protein. Fubi is a ubiqui	99.74
cd01805	77	RAD23_N Ubiquitin-like domain of RAD23. RAD23 belo	99.74
cd01791	73	Ubl5 UBL5 ubiquitin-like modifier. UBL5 (also know	99.73
cd01794	70	DC_UbP_C dendritic cell derived ubiquitin-like pro	99.72
cd01797	78	NIRF_N amino-terminal ubiquitin-like domain of Np9	99.72
cd01810	74	ISG15_repeat2 ISG15 ubiquitin-like protein, second	99.71
cd01809	72	Scythe_N Ubiquitin-like domain of Scythe protein.	99.71
cd01798	70	parkin_N amino-terminal ubiquitin-like of parkin p	99.71
PTZ00044	76	ubiquitin; Provisional	99.7
cd01798	70	parkin_N amino-terminal ubiquitin-like of parkin p	99.69
cd01804	78	midnolin_N Ubiquitin-like domain of midnolin. midn	99.69
cd01794	70	DC_UbP_C dendritic cell derived ubiquitin-like pro	99.69
cd01792	80	ISG15_repeat1 ISG15 ubiquitin-like protein, first	99.69
cd01806	76	Nedd8 Nebb8-like ubiquitin protein. Nedd8 (also kn	99.68
cd01803	76	Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40	99.68
cd01808	71	hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC	99.67
KOG0003	128	consensus Ubiquitin/60s ribosomal protein L40 fusi	99.67
KOG0005	70	consensus Ubiquitin-like protein [Cell cycle contr	99.66
cd01805	77	RAD23_N Ubiquitin-like domain of RAD23. RAD23 belo	99.66
KOG0003	128	consensus Ubiquitin/60s ribosomal protein L40 fusi	99.66
cd01792	80	ISG15_repeat1 ISG15 ubiquitin-like protein, first	99.66
PF00240	69	ubiquitin: Ubiquitin family; InterPro: IPR000626 U	99.65
KOG0004	156	consensus Ubiquitin/40S ribosomal protein S27a fus	99.64
cd01809	72	Scythe_N Ubiquitin-like domain of Scythe protein.	99.64
cd01796	71	DDI1_N DNA damage inducible protein 1 ubiquitin-li	99.64
cd01800	76	SF3a120_C Ubiquitin-like domain of Mammalian splic	99.64
cd01796	71	DDI1_N DNA damage inducible protein 1 ubiquitin-li	99.64
cd01808	71	hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC	99.64
KOG0005	70	consensus Ubiquitin-like protein [Cell cycle contr	99.62
cd01790	79	Herp_N Homocysteine-responsive endoplasmic reticul	99.61
KOG0004	156	consensus Ubiquitin/40S ribosomal protein S27a fus	99.61
cd01790	79	Herp_N Homocysteine-responsive endoplasmic reticul	99.61
PF00240	69	ubiquitin: Ubiquitin family; InterPro: IPR000626 U	99.61
cd01763	87	Sumo Small ubiquitin-related modifier (SUMO). Smal	99.6
cd01813	74	UBP_N UBP ubiquitin processing protease. The UBP (	99.6
cd01812	71	BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-ter	99.59
cd01800	76	SF3a120_C Ubiquitin-like domain of Mammalian splic	99.58
cd01812	71	BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-ter	99.56
cd01813	74	UBP_N UBP ubiquitin processing protease. The UBP (	99.55
cd01815	75	BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP. BMSC	99.53
cd01763	87	Sumo Small ubiquitin-related modifier (SUMO). Smal	99.52
smart00213	64	UBQ Ubiquitin homologues. Ubiquitin-mediated prote	99.51
TIGR00601	378	rad23 UV excision repair protein Rad23. All protei	99.49
TIGR00601	378	rad23 UV excision repair protein Rad23. All protei	99.45
cd01799	75	Hoil1_N Ubiquitin-like domain of HOIL1. HOIL1_N HO	99.43
cd01799	75	Hoil1_N Ubiquitin-like domain of HOIL1. HOIL1_N HO	99.43
cd01815	75	BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP. BMSC	99.41
smart00213	64	UBQ Ubiquitin homologues. Ubiquitin-mediated prote	99.36
KOG0011	340	consensus Nucleotide excision repair factor NEF2,	99.3
cd01769	69	UBL Ubiquitin-like domain of UBL. UBLs function by	99.3
KOG0010	493	consensus Ubiquitin-like protein [Posttranslationa	99.3
cd01814	113	NTGP5 Ubiquitin-like NTGP5 and ATGP4. NTGP5 and AT	99.28
PF11976	72	Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; Inter	99.27
cd01795	107	USP48_C USP ubiquitin-specific protease. The USP (	99.26
KOG0011	340	consensus Nucleotide excision repair factor NEF2,	99.24
cd01814	113	NTGP5 Ubiquitin-like NTGP5 and ATGP4. NTGP5 and AT	99.23
KOG0010	493	consensus Ubiquitin-like protein [Posttranslationa	99.22
cd01769	69	UBL Ubiquitin-like domain of UBL. UBLs function by	99.22
PF11976	72	Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; Inter	99.19
cd01795	107	USP48_C USP ubiquitin-specific protease. The USP (	99.15
cd01789	84	Alp11_N Ubiquitin-like domain of Alp11 tubulin-fol	99.04
cd01789	84	Alp11_N Ubiquitin-like domain of Alp11 tubulin-fol	98.98
KOG0001	75	consensus Ubiquitin and ubiquitin-like proteins [P	98.95
cd01788	119	ElonginB Ubiquitin-like domain of Elongin B. Elong	98.88
PLN02560	308	enoyl-CoA reductase	98.88
KOG0001	75	consensus Ubiquitin and ubiquitin-like proteins [P	98.84
KOG4248	1143	consensus Ubiquitin-like protein, regulator of apo	98.81
PF14560	87	Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2K	98.79
PF14560	87	Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2K	98.77
PLN02560	308	enoyl-CoA reductase	98.76
PF13881	111	Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB	98.65
KOG4248	1143	consensus Ubiquitin-like protein, regulator of apo	98.62
cd01801	77	Tsc13_N Ubiquitin-like domain of Tsc13. Tsc13_N N-	98.61
cd01801	77	Tsc13_N Ubiquitin-like domain of Tsc13. Tsc13_N N-	98.61
PF13881	111	Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB	98.59
cd01811	80	OASL_repeat1 2'-5' oligoadenylate synthetase-like	98.57
cd01788	119	ElonginB Ubiquitin-like domain of Elongin B. Elong	98.56
PF11543	80	UN_NPL4: Nuclear pore localisation protein NPL4; I	98.46
cd00196	69	UBQ Ubiquitin-like proteins. Ubiquitin homologs; I	98.4
PF11543	80	UN_NPL4: Nuclear pore localisation protein NPL4; I	98.35
cd00196	69	UBQ Ubiquitin-like proteins. Ubiquitin homologs; I	98.2
KOG1769	99	consensus Ubiquitin-like proteins [Posttranslation	98.2
KOG3493	73	consensus Ubiquitin-like protein [Posttranslationa	98.17
KOG1872	473	consensus Ubiquitin-specific protease [Posttransla	98.1
KOG0006	446	consensus E3 ubiquitin-protein ligase (Parkin prot	98.08
cd01811	80	OASL_repeat1 2'-5' oligoadenylate synthetase-like	98.08
KOG0006	446	consensus E3 ubiquitin-protein ligase (Parkin prot	97.77
KOG4495	110	consensus RNA polymerase II transcription elongati	97.59
KOG1769	99	consensus Ubiquitin-like proteins [Posttranslation	97.57
PF11470	65	TUG-UBL1: GLUT4 regulating protein TUG; InterPro:	97.33
PF11470	65	TUG-UBL1: GLUT4 regulating protein TUG; InterPro:	97.29
KOG4495	110	consensus RNA polymerase II transcription elongati	97.27
PF13019	162	Telomere_Sde2: Telomere stability and silencing	97.24
PF08817	79	YukD: WXG100 protein secretion system (Wss), prote	97.22
KOG3493	73	consensus Ubiquitin-like protein [Posttranslationa	97.19
COG5227	103	SMT3 Ubiquitin-like protein (sentrin) [Posttransla	97.12
KOG1872	473	consensus Ubiquitin-specific protease [Posttransla	97.11
PF08817	79	YukD: WXG100 protein secretion system (Wss), prote	97.09
PF00789	82	UBX: UBX domain; InterPro: IPR001012 The UBX domai	97.07
PF10302	97	DUF2407: DUF2407 ubiquitin-like domain; InterPro:	96.98
KOG0013	231	consensus Uncharacterized conserved protein [Funct	96.89
PF10302	97	DUF2407: DUF2407 ubiquitin-like domain; InterPro:	96.85
PF00789	82	UBX: UBX domain; InterPro: IPR001012 The UBX domai	96.76
smart00166	80	UBX Domain present in ubiquitin-regulatory protein	96.72
COG5417	81	Uncharacterized small protein [Function unknown]	96.62
COG5227	103	SMT3 Ubiquitin-like protein (sentrin) [Posttransla	96.58
KOG1639	297	consensus Steroid reductase required for elongatio	96.44
COG5417	81	Uncharacterized small protein [Function unknown]	96.43
cd01770	79	p47_UBX p47-like ubiquitin domain. p47_UBX p47 is	96.43
smart00166	80	UBX Domain present in ubiquitin-regulatory protein	96.33
cd01772	79	SAKS1_UBX SAKS1-like UBX domain. SAKS1 (SAPK-subst	96.19
cd01767	77	UBX UBX (ubiquitin regulatory X) domain. The UBX (	96.19
cd01767	77	UBX UBX (ubiquitin regulatory X) domain. The UBX (	96.11
KOG0013	231	consensus Uncharacterized conserved protein [Funct	96.08
PRK06437	67	hypothetical protein; Provisional	96.04
KOG1639	297	consensus Steroid reductase required for elongatio	96.02
cd01774	85	Faf1_like2_UBX Faf1 ike-2 UBX domain. Faf1_like2 i	96.02
cd01773	82	Faf1_like1_UBX Faf1 ike-1 UBX domain. Faf1_like1 i	95.85
cd01773	82	Faf1_like1_UBX Faf1 ike-1 UBX domain. Faf1_like1 i	95.81
cd01772	79	SAKS1_UBX SAKS1-like UBX domain. SAKS1 (SAPK-subst	95.74
cd01774	85	Faf1_like2_UBX Faf1 ike-2 UBX domain. Faf1_like2 i	95.71
PF13019	162	Telomere_Sde2: Telomere stability and silencing	95.5
cd01770	79	p47_UBX p47-like ubiquitin domain. p47_UBX p47 is	95.45
PRK08364	70	sulfur carrier protein ThiS; Provisional	95.28
cd01771	80	Faf1_UBX Faf1 UBX domain. Faf1 (fas-associated fac	95.2
cd01771	80	Faf1_UBX Faf1 UBX domain. Faf1 (fas-associated fac	95.17
cd00754	80	MoaD Ubiquitin domain of MoaD-like proteins. MoaD	94.78
cd00565	65	ThiS ThiaminS ubiquitin-like sulfur carrier protei	94.73
PRK06488	65	sulfur carrier protein ThiS; Validated	94.47
KOG3206	234	consensus Alpha-tubulin folding cofactor B [Posttr	94.35
PF14836	88	Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A	94.24
PF02597	77	ThiS: ThiS family; InterPro: IPR003749 ThiS (thiam	94.01
PF15044	76	CLU_N: Mitochondrial function, CLU-N-term	93.93
PF15044	76	CLU_N: Mitochondrial function, CLU-N-term	93.85
TIGR01683	64	thiS thiamine biosynthesis protein ThiS. This mode	93.81
PF11620	88	GABP-alpha: GA-binding protein alpha chain; InterP	93.79
PF09379	80	FERM_N: FERM N-terminal domain ; InterPro: IPR0189	93.33
PRK06437	67	hypothetical protein; Provisional	93.25
PRK07440	70	hypothetical protein; Provisional	93.08
TIGR01687	88	moaD_arch MoaD family protein, archaeal. Members o	92.78
KOG4583	391	consensus Membrane-associated ER protein involved	92.73
PRK06488	65	sulfur carrier protein ThiS; Validated	92.65
TIGR01682	80	moaD molybdopterin converting factor, subunit 1, n	92.51
PLN02799	82	Molybdopterin synthase sulfur carrier subunit	92.42
PF11620	88	GABP-alpha: GA-binding protein alpha chain; InterP	92.03
PF14533	213	USP7_C2: Ubiquitin-specific protease C-terminal; P	91.77
cd06406	80	PB1_P67 A PB1 domain is present in p67 proteins wh	91.67
cd06409	86	PB1_MUG70 The MUG70 protein is a product of the me	91.64
KOG3206	234	consensus Alpha-tubulin folding cofactor B [Posttr	91.62
PRK08364	70	sulfur carrier protein ThiS; Provisional	91.36
PF12436	249	USP7_ICP0_bdg: ICP0-binding domain of Ubiquitin-sp	91.06
PF14453	57	ThiS-like: ThiS-like ubiquitin	90.99
PRK05863	65	sulfur carrier protein ThiS; Provisional	90.58
PRK06083	84	sulfur carrier protein ThiS; Provisional	90.29
KOG4583	391	consensus Membrane-associated ER protein involved	90.14
COG2104	68	ThiS Sulfur transfer protein involved in thiamine	90.09
PRK08053	66	sulfur carrier protein ThiS; Provisional	89.96
cd00754	80	MoaD Ubiquitin domain of MoaD-like proteins. MoaD	89.77
PLN02799	82	Molybdopterin synthase sulfur carrier subunit	89.65
PRK11130	81	moaD molybdopterin synthase small subunit; Provisi	89.49
cd01760	72	RBD Ubiquitin-like domain of RBD-like S/T kinases.	89.37
PF10790	76	DUF2604: Protein of Unknown function (DUF2604); In	88.99
smart00455	70	RBD Raf-like Ras-binding domain.	88.94
PRK05659	66	sulfur carrier protein ThiS; Validated	88.7
PF09379	80	FERM_N: FERM N-terminal domain ; InterPro: IPR0189	88.56
smart00666	81	PB1 PB1 domain. Phox and Bem1p domain, present in	88.5
cd06407	82	PB1_NLP A PB1 domain is present in NIN like protei	88.22
KOG4598	1203	consensus Putative ubiquitin-specific protease [Po	88.09
PRK07696	67	sulfur carrier protein ThiS; Provisional	88.06
KOG0012	380	consensus DNA damage inducible protein [Replicatio	87.55
PRK05863	65	sulfur carrier protein ThiS; Provisional	87.42
PRK05659	66	sulfur carrier protein ThiS; Validated	87.32
PRK06944	65	sulfur carrier protein ThiS; Provisional	86.66
PF11069	98	DUF2870: Protein of unknown function (DUF2870); In	86.25
PF08337	539	Plexin_cytopl: Plexin cytoplasmic RasGAP domain; I	85.94
PF14453	57	ThiS-like: ThiS-like ubiquitin	85.86
smart00455	70	RBD Raf-like Ras-binding domain.	85.68
PRK08053	66	sulfur carrier protein ThiS; Provisional	85.57
cd06408	86	PB1_NoxR The PB1 domain is present in the Epichloe	83.81
cd06406	80	PB1_P67 A PB1 domain is present in p67 proteins wh	83.61
cd01760	72	RBD Ubiquitin-like domain of RBD-like S/T kinases.	83.31
cd00565	65	ThiS ThiaminS ubiquitin-like sulfur carrier protei	83.29
smart00295	207	B41 Band 4.1 homologues. Also known as ezrin/radix	83.17
PF10790	76	DUF2604: Protein of Unknown function (DUF2604); In	83.0
PF08337	539	Plexin_cytopl: Plexin cytoplasmic RasGAP domain; I	82.97
PF14451	81	Ub-Mut7C: Mut7-C ubiquitin	82.22
KOG2086	380	consensus Protein tyrosine phosphatase SHP1/Cofact	82.17
TIGR01682	80	moaD molybdopterin converting factor, subunit 1, n	82.16
PF02196	71	RBD: Raf-like Ras-binding domain; InterPro: IPR003	81.87
COG1977	84	MoaD Molybdopterin converting factor, small subuni	81.85
PRK07440	70	hypothetical protein; Provisional	81.84
PF12436	249	USP7_ICP0_bdg: ICP0-binding domain of Ubiquitin-sp	80.88
PF14533	213	USP7_C2: Ubiquitin-specific protease C-terminal; P	80.88
PF12754	309	Blt1: Cell-cycle control medial ring component; In	80.85
PF10209	122	DUF2340: Uncharacterized conserved protein (DUF234	80.83
PRK06083	84	sulfur carrier protein ThiS; Provisional	80.54
TIGR01683	64	thiS thiamine biosynthesis protein ThiS. This mode	80.18

>cd01802 AN1_N ubiquitin-like domain of AN1

Probab=99.81  E-value=3e-19  Score=133.27  Aligned_cols=92  Identities=13%  Similarity=0.225  Sum_probs=85.3

Q ss_pred             cccCCCCCCEEEEEEccCCCCCCCCCCCCCCcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCce
Q 044874          153 RDCELMDNAEIDVHVRPSPTATSTTSSGMGPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGY  232 (269)
Q Consensus       153 ~~y~i~~~~~i~l~~~~~~~~~~~~~~~~~~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q  232 (269)
                      -.|++.+-+++|+.+++++             .|+|+|++..| +++.++|++++||.+||++|++++     |+|+++|
T Consensus         8 ~~~~~~~~~~~~~~~~~~~-------------~M~I~Vk~l~G-~~~~leV~~~~TV~~lK~kI~~~~-----gip~~~Q   68 (103)
T cd01802           8 PFFNEDNMGPFHYKLPFYD-------------TMELFIETLTG-TCFELRVSPFETVISVKAKIQRLE-----GIPVAQQ   68 (103)
T ss_pred             CccccCCcceeEEeeccCC-------------CEEEEEEcCCC-CEEEEEeCCCCcHHHHHHHHHHHh-----CCChHHE
Confidence            3577888999999999873             49999999998 999999999999999999999987     9999999


Q ss_pred             EEEecCeeecCCCccccccCCCCCEEEEecC
Q 044874          233 FFIYKQNVMDDDRSFRWHHVGQGDTIEIFNG  263 (269)
Q Consensus       233 ~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~  263 (269)
                      +|+|+|+.|+|+.+|++|+|+++++|+++..
T Consensus        69 rLi~~Gk~L~D~~tL~dy~I~~~stL~l~~~   99 (103)
T cd01802          69 HLIWNNMELEDEYCLNDYNISEGCTLKLVLA   99 (103)
T ss_pred             EEEECCEECCCCCcHHHcCCCCCCEEEEEEe
Confidence            9999999999999999999999999999864

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.

>cd01807 GDX_N ubiquitin-like domain of GDX

Probab=99.80  E-value=2.7e-19  Score=126.05  Aligned_cols=73  Identities=23%  Similarity=0.430  Sum_probs=71.5

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEec
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVAS   73 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~   73 (269)
                      |+|+||+.+|++++++|++++||++||++|++++|+|+++|+|+|+|+.|+|+.+|++|+|++++++++++++
T Consensus         1 m~i~vk~~~G~~~~l~v~~~~tV~~lK~~i~~~~gi~~~~q~L~~~G~~L~d~~~L~~~~i~~~~~l~l~~~~   73 (74)
T cd01807           1 MFLTVKLLQGRECSLQVSEKESVSTLKKLVSEHLNVPEEQQRLLFKGKALADDKRLSDYSIGPNAKLNLVVRP   73 (74)
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEECCCCCCHHHCCCCCCCEEEEEEcC
Confidence            8999999999999999999999999999999999999999999999999999999999999999999999875

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

>cd01793 Fubi Fubi ubiquitin-like protein

Probab=99.80  E-value=3.5e-19  Score=125.48  Aligned_cols=74  Identities=24%  Similarity=0.365  Sum_probs=71.2

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNK   76 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g   76 (269)
                      |+|+||+  +++++++|++++||+++|++|++++|+|+++|+|+|+|+.|+|+.+|++|+|+++++++++++..||
T Consensus         1 mqi~vk~--~~~~~l~v~~~~tV~~lK~~i~~~~gip~~~q~Li~~Gk~L~D~~tL~~~~i~~~~tl~l~~~l~GG   74 (74)
T cd01793           1 MQLFVRA--QNTHTLEVTGQETVSDIKAHVAGLEGIDVEDQVLLLAGVPLEDDATLGQCGVEELCTLEVAGRLLGG   74 (74)
T ss_pred             CEEEEEC--CCEEEEEECCcCcHHHHHHHHHhhhCCCHHHEEEEECCeECCCCCCHHHcCCCCCCEEEEEEecCCC
Confidence            8999998  4789999999999999999999999999999999999999999999999999999999999999875

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

>PTZ00044 ubiquitin; Provisional

Probab=99.79  E-value=9.1e-19  Score=124.02  Aligned_cols=76  Identities=20%  Similarity=0.401  Sum_probs=74.1

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNK   76 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g   76 (269)
                      |+|+||+.+|+++++++++++||++||++|++.+|+|++.|+|+|+|+.|+|+.+|++|++++++++++.++..||
T Consensus         1 m~i~vk~~~G~~~~l~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~L~d~~~l~~~~i~~~~~i~l~~~~~gg   76 (76)
T PTZ00044          1 MQILIKTLTGKKQSFNFEPDNTVQQVKMALQEKEGIDVKQIRLIYSGKQMSDDLKLSDYKVVPGSTIHMVLQLRGG   76 (76)
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEEccCCCcHHHcCCCCCCEEEEEEEccCC
Confidence            8999999999999999999999999999999999999999999999999999999999999999999999998765

>cd01802 AN1_N ubiquitin-like domain of AN1

Probab=99.78  E-value=1.6e-18  Score=129.39  Aligned_cols=76  Identities=30%  Similarity=0.586  Sum_probs=74.2

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNK   76 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g   76 (269)
                      |+|+|++.+|++++++|++++||.+||++|+++.|+|+++|+|+|+|+.|+|+.+|++|+|+++++|+++++.+||
T Consensus        28 M~I~Vk~l~G~~~~leV~~~~TV~~lK~kI~~~~gip~~~QrLi~~Gk~L~D~~tL~dy~I~~~stL~l~~~l~GG  103 (103)
T cd01802          28 MELFIETLTGTCFELRVSPFETVISVKAKIQRLEGIPVAQQHLIWNNMELEDEYCLNDYNISEGCTLKLVLAMRGG  103 (103)
T ss_pred             EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEecCCC
Confidence            8999999999999999999999999999999999999999999999999999999999999999999999998875

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.

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

Probab=99.77  E-value=2.6e-18  Score=121.96  Aligned_cols=74  Identities=27%  Similarity=0.375  Sum_probs=71.0

Q ss_pred             CEEEEEcCCCCE-EEEE-EcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecC
Q 044874            1 MDVIFEPQRGKA-FTIE-VGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASD   74 (269)
Q Consensus         1 M~i~vk~~~g~~-~~l~-v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~   74 (269)
                      |+|+||+.+|++ ++++ +++++||++||++|++.+|+|+++|||+|+|+.|+|+.+|++|||+++++|++++++.
T Consensus         1 M~I~vk~~~G~~~~~l~~v~~~~TV~~lK~~i~~~~gi~~~~QrLi~~Gk~L~D~~tL~~y~i~~~~~i~l~~~~~   76 (78)
T cd01797           1 MWIQVRTMDGKETRTVDSLSRLTKVEELREKIQELFNVEPECQRLFYRGKQMEDGHTLFDYNVGLNDIIQLLVRQD   76 (78)
T ss_pred             CEEEEEcCCCCEEEEeeccCCcCcHHHHHHHHHHHhCCCHHHeEEEeCCEECCCCCCHHHcCCCCCCEEEEEEecC
Confidence            999999999997 7895 8999999999999999999999999999999999999999999999999999999875

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.

>cd01803 Ubiquitin Ubiquitin

Probab=99.76  E-value=5.9e-18  Score=119.70  Aligned_cols=76  Identities=32%  Similarity=0.535  Sum_probs=74.1

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNK   76 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g   76 (269)
                      |+|+|++.+|+++.+++++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|+++++++|++.++..||
T Consensus         1 m~i~v~~~~g~~~~~~v~~~~tV~~lK~~i~~~~g~~~~~q~L~~~g~~L~d~~~L~~~~i~~~~~i~l~~~~~gg   76 (76)
T cd01803           1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG   76 (76)
T ss_pred             CEEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhCCCHHHeEEEECCEECCCCCcHHHcCCCCCCEEEEEEEccCC
Confidence            8999999999999999999999999999999999999999999999999999999999999999999999998875

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

>cd01806 Nedd8 Nebb8-like ubiquitin protein

Probab=99.76  E-value=7.4e-18  Score=119.19  Aligned_cols=76  Identities=28%  Similarity=0.477  Sum_probs=73.9

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNK   76 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g   76 (269)
                      |+|+|++.+|+++.+++++++||++||++|++..|+|+++|+|+|+|+.|.|+.+|++|+++++++|+++++.+||
T Consensus         1 m~i~v~~~~g~~~~~~v~~~~tv~~lK~~i~~~~g~~~~~qrL~~~g~~L~d~~tl~~~~i~~g~~i~l~~~~~gg   76 (76)
T cd01806           1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDDKTAADYKLEGGSVLHLVLALRGG   76 (76)
T ss_pred             CEEEEEeCCCCEEEEEECCCCCHHHHHHHHhHhhCCChhhEEEEECCeEccCCCCHHHcCCCCCCEEEEEEEccCC
Confidence            8999999999999999999999999999999999999999999999999999999999999999999999998765

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.

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

Probab=99.75  E-value=5.8e-18  Score=119.23  Aligned_cols=74  Identities=14%  Similarity=0.297  Sum_probs=71.6

Q ss_pred             EEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCC
Q 044874            3 VIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNK   76 (269)
Q Consensus         3 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g   76 (269)
                      |+||++.|+++++++++++||++||++|++..|+|+++|+|+|+|+.|+|+.+|++|||++++++++.++..||
T Consensus         1 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~D~~tL~~~~i~~~~tl~l~~~l~gg   74 (74)
T cd01810           1 ILVRNDKGRSSIYEVQLTQTVATLKQQVSQRERVQADQFWLSFEGRPMEDEHPLGEYGLKPGCTVFMNLRLRGG   74 (74)
T ss_pred             CEEECCCCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCEECCCCCCHHHcCCCCCCEEEEEEEccCC
Confidence            68999999999999999999999999999999999999999999999999999999999999999999998765

ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains and becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.

>cd01791 Ubl5 UBL5 ubiquitin-like modifier

Probab=99.75  E-value=5.7e-18  Score=118.50  Aligned_cols=71  Identities=20%  Similarity=0.242  Sum_probs=68.7

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEE
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLV   71 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~   71 (269)
                      |+|+|+++.|+.+.+++++++||++||++|+++.|+|+++|||+|+|+.|+|+.+|++|||.++++|||..
T Consensus         2 ~~i~vkt~~Gk~~~~~v~~~~TV~~LK~~I~~~~~~~~~~qrLi~~Gk~L~D~~tL~~ygi~~~stv~l~~   72 (73)
T cd01791           2 IEVVCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRPEKIVLKKWYTIFKDHISLGDYEIHDGMNLELYY   72 (73)
T ss_pred             EEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEeCCcCCCCCCCHHHcCCCCCCEEEEEe
Confidence            78999999999999999999999999999999999999999999999999999999999999999999863

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

>cd01804 midnolin_N Ubiquitin-like domain of midnolin

Probab=99.75  E-value=7e-18  Score=119.92  Aligned_cols=76  Identities=17%  Similarity=0.278  Sum_probs=73.4

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKP   77 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~   77 (269)
                      |+|+|++..|+.+.+++++++||++||++|+++.++++++|+|+|+|+.|+|+ +|++|||+++++|+++....+|.
T Consensus         2 m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~~~~~~~qrL~~~Gk~L~d~-~L~~~gi~~~~~i~l~~~~~~~~   77 (78)
T cd01804           2 MNLNIHSTTGTRFDLSVPPDETVEGLKKRISQRLKVPKERLALLHRETRLSSG-KLQDLGLGDGSKLTLVPTVEAGL   77 (78)
T ss_pred             eEEEEEECCCCEEEEEECCcCHHHHHHHHHHHHhCCChHHEEEEECCcCCCCC-cHHHcCCCCCCEEEEEeeccccC
Confidence            89999999999999999999999999999999999999999999999999998 99999999999999999998774

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.

>cd01807 GDX_N ubiquitin-like domain of GDX

Probab=99.75  E-value=5.9e-18  Score=119.21  Aligned_cols=72  Identities=18%  Similarity=0.346  Sum_probs=68.7

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecC
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNG  263 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~  263 (269)
                      |+|+|++.+| +++.++|++++||++||++|+++.     |+|+++|+|+|+|+.|+|+.+|++|||+++++|+++.+
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 MFLTVKLLQG-RECSLQVSEKESVSTLKKLVSEHL-----NVPEEQQRLLFKGKALADDKRLSDYSIGPNAKLNLVVR   72 (74)
T ss_pred             CEEEEEeCCC-CEEEEEECCCCcHHHHHHHHHHHH-----CCCHHHeEEEECCEECCCCCCHHHCCCCCCCEEEEEEc
Confidence            6899999998 899999999999999999999987     99999999999999999999999999999999999853

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

>cd01793 Fubi Fubi ubiquitin-like protein

Probab=99.74  E-value=8.7e-18  Score=118.35  Aligned_cols=74  Identities=19%  Similarity=0.330  Sum_probs=67.1

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCcc
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSV  265 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~  265 (269)
                      |+|+|+.  + +++.++|++++||++||++|++++     |+|+++|+|+|+|+.|+|+++|++|||++++||+++. |+
T Consensus         1 mqi~vk~--~-~~~~l~v~~~~tV~~lK~~i~~~~-----gip~~~q~Li~~Gk~L~D~~tL~~~~i~~~~tl~l~~-~l   71 (74)
T cd01793           1 MQLFVRA--Q-NTHTLEVTGQETVSDIKAHVAGLE-----GIDVEDQVLLLAGVPLEDDATLGQCGVEELCTLEVAG-RL   71 (74)
T ss_pred             CEEEEEC--C-CEEEEEECCcCcHHHHHHHHHhhh-----CCCHHHEEEEECCeECCCCCCHHHcCCCCCCEEEEEE-ec
Confidence            6899986  3 689999999999999999999987     9999999999999999999999999999999999985 34


Q ss_pred             cCC
Q 044874          266 TGG  268 (269)
Q Consensus       266 ~~~  268 (269)
                      .||
T Consensus        72 ~GG   74 (74)
T cd01793          72 LGG   74 (74)
T ss_pred             CCC
Confidence            443

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.

>cd01805 RAD23_N Ubiquitin-like domain of RAD23

Probab=99.74  E-value=2.4e-17  Score=116.98  Aligned_cols=74  Identities=35%  Similarity=0.593  Sum_probs=71.7

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCC--CCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGI--PVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASD   74 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi--~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~   74 (269)
                      |+|+|++.+|+++.+++++++||.+||++|++.+|+  |+++|+|+|+|+.|+|+.+|++||++++++|+++++.+
T Consensus         1 m~i~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~i~~~~~~q~L~~~G~~L~d~~~L~~~~i~~~~~i~~~~~~~   76 (77)
T cd01805           1 MKITFKTLKQQTFPIEVDPDDTVAELKEKIEEEKGCDYPPEQQKLIYSGKILKDDTTLEEYKIDEKDFVVVMVSKP   76 (77)
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCCChhHeEEEECCEEccCCCCHHHcCCCCCCEEEEEEecC
Confidence            899999999999999999999999999999999999  99999999999999999999999999999999998764

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

>cd01791 Ubl5 UBL5 ubiquitin-like modifier

Probab=99.73  E-value=1.5e-17  Score=116.41  Aligned_cols=70  Identities=16%  Similarity=0.300  Sum_probs=67.1

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEe
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIF  261 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~  261 (269)
                      |.|+|++..| +.+.+++++++||.+||++|+++.     ++|+++|+|+|.|++|+|+.+|++|||++|++||+.
T Consensus         2 ~~i~vkt~~G-k~~~~~v~~~~TV~~LK~~I~~~~-----~~~~~~qrLi~~Gk~L~D~~tL~~ygi~~~stv~l~   71 (73)
T cd01791           2 IEVVCNDRLG-KKVRVKCNPDDTIGDLKKLIAAQT-----GTRPEKIVLKKWYTIFKDHISLGDYEIHDGMNLELY   71 (73)
T ss_pred             EEEEEECCCC-CEEEEEeCCCCcHHHHHHHHHHHh-----CCChHHEEEEeCCcCCCCCCCHHHcCCCCCCEEEEE
Confidence            7899999988 999999999999999999999986     899999999999999999999999999999999986

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.

>cd01794 DC_UbP_C dendritic cell derived ubiquitin-like protein

Probab=99.72  E-value=2.9e-17  Score=114.13  Aligned_cols=69  Identities=23%  Similarity=0.382  Sum_probs=66.6

Q ss_pred             EEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEE
Q 044874            3 VIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLV   71 (269)
Q Consensus         3 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~   71 (269)
                      +.||..+|+++++++++++||+++|++|++.+|+|+++|+|+|+|+.|+|+.+|++|+|+++++||+++
T Consensus         1 ~~vk~~~G~~~~l~v~~~~TV~~lK~~I~~~~gi~~~~q~Li~~G~~L~D~~~l~~~~i~~~~tv~~~~   69 (70)
T cd01794           1 LKVRLSTGKDVKLSVSSKDTVGQLKKQLQAAEGVDPCCQRWFFSGKLLTDKTRLQETKIQKDYVVQVIV   69 (70)
T ss_pred             CeEEcCCCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCeECCCCCCHHHcCCCCCCEEEEEe
Confidence            368899999999999999999999999999999999999999999999999999999999999999986

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

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

Probab=99.72  E-value=2.7e-17  Score=116.74  Aligned_cols=72  Identities=25%  Similarity=0.373  Sum_probs=67.0

Q ss_pred             eeEEEEecCCCeE-EEEE-ecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecC
Q 044874          186 LKLLVLTQCGNKR-IPVE-VNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNG  263 (269)
Q Consensus       186 ~~i~V~~~~g~~~-~~l~-v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~  263 (269)
                      |+|+|++.+| ++ +.++ +++++||.+||++|++++     |+|+++|+|+|+|+.|+|+.+|++|||++|++|+++..
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 MWIQVRTMDG-KETRTVDSLSRLTKVEELREKIQELF-----NVEPECQRLFYRGKQMEDGHTLFDYNVGLNDIIQLLVR   74 (78)
T ss_pred             CEEEEEcCCC-CEEEEeeccCCcCcHHHHHHHHHHHh-----CCCHHHeEEEeCCEECCCCCCHHHcCCCCCCEEEEEEe
Confidence            7899999999 64 7895 899999999999999987     99999999999999999999999999999999999853

NIRF_N This CD represents the amino-terminal ubiquitin-like domain of a family of nuclear proteins that includes Np95 and NIRF (Np95/ICBP90-like RING finger) protein. Both Np95 and NIRF have a domain architecture consisting of a ubiquitin-like domain, a PHD finger, a YDG/SRA domain, Rb-binding motifs and a RING finger domain. Both Np95 and NIRF are ubiquitin ligases that ubiquitinate PCNP (PEST-containing nuclear proteins). While Np95 is capable of binding histones, NIRF is involved in cell cycle regulation.

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

Probab=99.71  E-value=2.5e-17  Score=116.01  Aligned_cols=70  Identities=17%  Similarity=0.304  Sum_probs=66.8

Q ss_pred             EEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecC
Q 044874          188 LLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNG  263 (269)
Q Consensus       188 i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~  263 (269)
                      |+|++..| +++.+++++++||++||++|+++.     |+|+++|+|+|+|+.|+|+++|++|||+++++|+++..
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 ILVRNDKG-RSSIYEVQLTQTVATLKQQVSQRE-----RVQADQFWLSFEGRPMEDEHPLGEYGLKPGCTVFMNLR   70 (74)
T ss_pred             CEEECCCC-CEEEEEECCcChHHHHHHHHHHHh-----CCCHHHeEEEECCEECCCCCCHHHcCCCCCCEEEEEEE
Confidence            58899998 999999999999999999999987     99999999999999999999999999999999999864

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.

>cd01809 Scythe_N Ubiquitin-like domain of Scythe protein

Probab=99.71  E-value=8.3e-17  Score=112.57  Aligned_cols=72  Identities=31%  Similarity=0.496  Sum_probs=69.8

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEe
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVA   72 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~   72 (269)
                      |+|+||..+|+++++++++++||.+||++|++.+|+|++.|+|+|+|+.|+|+.+|++||++++++++++.+
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            899999999999999999999999999999999999999999999999999999999999999999999864

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.

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

Probab=99.71  E-value=5.5e-17  Score=112.99  Aligned_cols=70  Identities=24%  Similarity=0.483  Sum_probs=67.6

Q ss_pred             EEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEe
Q 044874            3 VIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVA   72 (269)
Q Consensus         3 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~   72 (269)
                      |+||+.+|+++++++++++||+++|++|+++.|+|+++|+|+|+|+.|+|+.+|++|+|++++++|++.|
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            5899999999999999999999999999999999999999999999999999999999999999999864

parkin_N parkin protein is a RING-type E3 ubiquitin ligase with an amino-terminal ubiquitin-like (Ubl) domain and an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain. Naturally occurring mutations in parkin are thought to cause the disease AR_JP (autosomal-recessive juvenile parkinsonism). Parkin binds the Rpn10 subunit of 26S proteasomes through its Ubl domain.

>PTZ00044 ubiquitin; Provisional

Probab=99.70  E-value=6.2e-17  Score=114.56  Aligned_cols=72  Identities=22%  Similarity=0.326  Sum_probs=69.0

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecC
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNG  263 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~  263 (269)
                      |+|+|++.+| +++.+++++++||++||++|+++.     |+|+++|+|+|+|+.|+|+.+|++|+|+++++|+++..
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 MQILIKTLTG-KKQSFNFEPDNTVQQVKMALQEKE-----GIDVKQIRLIYSGKQMSDDLKLSDYKVVPGSTIHMVLQ   72 (76)
T ss_pred             CEEEEEeCCC-CEEEEEECCCCcHHHHHHHHHHHH-----CCCHHHeEEEECCEEccCCCcHHHcCCCCCCEEEEEEE
Confidence            6899999999 899999999999999999999987     99999999999999999999999999999999999864

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

Probab=99.69  E-value=7.4e-17  Score=112.36  Aligned_cols=69  Identities=20%  Similarity=0.401  Sum_probs=65.8

Q ss_pred             EEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEec
Q 044874          188 LLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       188 i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      |+|++..| +++.+++++++||++||++|+++.     |+|+++|+|+|+|++|+|+.+|++|||++||+||++.
T Consensus         1 i~vk~~~g-~~~~~~v~~~~tV~~lK~~i~~~~-----gi~~~~q~Li~~G~~L~d~~~l~~~~i~~~stl~l~~   69 (70)
T cd01798           1 VYVRTNTG-HTFPVEVDPDTDIKQLKEVVAKRQ-----GVPPDQLRVIFAGKELRNTTTIQECDLGQQSILHAVR   69 (70)
T ss_pred             CEEEcCCC-CEEEEEECCCChHHHHHHHHHHHH-----CCCHHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEe
Confidence            57888888 999999999999999999999987     9999999999999999999999999999999999975

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.

>cd01804 midnolin_N Ubiquitin-like domain of midnolin

Probab=99.69  E-value=1.1e-16  Score=113.79  Aligned_cols=72  Identities=14%  Similarity=0.349  Sum_probs=68.1

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCc
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGS  264 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~  264 (269)
                      |+|+|++.+| +.+.+++++++||++||++|+++.     ++|+++|+|+|+|++|+|+ +|++|||++|++|+++.+-
T Consensus         2 m~I~Vk~~~G-~~~~l~v~~~~TV~~LK~~I~~~~-----~~~~~~qrL~~~Gk~L~d~-~L~~~gi~~~~~i~l~~~~   73 (78)
T cd01804           2 MNLNIHSTTG-TRFDLSVPPDETVEGLKKRISQRL-----KVPKERLALLHRETRLSSG-KLQDLGLGDGSKLTLVPTV   73 (78)
T ss_pred             eEEEEEECCC-CEEEEEECCcCHHHHHHHHHHHHh-----CCChHHEEEEECCcCCCCC-cHHHcCCCCCCEEEEEeec
Confidence            8999999998 889999999999999999999986     8999999999999999999 9999999999999998743

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=99.69  E-value=7.5e-17  Score=112.04  Aligned_cols=67  Identities=16%  Similarity=0.312  Sum_probs=63.6

Q ss_pred             EEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEe
Q 044874          189 LVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIF  261 (269)
Q Consensus       189 ~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~  261 (269)
                      -|+..+| +++.+++++++||.+||++|++.+     |+|+++|+|+|+|++|+|+.+|.+|+|+++++|||+
T Consensus         2 ~vk~~~G-~~~~l~v~~~~TV~~lK~~I~~~~-----gi~~~~q~Li~~G~~L~D~~~l~~~~i~~~~tv~~~   68 (70)
T cd01794           2 KVRLSTG-KDVKLSVSSKDTVGQLKKQLQAAE-----GVDPCCQRWFFSGKLLTDKTRLQETKIQKDYVVQVI   68 (70)
T ss_pred             eEEcCCC-CEEEEEECCcChHHHHHHHHHHHh-----CCCHHHeEEEECCeECCCCCCHHHcCCCCCCEEEEE
Confidence            4677788 999999999999999999999987     999999999999999999999999999999999997

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.

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

Probab=99.69  E-value=1.1e-16  Score=114.36  Aligned_cols=74  Identities=26%  Similarity=0.284  Sum_probs=71.2

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEE--EEcCEEcCCCCccccCCCCCCCEEEEEEecC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTL--VFNGQVLQDDRDVEHCEILQNSRIQLLVASD   74 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L--~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~   74 (269)
                      |+|+|+..+|+++.+++++++||++||++|++..|+|+++|+|  +|+|+.|+|+.+|++||+.++++|+++++..
T Consensus         3 ~~i~Vk~~~G~~~~~~v~~~~TV~~lK~~I~~~~~i~~~~qrL~~~~~G~~L~D~~tL~~~gi~~gs~l~l~~~~~   78 (80)
T cd01792           3 WDLKVKMLGGNEFLVSLRDSMTVSELKQQIAQKIGVPAFQQRLAHLDSREVLQDGVPLVSQGLGPGSTVLLVVQNC   78 (80)
T ss_pred             eEEEEEeCCCCEEEEEcCCCCcHHHHHHHHHHHhCCCHHHEEEEeccCCCCCCCCCCHHHcCCCCCCEEEEEEEcc
Confidence            7899999999999999999999999999999999999999999  8999999999999999999999999999854

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=99.68  E-value=2.1e-16  Score=111.67  Aligned_cols=76  Identities=21%  Similarity=0.439  Sum_probs=70.1

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCcc
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSV  265 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~  265 (269)
                      |+|+|++.+| +++.+++++++||++||++|+++.     ++|++.|+|+|+|+.|+|+.+|++|+|++|++|+++.. .
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 MLIKVKTLTG-KEIEIDIEPTDKVERIKERVEEKE-----GIPPQQQRLIYSGKQMNDDKTAADYKLEGGSVLHLVLA-L   73 (76)
T ss_pred             CEEEEEeCCC-CEEEEEECCCCCHHHHHHHHhHhh-----CCChhhEEEEECCeEccCCCCHHHcCCCCCCEEEEEEE-c
Confidence            6899999998 889999999999999999999986     99999999999999999999999999999999999874 3


Q ss_pred             cCC
Q 044874          266 TGG  268 (269)
Q Consensus       266 ~~~  268 (269)
                      .||
T Consensus        74 ~gg   76 (76)
T cd01806          74 RGG   76 (76)
T ss_pred             cCC
Confidence            443

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.

>cd01803 Ubiquitin Ubiquitin

Probab=99.68  E-value=2.2e-16  Score=111.59  Aligned_cols=76  Identities=24%  Similarity=0.471  Sum_probs=70.6

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCcc
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSV  265 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~  265 (269)
                      |+|+|++.+| +.+.+++++++||++||++|+++.     ++|++.|+|+|+|+.|+|+.+|++|||++|++|+++.. +
T Consensus         1 m~i~v~~~~g-~~~~~~v~~~~tV~~lK~~i~~~~-----g~~~~~q~L~~~g~~L~d~~~L~~~~i~~~~~i~l~~~-~   73 (76)
T cd01803           1 MQIFVKTLTG-KTITLEVEPSDTIENVKAKIQDKE-----GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR-L   73 (76)
T ss_pred             CEEEEEcCCC-CEEEEEECCcCcHHHHHHHHHHHh-----CCCHHHeEEEECCEECCCCCcHHHcCCCCCCEEEEEEE-c
Confidence            6899999998 899999999999999999999986     99999999999999999999999999999999999874 5


Q ss_pred             cCC
Q 044874          266 TGG  268 (269)
Q Consensus       266 ~~~  268 (269)
                      .||
T Consensus        74 ~gg   76 (76)
T cd01803          74 RGG   76 (76)
T ss_pred             cCC
Confidence            554

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

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

Probab=99.67  E-value=3.2e-16  Score=109.45  Aligned_cols=71  Identities=21%  Similarity=0.341  Sum_probs=67.7

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEe
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVA   72 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~   72 (269)
                      |+|+||+.+|+ ..+++++++||++||++|++..|+++++|+|+|+|+.|+|+.+|++||++++++|+++++
T Consensus         1 ~~i~vk~~~g~-~~l~v~~~~TV~~lK~~I~~~~~i~~~~~~Li~~Gk~L~d~~tL~~~~i~~~stl~l~~~   71 (71)
T cd01808           1 IKVTVKTPKDK-EEIEIAEDASVKDFKEAVSKKFKANQEQLVLIFAGKILKDTDTLTQHNIKDGLTVHLVIK   71 (71)
T ss_pred             CEEEEEcCCCC-EEEEECCCChHHHHHHHHHHHhCCCHHHEEEEECCeEcCCCCcHHHcCCCCCCEEEEEEC
Confidence            68999999997 589999999999999999999999999999999999999999999999999999999874

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=99.67  E-value=9.1e-18  Score=121.34  Aligned_cols=76  Identities=24%  Similarity=0.474  Sum_probs=70.5

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCcc
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSV  265 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~  265 (269)
                      |+++|+++.| +++.+++++++||..+|++|+.++     |+|+++|+|+|+|+.|+|+.||++|||+..|||+++. ++
T Consensus         1 ~~~~~~~~~G-KT~~le~EpS~ti~~vKA~i~~~~-----Gi~~~~~~L~~~~k~LED~~Tla~Y~i~~~~Tl~~~~-rL   73 (128)
T KOG0003|consen    1 MQIFVKTLTG-KTITLEVEPSDTIDNVKAKIQDKE-----GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL-RL   73 (128)
T ss_pred             CcEEEEEeeC-ceEEEEecccchHHHHHHHhcccc-----CCCHHHHHHHhcccccccCCcccccCccchhhhhhhH-HH
Confidence            4678999999 999999999999999999999998     9999999999999999999999999999999999987 34


Q ss_pred             cCC
Q 044874          266 TGG  268 (269)
Q Consensus       266 ~~~  268 (269)
                      .||
T Consensus        74 ~GG   76 (128)
T KOG0003|consen   74 RGG   76 (128)
T ss_pred             hcC
Confidence            444

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

Probab=99.66  E-value=7.7e-17  Score=104.04  Aligned_cols=70  Identities=31%  Similarity=0.564  Sum_probs=68.2

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEE
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLL   70 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~   70 (269)
                      |.|.|++++|+.+.++++|+++|+.+|++|+++.||||.+|||+|.|+++.|+.+-++|++.-|+++|++
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            8899999999999999999999999999999999999999999999999999999999999999999974

>cd01805 RAD23_N Ubiquitin-like domain of RAD23

Probab=99.66  E-value=4.1e-16  Score=110.58  Aligned_cols=71  Identities=21%  Similarity=0.424  Sum_probs=67.4

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCC--CCCceEEEecCeeecCCCccccccCCCCCEEEEec
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHL--PQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~--p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      |+|+|++..| +++.+++++++||.+||++|++..     ++  |+++|+|+|+|+.|+|+.+|++|||++||+|+++.
T Consensus         1 m~i~vk~~~g-~~~~l~v~~~~TV~~lK~~i~~~~-----~i~~~~~~q~L~~~G~~L~d~~~L~~~~i~~~~~i~~~~   73 (77)
T cd01805           1 MKITFKTLKQ-QTFPIEVDPDDTVAELKEKIEEEK-----GCDYPPEQQKLIYSGKILKDDTTLEEYKIDEKDFVVVMV   73 (77)
T ss_pred             CEEEEEeCCC-CEEEEEECCCCcHHHHHHHHHHhh-----CCCCChhHeEEEECCEEccCCCCHHHcCCCCCCEEEEEE
Confidence            6899999998 999999999999999999999986     88  99999999999999999999999999999999874

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).

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

Probab=99.66  E-value=7.9e-18  Score=121.65  Aligned_cols=77  Identities=31%  Similarity=0.510  Sum_probs=75.5

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKP   77 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~   77 (269)
                      |+++++++.|++.+++++|++||..+|.+|..+.|+||+.|+|+|+|++|+|..|+++||++..+|+++++++.||+
T Consensus         1 ~~~~~~~~~GKT~~le~EpS~ti~~vKA~i~~~~Gi~~~~~~L~~~~k~LED~~Tla~Y~i~~~~Tl~~~~rL~GG~   77 (128)
T KOG0003|consen    1 MQIFVKTLTGKTITLEVEPSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGI   77 (128)
T ss_pred             CcEEEEEeeCceEEEEecccchHHHHHHHhccccCCCHHHHHHHhcccccccCCcccccCccchhhhhhhHHHhcCC
Confidence            78999999999999999999999999999999999999999999999999999999999999999999999999986

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

Probab=99.66  E-value=2.9e-16  Score=112.21  Aligned_cols=74  Identities=20%  Similarity=0.257  Sum_probs=69.6

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEE--EecCeeecCCCccccccCCCCCEEEEecC
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFF--IYKQNVMDDDRSFRWHHVGQGDTIEIFNG  263 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l--~~~g~~L~d~~tL~~~~i~~~~~i~l~~~  263 (269)
                      |+|+|++.+| +++.+++++++||.+||++|++..     ++|+++|+|  +|+|+.|+|+.+|++|||++|++|+++..
T Consensus         3 ~~i~Vk~~~G-~~~~~~v~~~~TV~~lK~~I~~~~-----~i~~~~qrL~~~~~G~~L~D~~tL~~~gi~~gs~l~l~~~   76 (80)
T cd01792           3 WDLKVKMLGG-NEFLVSLRDSMTVSELKQQIAQKI-----GVPAFQQRLAHLDSREVLQDGVPLVSQGLGPGSTVLLVVQ   76 (80)
T ss_pred             eEEEEEeCCC-CEEEEEcCCCCcHHHHHHHHHHHh-----CCCHHHEEEEeccCCCCCCCCCCHHHcCCCCCCEEEEEEE
Confidence            8899999998 999999999999999999999986     899999999  89999999999999999999999999865


Q ss_pred             cc
Q 044874          264 SV  265 (269)
Q Consensus       264 ~~  265 (269)
                      ..
T Consensus        77 ~~   78 (80)
T cd01792          77 NC   78 (80)
T ss_pred             cc
Confidence            44

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.

>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=6.4e-16  Score=107.24  Aligned_cols=68  Identities=38%  Similarity=0.618  Sum_probs=65.5

Q ss_pred             EcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEec
Q 044874            6 EPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVAS   73 (269)
Q Consensus         6 k~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~   73 (269)
                      |+.+|+.+.+++++++||.+||++|++..++|++.|+|+|+|+.|+|+.+|++|||.++++|++.+++
T Consensus         1 k~~~g~~~~~~v~~~~tV~~lK~~i~~~~~~~~~~~~L~~~G~~L~d~~tL~~~~i~~~~~I~l~~k~   68 (69)
T PF00240_consen    1 KTLSGKTFTLEVDPDDTVADLKQKIAEETGIPPEQQRLIYNGKELDDDKTLSDYGIKDGSTIHLVIKP   68 (69)
T ss_dssp             EETTSEEEEEEEETTSBHHHHHHHHHHHHTSTGGGEEEEETTEEESTTSBTGGGTTSTTEEEEEEESS
T ss_pred             CCCCCcEEEEEECCCCCHHHhhhhcccccccccccceeeeeeecccCcCcHHHcCCCCCCEEEEEEec
Confidence            56889999999999999999999999999999999999999999999999999999999999999875

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 ....

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

Probab=99.64  E-value=1.2e-16  Score=123.92  Aligned_cols=77  Identities=31%  Similarity=0.529  Sum_probs=75.5

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKP   77 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~   77 (269)
                      |+|+|+.+.+++.++++.+++||..+|++|++.+|||+++|||+|.|++|+|..+|+||+|+..++++++++..||.
T Consensus         1 m~ifVk~l~~kti~~eve~~~ti~~~Kakiq~~egIp~dqqrlifag~qLedgrtlSDY~Iqkestl~l~l~l~Gg~   77 (156)
T KOG0004|consen    1 MQIFVKTLTGKTITLEVEANDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGA   77 (156)
T ss_pred             CccchhhccccceeeeecccccHHHHHHhhhcccCCCchhhhhhhhhcccccCCccccccccccceEEEEEEecCCc
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999886

>cd01809 Scythe_N Ubiquitin-like domain of Scythe protein

Probab=99.64  E-value=1.2e-15  Score=106.64  Aligned_cols=71  Identities=21%  Similarity=0.326  Sum_probs=67.6

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEec
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      |+|+|+...| +++.+++++++||.+||++|++..     |+|++.|+|+|+|+.|+|+.+|++|||++|++|+++.
T Consensus         1 i~i~vk~~~g-~~~~~~v~~~~tv~~lK~~i~~~~-----gi~~~~q~L~~~g~~L~d~~~L~~~~i~~~~~l~l~~   71 (72)
T cd01809           1 IEIKVKTLDS-QTHTFTVEEEITVLDLKEKIAEEV-----GIPVEQQRLIYSGRVLKDDETLSEYKVEDGHTIHLVK   71 (72)
T ss_pred             CEEEEEeCCC-CEEEEEECCCCcHHHHHHHHHHHH-----CcCHHHeEEEECCEECCCcCcHHHCCCCCCCEEEEEe
Confidence            6899999998 899999999999999999999986     9999999999999999999999999999999999974

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.

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

Probab=99.64  E-value=9.7e-16  Score=106.92  Aligned_cols=68  Identities=22%  Similarity=0.315  Sum_probs=64.4

Q ss_pred             EEEEcC-CCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCC-CccccCCCCCCCEEEEE
Q 044874            3 VIFEPQ-RGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDD-RDVEHCEILQNSRIQLL   70 (269)
Q Consensus         3 i~vk~~-~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~-~tL~~~~i~~~~~i~l~   70 (269)
                      |+|++. +|+++.+++++++||++||++|++++|+|+++|+|+|+|+.|+|+ .+|++|||++++++++.
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            578998 999999999999999999999999999999999999999999987 68999999999999874

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.

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

Probab=99.64  E-value=1.2e-15  Score=107.99  Aligned_cols=70  Identities=21%  Similarity=0.372  Sum_probs=67.1

Q ss_pred             CCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCC
Q 044874            8 QRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKP   77 (269)
Q Consensus         8 ~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~   77 (269)
                      ++|+++++++++++||++||++|+..+|+|+++|+|+|+|+.|+|+.+|++|+|.++++|+++++..||.
T Consensus         5 l~g~~~~l~v~~~~TV~~lK~~i~~~~gip~~~q~L~~~G~~L~d~~tL~~~~i~~g~~l~v~~~~~gg~   74 (76)
T cd01800           5 LNGQMLNFTLQLSDPVSVLKVKIHEETGMPAGKQKLQYEGIFIKDSNSLAYYNLANGTIIHLQLKERGGR   74 (76)
T ss_pred             cCCeEEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCEEcCCCCcHHHcCCCCCCEEEEEEecCCCc
Confidence            4789999999999999999999999999999999999999999999999999999999999999998764

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.

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

Probab=99.64  E-value=7.4e-16  Score=107.51  Aligned_cols=67  Identities=16%  Similarity=0.283  Sum_probs=62.4

Q ss_pred             EEEEec-CCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCC-CccccccCCCCCEEEE
Q 044874          188 LLVLTQ-CGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDD-RSFRWHHVGQGDTIEI  260 (269)
Q Consensus       188 i~V~~~-~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~-~tL~~~~i~~~~~i~l  260 (269)
                      |+|++. .| +++.+++++++||++||++|++++     |+|+++|+|+|+|+.|+|+ .+|++|||++||+|+|
T Consensus         1 l~v~~~~~g-~~~~l~v~~~~TV~~lK~~I~~~~-----gip~~~q~Li~~Gk~L~D~~~~L~~~gi~~~~~l~l   69 (71)
T cd01796           1 ITVYTARSE-TTFSLDVDPDLELENFKALCEAES-----GIPASQQQLIYNGRELVDNKRLLALYGVKDGDLVVL   69 (71)
T ss_pred             CEEEECCCC-CEEEEEECCcCCHHHHHHHHHHHh-----CCCHHHeEEEECCeEccCCcccHHHcCCCCCCEEEE
Confidence            467888 66 899999999999999999999987     9999999999999999998 6899999999999997

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.

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

Probab=99.64  E-value=1e-15  Score=106.91  Aligned_cols=70  Identities=19%  Similarity=0.367  Sum_probs=64.9

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEec
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      ++|+|++.+| + ..+++++++||.+||++|+++.     ++|+++|+|+|+|+.|+|+.+|++|||++|++|+++.
T Consensus         1 ~~i~vk~~~g-~-~~l~v~~~~TV~~lK~~I~~~~-----~i~~~~~~Li~~Gk~L~d~~tL~~~~i~~~stl~l~~   70 (71)
T cd01808           1 IKVTVKTPKD-K-EEIEIAEDASVKDFKEAVSKKF-----KANQEQLVLIFAGKILKDTDTLTQHNIKDGLTVHLVI   70 (71)
T ss_pred             CEEEEEcCCC-C-EEEEECCCChHHHHHHHHHHHh-----CCCHHHEEEEECCeEcCCCCcHHHcCCCCCCEEEEEE
Confidence            4689999988 5 4899999999999999999986     8999999999999999999999999999999999974

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.

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

Probab=99.62  E-value=5.3e-16  Score=100.17  Aligned_cols=70  Identities=20%  Similarity=0.423  Sum_probs=66.9

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEe
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIF  261 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~  261 (269)
                      |.|.|+++.| +.+.++++++|+|+.+|+.+++++     |+|+.+|+|+|.|+.|.||.|-++|++.-||++|++
T Consensus         1 m~iKvktLt~-KeIeidIep~DkverIKErvEEke-----GIPp~qqrli~~gkqm~DD~tA~~Y~~~~GSVlHlv   70 (70)
T KOG0005|consen    1 MLIKVKTLTG-KEIEIDIEPTDKVERIKERVEEKE-----GIPPQQQRLIYAGKQMNDDKTAAHYNLLGGSVLHLV   70 (70)
T ss_pred             CeeeEeeecc-ceEEEeeCcchHHHHHHHHhhhhc-----CCCchhhhhhhccccccccccHHHhhhccceeEeeC
Confidence            4678899998 999999999999999999999998     999999999999999999999999999999999985

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

Probab=99.61  E-value=1.9e-15  Score=106.43  Aligned_cols=71  Identities=17%  Similarity=0.200  Sum_probs=63.6

Q ss_pred             CEEEEEcCCCCE--EEEEEcCCCCHHHHHHHHHHHhC--CCCCcEEEEEcCEEcCCCCccccCC--CCCCCEEEEEE
Q 044874            1 MDVIFEPQRGKA--FTIEVGFFDTVLEIKEKIEKYQG--IPVPKQTLVFNGQVLQDDRDVEHCE--ILQNSRIQLLV   71 (269)
Q Consensus         1 M~i~vk~~~g~~--~~l~v~~~~tV~~lK~~I~~~~g--i~~~~q~L~~~G~~L~d~~tL~~~~--i~~~~~i~l~~   71 (269)
                      |.|+||+++++.  +.+++++++||.+||++|++..+  .++++|||+|+|+.|+|+.+|++|.  +.++.+|||+.
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            579999999998  44555899999999999999874  5579999999999999999999996  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.

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

Probab=99.61  E-value=3.4e-16  Score=121.46  Aligned_cols=76  Identities=24%  Similarity=0.475  Sum_probs=70.8

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCcc
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSV  265 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~  265 (269)
                      |+|+|+++.+ +++.+++++++||+.+|++|++.+     +||+++|+|||.|+.|+|+++|+||+|+..+||+++.. +
T Consensus         1 m~ifVk~l~~-kti~~eve~~~ti~~~Kakiq~~e-----gIp~dqqrlifag~qLedgrtlSDY~Iqkestl~l~l~-l   73 (156)
T KOG0004|consen    1 MQIFVKTLTG-KTITLEVEANDTIDNVKAKIQDKE-----GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR-L   73 (156)
T ss_pred             Cccchhhccc-cceeeeecccccHHHHHHhhhccc-----CCCchhhhhhhhhcccccCCccccccccccceEEEEEE-e
Confidence            6799999998 999999999999999999999998     99999999999999999999999999999999999863 4


Q ss_pred             cCC
Q 044874          266 TGG  268 (269)
Q Consensus       266 ~~~  268 (269)
                      .||
T Consensus        74 ~Gg   76 (156)
T KOG0004|consen   74 RGG   76 (156)
T ss_pred             cCC
Confidence            444

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

Probab=99.61  E-value=1.9e-15  Score=106.39  Aligned_cols=72  Identities=17%  Similarity=0.174  Sum_probs=63.0

Q ss_pred             eeEEEEecCCCeE--EEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCcccccc--CCCCCEEEEe
Q 044874          186 LKLLVLTQCGNKR--IPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHH--VGQGDTIEIF  261 (269)
Q Consensus       186 ~~i~V~~~~g~~~--~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~--i~~~~~i~l~  261 (269)
                      +.|.|+++++ +.  +.+++++++||.+||++|++..+   ...|+++|+|||+||+|+|+.||++|+  +++|.||||+
T Consensus         2 i~l~IK~~~~-~~~~~~ve~~~~~TV~~lK~~i~~~~~---~~~~~~~QrLIy~GKiLkD~~tL~~~~~~~~~~~tiHLV   77 (79)
T cd01790           2 VTLLIKSPNQ-KYEDQTVSCFLNWTVGELKTHLSRVYP---SKPLEQDQRLIYSGKLLPDHLKLRDVLRKQDEYHMVHLV   77 (79)
T ss_pred             eEEEEECCCC-CeEEEEEecCCcChHHHHHHHHHHhcC---CCCChhHeEEEEcCeeccchhhHHHHhhcccCCceEEEE
Confidence            6889999988 66  66777999999999999998631   135679999999999999999999997  9999999997

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.

>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=99.61  E-value=4.3e-15  Score=103.04  Aligned_cols=66  Identities=26%  Similarity=0.471  Sum_probs=62.2

Q ss_pred             EecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEec
Q 044874          191 LTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       191 ~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      ++.+| +.+.++|++++||.+||++|++..     ++|++.|+|+|+|+.|+|+.+|.+|||++|++|+++.
T Consensus         1 k~~~g-~~~~~~v~~~~tV~~lK~~i~~~~-----~~~~~~~~L~~~G~~L~d~~tL~~~~i~~~~~I~l~~   66 (69)
T PF00240_consen    1 KTLSG-KTFTLEVDPDDTVADLKQKIAEET-----GIPPEQQRLIYNGKELDDDKTLSDYGIKDGSTIHLVI   66 (69)
T ss_dssp             EETTS-EEEEEEEETTSBHHHHHHHHHHHH-----TSTGGGEEEEETTEEESTTSBTGGGTTSTTEEEEEEE
T ss_pred             CCCCC-cEEEEEECCCCCHHHhhhhccccc-----ccccccceeeeeeecccCcCcHHHcCCCCCCEEEEEE
Confidence            45677 899999999999999999999987     9999999999999999999999999999999999874

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 ....

>cd01763 Sumo Small ubiquitin-related modifier (SUMO)

Probab=99.60  E-value=7.4e-15  Score=106.55  Aligned_cols=76  Identities=13%  Similarity=0.303  Sum_probs=73.8

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNK   76 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g   76 (269)
                      |+|+|++.+|+.+.++|.+++|+..||++++++.|+|+++|+|+|+|+.|+++.|+++|+++++++|+++++..||
T Consensus        12 i~I~v~~~~g~~~~~~v~~~~~l~~l~~~y~~~~gi~~~~~rf~f~G~~L~~~~T~~~l~m~d~d~I~v~l~l~GG   87 (87)
T cd01763          12 INLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQRQGLSMNSVRFLFDGQRIRDNQTPDDLGMEDGDEIEVMLEQTGG   87 (87)
T ss_pred             EEEEEECCCCCEEEEEEcCCCHHHHHHHHHHHHhCCCccceEEEECCeECCCCCCHHHcCCCCCCEEEEEEecccC
Confidence            6899999999999999999999999999999999999999999999999999999999999999999999999876

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.

>cd01813 UBP_N UBP ubiquitin processing protease

Probab=99.60  E-value=4.8e-15  Score=104.10  Aligned_cols=70  Identities=24%  Similarity=0.382  Sum_probs=65.7

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEE---cCEEcCCCCccccCCCCCCCEEEEEE
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVF---NGQVLQDDRDVEHCEILQNSRIQLLV   71 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~---~G~~L~d~~tL~~~~i~~~~~i~l~~   71 (269)
                      |.|.|+. +|+++.+++++++||++||++|++.+|+|+++|+|+|   .|+.|.|+.+|++|+|.+++.|+|+.
T Consensus         1 ~~i~vk~-~g~~~~v~v~~~~Tv~~lK~~i~~~tgvp~~~QKLi~~~~~Gk~l~D~~~L~~~~i~~g~~i~lmG   73 (74)
T cd01813           1 VPVIVKW-GGQEYSVTTLSEDTVLDLKQFIKTLTGVLPERQKLLGLKVKGKPAEDDVKISALKLKPNTKIMMMG   73 (74)
T ss_pred             CEEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHHCCCHHHEEEEeecccCCcCCCCcCHHHcCCCCCCEEEEEe
Confidence            6788884 7899999999999999999999999999999999996   89999999999999999999999874

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.

>cd01812 BAG1_N Ubiquitin-like domain of BAG1

Probab=99.59  E-value=5.4e-15  Score=103.09  Aligned_cols=70  Identities=19%  Similarity=0.345  Sum_probs=66.8

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEE
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLV   71 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~   71 (269)
                      |+|+||.. |+.+.+++++++||++||++|++.+|+|+++|+|+|+|+.|.|+.+|++||+.+|++|+++.
T Consensus         1 i~i~vk~~-g~~~~i~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~l~d~~~L~~~~i~~g~~l~v~~   70 (71)
T cd01812           1 IRVRVKHG-GESHDLSISSQATFGDLKKMLAPVTGVEPRDQKLIFKGKERDDAETLDMSGVKDGSKVMLLE   70 (71)
T ss_pred             CEEEEEEC-CEEEEEEECCCCcHHHHHHHHHHhhCCChHHeEEeeCCcccCccCcHHHcCCCCCCEEEEec
Confidence            68999986 99999999999999999999999999999999999999999999999999999999999874

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).

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

Probab=99.58  E-value=6.6e-15  Score=104.14  Aligned_cols=65  Identities=18%  Similarity=0.304  Sum_probs=61.3

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCc
Q 044874          194 CGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGS  264 (269)
Q Consensus       194 ~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~  264 (269)
                      +| +++.+++++++||++||++|+...     |+|+++|+|+|+|+.|+|+++|++|+|++|++|+|+...
T Consensus         6 ~g-~~~~l~v~~~~TV~~lK~~i~~~~-----gip~~~q~L~~~G~~L~d~~tL~~~~i~~g~~l~v~~~~   70 (76)
T cd01800           6 NG-QMLNFTLQLSDPVSVLKVKIHEET-----GMPAGKQKLQYEGIFIKDSNSLAYYNLANGTIIHLQLKE   70 (76)
T ss_pred             CC-eEEEEEECCCCcHHHHHHHHHHHH-----CCCHHHEEEEECCEEcCCCCcHHHcCCCCCCEEEEEEec
Confidence            56 899999999999999999999986     999999999999999999999999999999999998643

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=99.56  E-value=1.7e-14  Score=100.61  Aligned_cols=69  Identities=16%  Similarity=0.313  Sum_probs=64.7

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEe
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIF  261 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~  261 (269)
                      ++|.|+.. | +.+.+++++++||++||++|+++.     |+|++.|+|+|+|+.|+|+.+|++|||++|++|+++
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-G-ESHDLSISSQATFGDLKKMLAPVT-----GVEPRDQKLIFKGKERDDAETLDMSGVKDGSKVMLL   69 (71)
T ss_pred             CEEEEEEC-C-EEEEEEECCCCcHHHHHHHHHHhh-----CCChHHeEEeeCCcccCccCcHHHcCCCCCCEEEEe
Confidence            47888875 6 899999999999999999999986     999999999999999999999999999999999987

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).

>cd01813 UBP_N UBP ubiquitin processing protease

Probab=99.55  E-value=2.3e-14  Score=100.64  Aligned_cols=69  Identities=16%  Similarity=0.205  Sum_probs=63.6

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEe---cCeeecCCCccccccCCCCCEEEEe
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIY---KQNVMDDDRSFRWHHVGQGDTIEIF  261 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~---~g~~L~d~~tL~~~~i~~~~~i~l~  261 (269)
                      |.|.|+. .| +++.+++++++||++||++|+++.     ++|+++|+|+|   +|+.|+|+.+|++|+|++|+.|+|+
T Consensus         1 ~~i~vk~-~g-~~~~v~v~~~~Tv~~lK~~i~~~t-----gvp~~~QKLi~~~~~Gk~l~D~~~L~~~~i~~g~~i~lm   72 (74)
T cd01813           1 VPVIVKW-GG-QEYSVTTLSEDTVLDLKQFIKTLT-----GVLPERQKLLGLKVKGKPAEDDVKISALKLKPNTKIMMM   72 (74)
T ss_pred             CEEEEEE-CC-EEEEEEECCCCCHHHHHHHHHHHH-----CCCHHHEEEEeecccCCcCCCCcCHHHcCCCCCCEEEEE
Confidence            4577774 56 899999999999999999999986     99999999996   9999999999999999999999987

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.

>cd01815 BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP

Probab=99.53  E-value=9.8e-15  Score=101.37  Aligned_cols=56  Identities=20%  Similarity=0.218  Sum_probs=49.4

Q ss_pred             CCCcHHHHHHHHHHhhhccCCCC-CCCceEEEecCeeecCCCccccccCCCCCEEEEecC
Q 044874          205 ASDNVSELRKELQKLHQRYHFHL-PQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNG  263 (269)
Q Consensus       205 ~~~tV~~lK~~i~~~~~~~~~~~-p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~  263 (269)
                      .++||.+||++|+++.   ..++ |+++|+|||+|++|+|++||++|||++|++||++++
T Consensus        19 ~~~TV~~LK~kI~~~~---~egi~~~dqQrLIy~GKiL~D~~TL~dygI~~gstlhLv~~   75 (75)
T cd01815          19 GGYQVSTLKQLIAAQL---PDSLPDPELIDLIHCGRKLKDDQTLDFYGIQSGSTIHILRK   75 (75)
T ss_pred             ccCcHHHHHHHHHHhh---ccCCCChHHeEEEeCCcCCCCCCcHHHcCCCCCCEEEEEeC
Confidence            4789999999999983   0156 499999999999999999999999999999999863

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.

>cd01763 Sumo Small ubiquitin-related modifier (SUMO)

Probab=99.52  E-value=1.1e-13  Score=100.35  Aligned_cols=76  Identities=17%  Similarity=0.239  Sum_probs=71.5

Q ss_pred             CCcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEe
Q 044874          182 GPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIF  261 (269)
Q Consensus       182 ~~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~  261 (269)
                      .+..|+|+|+...| +.+.++|.+++++..||++++++.     |+|+++|+|+|+|+.|+++.|+++|++++||+|+++
T Consensus         8 ~~~~i~I~v~~~~g-~~~~~~v~~~~~l~~l~~~y~~~~-----gi~~~~~rf~f~G~~L~~~~T~~~l~m~d~d~I~v~   81 (87)
T cd01763           8 ISEHINLKVKGQDG-NEVFFKIKRSTPLKKLMEAYCQRQ-----GLSMNSVRFLFDGQRIRDNQTPDDLGMEDGDEIEVM   81 (87)
T ss_pred             CCCeEEEEEECCCC-CEEEEEEcCCCHHHHHHHHHHHHh-----CCCccceEEEECCeECCCCCCHHHcCCCCCCEEEEE
Confidence            45679999999988 899999999999999999999997     999999999999999999999999999999999998


Q ss_pred             cC
Q 044874          262 NG  263 (269)
Q Consensus       262 ~~  263 (269)
                      -.
T Consensus        82 l~   83 (87)
T cd01763          82 LE   83 (87)
T ss_pred             Ee
Confidence            53

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.

>smart00213 UBQ Ubiquitin homologues

Probab=99.51  E-value=7e-14  Score=95.10  Aligned_cols=64  Identities=39%  Similarity=0.620  Sum_probs=61.4

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNS   65 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~   65 (269)
                      |+|+|+..+ +.+.+++++++||++||++|+..+|+|+++|+|+|+|+.|.|+.+|++||+.+++
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            899999998 7999999999999999999999999999999999999999999999999999875

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

>TIGR00601 rad23 UV excision repair protein Rad23

Probab=99.49  E-value=1e-13  Score=125.57  Aligned_cols=75  Identities=33%  Similarity=0.577  Sum_probs=72.3

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhC---CCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQG---IPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDN   75 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~g---i~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~   75 (269)
                      |+|+||+++|+++.|+|++++||.+||++|+...|   +++++|||+|+|+.|+|+.+|++|+|+++++|++++....
T Consensus         1 MkItVKtl~g~~~~IeV~~~~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GkiL~Dd~tL~dy~I~e~~~Ivvmv~k~k   78 (378)
T TIGR00601         1 MTLTFKTLQQQKFKIDMEPDETVKELKEKIEAEQGKDAYPVAQQKLIYSGKILSDDKTVREYKIKEKDFVVVMVSKPK   78 (378)
T ss_pred             CEEEEEeCCCCEEEEEeCCcChHHHHHHHHHHhhCCCCCChhHeEEEECCEECCCCCcHHHcCCCCCCEEEEEeccCC
Confidence            99999999999999999999999999999999998   9999999999999999999999999999999999988753

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).

>TIGR00601 rad23 UV excision repair protein Rad23

Probab=99.45  E-value=2e-13  Score=123.62  Aligned_cols=73  Identities=16%  Similarity=0.353  Sum_probs=68.5

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCC---CCCCceEEEecCeeecCCCccccccCCCCCEEEEec
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFH---LPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~---~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      |+|+||+..| +++.++|++++||.+||++|++..     |   +|+++|+|+|+|++|+|+++|++|+|+++++|+++.
T Consensus         1 MkItVKtl~g-~~~~IeV~~~~TV~dLK~kI~~~~-----g~~~ip~~~QkLIy~GkiL~Dd~tL~dy~I~e~~~Ivvmv   74 (378)
T TIGR00601         1 MTLTFKTLQQ-QKFKIDMEPDETVKELKEKIEAEQ-----GKDAYPVAQQKLIYSGKILSDDKTVREYKIKEKDFVVVMV   74 (378)
T ss_pred             CEEEEEeCCC-CEEEEEeCCcChHHHHHHHHHHhh-----CCCCCChhHeEEEECCEECCCCCcHHHcCCCCCCEEEEEe
Confidence            6899999998 999999999999999999999975     6   999999999999999999999999999999999885


Q ss_pred             Cc
Q 044874          263 GS  264 (269)
Q Consensus       263 ~~  264 (269)
                      +.
T Consensus        75 ~k   76 (378)
T TIGR00601        75 SK   76 (378)
T ss_pred             cc
Confidence            43

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).

>cd01799 Hoil1_N Ubiquitin-like domain of HOIL1

Probab=99.43  E-value=4.6e-13  Score=94.15  Aligned_cols=69  Identities=23%  Similarity=0.195  Sum_probs=61.2

Q ss_pred             EEEEE--cCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcC-CCCccccCCCC-CCCEEEEEE
Q 044874            2 DVIFE--PQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQ-DDRDVEHCEIL-QNSRIQLLV   71 (269)
Q Consensus         2 ~i~vk--~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~-d~~tL~~~~i~-~~~~i~l~~   71 (269)
                      ++.|.  ...|.++++++++++||++||++|+.++|+|++.|+| |+|+.|. |+.+|++||++ +|+++++.+
T Consensus         2 ~~~~~~~~~~~~t~~l~v~~~~TV~~lK~kI~~~~gip~~~QrL-~~G~~L~dD~~tL~~ygi~~~g~~~~l~~   74 (75)
T cd01799           2 NVSVEDAQSHTVTIWLTVRPDMTVAQLKDKVFLDYGFPPAVQRW-VIGQRLARDQETLYSHGIRTNGDSAFLYI   74 (75)
T ss_pred             EEEEeccccCCCeEEEEECCCCcHHHHHHHHHHHHCcCHHHEEE-EcCCeeCCCcCCHHHcCCCCCCCEEEEEe
Confidence            34554  4568899999999999999999999999999999999 9999885 77999999999 889999865

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.

>cd01799 Hoil1_N Ubiquitin-like domain of HOIL1

Probab=99.43  E-value=4.8e-13  Score=94.05  Aligned_cols=62  Identities=15%  Similarity=0.174  Sum_probs=56.8

Q ss_pred             cCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeec-CCCccccccCC-CCCEEEEe
Q 044874          193 QCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMD-DDRSFRWHHVG-QGDTIEIF  261 (269)
Q Consensus       193 ~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~-d~~tL~~~~i~-~~~~i~l~  261 (269)
                      ..| .++.+++++++||++||++|+++.     |+|+++|+| |.|+.|. |+++|++|||+ +|++++|+
T Consensus        10 ~~~-~t~~l~v~~~~TV~~lK~kI~~~~-----gip~~~QrL-~~G~~L~dD~~tL~~ygi~~~g~~~~l~   73 (75)
T cd01799          10 SHT-VTIWLTVRPDMTVAQLKDKVFLDY-----GFPPAVQRW-VIGQRLARDQETLYSHGIRTNGDSAFLY   73 (75)
T ss_pred             cCC-CeEEEEECCCCcHHHHHHHHHHHH-----CcCHHHEEE-EcCCeeCCCcCCHHHcCCCCCCCEEEEE
Confidence            345 899999999999999999999987     999999999 9999996 66899999999 88999986

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.

>cd01815 BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP

Probab=99.41  E-value=4e-13  Score=93.35  Aligned_cols=53  Identities=25%  Similarity=0.281  Sum_probs=49.1

Q ss_pred             CCCCHHHHHHHHHHHh--CCC-CCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEE
Q 044874           19 FFDTVLEIKEKIEKYQ--GIP-VPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLV   71 (269)
Q Consensus        19 ~~~tV~~lK~~I~~~~--gi~-~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~   71 (269)
                      .++||.+||++|+++.  +++ +++|||+|+|+.|+|+.+|++|||+++++|||+.
T Consensus        19 ~~~TV~~LK~kI~~~~~egi~~~dqQrLIy~GKiL~D~~TL~dygI~~gstlhLv~   74 (75)
T cd01815          19 GGYQVSTLKQLIAAQLPDSLPDPELIDLIHCGRKLKDDQTLDFYGIQSGSTIHILR   74 (75)
T ss_pred             ccCcHHHHHHHHHHhhccCCCChHHeEEEeCCcCCCCCCcHHHcCCCCCCEEEEEe
Confidence            4789999999999995  574 8999999999999999999999999999999975

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.

>smart00213 UBQ Ubiquitin homologues

Probab=99.36  E-value=2.8e-12  Score=87.12  Aligned_cols=64  Identities=34%  Similarity=0.535  Sum_probs=59.1

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCC
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGD  256 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~  256 (269)
                      |+|+|+..+  ..+.+++++++||++||++|+.+.     ++|++.|+|+|+|+.|+|+.+|++|||++|+
T Consensus         1 ~~i~vk~~~--~~~~~~v~~~~tv~~lk~~i~~~~-----~~~~~~~~L~~~g~~L~d~~tL~~~~i~~~~   64 (64)
T smart00213        1 IELTVKTLD--GTITLEVKPSDTVSELKEKIAELT-----GIPVEQQRLIYKGKVLEDDRTLADYNIQDGS   64 (64)
T ss_pred             CEEEEEECC--ceEEEEECCCCcHHHHHHHHHHHH-----CCCHHHEEEEECCEECCCCCCHHHcCCcCCC
Confidence            578898876  588999999999999999999975     9999999999999999999999999999986

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

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

Probab=99.30  E-value=6.1e-12  Score=109.12  Aligned_cols=75  Identities=32%  Similarity=0.572  Sum_probs=72.9

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhC--CCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQG--IPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDN   75 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~g--i~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~   75 (269)
                      |+|+||++.+.+|++++.|++||.++|.+|+...|  +|...|+|+|+|+.|.|+.++.+|+|.++..|.++++...
T Consensus         1 m~lt~KtL~q~~F~iev~Pe~tV~evK~kIet~~g~dyP~~~QkLIy~GkiL~D~~tv~Eykv~E~~fiVvMlsK~k   77 (340)
T KOG0011|consen    1 MKLTVKTLKQQTFTIEVKPEDTVVEVKKKIETEKGPDYPAEQQKLIYSGKILKDETTVGEYKVKEKKFIVVMLSKDK   77 (340)
T ss_pred             CeeEeeeccCceeEeecCcchhHHHHHHHHHhccCCCCchhhheeeecceeccCCcchhhhccccCceEEEEEecCc
Confidence            89999999999999999999999999999999999  9999999999999999999999999999999999998874

>cd01769 UBL Ubiquitin-like domain of UBL

Probab=99.30  E-value=1.3e-11  Score=84.96  Aligned_cols=67  Identities=34%  Similarity=0.609  Sum_probs=63.6

Q ss_pred             EEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEE
Q 044874            5 FEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLV   71 (269)
Q Consensus         5 vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~   71 (269)
                      |+..+|+.+.++++++.||.+||++|+..+|+|+++|+|+|+|+.|+|+.+|.+|++.+++.|++..
T Consensus         2 v~~~~~~~~~~~~~~~~ti~~lK~~i~~~~~~~~~~~~l~~~g~~l~d~~~l~~~~v~~~~~i~v~~   68 (69)
T cd01769           2 VKTLTGKTFELEVSPDDTVAELKAKIAAKEGVPPEQQRLIYAGKILKDDKTLSDYGIQDGSTLHLVL   68 (69)
T ss_pred             eEccCCCEEEEEECCCChHHHHHHHHHHHHCcChHHEEEEECCcCCCCcCCHHHCCCCCCCEEEEEE
Confidence            6777899999999999999999999999999999999999999999999999999999999999864

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.

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

Probab=99.30  E-value=4e-12  Score=115.70  Aligned_cols=74  Identities=23%  Similarity=0.468  Sum_probs=70.2

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDN   75 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~   75 (269)
                      ++|+||+.++ .+.+.|..+.||.+||++|...+++++++++|+|+||.|+|+.+|..|||++|.||||+++...
T Consensus        16 irV~Vkt~~d-k~~~~V~~~ssV~qlKE~I~~~f~a~~dqlvLIfaGrILKD~dTL~~~gI~Dg~TvHLVik~~~   89 (493)
T KOG0010|consen   16 IRVTVKTPKD-KYEVNVASDSSVLQLKELIAQRFGAPPDQLVLIYAGRILKDDDTLKQYGIQDGHTVHLVIKSQP   89 (493)
T ss_pred             eEEEEecCCc-ceeEecccchHHHHHHHHHHHhcCCChhHeeeeecCccccChhhHHHcCCCCCcEEEEEeccCC
Confidence            4799999888 7999999999999999999999999999999999999999999999999999999999998763

>cd01814 NTGP5 Ubiquitin-like NTGP5 and ATGP4

Probab=99.28  E-value=4.9e-12  Score=93.80  Aligned_cols=74  Identities=19%  Similarity=0.228  Sum_probs=63.0

Q ss_pred             EEEEEcCCCC-EEEEEEcCCCCHHHHHHHHHHH-----hCCC--CCcEEEEEcCEEcCCCCccccCC------CCCCCEE
Q 044874            2 DVIFEPQRGK-AFTIEVGFFDTVLEIKEKIEKY-----QGIP--VPKQTLVFNGQVLQDDRDVEHCE------ILQNSRI   67 (269)
Q Consensus         2 ~i~vk~~~g~-~~~l~v~~~~tV~~lK~~I~~~-----~gi~--~~~q~L~~~G~~L~d~~tL~~~~------i~~~~~i   67 (269)
                      .|.+|..+|. .=+..+++++||++||++|++.     +++|  +++|+|+|+|+.|+|+.||++|+      +....|+
T Consensus         6 e~kfrl~dg~digp~~~~~sdTV~~lKekI~~~~p~~ke~~P~~~~~qKLIysGKiLeD~~TL~d~~~p~g~~~~~~~Tm   85 (113)
T cd01814           6 EIKFRLYDGSDIGPKRYPAATTVDFLKERVVSQWPKDKEVGPKTVNEVKLISAGKILENSKTVGECRSPVGDIAGGVITM   85 (113)
T ss_pred             EEEEEccCCCccCccccChhhHHHHHHHHHHHhcccccccCCCCHHHeEEEeCCeecCCCCcHHHhCCcccccCCCceEE
Confidence            4677777774 4466788999999999999944     4555  99999999999999999999999      7788999


Q ss_pred             EEEEecCC
Q 044874           68 QLLVASDN   75 (269)
Q Consensus        68 ~l~~~~~~   75 (269)
                      ||++++..
T Consensus        86 Hvvlr~~~   93 (113)
T cd01814          86 HVVVQPPL   93 (113)
T ss_pred             EEEecCCC
Confidence            99998764

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

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

Probab=99.27  E-value=2.2e-11  Score=84.99  Aligned_cols=71  Identities=25%  Similarity=0.392  Sum_probs=66.1

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCC-CcEEEEEcCEEcCCCCccccCCCCCCCEEEEEE
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPV-PKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLV   71 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~-~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~   71 (269)
                      |+|+|+..+|+.+.+.|.+++++..|++.++++.++|+ +.++|+|+|+.|.++.|++++|++++++|++.+
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            78999999999999999999999999999999999999 999999999999999999999999999999864

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

>cd01795 USP48_C USP ubiquitin-specific protease

Probab=99.26  E-value=2e-11  Score=87.91  Aligned_cols=63  Identities=21%  Similarity=0.204  Sum_probs=58.4

Q ss_pred             EEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcC-CCCccccCCCCCCCEEEEEEecC
Q 044874           12 AFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQ-DDRDVEHCEILQNSRIQLLVASD   74 (269)
Q Consensus        12 ~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~-d~~tL~~~~i~~~~~i~l~~~~~   74 (269)
                      ...++|++++||.+||.+|.+.++++|.+|+|+|+|+.|. |..||++|||..+++|+|.+..+
T Consensus        16 ~~~L~V~~~~TVg~LK~lImQ~f~V~P~dQkL~~dG~~L~DDsrTLssyGv~sgSvl~LlideP   79 (107)
T cd01795          16 EKALLVSANQTLKELKIQIMHAFSVAPFDQNLSIDGKILSDDCATLGTLGVIPESVILLKADEP   79 (107)
T ss_pred             CceEEeCccccHHHHHHHHHHHhcCCcccceeeecCceeccCCccHHhcCCCCCCEEEEEecCC
Confidence            4678899999999999999999999999999999999995 57899999999999999998654

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,

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

Probab=99.24  E-value=1.3e-11  Score=107.12  Aligned_cols=73  Identities=22%  Similarity=0.322  Sum_probs=67.9

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEec
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      |+|+||++.+ .+|++++.+.+||.++|++|+...+   -.+|+++|+|||+|++|.|+.|+.+|+|++++.|.|+.
T Consensus         1 m~lt~KtL~q-~~F~iev~Pe~tV~evK~kIet~~g---~dyP~~~QkLIy~GkiL~D~~tv~Eykv~E~~fiVvMl   73 (340)
T KOG0011|consen    1 MKLTVKTLKQ-QTFTIEVKPEDTVVEVKKKIETEKG---PDYPAEQQKLIYSGKILKDETTVGEYKVKEKKFIVVML   73 (340)
T ss_pred             CeeEeeeccC-ceeEeecCcchhHHHHHHHHHhccC---CCCchhhheeeecceeccCCcchhhhccccCceEEEEE
Confidence            6899999998 9999999999999999999999751   13999999999999999999999999999999999984

>cd01814 NTGP5 Ubiquitin-like NTGP5 and ATGP4

Probab=99.23  E-value=3.8e-11  Score=89.11  Aligned_cols=63  Identities=27%  Similarity=0.390  Sum_probs=54.5

Q ss_pred             eeecCCcchHHHHHHhhh-----hhcCCC--CcceEEEeCCeeeccCCcccccC------CCCCCEEEEEEccCCC
Q 044874          110 PLDMDVNDTVLRLKEKIH-----EMESIP--VNRLLVQSSGAELQDHRSLRDCE------LMDNAEIDVHVRPSPT  172 (269)
Q Consensus       110 ~~~v~~~~TV~~lK~~I~-----~~~gip--~~~q~L~~~g~~L~d~~~L~~y~------i~~~~~i~l~~~~~~~  172 (269)
                      ........||++||++|+     .++|+|  +++|+|+|+|+.|+|++||++|+      +....|+||+++++..
T Consensus        19 p~~~~~sdTV~~lKekI~~~~p~~ke~~P~~~~~qKLIysGKiLeD~~TL~d~~~p~g~~~~~~~TmHvvlr~~~~   94 (113)
T cd01814          19 PKRYPAATTVDFLKERVVSQWPKDKEVGPKTVNEVKLISAGKILENSKTVGECRSPVGDIAGGVITMHVVVQPPLA   94 (113)
T ss_pred             ccccChhhHHHHHHHHHHHhcccccccCCCCHHHeEEEeCCeecCCCCcHHHhCCcccccCCCceEEEEEecCCCC
Confidence            344557899999999999     555667  99999999999999999999999      7778999999998743

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

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

Probab=99.22  E-value=1.9e-11  Score=111.30  Aligned_cols=75  Identities=21%  Similarity=0.383  Sum_probs=68.7

Q ss_pred             cceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecC
Q 044874          184 RKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNG  263 (269)
Q Consensus       184 ~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~  263 (269)
                      ..++|.||+.+.  ...+.|....||.+||+.|..+     ++.|+++++|||.||+|+|+.||..|||++|.||||+.+
T Consensus        14 ~~irV~Vkt~~d--k~~~~V~~~ssV~qlKE~I~~~-----f~a~~dqlvLIfaGrILKD~dTL~~~gI~Dg~TvHLVik   86 (493)
T KOG0010|consen   14 SLIRVTVKTPKD--KYEVNVASDSSVLQLKELIAQR-----FGAPPDQLVLIYAGRILKDDDTLKQYGIQDGHTVHLVIK   86 (493)
T ss_pred             ceeEEEEecCCc--ceeEecccchHHHHHHHHHHHh-----cCCChhHeeeeecCccccChhhHHHcCCCCCcEEEEEec
Confidence            468999998775  7788999999999999999997     499999999999999999999999999999999999976


Q ss_pred             cc
Q 044874          264 SV  265 (269)
Q Consensus       264 ~~  265 (269)
                      .-
T Consensus        87 ~~   88 (493)
T KOG0010|consen   87 SQ   88 (493)
T ss_pred             cC
Confidence            54

>cd01769 UBL Ubiquitin-like domain of UBL

Probab=99.22  E-value=5.3e-11  Score=81.96  Aligned_cols=67  Identities=25%  Similarity=0.449  Sum_probs=61.0

Q ss_pred             EEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEec
Q 044874          190 VLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       190 V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      |+..+| +.+.++++++.||.+||++|+...     ++|++.|+|+|+|+.|+|+.+|.+|++.++++|++..
T Consensus         2 v~~~~~-~~~~~~~~~~~ti~~lK~~i~~~~-----~~~~~~~~l~~~g~~l~d~~~l~~~~v~~~~~i~v~~   68 (69)
T cd01769           2 VKTLTG-KTFELEVSPDDTVAELKAKIAAKE-----GVPPEQQRLIYAGKILKDDKTLSDYGIQDGSTLHLVL   68 (69)
T ss_pred             eEccCC-CEEEEEECCCChHHHHHHHHHHHH-----CcChHHEEEEECCcCCCCcCCHHHCCCCCCCEEEEEE
Confidence            455566 888999999999999999999975     8999999999999999999999999999999999863

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.

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

Probab=99.19  E-value=1.3e-10  Score=81.13  Aligned_cols=70  Identities=23%  Similarity=0.377  Sum_probs=64.0

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCC-CceEEEecCeeecCCCccccccCCCCCEEEEe
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQ-DGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIF  261 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~-~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~  261 (269)
                      |+|.|+..+| +.+.+.|.+++++..|++..+++.     ++|. +.++|+|.|+.|+++.|+++||+++||+|++.
T Consensus         1 I~i~v~~~~~-~~~~~~v~~~~~~~~l~~~~~~~~-----~i~~~~~~~l~fdG~~L~~~~T~~~~~ied~d~Idv~   71 (72)
T PF11976_consen    1 ITIKVRSQDG-KEIKFKVKPTTTVSKLIEKYCEKK-----GIPPEESIRLIFDGKRLDPNDTPEDLGIEDGDTIDVI   71 (72)
T ss_dssp             EEEEEEETTS-EEEEEEEETTSCCHHHHHHHHHHH-----TTTT-TTEEEEETTEEE-TTSCHHHHT-STTEEEEEE
T ss_pred             CEEEEEeCCC-CEEEEEECCCCcHHHHHHHHHHhh-----CCCccceEEEEECCEEcCCCCCHHHCCCCCCCEEEEE
Confidence            5788998888 899999999999999999999986     9999 89999999999999999999999999999885

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

>cd01795 USP48_C USP ubiquitin-specific protease

Probab=99.15  E-value=1e-10  Score=84.29  Aligned_cols=60  Identities=13%  Similarity=0.122  Sum_probs=55.1

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCC-CccccccCCCCCEEEEec
Q 044874          198 RIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDD-RSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       198 ~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~-~tL~~~~i~~~~~i~l~~  262 (269)
                      ...++|++++||.+||.+|++..     ++|++.|+|+|+|+.|.|+ +||.+|||..+++|.|.-
T Consensus        16 ~~~L~V~~~~TVg~LK~lImQ~f-----~V~P~dQkL~~dG~~L~DDsrTLssyGv~sgSvl~Lli   76 (107)
T cd01795          16 EKALLVSANQTLKELKIQIMHAF-----SVAPFDQNLSIDGKILSDDCATLGTLGVIPESVILLKA   76 (107)
T ss_pred             CceEEeCccccHHHHHHHHHHHh-----cCCcccceeeecCceeccCCccHHhcCCCCCCEEEEEe
Confidence            56788999999999999999985     9999999999999999876 699999999999998863

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

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

Probab=99.04  E-value=2.3e-09  Score=77.08  Aligned_cols=73  Identities=16%  Similarity=0.239  Sum_probs=59.0

Q ss_pred             eEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEE-ecCe-----ee-cCCCccccccCCCCCEEE
Q 044874          187 KLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFI-YKQN-----VM-DDDRSFRWHHVGQGDTIE  259 (269)
Q Consensus       187 ~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~-~~g~-----~L-~d~~tL~~~~i~~~~~i~  259 (269)
                      .|+|............++++.||.+||++++..-     |+|++.|+|. |.|+     .| +|+.+|.+||+++|.+||
T Consensus         3 ~v~i~~~~~~~~~ekr~~~~~Tv~~lK~kl~~~~-----G~~~~~mrL~l~~~~~~~~~~l~~d~~~L~~y~~~dg~~Ih   77 (84)
T cd01789           3 TVNITSSADSFSFEKKYSRGLTIAELKKKLELVV-----GTPASSMRLQLFDGDDKLVSKLDDDDALLGSYPVDDGCRIH   77 (84)
T ss_pred             EEEEEeCCCceeeeEecCCCCcHHHHHHHHHHHH-----CCCccceEEEEEcCCCCeEeecCCCccEeeeccCCCCCEEE
Confidence            4455443222556667999999999999999975     9999999995 8888     56 667899999999999999


Q ss_pred             EecCc
Q 044874          260 IFNGS  264 (269)
Q Consensus       260 l~~~~  264 (269)
                      |.+.+
T Consensus        78 VvD~~   82 (84)
T cd01789          78 VIDVS   82 (84)
T ss_pred             EEeCC
Confidence            99754

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.

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

Probab=98.98  E-value=3.1e-09  Score=76.44  Aligned_cols=70  Identities=24%  Similarity=0.310  Sum_probs=57.3

Q ss_pred             EEEEEcCC-CCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEE-EcCE-----Ec-CCCCccccCCCCCCCEEEEEE
Q 044874            2 DVIFEPQR-GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLV-FNGQ-----VL-QDDRDVEHCEILQNSRIQLLV   71 (269)
Q Consensus         2 ~i~vk~~~-g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~-~~G~-----~L-~d~~tL~~~~i~~~~~i~l~~   71 (269)
                      .|+|.... .......++++.||.+||++++..+|+||..|+|. |.|+     .| +|+.+|++|++++|.+||+.-
T Consensus         3 ~v~i~~~~~~~~~ekr~~~~~Tv~~lK~kl~~~~G~~~~~mrL~l~~~~~~~~~~l~~d~~~L~~y~~~dg~~IhVvD   80 (84)
T cd01789           3 TVNITSSADSFSFEKKYSRGLTIAELKKKLELVVGTPASSMRLQLFDGDDKLVSKLDDDDALLGSYPVDDGCRIHVID   80 (84)
T ss_pred             EEEEEeCCCceeeeEecCCCCcHHHHHHHHHHHHCCCccceEEEEEcCCCCeEeecCCCccEeeeccCCCCCEEEEEe
Confidence            45665533 33344459999999999999999999999999995 7776     45 678899999999999999874

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.

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

Probab=98.95  E-value=9.1e-09  Score=70.99  Aligned_cols=72  Identities=33%  Similarity=0.561  Sum_probs=68.4

Q ss_pred             EEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecC
Q 044874            3 VIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASD   74 (269)
Q Consensus         3 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~   74 (269)
                      +++++..|+++.+++.+..+|..+|.+|+...+++++.|++.+.|+.|+|+.++.+|+|..++++++..+..
T Consensus         2 ~~~~~~~gk~~~~~~~~~~~i~~~k~~i~~~~~~~~~~q~~~~~~~~l~d~~~l~~~~i~~~~~~~l~~~~~   73 (75)
T KOG0001|consen    2 IFVKTLDGKTITLEVSPSDTIEVVKAKIRDKEGIPVDQQRLIFGGKPLEDGRTLADYNIQEGSTLHLVLSLR   73 (75)
T ss_pred             EEEEecCCCEEEEEecCCCHHHHHHHHHHhhcCCCCeeEEEEECCEECcCCCcHHHhCCCCCCEEEEEEecC
Confidence            567788999999999999999999999999999999999999999999999999999999999999998765

>cd01788 ElonginB Ubiquitin-like domain of Elongin B

Probab=98.88  E-value=8.8e-09  Score=76.22  Aligned_cols=76  Identities=24%  Similarity=0.316  Sum_probs=65.7

Q ss_pred             CEEEEEcCC-CCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCC-------CCCCEEEEEEe
Q 044874            1 MDVIFEPQR-GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEI-------LQNSRIQLLVA   72 (269)
Q Consensus         1 M~i~vk~~~-g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i-------~~~~~i~l~~~   72 (269)
                      |-+|+.... ..++.+++.++.||.+||++|+.....||..|+|+-.+..|+|++||++||+       +..+++-|.++
T Consensus         1 MdvFlmIrR~KTTiF~dakes~tVlelK~~iegI~k~pp~dQrL~kd~qvLeD~kTL~d~g~t~~~akaq~pA~vgLa~r   80 (119)
T cd01788           1 MDVFLMIRRHKTTIFTDAKESTTVYELKRIVEGILKRPPEDQRLYKDDQLLDDGKTLGDCGFTSQTARPQAPATVGLAFR   80 (119)
T ss_pred             CceEEEEEecceEEEeecCCcccHHHHHHHHHHHhcCChhHheeecCceeecccccHHHcCccccccccCCCCeEEEEEe
Confidence            556666543 3467889999999999999999999999999999977788999999999999       77999999999


Q ss_pred             cCCC
Q 044874           73 SDNK   76 (269)
Q Consensus        73 ~~~g   76 (269)
                      ...|
T Consensus        81 ~~d~   84 (119)
T cd01788          81 SSDD   84 (119)
T ss_pred             cCCC
Confidence            7544

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.

>PLN02560 enoyl-CoA reductase

Probab=98.88  E-value=7e-09  Score=91.98  Aligned_cols=69  Identities=23%  Similarity=0.341  Sum_probs=62.0

Q ss_pred             CEEEEEcCCCCEE---EEEEcCCCCHHHHHHHHHHHhCC-CCCcEEEEEc---C----EEcCCCCccccCCCCCCCEEEE
Q 044874            1 MDVIFEPQRGKAF---TIEVGFFDTVLEIKEKIEKYQGI-PVPKQTLVFN---G----QVLQDDRDVEHCEILQNSRIQL   69 (269)
Q Consensus         1 M~i~vk~~~g~~~---~l~v~~~~tV~~lK~~I~~~~gi-~~~~q~L~~~---G----~~L~d~~tL~~~~i~~~~~i~l   69 (269)
                      |+|+|+..+|+.+   ++++++++||++||++|+++.++ ++++|||.+.   |    ..|+|+.+|+++|+++++++++
T Consensus         1 M~I~Vk~~~Gk~i~~~~lev~~~aTV~dLK~~Isk~~~~~~~~RqRL~~~~~~gk~~g~~L~d~ktL~d~gv~~gstLy~   80 (308)
T PLN02560          1 MKVTVVSRSGREIIKGGLEVPDSATVADLKKAIHKRKKKYYPSRQRLTLPLPPGKTRPTVLDDSKSLKDYGLGDGGTVVF   80 (308)
T ss_pred             CEEEEEcCCCCeecceeEEcCCCCcHHHHHHHHHHHcCCCChhheEEEEecCCCCcCccccCCCCCHHhcCCCCCceEEE
Confidence            8999999889987   79999999999999999999986 8999999983   3    3789999999999999998664

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

Probab=98.84  E-value=2.1e-08  Score=69.14  Aligned_cols=69  Identities=23%  Similarity=0.422  Sum_probs=64.0

Q ss_pred             EEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEec
Q 044874          188 LLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       188 i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      +++.+..| +++.+++.+.++|..+|.+|+..+     ++|.+.|++.|.|+.|+|+.+|.+|+|..+++++++.
T Consensus         2 ~~~~~~~g-k~~~~~~~~~~~i~~~k~~i~~~~-----~~~~~~q~~~~~~~~l~d~~~l~~~~i~~~~~~~l~~   70 (75)
T KOG0001|consen    2 IFVKTLDG-KTITLEVSPSDTIEVVKAKIRDKE-----GIPVDQQRLIFGGKPLEDGRTLADYNIQEGSTLHLVL   70 (75)
T ss_pred             EEEEecCC-CEEEEEecCCCHHHHHHHHHHhhc-----CCCCeeEEEEECCEECcCCCcHHHhCCCCCCEEEEEE
Confidence            46667777 999999999999999999999987     9999999999999999999999999999999999874

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

Probab=98.81  E-value=7.8e-09  Score=101.26  Aligned_cols=73  Identities=29%  Similarity=0.466  Sum_probs=69.8

Q ss_pred             EEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCC
Q 044874            2 DVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDN   75 (269)
Q Consensus         2 ~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~   75 (269)
                      .|+||+++.++.++.+...+||.+||+.|.++.+|+...|||+|.|++|.|++++.+|+| +|.+|||+-+++.
T Consensus         4 ~v~vktld~r~~t~~ig~q~ti~~~~d~~r~~~ni~s~~qr~i~~grvl~~~k~vq~~~v-dgk~~hlverppp   76 (1143)
T KOG4248|consen    4 NVLVKTLDSRTRTFIIGAQMTIKEFKDHIRASVNIPSEKQRLIYQGRVLQDDKKVQEYNV-DGKVIHLVERPPP   76 (1143)
T ss_pred             ceeeeecccceeEEEechHHHHHHHHHHHHHhcccccccceeeecceeeccchhhhhccC-CCeEEEeeccCCC
Confidence            478999999999999999999999999999999999999999999999999999999999 9999999998653

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

Probab=98.79  E-value=2.7e-08  Score=72.06  Aligned_cols=71  Identities=24%  Similarity=0.331  Sum_probs=56.9

Q ss_pred             EEEEEcCCC--CEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEc----CE---Ec-CCCCccccCCCCCCCEEEEEE
Q 044874            2 DVIFEPQRG--KAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFN----GQ---VL-QDDRDVEHCEILQNSRIQLLV   71 (269)
Q Consensus         2 ~i~vk~~~g--~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~----G~---~L-~d~~tL~~~~i~~~~~i~l~~   71 (269)
                      +|+|.....  ......++++.||.+||.+|+..+|+|++.|+|.+.    +.   .+ +|+.+|.+||+.+|.+|++.=
T Consensus         3 ~l~It~~~~~~~~~ekr~~~~~Tv~eLK~kl~~~~Gi~~~~m~L~l~~~~~~~~~~~~~dd~~~L~~y~~~dg~~i~V~D   82 (87)
T PF14560_consen    3 KLFITSSNSKQRSVEKRFPKSITVSELKQKLEKLTGIPPSDMRLQLKSDKDDSKIEELDDDDATLGSYGIKDGMRIHVVD   82 (87)
T ss_dssp             EEEEEESSSSSSEEEEEEETTSBHHHHHHHHHHHHTS-TTTEEEEEE-TSSSSEEEESSGSSSBCCHHT-STTEEEEEEE
T ss_pred             EEEEEeCCCCCeeEEEEcCCCCCHHHHHHHHHHHhCCCcccEEEEEEecCCCccccccCCCccEeecCCCCCCCEEEEEe
Confidence            566665543  488899999999999999999999999999999886    21   24 578999999999999999874


Q ss_pred             e
Q 044874           72 A   72 (269)
Q Consensus        72 ~   72 (269)
                      .
T Consensus        83 ~   83 (87)
T PF14560_consen   83 T   83 (87)
T ss_dssp             -
T ss_pred             C
Confidence            3

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

Probab=98.77  E-value=4.9e-08  Score=70.68  Aligned_cols=74  Identities=23%  Similarity=0.361  Sum_probs=56.2

Q ss_pred             eEEEEecCC-CeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEec----C---eee-cCCCccccccCCCCCE
Q 044874          187 KLLVLTQCG-NKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYK----Q---NVM-DDDRSFRWHHVGQGDT  257 (269)
Q Consensus       187 ~i~V~~~~g-~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~----g---~~L-~d~~tL~~~~i~~~~~  257 (269)
                      +|+|..... .......++.+.||.+||.+|+..-     |+|++.|+|.+.    +   ..| +|+.+|.+||+++|.+
T Consensus         3 ~l~It~~~~~~~~~ekr~~~~~Tv~eLK~kl~~~~-----Gi~~~~m~L~l~~~~~~~~~~~~~dd~~~L~~y~~~dg~~   77 (87)
T PF14560_consen    3 KLFITSSNSKQRSVEKRFPKSITVSELKQKLEKLT-----GIPPSDMRLQLKSDKDDSKIEELDDDDATLGSYGIKDGMR   77 (87)
T ss_dssp             EEEEEESSSSSSEEEEEEETTSBHHHHHHHHHHHH-----TS-TTTEEEEEE-TSSSSEEEESSGSSSBCCHHT-STTEE
T ss_pred             EEEEEeCCCCCeeEEEEcCCCCCHHHHHHHHHHHh-----CCCcccEEEEEEecCCCccccccCCCccEeecCCCCCCCE
Confidence            455554332 1478889999999999999999985     999999999976    1   123 5678999999999999


Q ss_pred             EEEecCcc
Q 044874          258 IEIFNGSV  265 (269)
Q Consensus       258 i~l~~~~~  265 (269)
                      |+|...+-
T Consensus        78 i~V~D~~p   85 (87)
T PF14560_consen   78 IHVVDTNP   85 (87)
T ss_dssp             EEEEE-T-
T ss_pred             EEEEeCCC
Confidence            99987543

>PLN02560 enoyl-CoA reductase

Probab=98.76  E-value=2.4e-08  Score=88.60  Aligned_cols=70  Identities=26%  Similarity=0.405  Sum_probs=60.4

Q ss_pred             eeEEEEecCCCeEE---EEEecCCCcHHHHHHHHHHhhhccCCCC-CCCceEEEec-------CeeecCCCccccccCCC
Q 044874          186 LKLLVLTQCGNKRI---PVEVNASDNVSELRKELQKLHQRYHFHL-PQDGYFFIYK-------QNVMDDDRSFRWHHVGQ  254 (269)
Q Consensus       186 ~~i~V~~~~g~~~~---~l~v~~~~tV~~lK~~i~~~~~~~~~~~-p~~~q~l~~~-------g~~L~d~~tL~~~~i~~  254 (269)
                      |+|.|+..+| +.+   .++++++.||++||++|+++.     +. ++++|+|++.       |+.|+|+++|.+||+++
T Consensus         1 M~I~Vk~~~G-k~i~~~~lev~~~aTV~dLK~~Isk~~-----~~~~~~RqRL~~~~~~gk~~g~~L~d~ktL~d~gv~~   74 (308)
T PLN02560          1 MKVTVVSRSG-REIIKGGLEVPDSATVADLKKAIHKRK-----KKYYPSRQRLTLPLPPGKTRPTVLDDSKSLKDYGLGD   74 (308)
T ss_pred             CEEEEEcCCC-CeecceeEEcCCCCcHHHHHHHHHHHc-----CCCChhheEEEEecCCCCcCccccCCCCCHHhcCCCC
Confidence            5688887777 665   799999999999999999986     54 8999999983       34899999999999999


Q ss_pred             CCEEEEe
Q 044874          255 GDTIEIF  261 (269)
Q Consensus       255 ~~~i~l~  261 (269)
                      |++|++=
T Consensus        75 gstLy~k   81 (308)
T PLN02560         75 GGTVVFK   81 (308)
T ss_pred             CceEEEE
Confidence            9999874

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

Probab=98.65  E-value=1.8e-07  Score=70.51  Aligned_cols=73  Identities=21%  Similarity=0.368  Sum_probs=55.0

Q ss_pred             EEEEEcCCCC-EEEEEEcCCCCHHHHHHHHHHHh-------CCCCCcEEEEEcCEEcCCCCccccCCCCCCC------EE
Q 044874            2 DVIFEPQRGK-AFTIEVGFFDTVLEIKEKIEKYQ-------GIPVPKQTLVFNGQVLQDDRDVEHCEILQNS------RI   67 (269)
Q Consensus         2 ~i~vk~~~g~-~~~l~v~~~~tV~~lK~~I~~~~-------gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~------~i   67 (269)
                      .|+++..+|. +-.+.+++++||++||+.|...-       -..++..||+|.|+.|+|+.+|+++.+..+.      ++
T Consensus         4 ~lkf~l~~G~d~~~~~~~~~~TV~~lKe~i~~~WP~d~~~~p~s~~~lRLI~~GriL~d~~tL~~~~~~~~~~~~~~~vm   83 (111)
T PF13881_consen    4 ELKFRLADGKDIGPFRFDPSTTVADLKERIWAEWPEDWEERPKSPSDLRLIYAGRILEDNKTLSDCRLPSGETPGGPTVM   83 (111)
T ss_dssp             EEEEEETTS-EEEEEEE-TTSBHHHHHHHHHHSSSTTSSSTT-SGGGEEEEETTEEE-SSSBTGGGT--TTSETT--EEE
T ss_pred             EEEEEEeCCCcccccccCccChHHHHHHHHHHHCccccccCCCChhhEEEEeCCeecCCcCcHHHhCCCCCCCCCCCEEE
Confidence            4666777899 88999999999999999999753       1345678999999999999999999988655      67


Q ss_pred             EEEEecC
Q 044874           68 QLLVASD   74 (269)
Q Consensus        68 ~l~~~~~   74 (269)
                      ||+++..
T Consensus        84 Hlvvrp~   90 (111)
T PF13881_consen   84 HLVVRPN   90 (111)
T ss_dssp             EEEE-SS
T ss_pred             EEEecCC
Confidence            7777655

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

Probab=98.62  E-value=6e-08  Score=95.21  Aligned_cols=73  Identities=19%  Similarity=0.335  Sum_probs=67.6

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCcc
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSV  265 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~  265 (269)
                      ..+.||+++. ++.++.|...+||.++|.+|.+.-     +|+.+.|||||.|++|.|++++.+|+| +|-+|||+.+.-
T Consensus         3 ~~v~vktld~-r~~t~~ig~q~ti~~~~d~~r~~~-----ni~s~~qr~i~~grvl~~~k~vq~~~v-dgk~~hlverpp   75 (1143)
T KOG4248|consen    3 PNVLVKTLDS-RTRTFIIGAQMTIKEFKDHIRASV-----NIPSEKQRLIYQGRVLQDDKKVQEYNV-DGKVIHLVERPP   75 (1143)
T ss_pred             cceeeeeccc-ceeEEEechHHHHHHHHHHHHHhc-----ccccccceeeecceeeccchhhhhccC-CCeEEEeeccCC
Confidence            4589999997 999999999999999999999975     999999999999999999999999999 999999997543

>cd01801 Tsc13_N Ubiquitin-like domain of Tsc13

Probab=98.61  E-value=1.6e-07  Score=66.38  Aligned_cols=68  Identities=18%  Similarity=0.221  Sum_probs=53.5

Q ss_pred             EEEEEcCC-CCEEEEEE-cCCCCHHHHHHHHHHHhC-CCCCcEEEE--EcCEEcCCCCccccCCCCCCCEEEE
Q 044874            2 DVIFEPQR-GKAFTIEV-GFFDTVLEIKEKIEKYQG-IPVPKQTLV--FNGQVLQDDRDVEHCEILQNSRIQL   69 (269)
Q Consensus         2 ~i~vk~~~-g~~~~l~v-~~~~tV~~lK~~I~~~~g-i~~~~q~L~--~~G~~L~d~~tL~~~~i~~~~~i~l   69 (269)
                      +|.++... .....+++ +++.||.+||..|+...+ +++++|||.  +.|+.|.|+.+|.+||+.++++|++
T Consensus         2 ~i~~~~~~~k~~~~~~~~~~~aTV~dlk~~i~~~~~~~~~~Rqrl~~~~~g~~L~d~~tL~~~gv~~g~~lyv   74 (77)
T cd01801           2 EILDAKRSDKPIGKLKVSSGDATIADLKKLIAKSSPQLTVNRQSLRLEPKGKSLKDDDTLVDLGVGAGATLYV   74 (77)
T ss_pred             eeeccccCcCceeecccCCCCccHHHHHHHHHHHcCCCCcceeEEEeCCCCcccCCcccHhhcCCCCCCEEEE
Confidence            45555544 22222444 488999999999999976 689999996  6799999999999999999998876

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.

>cd01801 Tsc13_N Ubiquitin-like domain of Tsc13

Probab=98.61  E-value=1.4e-07  Score=66.74  Aligned_cols=53  Identities=21%  Similarity=0.266  Sum_probs=46.6

Q ss_pred             cCCCcHHHHHHHHHHhhhccCCCCCCCceEEE--ecCeeecCCCccccccCCCCCEEEE
Q 044874          204 NASDNVSELRKELQKLHQRYHFHLPQDGYFFI--YKQNVMDDDRSFRWHHVGQGDTIEI  260 (269)
Q Consensus       204 ~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~--~~g~~L~d~~tL~~~~i~~~~~i~l  260 (269)
                      .++.||.+||+.|....    -.+++++|+|.  +.|+.|.|+.+|.+|||++|++||+
T Consensus        20 ~~~aTV~dlk~~i~~~~----~~~~~~Rqrl~~~~~g~~L~d~~tL~~~gv~~g~~lyv   74 (77)
T cd01801          20 SGDATIADLKKLIAKSS----PQLTVNRQSLRLEPKGKSLKDDDTLVDLGVGAGATLYV   74 (77)
T ss_pred             CCCccHHHHHHHHHHHc----CCCCcceeEEEeCCCCcccCCcccHhhcCCCCCCEEEE
Confidence            57789999999999864    14688998885  8999999999999999999999987

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.

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

Probab=98.59  E-value=6e-07  Score=67.71  Aligned_cols=77  Identities=14%  Similarity=0.272  Sum_probs=53.8

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCC--CCceEEEecCeeecCCCccccccCCCCC------E
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLP--QDGYFFIYKQNVMDDDRSFRWHHVGQGD------T  257 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p--~~~q~l~~~g~~L~d~~tL~~~~i~~~~------~  257 (269)
                      +.|.....+|.....+..++++||.+||+.|.......--.-|  ++..+|||.||+|+|+.||+++++..|+      +
T Consensus         3 i~lkf~l~~G~d~~~~~~~~~~TV~~lKe~i~~~WP~d~~~~p~s~~~lRLI~~GriL~d~~tL~~~~~~~~~~~~~~~v   82 (111)
T PF13881_consen    3 IELKFRLADGKDIGPFRFDPSTTVADLKERIWAEWPEDWEERPKSPSDLRLIYAGRILEDNKTLSDCRLPSGETPGGPTV   82 (111)
T ss_dssp             EEEEEEETTS-EEEEEEE-TTSBHHHHHHHHHHSSSTTSSSTT-SGGGEEEEETTEEE-SSSBTGGGT--TTSETT--EE
T ss_pred             EEEEEEEeCCCcccccccCccChHHHHHHHHHHHCccccccCCCChhhEEEEeCCeecCCcCcHHHhCCCCCCCCCCCEE
Confidence            4455555688337888999999999999999985422111112  3469999999999999999999999888      4


Q ss_pred             EEEec
Q 044874          258 IEIFN  262 (269)
Q Consensus       258 i~l~~  262 (269)
                      +||+-
T Consensus        83 mHlvv   87 (111)
T PF13881_consen   83 MHLVV   87 (111)
T ss_dssp             EEEEE
T ss_pred             EEEEe
Confidence            56663

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

Probab=98.57  E-value=4.7e-07  Score=61.76  Aligned_cols=72  Identities=25%  Similarity=0.374  Sum_probs=63.8

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEc---C--EEcCCCCccccCCCCCCCEEEEEEec
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFN---G--QVLQDDRDVEHCEILQNSRIQLLVAS   73 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~---G--~~L~d~~tL~~~~i~~~~~i~l~~~~   73 (269)
                      ++|+|+..++..+++.|+|..+|.++|++|....+++- .|||.|.   |  +.|.+..+|++|||..+..|.|+-..
T Consensus         1 iqVtV~q~g~~dl~l~vnPy~pI~k~K~kI~~~~~~~g-~qrLsfQepgg~rqlL~s~~sLA~yGiFs~~~i~lleT~   77 (80)
T cd01811           1 IQVTVEQTGYSDWILRVNPYSPIRKIKEKIRRSRNCSG-LQRLSFQEPGGERQLLSSRKSLADYGIFSKTNICLLETF   77 (80)
T ss_pred             CEEEeeecCCCceEEEeCCcchHHHHHHHHHHhhCccc-ceEEEeecCCcccccccccccHhhhcceeccEEEEEecC
Confidence            58999999999999999999999999999999999985 9999994   3  35789999999999988888877553

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.

>cd01788 ElonginB Ubiquitin-like domain of Elongin B

Probab=98.56  E-value=2.4e-07  Score=68.64  Aligned_cols=69  Identities=14%  Similarity=0.217  Sum_probs=58.2

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccC-------CCCCEE
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHV-------GQGDTI  258 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i-------~~~~~i  258 (269)
                      +.+.|+-..  .++-+..+++.||.+||++|+..-     ..|++.|+|+-.+.+|+|++||++||+       +.-.+|
T Consensus         3 vFlmIrR~K--TTiF~dakes~tVlelK~~iegI~-----k~pp~dQrL~kd~qvLeD~kTL~d~g~t~~~akaq~pA~v   75 (119)
T cd01788           3 VFLMIRRHK--TTIFTDAKESTTVYELKRIVEGIL-----KRPPEDQRLYKDDQLLDDGKTLGDCGFTSQTARPQAPATV   75 (119)
T ss_pred             eEEEEEecc--eEEEeecCCcccHHHHHHHHHHHh-----cCChhHheeecCceeecccccHHHcCccccccccCCCCeE
Confidence            456666533  588899999999999999999975     899999999988889999999999999       666666


Q ss_pred             EEe
Q 044874          259 EIF  261 (269)
Q Consensus       259 ~l~  261 (269)
                      -|.
T Consensus        76 gLa   78 (119)
T cd01788          76 GLA   78 (119)
T ss_pred             EEE
Confidence            554

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

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

Probab=98.46  E-value=2.9e-07  Score=65.41  Aligned_cols=69  Identities=25%  Similarity=0.289  Sum_probs=44.2

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEc---CEEc--CCCCccccCCCCCCCEEEEE
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFN---GQVL--QDDRDVEHCEILQNSRIQLL   70 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~---G~~L--~d~~tL~~~~i~~~~~i~l~   70 (269)
                      |-|.|++.+| .+.+++++++|+.+|+++|++..++|...|.|+.+   ...|  .++.+|+++|+++|+.|+|.
T Consensus         5 milRvrS~dG-~~Rie~~~~~t~~~L~~kI~~~l~~~~~~~~L~~~~~~~~~l~s~~~~tl~~lglkHGdmlyL~   78 (80)
T PF11543_consen    5 MILRVRSKDG-MKRIEVSPSSTLSDLKEKISEQLSIPDSSQSLSKDRNNKEELKSSDSKTLSSLGLKHGDMLYLK   78 (80)
T ss_dssp             -EEEEE-SSE-EEEEEE-TTSBHHHHHHHHHHHS---TTT---BSSGGGGGCSSS-TT-CCCCT---TT-EEE--
T ss_pred             EEEEEECCCC-CEEEEcCCcccHHHHHHHHHHHcCCCCcceEEEecCCCCcccccCCcCCHHHcCCCCccEEEEe
Confidence            6688888766 57889999999999999999999999999988654   2345  47899999999999999874

Npl4 has a N-terminal ubiquitin-like domain which has within its structure a beta-grasp fold with a helical insert []. This entry represents the ubiquitin-like domain.; PDB: 2PJH_A 1WF9_A.

>cd00196 UBQ Ubiquitin-like proteins

Probab=98.40  E-value=2.5e-06  Score=56.04  Aligned_cols=67  Identities=28%  Similarity=0.427  Sum_probs=60.5

Q ss_pred             EEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEE
Q 044874            5 FEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLV   71 (269)
Q Consensus         5 vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~   71 (269)
                      |+..++....+.+.++.|+.++|+++..+.|++++.++|+++|..+.+...+.+|++.+++.+++..
T Consensus         2 v~~~~~~~~~~~~~~~~tv~~l~~~i~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~   68 (69)
T cd00196           2 VKLNDGKTVELLVPSGTTVADLKEKLAKKLGLPPEQQRLLVNGKILPDSLTLEDYGLQDGDELVLVP   68 (69)
T ss_pred             eEecCCCEEEEEcCCCCcHHHHHHHHHHHHCcChHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEe
Confidence            3444688899999999999999999999999999999999999999998888899999999998864

Ubiquitin homologs; Includes ubiquitin and ubiquitin-like proteins. Ubiquitin-mediated proteolysis is part of the regulated turnover of proteins required for controlling cell cycle progression. Other family members are protein modifiers that perform a wide range of functions. Ubiquitination usually results in a covalent bond between the C-terminus of ubiquitin and the epsilon-amino group of a substrate lysine. The three-step mechanism requires an activating enzyme (E1) that forms a thiol ester with the C-terminal carboxy group, a conjugating enzyme (E2) that transiently carries the activated ubiquitin molecule as a thiol ester, and a ligase (E3) that transfers the activated ubiquitin from the E2 to the substrate lysine residue. In poly-ubiquitination, ubiquitin itself is the substrate.

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

Probab=98.35  E-value=1.2e-06  Score=62.17  Aligned_cols=71  Identities=17%  Similarity=0.312  Sum_probs=43.2

Q ss_pred             ceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEec---Ceee--cCCCccccccCCCCCEEE
Q 044874          185 KLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYK---QNVM--DDDRSFRWHHVGQGDTIE  259 (269)
Q Consensus       185 ~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~---g~~L--~d~~tL~~~~i~~~~~i~  259 (269)
                      +|-|.|+..+|  ...+++++++|+.+|+++|++.     +++|.+.+.|..+   ...|  .++.+|+++||+-||.||
T Consensus         4 ~milRvrS~dG--~~Rie~~~~~t~~~L~~kI~~~-----l~~~~~~~~L~~~~~~~~~l~s~~~~tl~~lglkHGdmly   76 (80)
T PF11543_consen    4 SMILRVRSKDG--MKRIEVSPSSTLSDLKEKISEQ-----LSIPDSSQSLSKDRNNKEELKSSDSKTLSSLGLKHGDMLY   76 (80)
T ss_dssp             --EEEEE-SSE--EEEEEE-TTSBHHHHHHHHHHH-----S---TTT---BSSGGGGGCSSS-TT-CCCCT---TT-EEE
T ss_pred             cEEEEEECCCC--CEEEEcCCcccHHHHHHHHHHH-----cCCCCcceEEEecCCCCcccccCCcCCHHHcCCCCccEEE
Confidence            57888888888  7788999999999999999996     4899888777522   2244  467899999999999999


Q ss_pred             Eec
Q 044874          260 IFN  262 (269)
Q Consensus       260 l~~  262 (269)
                      |.+
T Consensus        77 L~~   79 (80)
T PF11543_consen   77 LKP   79 (80)
T ss_dssp             ---
T ss_pred             Eec
Confidence            863

Npl4 has a N-terminal ubiquitin-like domain which has within its structure a beta-grasp fold with a helical insert []. This entry represents the ubiquitin-like domain.; PDB: 2PJH_A 1WF9_A.

>cd00196 UBQ Ubiquitin-like proteins

Probab=98.20  E-value=9.2e-06  Score=53.26  Aligned_cols=63  Identities=19%  Similarity=0.329  Sum_probs=57.1

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEec
Q 044874          194 CGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       194 ~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      .+ ....+.+.+..|+.++|++|.++.     +.+++.+.|.++|..+++...+.+|++.++++|++..
T Consensus         6 ~~-~~~~~~~~~~~tv~~l~~~i~~~~-----~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~   68 (69)
T cd00196           6 DG-KTVELLVPSGTTVADLKEKLAKKL-----GLPPEQQRLLVNGKILPDSLTLEDYGLQDGDELVLVP   68 (69)
T ss_pred             CC-CEEEEEcCCCCcHHHHHHHHHHHH-----CcChHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEe
Confidence            44 777888889999999999999986     7899999999999999999988999999999999864

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.

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

Probab=98.20  E-value=1.9e-05  Score=57.32  Aligned_cols=76  Identities=12%  Similarity=0.248  Sum_probs=70.6

Q ss_pred             EEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCC
Q 044874            2 DVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKP   77 (269)
Q Consensus         2 ~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~   77 (269)
                      ++.|+..++....+.|....+...|+...+++.|++.+..|+.|+|+.+.+.+|-.+.+.++++.|.++....||.
T Consensus        22 ~LKV~gqd~~~~~Fkikr~t~LkKLM~aYc~r~Gl~~~s~RFlFdG~rI~~~~TP~~L~mEd~D~Iev~~~q~gG~   97 (99)
T KOG1769|consen   22 NLKVKGQDGSVVVFKIKRHTPLKKLMKAYCERQGLSMNSLRFLFDGQRIRETHTPADLEMEDGDEIEVVQEQTGGF   97 (99)
T ss_pred             EEEEecCCCCEEEEEeecCChHHHHHHHHHHHcCCccceEEEEECCcCcCCCCChhhhCCcCCcEEEEEeecccCC
Confidence            5677777788889999999999999999999999999999999999999999999999999999999999888775

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

Probab=98.17  E-value=6.7e-07  Score=59.14  Aligned_cols=69  Identities=20%  Similarity=0.266  Sum_probs=61.3

Q ss_pred             EEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEE
Q 044874            2 DVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLL   70 (269)
Q Consensus         2 ~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~   70 (269)
                      ++.+...-|+...+.+++++||+++|..|++++|-.++...|--.+..++|.-+|++|.|.+|-.+.+.
T Consensus         3 ev~~nDrLGKKVRvKCn~dDtiGD~KKliaaQtGT~~~kivl~k~~~i~kd~I~L~dyeihdg~~lely   71 (73)
T KOG3493|consen    3 EVVLNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTRPEKIVLKKWYTIFKDHITLSDYEIHDGMNLELY   71 (73)
T ss_pred             eehhhhhcCceEEEEeCCcccccCHHHHHHHhhCCChhHhHHHhhhhhhhcccceeeEEeccCccEEEe
Confidence            456666779999999999999999999999999999998888777778899999999999999887764

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

Probab=98.10  E-value=9.3e-06  Score=74.23  Aligned_cols=75  Identities=21%  Similarity=0.356  Sum_probs=68.0

Q ss_pred             EEEEcCCCCEEEEE-EcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCCC
Q 044874            3 VIFEPQRGKAFTIE-VGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKPQ   78 (269)
Q Consensus         3 i~vk~~~g~~~~l~-v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~~   78 (269)
                      |.|| ..|+.+.++ ++.++|+..||++++..+|++|++|++.+.|..+.|+-.+...+|+++.+++|+.+...++.
T Consensus         6 v~VK-W~gk~y~v~~l~~d~t~~vlKaqlf~LTgV~PeRQKv~vKGg~a~dd~~~~al~iKpn~~lmMmGt~e~~~e   81 (473)
T KOG1872|consen    6 VIVK-WGGKKYPVETLSTDETPSVLKAQLFALTGVPPERQKVMVKGGLAKDDVDWGALQIKPNETLMMMGTAEAGLE   81 (473)
T ss_pred             Eeee-ecCccccceeccCCCchHHHHHHHHHhcCCCccceeEEEecccccccccccccccCCCCEEEeecccccccc
Confidence            4454 578899998 99999999999999999999999999999999999999999999999999999988875544

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

Probab=98.08  E-value=7.7e-06  Score=71.01  Aligned_cols=73  Identities=25%  Similarity=0.522  Sum_probs=63.4

Q ss_pred             CEEEEEcC---CCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEE-Eec
Q 044874            1 MDVIFEPQ---RGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLL-VAS   73 (269)
Q Consensus         1 M~i~vk~~---~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~-~~~   73 (269)
                      |.+.|...   .-..++++|+.+.+|.+||+.++.+.|+|+++.+++|.|+.|.++.++..+.+..-+.+|++ +++
T Consensus         1 m~~lvqf~~~~~~h~l~v~v~~~t~I~~lke~Vak~~gvp~D~L~viFaGKeLs~~ttv~~cDL~qqs~~hi~~lRP   77 (446)
T KOG0006|consen    1 MIVLVQFNKTGSSHGLPVEVDSDTSIFQLKEVVAKRQGVPADQLRVIFAGKELSNDTTVQNCDLSQQSATHIMLLRP   77 (446)
T ss_pred             CeEEEEeCCccccCceeEEEecCCCHHHHHHHHHHhhCCChhheEEEEeccccccCceeecccccccchhhhhccCc
Confidence            66777653   23458889999999999999999999999999999999999999999999999888888877 444

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

Probab=98.08  E-value=1.9e-05  Score=54.02  Aligned_cols=72  Identities=17%  Similarity=0.198  Sum_probs=58.3

Q ss_pred             EEEEecCCCCCCccccccceeecCCcchHHHHHHhhhhhcCCCCcceEEEeC---C--eeeccCCcccccCCCCCCEEEE
Q 044874           91 HLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSS---G--AELQDHRSLRDCELMDNAEIDV  165 (269)
Q Consensus        91 ~i~Vk~~~~~~~~~~~~~~~~~v~~~~TV~~lK~~I~~~~gip~~~q~L~~~---g--~~L~d~~~L~~y~i~~~~~i~l  165 (269)
                      +|.|+......       .........+|..+|++|+...|++- .|+|.|.   |  +.|.+..+|++|||.....|.|
T Consensus         2 qVtV~q~g~~d-------l~l~vnPy~pI~k~K~kI~~~~~~~g-~qrLsfQepgg~rqlL~s~~sLA~yGiFs~~~i~l   73 (80)
T cd01811           2 QVTVEQTGYSD-------WILRVNPYSPIRKIKEKIRRSRNCSG-LQRLSFQEPGGERQLLSSRKSLADYGIFSKTNICL   73 (80)
T ss_pred             EEEeeecCCCc-------eEEEeCCcchHHHHHHHHHHhhCccc-ceEEEeecCCcccccccccccHhhhcceeccEEEE
Confidence            56676666655       56666778999999999999999996 9999983   3  4578999999999999888888


Q ss_pred             EEccC
Q 044874          166 HVRPS  170 (269)
Q Consensus       166 ~~~~~  170 (269)
                      .-..+
T Consensus        74 leT~p   78 (80)
T cd01811          74 LETFP   78 (80)
T ss_pred             EecCC
Confidence            75543

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.

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

Probab=97.77  E-value=5.3e-05  Score=65.89  Aligned_cols=64  Identities=19%  Similarity=0.322  Sum_probs=59.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCcc
Q 044874          197 KRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSV  265 (269)
Q Consensus       197 ~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~  265 (269)
                      ..++++|+.+.++++||+.+..+.     |+|+++.++||.|++|.|+.++..+.+...+.+|++..|.
T Consensus        14 h~l~v~v~~~t~I~~lke~Vak~~-----gvp~D~L~viFaGKeLs~~ttv~~cDL~qqs~~hi~~lRP   77 (446)
T KOG0006|consen   14 HGLPVEVDSDTSIFQLKEVVAKRQ-----GVPADQLRVIFAGKELSNDTTVQNCDLSQQSATHIMLLRP   77 (446)
T ss_pred             CceeEEEecCCCHHHHHHHHHHhh-----CCChhheEEEEeccccccCceeecccccccchhhhhccCc
Confidence            678899999999999999999986     9999999999999999999999999999999999985543

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

Probab=97.59  E-value=9.5e-05  Score=53.04  Aligned_cols=62  Identities=27%  Similarity=0.395  Sum_probs=50.8

Q ss_pred             CEEEEEcC-CCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEE-cC-EEcCCCCccccCCCC
Q 044874            1 MDVIFEPQ-RGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVF-NG-QVLQDDRDVEHCEIL   62 (269)
Q Consensus         1 M~i~vk~~-~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~-~G-~~L~d~~tL~~~~i~   62 (269)
                      |.+|++.. ...++.++++++.||-+||.+++....-|++.|||+. .. +.|+|.++|+++|..
T Consensus         1 ~~~f~~VrR~kttif~da~es~tV~elK~~l~gi~~~Pvn~qrL~kmd~eqlL~D~ktL~d~gft   65 (110)
T KOG4495|consen    1 MDVFLRVRRHKTTIFTDAKESSTVFELKRKLEGILKRPVNEQRLYKMDTEQLLDDGKTLGDCGFT   65 (110)
T ss_pred             CceeeeeeecceeEEeecCccccHHHHHHHHHHHHhCCCcchheeecCHHHHhhccchhhhcccc
Confidence            44555533 3456888999999999999999999999999999987 33 578999999999653

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

Probab=97.57  E-value=0.00091  Score=48.66  Aligned_cols=78  Identities=17%  Similarity=0.266  Sum_probs=68.6

Q ss_pred             cceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecC
Q 044874          184 RKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNG  263 (269)
Q Consensus       184 ~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~  263 (269)
                      ..+++-|+-..+ ..+.+.|..+.....|.+.-+++.     |++.+..+|.|+|+.+.+..|=.+-+.++||.|.++.-
T Consensus        19 ~hi~LKV~gqd~-~~~~Fkikr~t~LkKLM~aYc~r~-----Gl~~~s~RFlFdG~rI~~~~TP~~L~mEd~D~Iev~~~   92 (99)
T KOG1769|consen   19 EHINLKVKGQDG-SVVVFKIKRHTPLKKLMKAYCERQ-----GLSMNSLRFLFDGQRIRETHTPADLEMEDGDEIEVVQE   92 (99)
T ss_pred             ceEEEEEecCCC-CEEEEEeecCChHHHHHHHHHHHc-----CCccceEEEEECCcCcCCCCChhhhCCcCCcEEEEEee
Confidence            457788877555 778899999999999999999987     99999999999999999999999999999999999865


Q ss_pred             cccC
Q 044874          264 SVTG  267 (269)
Q Consensus       264 ~~~~  267 (269)
                      -++|
T Consensus        93 q~gG   96 (99)
T KOG1769|consen   93 QTGG   96 (99)
T ss_pred             cccC
Confidence            4444

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

Probab=97.33  E-value=0.0012  Score=44.79  Aligned_cols=63  Identities=17%  Similarity=0.232  Sum_probs=46.0

Q ss_pred             ecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEE
Q 044874          192 TQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEI  260 (269)
Q Consensus       192 ~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l  260 (269)
                      ..++ +.+.+.+.++.++.++-++.+.+.     ++.++.+.|.|+++.|+-+.+++-.|+.+|+.+.+
T Consensus         3 ~~~~-rr~~vkvtp~~~l~~VL~eac~k~-----~l~~~~~~L~h~~k~ldlslp~R~snL~n~akLeL   65 (65)
T PF11470_consen    3 CYNF-RRFKVKVTPNTTLNQVLEEACKKF-----GLDPSSYDLKHNNKPLDLSLPFRLSNLPNNAKLEL   65 (65)
T ss_dssp             -TTS--EEEE---TTSBHHHHHHHHHHHT-----T--GGG-EEEETTEEESSS-BHHHH---SS-EEEE
T ss_pred             ccCC-cEEEEEECCCCCHHHHHHHHHHHc-----CCCccceEEEECCEEeccccceeecCCCCCCEEeC
Confidence            3456 899999999999999999999985     99999999999999999999999999999999875

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.

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

Probab=97.29  E-value=0.0013  Score=44.68  Aligned_cols=63  Identities=17%  Similarity=0.160  Sum_probs=47.1

Q ss_pred             cCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEE
Q 044874            7 PQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL   69 (269)
Q Consensus         7 ~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l   69 (269)
                      ..+++.+.+.+.|+.++.++-+....++++++++-.|.|+++.|+-+.++.-.|+.+|+.+.|
T Consensus         3 ~~~~rr~~vkvtp~~~l~~VL~eac~k~~l~~~~~~L~h~~k~ldlslp~R~snL~n~akLeL   65 (65)
T PF11470_consen    3 CYNFRRFKVKVTPNTTLNQVLEEACKKFGLDPSSYDLKHNNKPLDLSLPFRLSNLPNNAKLEL   65 (65)
T ss_dssp             -TTS-EEEE---TTSBHHHHHHHHHHHTT--GGG-EEEETTEEESSS-BHHHH---SS-EEEE
T ss_pred             ccCCcEEEEEECCCCCHHHHHHHHHHHcCCCccceEEEECCEEeccccceeecCCCCCCEEeC
Confidence            457889999999999999999999999999999999999999999999999999999998865

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.

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

Probab=97.27  E-value=0.00059  Score=49.04  Aligned_cols=61  Identities=18%  Similarity=0.213  Sum_probs=49.5

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEe-cC-eeecCCCccccccCC
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIY-KQ-NVMDDDRSFRWHHVG  253 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~-~g-~~L~d~~tL~~~~i~  253 (269)
                      +.+.|+-..  .++-+..+++.||.+||++++..-     .-|++.|+|.- .- ..|+|.+||.++|..
T Consensus         3 ~f~~VrR~k--ttif~da~es~tV~elK~~l~gi~-----~~Pvn~qrL~kmd~eqlL~D~ktL~d~gft   65 (110)
T KOG4495|consen    3 VFLRVRRHK--TTIFTDAKESSTVFELKRKLEGIL-----KRPVNEQRLYKMDTEQLLDDGKTLGDCGFT   65 (110)
T ss_pred             eeeeeeecc--eeEEeecCccccHHHHHHHHHHHH-----hCCCcchheeecCHHHHhhccchhhhcccc
Confidence            455666543  578889999999999999999975     78999999885 33 789999999999654

>PF13019 Telomere_Sde2: Telomere stability and silencing

Probab=97.24  E-value=0.0027  Score=50.70  Aligned_cols=77  Identities=17%  Similarity=0.227  Sum_probs=59.1

Q ss_pred             CEEEEEcCCC----CEEEEEEcCCCCHHHHHHHHHHHhCCCCCcE-EEEEc-CEEc--CCCCccccCCCCCC----CEEE
Q 044874            1 MDVIFEPQRG----KAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQ-TLVFN-GQVL--QDDRDVEHCEILQN----SRIQ   68 (269)
Q Consensus         1 M~i~vk~~~g----~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q-~L~~~-G~~L--~d~~tL~~~~i~~~----~~i~   68 (269)
                      |+|+|++++|    .++.+.++++.||.+|+..|....+++...| .|.+. ++.|  .++..++.+.-.+.    .+++
T Consensus         1 i~Vlvss~~g~~lp~tl~~~lp~~ttv~dL~~~l~~~~~~~~~~~~~L~~~~n~~l~~~~~~~~s~l~~~~~~~~~~~l~   80 (162)
T PF13019_consen    1 INVLVSSFDGLTLPPTLSLSLPSTTTVSDLKDRLSERLPIPSSSQLYLTTNSNGQLSPSSDIPLSSLLSSSQDSDFITLR   80 (162)
T ss_pred             CeEEEecCCCCCCCCeEEeeCCCCCcHHHHHHHHHhhcCCCccceeEEEEeCCCeeCCCccccHHhhccCcCCCCceEEE
Confidence            7899999999    6899999999999999999999999998885 45553 4455  45555666544333    4677


Q ss_pred             EEEecCCCC
Q 044874           69 LLVASDNKP   77 (269)
Q Consensus        69 l~~~~~~g~   77 (269)
                      +..+..||-
T Consensus        81 l~~rl~GGK   89 (162)
T PF13019_consen   81 LSLRLRGGK   89 (162)
T ss_pred             EEEeccCCC
Confidence            778887763

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

Probab=97.22  E-value=0.00093  Score=47.25  Aligned_cols=68  Identities=16%  Similarity=0.261  Sum_probs=48.5

Q ss_pred             EEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCc------EEEE-EcCEEcCCCCccccCCCCCCCEEEE
Q 044874            2 DVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPK------QTLV-FNGQVLQDDRDVEHCEILQNSRIQL   69 (269)
Q Consensus         2 ~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~------q~L~-~~G~~L~d~~tL~~~~i~~~~~i~l   69 (269)
                      +|+|...+|+.+.+.+..+.+|++|...+.+..+.+...      .+|. -+|..|.++.+|+++||.+|+.+.+
T Consensus         4 rVtv~~~~~~~~Dl~lP~~vpv~~li~~l~~~~~~~~~~~~~~~~~~L~~~~g~~L~~~~tL~~~gV~dGd~L~L   78 (79)
T PF08817_consen    4 RVTVDAGNGRQVDLALPADVPVAELIPELVELLGLPGDDPPGHGQWVLARAGGRPLDPDQTLADAGVRDGDVLVL   78 (79)
T ss_dssp             EEEEE-TT--EEEEEEETTSBTTHHHHHHHHHS---S---TT-E-EEEG-GGTEEEETTSBCGGGT--TT-EEEE
T ss_pred             EEEEEcCCCcEEEEEcCCCCcHHHHHHHHHHHhCCccCCCCCcceEEEEecCCcccCCcCcHhHcCCCCCCEEEe
Confidence            567776557899999999999999999999988763332      3344 3588999999999999999999886

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.

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

Probab=97.19  E-value=0.00019  Score=47.67  Aligned_cols=69  Identities=14%  Similarity=0.302  Sum_probs=57.2

Q ss_pred             eEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEe
Q 044874          187 KLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIF  261 (269)
Q Consensus       187 ~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~  261 (269)
                      .+.++..-| +.+.++..+.+||.|+|+.|....     |-.++...|---+.+++|.-+|++|.|.+|--+.+.
T Consensus         3 ev~~nDrLG-KKVRvKCn~dDtiGD~KKliaaQt-----GT~~~kivl~k~~~i~kd~I~L~dyeihdg~~lely   71 (73)
T KOG3493|consen    3 EVVLNDRLG-KKVRVKCNTDDTIGDLKKLIAAQT-----GTRPEKIVLKKWYTIFKDHITLSDYEIHDGMNLELY   71 (73)
T ss_pred             eehhhhhcC-ceEEEEeCCcccccCHHHHHHHhh-----CCChhHhHHHhhhhhhhcccceeeEEeccCccEEEe
Confidence            345555567 899999999999999999999864     888887666666778899999999999999887764

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

Probab=97.12  E-value=0.00076  Score=47.90  Aligned_cols=76  Identities=13%  Similarity=0.237  Sum_probs=67.7

Q ss_pred             EEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCC
Q 044874            2 DVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKP   77 (269)
Q Consensus         2 ~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~   77 (269)
                      .+.|...+|.++.+.+..+.+...|....+...|-..+..|+.|+|+.++.++|-++++.++++.|.++....||.
T Consensus        26 nLkvv~qd~telfFkiKktT~f~klm~af~~rqGK~m~slRfL~dG~rI~~dqTP~dldmEdnd~iEav~eQvGG~  101 (103)
T COG5227          26 NLKVVDQDGTELFFKIKKTTTFKKLMDAFSRRQGKNMSSLRFLFDGKRIDLDQTPGDLDMEDNDEIEAVTEQVGGA  101 (103)
T ss_pred             ceEEecCCCCEEEEEEeccchHHHHHHHHHHHhCcCcceeEEEEcceecCCCCChhhcCCccchHHHHHHHHhcCc
Confidence            3556667888999999999999999999999999999999999999999999999999999999888776666654

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

Probab=97.11  E-value=0.0012  Score=60.77  Aligned_cols=68  Identities=22%  Similarity=0.367  Sum_probs=60.8

Q ss_pred             eEEEEecCCCeEEEEE-ecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEe
Q 044874          187 KLLVLTQCGNKRIPVE-VNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIF  261 (269)
Q Consensus       187 ~i~V~~~~g~~~~~l~-v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~  261 (269)
                      .+.|+ ..| +.+.++ ++..+|+..||+++....     |+|+++|+++..|..+.|+-.+..-+|++|.+|+++
T Consensus         5 ~v~VK-W~g-k~y~v~~l~~d~t~~vlKaqlf~LT-----gV~PeRQKv~vKGg~a~dd~~~~al~iKpn~~lmMm   73 (473)
T KOG1872|consen    5 TVIVK-WGG-KKYPVETLSTDETPSVLKAQLFALT-----GVPPERQKVMVKGGLAKDDVDWGALQIKPNETLMMM   73 (473)
T ss_pred             eEeee-ecC-ccccceeccCCCchHHHHHHHHHhc-----CCCccceeEEEecccccccccccccccCCCCEEEee
Confidence            34454 344 888887 999999999999999986     999999999999999999999999999999999997

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

Probab=97.09  E-value=0.0023  Score=45.18  Aligned_cols=69  Identities=23%  Similarity=0.326  Sum_probs=48.3

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCC---CC---ceEEE-ecCeeecCCCccccccCCCCCEE
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLP---QD---GYFFI-YKQNVMDDDRSFRWHHVGQGDTI  258 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p---~~---~q~l~-~~g~~L~d~~tL~~~~i~~~~~i  258 (269)
                      ..|+|....| +.+-+.+....+|++|-..|-+.-     +.+   ..   .+.|. -+|..|+++.||++|||.+|+++
T Consensus         3 ~rVtv~~~~~-~~~Dl~lP~~vpv~~li~~l~~~~-----~~~~~~~~~~~~~~L~~~~g~~L~~~~tL~~~gV~dGd~L   76 (79)
T PF08817_consen    3 CRVTVDAGNG-RQVDLALPADVPVAELIPELVELL-----GLPGDDPPGHGQWVLARAGGRPLDPDQTLADAGVRDGDVL   76 (79)
T ss_dssp             EEEEEE-TT---EEEEEEETTSBTTHHHHHHHHHS--------S---TT-E-EEEG-GGTEEEETTSBCGGGT--TT-EE
T ss_pred             EEEEEEcCCC-cEEEEEcCCCCcHHHHHHHHHHHh-----CCccCCCCCcceEEEEecCCcccCCcCcHhHcCCCCCCEE
Confidence            3556655444 899999999999999999988853     332   22   35666 67999999999999999999999


Q ss_pred             EE
Q 044874          259 EI  260 (269)
Q Consensus       259 ~l  260 (269)
                      +|
T Consensus        77 ~L   78 (79)
T PF08817_consen   77 VL   78 (79)
T ss_dssp             EE
T ss_pred             Ee
Confidence            87

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

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

Probab=97.07  E-value=0.0062  Score=43.13  Aligned_cols=69  Identities=16%  Similarity=0.224  Sum_probs=58.4

Q ss_pred             EEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCc-EEEE--EcCEEcCCC--CccccCCCCCCCEEEEE
Q 044874            2 DVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPK-QTLV--FNGQVLQDD--RDVEHCEILQNSRIQLL   70 (269)
Q Consensus         2 ~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~-q~L~--~~G~~L~d~--~tL~~~~i~~~~~i~l~   70 (269)
                      +|.||..+|+.+.-.+.+++||.+|.+-|......+... ..|+  |..+.+.++  .+|++.|+.++++|++.
T Consensus         8 ~I~vRlpdG~~l~~~F~~~~tl~~l~~~v~~~~~~~~~~~f~L~~~~Pr~~l~~~~~~tl~e~~l~p~~~l~v~   81 (82)
T PF00789_consen    8 RIQVRLPDGSRLQRRFPKSDTLQDLYDFVESQLFSPEESDFELITAFPRRELTDEDSKTLEEAGLLPSATLIVE   81 (82)
T ss_dssp             EEEEEETTSTEEEEEEETTSBHHHHHHHHHHHHHCTTTSSEEEEESSSTEECCSTTTSBTCCCTTSSCEEEEEE
T ss_pred             EEEEECCCCCEEEEEECCcchHHHHHHHHHHhcCCCCCccEEEEeCCCCcCCCccccccHHHhcCCCCeEEEEE
Confidence            578999999999999999999999999999988776654 7776  457788543  69999999999998874

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 ....

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

Probab=96.98  E-value=0.0022  Score=47.15  Aligned_cols=58  Identities=16%  Similarity=0.184  Sum_probs=44.8

Q ss_pred             EEEEcCC-CCEEEEEEc--CCCCHHHHHHHHHHHhC--CCCCcEEEEEcCEEcCCCCccccCC
Q 044874            3 VIFEPQR-GKAFTIEVG--FFDTVLEIKEKIEKYQG--IPVPKQTLVFNGQVLQDDRDVEHCE   60 (269)
Q Consensus         3 i~vk~~~-g~~~~l~v~--~~~tV~~lK~~I~~~~g--i~~~~q~L~~~G~~L~d~~tL~~~~   60 (269)
                      |+|+..+ -..+.++++  ...||..||.+|.+..+  ..-.++||+|+|+.|.|+..|...-
T Consensus         3 l~IRFs~sipDl~L~I~~~~~~Tv~~LK~lIR~~~p~~~s~~rLRlI~~Gr~L~d~t~l~~~l   65 (97)
T PF10302_consen    3 LTIRFSDSIPDLPLDIPSPNTTTVAWLKQLIRERLPPEPSRRRLRLIYAGRLLNDHTDLSSEL   65 (97)
T ss_pred             EEEEECCCCCCceeecCCCCcccHHHHHHHHHhhcCCCCccccEEeeecCcccCccchhhhhh
Confidence            5566544 234677777  78999999999999983  5555789999999999988876643

They contain a characteristic GFDRL sequence motif.

>KOG0013 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.89  E-value=0.0018  Score=53.37  Aligned_cols=64  Identities=33%  Similarity=0.509  Sum_probs=57.1

Q ss_pred             CCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEe
Q 044874            9 RGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVA   72 (269)
Q Consensus         9 ~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~   72 (269)
                      .++.+.+.+...+|+.++|.++++..++++..|+++|+|..|-|...|..|+++.+....+-+.
T Consensus       155 T~~d~~lta~~~Dtv~eik~~L~Aaeg~D~~sQrif~Sg~~l~dkt~LeEc~iekg~rYvlqvi  218 (231)
T KOG0013|consen  155 TREDFWLTAPHYDTVGEIKRALRAAEGVDPLSQRIFFSGGVLVDKTDLEECKIEKGQRYVLQVI  218 (231)
T ss_pred             hhhheeecccCcCcHHHHHHHHHHhhccchhhheeeccCCceeccccceeeeecCCCEEEEEEE
Confidence            4677888889999999999999999999999999999999999999999999999965555443

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

Probab=96.85  E-value=0.0034  Score=46.20  Aligned_cols=52  Identities=12%  Similarity=0.247  Sum_probs=38.2

Q ss_pred             eEEEEEec--CCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCcccccc
Q 044874          197 KRIPVEVN--ASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHH  251 (269)
Q Consensus       197 ~~~~l~v~--~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~  251 (269)
                      ..+.+++.  .+.||..||+.|.+.-.   -......++|||+|+.|.|...|...-
T Consensus        12 pDl~L~I~~~~~~Tv~~LK~lIR~~~p---~~~s~~rLRlI~~Gr~L~d~t~l~~~l   65 (97)
T PF10302_consen   12 PDLPLDIPSPNTTTVAWLKQLIRERLP---PEPSRRRLRLIYAGRLLNDHTDLSSEL   65 (97)
T ss_pred             CCceeecCCCCcccHHHHHHHHHhhcC---CCCccccEEeeecCcccCccchhhhhh
Confidence            44666666  78899999999999630   012223599999999999988776544

They contain a characteristic GFDRL sequence motif.

>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=96.76  E-value=0.017  Score=40.89  Aligned_cols=72  Identities=14%  Similarity=0.250  Sum_probs=58.3

Q ss_pred             cceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCc-eEEE--ecCeeecCC--CccccccCCCCCEE
Q 044874          184 RKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDG-YFFI--YKQNVMDDD--RSFRWHHVGQGDTI  258 (269)
Q Consensus       184 ~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~-q~l~--~~g~~L~d~--~tL~~~~i~~~~~i  258 (269)
                      ....|.|+.++| ..+.-....++||.+|..-|....     ..+... +.|+  |-.+.+.++  .||.+.|+.+..+|
T Consensus         5 ~~~~I~vRlpdG-~~l~~~F~~~~tl~~l~~~v~~~~-----~~~~~~~f~L~~~~Pr~~l~~~~~~tl~e~~l~p~~~l   78 (82)
T PF00789_consen    5 DVVRIQVRLPDG-SRLQRRFPKSDTLQDLYDFVESQL-----FSPEESDFELITAFPRRELTDEDSKTLEEAGLLPSATL   78 (82)
T ss_dssp             SEEEEEEEETTS-TEEEEEEETTSBHHHHHHHHHHHH-----HCTTTSSEEEEESSSTEECCSTTTSBTCCCTTSSCEEE
T ss_pred             CEEEEEEECCCC-CEEEEEECCcchHHHHHHHHHHhc-----CCCCCccEEEEeCCCCcCCCccccccHHHhcCCCCeEE
Confidence            357888899998 888889999999999999998864     333333 6776  778888665  59999999999998


Q ss_pred             EEe
Q 044874          259 EIF  261 (269)
Q Consensus       259 ~l~  261 (269)
                      +|-
T Consensus        79 ~v~   81 (82)
T PF00789_consen   79 IVE   81 (82)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            873

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=96.72  E-value=0.017  Score=40.74  Aligned_cols=68  Identities=13%  Similarity=0.057  Sum_probs=56.1

Q ss_pred             EEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEE--cCEEcCC---CCccccCCCCCCCEEEE
Q 044874            2 DVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVF--NGQVLQD---DRDVEHCEILQNSRIQL   69 (269)
Q Consensus         2 ~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~--~G~~L~d---~~tL~~~~i~~~~~i~l   69 (269)
                      +|-||..+|+.+.-.+..++||.++.+-|....+.......|+.  ..+.+.+   +.+|.+.|+...+++.+
T Consensus         6 ~I~iRlPdG~ri~~~F~~~~tl~~v~~~v~~~~~~~~~~f~L~t~~Prk~l~~~d~~~tL~e~gL~p~~~l~v   78 (80)
T smart00166        6 RLQIRLPDGSRLVRRFPSSDTLRTVYEFVSAALTDGNDPFTLNSPFPRRTFTKDDYSKTLLELALLPSSTLVL   78 (80)
T ss_pred             EEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHcccCCCCCEEEEeCCCCcCCccccccCCHHHCCCCCceEEEE
Confidence            57899999999999999999999999999766666666677764  4677753   47999999998888876

Present in FAF1 and Shp1p.

>COG5417 Uncharacterized small protein [Function unknown]

Probab=96.62  E-value=0.026  Score=38.76  Aligned_cols=67  Identities=12%  Similarity=0.133  Sum_probs=53.3

Q ss_pred             EEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCC-C--CceEEEecCeeecCCCccccccCCCCCEEEE
Q 044874          190 VLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLP-Q--DGYFFIYKQNVMDDDRSFRWHHVGQGDTIEI  260 (269)
Q Consensus       190 V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p-~--~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l  260 (269)
                      .+..+| .++-+.++...++..|-..+-+..   ...++ .  .+.+.+-+++.|.++..|.+|+|.+||.+.+
T Consensus        11 ~t~y~g-~~yDLrl~d~~pikklIdivwe~~---kis~~~reg~~Ikv~nKa~llsgd~kL~d~~IadGD~Lei   80 (81)
T COG5417          11 FTNYNG-GTYDLRLPDYLPIKKLIDIVWESL---KISIFDREGTQIKVMNKAQLLSGDDKLIDYQIADGDILEI   80 (81)
T ss_pred             eEecCC-ceEEEeccccchHHHHHHHHHHHh---hccccccCCCEEEEeccceEecCCceEEeccccCCCEEEe
Confidence            356676 899999999999998887776654   12222 2  3477889999999999999999999999876

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

Probab=96.58  E-value=0.0056  Score=43.56  Aligned_cols=81  Identities=16%  Similarity=0.228  Sum_probs=69.1

Q ss_pred             CCCcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEE
Q 044874          181 MGPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEI  260 (269)
Q Consensus       181 ~~~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l  260 (269)
                      +.++.+.+.|....| .++-++|..+.+...|-+..+.+.     |=..+..|+.|+|+..+-++|=.+.+.++++.|..
T Consensus        20 p~t~hinLkvv~qd~-telfFkiKktT~f~klm~af~~rq-----GK~m~slRfL~dG~rI~~dqTP~dldmEdnd~iEa   93 (103)
T COG5227          20 PITKHINLKVVDQDG-TELFFKIKKTTTFKKLMDAFSRRQ-----GKNMSSLRFLFDGKRIDLDQTPGDLDMEDNDEIEA   93 (103)
T ss_pred             ccccccceEEecCCC-CEEEEEEeccchHHHHHHHHHHHh-----CcCcceeEEEEcceecCCCCChhhcCCccchHHHH
Confidence            344567888877777 788899999999999999888876     77788899999999999999999999999999988


Q ss_pred             ecCcccC
Q 044874          261 FNGSVTG  267 (269)
Q Consensus       261 ~~~~~~~  267 (269)
                      +..-|.|
T Consensus        94 v~eQvGG  100 (103)
T COG5227          94 VTEQVGG  100 (103)
T ss_pred             HHHHhcC
Confidence            7665554

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

Probab=96.44  E-value=0.007  Score=51.30  Aligned_cols=69  Identities=13%  Similarity=0.171  Sum_probs=53.5

Q ss_pred             CEEEEEcCCCC-EEE-EEEcCCCCHHHHHHHHHHH-hCCCCCcEEEEE----cCEEcCCCCccccCCCCCCCEEEE
Q 044874            1 MDVIFEPQRGK-AFT-IEVGFFDTVLEIKEKIEKY-QGIPVPKQTLVF----NGQVLQDDRDVEHCEILQNSRIQL   69 (269)
Q Consensus         1 M~i~vk~~~g~-~~~-l~v~~~~tV~~lK~~I~~~-~gi~~~~q~L~~----~G~~L~d~~tL~~~~i~~~~~i~l   69 (269)
                      |.|++.+.++. ..+ ...+...|+.|+++++.++ ..+.+.++|+.+    +|+.|.|+.+|++|+..+++++.+
T Consensus         1 m~It~~srs~~~~~~~~~~s~~~ti~d~~~~~~~~~~k~~~~~~r~tlr~e~kgkpl~~~s~l~e~~~~s~~~i~v   76 (297)
T KOG1639|consen    1 MEITIASRSKGLRIKEKDLSGSETIDDLLKAISAKNLKITPYRIRLTLRVEPKGKPLIDNSKLQEYGDGSGATIYV   76 (297)
T ss_pred             CceeeeccCCCceeeeecCCCCCcHHHHHHHHHHhhhccCccchhheeeccCCCccccchhHHHHhccCCCCEEEE
Confidence            78999877652 333 5677889999999777666 467776666655    599999999999999999977664

>COG5417 Uncharacterized small protein [Function unknown]

Probab=96.43  E-value=0.024  Score=38.91  Aligned_cols=69  Identities=10%  Similarity=0.209  Sum_probs=55.9

Q ss_pred             CEEEEE--cCCCCEEEEEEcCCCCHHHHHHHHHHHhCCC-----CCcEEEEEcCEEcCCCCccccCCCCCCCEEEE
Q 044874            1 MDVIFE--PQRGKAFTIEVGFFDTVLEIKEKIEKYQGIP-----VPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL   69 (269)
Q Consensus         1 M~i~vk--~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~-----~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l   69 (269)
                      |+|+|.  .-+|.++.+.++...++..|-..+.+...+.     -++.|..-.++.|.++..|.+|+|.+|+.+.+
T Consensus         5 ikVTvD~t~y~g~~yDLrl~d~~pikklIdivwe~~kis~~~reg~~Ikv~nKa~llsgd~kL~d~~IadGD~Lei   80 (81)
T COG5417           5 IKVTVDFTNYNGGTYDLRLPDYLPIKKLIDIVWESLKISIFDREGTQIKVMNKAQLLSGDDKLIDYQIADGDILEI   80 (81)
T ss_pred             EEEEEEeEecCCceEEEeccccchHHHHHHHHHHHhhccccccCCCEEEEeccceEecCCceEEeccccCCCEEEe
Confidence            345554  4479999999999999999998888776532     24568888899999999999999999998764

>cd01770 p47_UBX p47-like ubiquitin domain

Probab=96.43  E-value=0.029  Score=39.61  Aligned_cols=66  Identities=14%  Similarity=0.187  Sum_probs=52.5

Q ss_pred             EEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCC-CCCcEEEE--EcCEEcC-CCCccccCCCCCCCEE
Q 044874            2 DVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGI-PVPKQTLV--FNGQVLQ-DDRDVEHCEILQNSRI   67 (269)
Q Consensus         2 ~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi-~~~~q~L~--~~G~~L~-d~~tL~~~~i~~~~~i   67 (269)
                      +|-||..+|+.+...++.++||++|.+-|....+- ......|.  |-.+.|. ++.||.+.|+.+...+
T Consensus         6 ~iqiRlpdG~r~~~rF~~~~tv~~l~~~v~~~~~~~~~~~f~L~t~fP~k~l~~~~~Tl~eagL~~s~v~   75 (79)
T cd01770           6 SIQIRLADGKRLVQKFNSSHRVSDVRDFIVNARPEFAARPFTLMTAFPVKELSDESLTLKEANLLNAVIV   75 (79)
T ss_pred             EEEEECCCCCEEEEEeCCCCcHHHHHHHHHHhCCCCCCCCEEEecCCCCcccCCCCCcHHHCCCcCcEEE
Confidence            57889999999999999999999999999987643 23456675  5678774 4889999999865443

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

>smart00166 UBX Domain present in ubiquitin-regulatory proteins

Probab=96.33  E-value=0.036  Score=39.12  Aligned_cols=70  Identities=10%  Similarity=0.132  Sum_probs=55.9

Q ss_pred             ceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEE--ecCeeecC---CCccccccCCCCCEEE
Q 044874          185 KLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFI--YKQNVMDD---DRSFRWHHVGQGDTIE  259 (269)
Q Consensus       185 ~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~--~~g~~L~d---~~tL~~~~i~~~~~i~  259 (269)
                      ...|.|+.++| ..+.-....++|+.+|.+-+....     +.....+.|+  |-.+.+.+   +.||.+.|+-+..+|.
T Consensus         4 ~~~I~iRlPdG-~ri~~~F~~~~tl~~v~~~v~~~~-----~~~~~~f~L~t~~Prk~l~~~d~~~tL~e~gL~p~~~l~   77 (80)
T smart00166        4 QCRLQIRLPDG-SRLVRRFPSSDTLRTVYEFVSAAL-----TDGNDPFTLNSPFPRRTFTKDDYSKTLLELALLPSSTLV   77 (80)
T ss_pred             eEEEEEEcCCC-CEEEEEeCCCCcHHHHHHHHHHcc-----cCCCCCEEEEeCCCCcCCccccccCCHHHCCCCCceEEE
Confidence            36788888898 888889999999999999996543     4444456665  77888865   4799999999998887


Q ss_pred             E
Q 044874          260 I  260 (269)
Q Consensus       260 l  260 (269)
                      |
T Consensus        78 v   78 (80)
T smart00166       78 L   78 (80)
T ss_pred             E
Confidence            6

Present in FAF1 and Shp1p.

>cd01772 SAKS1_UBX SAKS1-like UBX domain

Probab=96.19  E-value=0.067  Score=37.69  Aligned_cols=67  Identities=10%  Similarity=0.195  Sum_probs=54.5

Q ss_pred             EEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEE--EcCEEcCC---CCccccCCCCCCCEEEE
Q 044874            2 DVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLV--FNGQVLQD---DRDVEHCEILQNSRIQL   69 (269)
Q Consensus         2 ~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~--~~G~~L~d---~~tL~~~~i~~~~~i~l   69 (269)
                      +|.||..+|+.+.-.++.++|+.++.+-|....+-+ ....|+  |..+.+.+   +.+|.+.|+.+.+++.|
T Consensus         6 ~i~iRlp~G~~~~~~F~~~~tl~~v~~fV~~~~~~~-~~f~L~t~fPrk~~~~~d~~~TL~elgL~Psa~L~v   77 (79)
T cd01772           6 RIQIRLLDGTTLKQTFKAREQLAAVRLFVELNTGNG-GPFTLMTPFPRKVFTEDDMEKPLQELGLVPSAVLIV   77 (79)
T ss_pred             EEEEECCCCCEEEEEeCCCChHHHHHHHHHHcCCCC-CCEEEEeCCCCeECCcccccCCHHHCCCCCceEEEE
Confidence            578899999999999999999999999998765433 446665  45777753   58999999999988876

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

>cd01767 UBX UBX (ubiquitin regulatory X) domain

Probab=96.19  E-value=0.058  Score=37.71  Aligned_cols=64  Identities=11%  Similarity=0.145  Sum_probs=50.9

Q ss_pred             EEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEE--cCEEcC---CCCccccCCCCCCCE
Q 044874            2 DVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVF--NGQVLQ---DDRDVEHCEILQNSR   66 (269)
Q Consensus         2 ~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~--~G~~L~---d~~tL~~~~i~~~~~   66 (269)
                      +|.||..+|+.+.-.++.++||.+|.+-|.....- .....|+.  ..+.+.   .+.+|.+.|+.+.+.
T Consensus         4 ~i~iRlpdG~~~~~~F~~~~tl~~l~~fv~~~~~~-~~~f~L~t~~Pr~~~~~~~~~~TL~e~gL~~s~~   72 (77)
T cd01767           4 KIQIRLPDGKRLEQRFNSTHKLSDVRDFVESNGPP-AEPFTLMTSFPRRVLTDLDYELTLQEAGLVNEVV   72 (77)
T ss_pred             EEEEEcCCCCEEEEEeCCCCCHHHHHHHHHHcCCC-CCCEEEEeCCCCccCCCCCccCcHHHcCCccceE
Confidence            57899999999999999999999999999876543 45566664  467774   488999999995443

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

>cd01767 UBX UBX (ubiquitin regulatory X) domain

Probab=96.11  E-value=0.055  Score=37.81  Aligned_cols=67  Identities=15%  Similarity=0.302  Sum_probs=52.1

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEE--ecCeeecC---CCccccccCCCCCEEEE
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFI--YKQNVMDD---DRSFRWHHVGQGDTIEI  260 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~--~~g~~L~d---~~tL~~~~i~~~~~i~l  260 (269)
                      ..|.|+.++| ..+.-..+.++||.+|.+=|....      .....+.|+  |-.+.+.|   +.||.+.|+. .+++.+
T Consensus         3 t~i~iRlpdG-~~~~~~F~~~~tl~~l~~fv~~~~------~~~~~f~L~t~~Pr~~~~~~~~~~TL~e~gL~-~s~~~~   74 (77)
T cd01767           3 TKIQIRLPDG-KRLEQRFNSTHKLSDVRDFVESNG------PPAEPFTLMTSFPRRVLTDLDYELTLQEAGLV-NEVVFQ   74 (77)
T ss_pred             EEEEEEcCCC-CEEEEEeCCCCCHHHHHHHHHHcC------CCCCCEEEEeCCCCccCCCCCccCcHHHcCCc-cceEEE
Confidence            4677888898 788889999999999999998753      224456666  77888865   7899999999 455544

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

>KOG0013 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.08  E-value=0.01  Score=49.11  Aligned_cols=63  Identities=13%  Similarity=0.195  Sum_probs=55.9

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCcc
Q 044874          197 KRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSV  265 (269)
Q Consensus       197 ~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~  265 (269)
                      +.+.+.+...+||.++|.+++..+     +..+..|+..|+|+.|-|...|.+|+|+.|.. |++..+|
T Consensus       157 ~d~~lta~~~Dtv~eik~~L~Aae-----g~D~~sQrif~Sg~~l~dkt~LeEc~iekg~r-YvlqviV  219 (231)
T KOG0013|consen  157 EDFWLTAPHYDTVGEIKRALRAAE-----GVDPLSQRIFFSGGVLVDKTDLEECKIEKGQR-YVLQVIV  219 (231)
T ss_pred             hheeecccCcCcHHHHHHHHHHhh-----ccchhhheeeccCCceeccccceeeeecCCCE-EEEEEEe
Confidence            789999999999999999999998     78877899999999999999999999999975 4444444

>PRK06437 hypothetical protein; Provisional

Probab=96.04  E-value=0.057  Score=36.81  Aligned_cols=59  Identities=24%  Similarity=0.415  Sum_probs=46.6

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCcccCC
Q 044874          195 GNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSVTGG  268 (269)
Q Consensus       195 g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~~~~  268 (269)
                      |++.-.++++...||.+|=+++         ++++....+..+|+++.     .++-+++||.|.++. .|+||
T Consensus         9 g~~~~~~~i~~~~tv~dLL~~L---------gi~~~~vaV~vNg~iv~-----~~~~L~dgD~Veiv~-~V~GG   67 (67)
T PRK06437          9 GHINKTIEIDHELTVNDIIKDL---------GLDEEEYVVIVNGSPVL-----EDHNVKKEDDVLILE-VFSGG   67 (67)
T ss_pred             CCcceEEEcCCCCcHHHHHHHc---------CCCCccEEEEECCEECC-----CceEcCCCCEEEEEe-cccCC
Confidence            4477778888888998886544         78888888889999997     667889999999985 44444

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

Probab=96.02  E-value=0.015  Score=49.33  Aligned_cols=71  Identities=15%  Similarity=0.211  Sum_probs=49.9

Q ss_pred             eEEEEecCCCeEEE-EEecCCCcHHHHHHHHHHhhhccCCCCCCCc----eEEEecCeeecCCCccccccCCCCCEEEEe
Q 044874          187 KLLVLTQCGNKRIP-VEVNASDNVSELRKELQKLHQRYHFHLPQDG----YFFIYKQNVMDDDRSFRWHHVGQGDTIEIF  261 (269)
Q Consensus       187 ~i~V~~~~g~~~~~-l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~----q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~  261 (269)
                      .|++...+++...+ ...+...|+.|+++.+..++    ..+.+..    .++.-+|+.|-|+.+|++||..+|++|++=
T Consensus         2 ~It~~srs~~~~~~~~~~s~~~ti~d~~~~~~~~~----~k~~~~~~r~tlr~e~kgkpl~~~s~l~e~~~~s~~~i~vK   77 (297)
T KOG1639|consen    2 EITIASRSKGLRIKEKDLSGSETIDDLLKAISAKN----LKITPYRIRLTLRVEPKGKPLIDNSKLQEYGDGSGATIYVK   77 (297)
T ss_pred             ceeeeccCCCceeeeecCCCCCcHHHHHHHHHHhh----hccCccchhheeeccCCCccccchhHHHHhccCCCCEEEEe
Confidence            34444433323333 45566889999998888875    3444433    444567999999999999999999999874

>cd01774 Faf1_like2_UBX Faf1 ike-2 UBX domain

Probab=96.02  E-value=0.073  Score=38.14  Aligned_cols=69  Identities=9%  Similarity=0.187  Sum_probs=55.9

Q ss_pred             ceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEE--ecCeeec--------CCCccccccCCC
Q 044874          185 KLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFI--YKQNVMD--------DDRSFRWHHVGQ  254 (269)
Q Consensus       185 ~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~--~~g~~L~--------d~~tL~~~~i~~  254 (269)
                      ..+|.++.++| ..+.-....++||++|..=|...      +..++.+.|+  |--+++.        .+.||.+.|+.+
T Consensus         4 ~~~I~iRlp~G-~Rl~rrF~~~~tl~~l~~fv~~~------~~~~~~f~L~t~FPrr~~~~~~~~~~~~~~TL~eaGL~~   76 (85)
T cd01774           4 TVKIVFKLPNG-TRVERRFLFTQSLRVIHDFLFSL------KETPEKFQIVTNFPRRVLPCLPSEGDPPPPTLLEAGLSN   76 (85)
T ss_pred             eEEEEEECCCC-CEEEEEeCCCCcHHHHHHHHHhC------CCCCCcEEEecCCCCccccccccccCcCCCCHHHcCCCC
Confidence            47888888898 78888888999999999999764      4455778888  4448886        367999999999


Q ss_pred             CCEEEE
Q 044874          255 GDTIEI  260 (269)
Q Consensus       255 ~~~i~l  260 (269)
                      ..+|.|
T Consensus        77 s~~L~V   82 (85)
T cd01774          77 SEVLFV   82 (85)
T ss_pred             ccEEEE
Confidence            888776

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

>cd01773 Faf1_like1_UBX Faf1 ike-1 UBX domain

Probab=95.85  E-value=0.12  Score=36.78  Aligned_cols=69  Identities=13%  Similarity=0.199  Sum_probs=58.8

Q ss_pred             EEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEE--cCEEc---CCCCccccCCCCCCCEEEEEE
Q 044874            2 DVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVF--NGQVL---QDDRDVEHCEILQNSRIQLLV   71 (269)
Q Consensus         2 ~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~--~G~~L---~d~~tL~~~~i~~~~~i~l~~   71 (269)
                      +|.||..+|+...-.+..++++.+|-.-+.. .|.+++...|+.  --+.+   +.+.||.+.|+.+..++.+--
T Consensus         7 ~i~vRlP~G~r~~rrF~~~~~L~~v~~fv~~-~g~~~~~f~L~t~FPRr~~~~~d~~~TL~e~GL~P~~~LfVq~   80 (82)
T cd01773           7 RLMLRYPDGKREQIALPEQAKLLALVRHVQS-KGYPNERFELLTNFPRRKLSHLDYDITLQEAGLCPQETVFVQE   80 (82)
T ss_pred             EEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-cCCCCCCEEEecCCCCcccCCcccCCCHHHcCCCCCcEEEEec
Confidence            6889999999999999999999999999998 578888899875  46666   335899999999999988753

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

>cd01773 Faf1_like1_UBX Faf1 ike-1 UBX domain

Probab=95.81  E-value=0.11  Score=36.97  Aligned_cols=70  Identities=14%  Similarity=0.271  Sum_probs=59.5

Q ss_pred             ceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEE--ecCeeecC---CCccccccCCCCCEEE
Q 044874          185 KLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFI--YKQNVMDD---DRSFRWHHVGQGDTIE  259 (269)
Q Consensus       185 ~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~--~~g~~L~d---~~tL~~~~i~~~~~i~  259 (269)
                      .-+|.|+.++| ..+.-....++++++|..=+...      |.+.+.+.|+  |--|++..   +.||.+.|+.+..+|+
T Consensus         5 ~t~i~vRlP~G-~r~~rrF~~~~~L~~v~~fv~~~------g~~~~~f~L~t~FPRr~~~~~d~~~TL~e~GL~P~~~Lf   77 (82)
T cd01773           5 KARLMLRYPDG-KREQIALPEQAKLLALVRHVQSK------GYPNERFELLTNFPRRKLSHLDYDITLQEAGLCPQETVF   77 (82)
T ss_pred             eeEEEEECCCC-CEEEEEeCCCCcHHHHHHHHHhc------CCCCCCEEEecCCCCcccCCcccCCCHHHcCCCCCcEEE
Confidence            46888999999 88888899999999999998884      6788888888  77887743   4799999999999998


Q ss_pred             Ee
Q 044874          260 IF  261 (269)
Q Consensus       260 l~  261 (269)
                      |=
T Consensus        78 Vq   79 (82)
T cd01773          78 VQ   79 (82)
T ss_pred             Ee
Confidence            74

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

>cd01772 SAKS1_UBX SAKS1-like UBX domain

Probab=95.74  E-value=0.091  Score=37.02  Aligned_cols=68  Identities=6%  Similarity=0.153  Sum_probs=54.7

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEE--ecCeeecC---CCccccccCCCCCEEEE
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFI--YKQNVMDD---DRSFRWHHVGQGDTIEI  260 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~--~~g~~L~d---~~tL~~~~i~~~~~i~l  260 (269)
                      ..|.|+.++| ..+.-..+.++|+++|++-++...     +- ...+.|+  |-.+++.+   +.||.+.|+.+..+|+|
T Consensus         5 ~~i~iRlp~G-~~~~~~F~~~~tl~~v~~fV~~~~-----~~-~~~f~L~t~fPrk~~~~~d~~~TL~elgL~Psa~L~v   77 (79)
T cd01772           5 TRIQIRLLDG-TTLKQTFKAREQLAAVRLFVELNT-----GN-GGPFTLMTPFPRKVFTEDDMEKPLQELGLVPSAVLIV   77 (79)
T ss_pred             EEEEEECCCC-CEEEEEeCCCChHHHHHHHHHHcC-----CC-CCCEEEEeCCCCeECCcccccCCHHHCCCCCceEEEE
Confidence            5678888898 788888999999999999998742     21 2446666  88998864   47999999999998876

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.

>cd01774 Faf1_like2_UBX Faf1 ike-2 UBX domain

Probab=95.71  E-value=0.13  Score=36.76  Aligned_cols=68  Identities=13%  Similarity=0.132  Sum_probs=55.9

Q ss_pred             EEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEc--CEEcC--------CCCccccCCCCCCCEEEEE
Q 044874            2 DVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFN--GQVLQ--------DDRDVEHCEILQNSRIQLL   70 (269)
Q Consensus         2 ~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~--G~~L~--------d~~tL~~~~i~~~~~i~l~   70 (269)
                      +|-||..+|+.+.-.+..++||++|..-|.. .+..+....|+++  -+.+.        .+.||++.|+.+..++.+.
T Consensus         6 ~I~iRlp~G~Rl~rrF~~~~tl~~l~~fv~~-~~~~~~~f~L~t~FPrr~~~~~~~~~~~~~~TL~eaGL~~s~~L~V~   83 (85)
T cd01774           6 KIVFKLPNGTRVERRFLFTQSLRVIHDFLFS-LKETPEKFQIVTNFPRRVLPCLPSEGDPPPPTLLEAGLSNSEVLFVQ   83 (85)
T ss_pred             EEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-CCCCCCcEEEecCCCCccccccccccCcCCCCHHHcCCCCccEEEEe
Confidence            6788999999999999999999999999965 4556678888865  36775        3679999999988877663

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

>PF13019 Telomere_Sde2: Telomere stability and silencing

Probab=95.50  E-value=0.11  Score=41.73  Aligned_cols=77  Identities=17%  Similarity=0.314  Sum_probs=53.3

Q ss_pred             eeEEEEecCCC---eEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCc-eEEEe-cCeee--cCCCccccccCCCCC--
Q 044874          186 LKLLVLTQCGN---KRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDG-YFFIY-KQNVM--DDDRSFRWHHVGQGD--  256 (269)
Q Consensus       186 ~~i~V~~~~g~---~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~-q~l~~-~g~~L--~d~~tL~~~~i~~~~--  256 (269)
                      |+|+|.++.|-   .++.+.++.+.||.+|+..|.+..     ++|... +.|.+ .++.|  .++..+..+.-.+.+  
T Consensus         1 i~Vlvss~~g~~lp~tl~~~lp~~ttv~dL~~~l~~~~-----~~~~~~~~~L~~~~n~~l~~~~~~~~s~l~~~~~~~~   75 (162)
T PF13019_consen    1 INVLVSSFDGLTLPPTLSLSLPSTTTVSDLKDRLSERL-----PIPSSSQLYLTTNSNGQLSPSSDIPLSSLLSSSQDSD   75 (162)
T ss_pred             CeEEEecCCCCCCCCeEEeeCCCCCcHHHHHHHHHhhc-----CCCccceeEEEEeCCCeeCCCccccHHhhccCcCCCC
Confidence            57889988873   588899999999999999999975     777765 44555 35555  455566666554443  


Q ss_pred             --EEEEecCcccCC
Q 044874          257 --TIEIFNGSVTGG  268 (269)
Q Consensus       257 --~i~l~~~~~~~~  268 (269)
                        ++.+.. ++.||
T Consensus        76 ~~~l~l~~-rl~GG   88 (162)
T PF13019_consen   76 FITLRLSL-RLRGG   88 (162)
T ss_pred             ceEEEEEE-eccCC
Confidence              455544 34443

>cd01770 p47_UBX p47-like ubiquitin domain

Probab=95.45  E-value=0.11  Score=36.61  Aligned_cols=68  Identities=13%  Similarity=0.240  Sum_probs=51.8

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEE--ecCeeecC-CCccccccCCCCCEE
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFI--YKQNVMDD-DRSFRWHHVGQGDTI  258 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~--~~g~~L~d-~~tL~~~~i~~~~~i  258 (269)
                      .+|.|+.++| +.+....+.++||.+|++-+.....    ......+.|+  |-.+.|.| +.||.+.|+.+...+
T Consensus         5 t~iqiRlpdG-~r~~~rF~~~~tv~~l~~~v~~~~~----~~~~~~f~L~t~fP~k~l~~~~~Tl~eagL~~s~v~   75 (79)
T cd01770           5 TSIQIRLADG-KRLVQKFNSSHRVSDVRDFIVNARP----EFAARPFTLMTAFPVKELSDESLTLKEANLLNAVIV   75 (79)
T ss_pred             eEEEEECCCC-CEEEEEeCCCCcHHHHHHHHHHhCC----CCCCCCEEEecCCCCcccCCCCCcHHHCCCcCcEEE
Confidence            5788888998 8888899999999999999987431    1112346665  78888866 579999999975543

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

>PRK08364 sulfur carrier protein ThiS; Provisional

Probab=95.28  E-value=0.21  Score=34.27  Aligned_cols=66  Identities=17%  Similarity=0.263  Sum_probs=47.1

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCcc
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSV  265 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~  265 (269)
                      |+|.++...  ....++++...||.+|-+++         +++.....+..+|.....     ++-+++||.|.+++ .|
T Consensus         5 m~v~vng~~--~~~~~~~~~~~tv~~ll~~l---------~~~~~~v~v~vNg~iv~~-----~~~l~~gD~Veii~-~V   67 (70)
T PRK08364          5 IRVKVIGRG--IEKEIEWRKGMKVADILRAV---------GFNTESAIAKVNGKVALE-----DDPVKDGDYVEVIP-VV   67 (70)
T ss_pred             EEEEEeccc--cceEEEcCCCCcHHHHHHHc---------CCCCccEEEEECCEECCC-----CcCcCCCCEEEEEc-cc
Confidence            455554321  24567788888999988655         677666777889998853     66689999999985 45


Q ss_pred             cCC
Q 044874          266 TGG  268 (269)
Q Consensus       266 ~~~  268 (269)
                      +||
T Consensus        68 ~GG   70 (70)
T PRK08364         68 SGG   70 (70)
T ss_pred             cCC
Confidence            554

>cd01771 Faf1_UBX Faf1 UBX domain

Probab=95.20  E-value=0.22  Score=35.19  Aligned_cols=69  Identities=14%  Similarity=0.128  Sum_probs=57.5

Q ss_pred             ceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEE--ecCeeec---CCCccccccCCCCCEEE
Q 044874          185 KLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFI--YKQNVMD---DDRSFRWHHVGQGDTIE  259 (269)
Q Consensus       185 ~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~--~~g~~L~---d~~tL~~~~i~~~~~i~  259 (269)
                      ..+|.++.++| ..+.-....++++.+|..=+...      +.+...+.|+  |--+++.   .+.||.+.|+.+..+|.
T Consensus         4 ~~~i~iRlP~G-~r~~rrF~~t~~L~~l~~fv~~~------~~~~~~f~L~t~fPRk~~~~~d~~~TL~e~gL~p~~~L~   76 (80)
T cd01771           4 ISKLRVRTPSG-DFLERRFLGDTPLQVLLNFVASK------GYPIDEYKLLSSWPRRDLTQLDPNFTLLELKLYPQETLI   76 (80)
T ss_pred             eEEEEEECCCC-CEEEEEeCCCCcHHHHHHHHHhc------CCCCCCEEEecCCCCCCCcCCCCCCcHHHcCCCCCcEEE
Confidence            36788888898 78888899999999999999874      6677778887  8888884   24699999999999987


Q ss_pred             E
Q 044874          260 I  260 (269)
Q Consensus       260 l  260 (269)
                      |
T Consensus        77 V   77 (80)
T cd01771          77 L   77 (80)
T ss_pred             E
Confidence            7

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

>cd01771 Faf1_UBX Faf1 UBX domain

Probab=95.17  E-value=0.23  Score=35.14  Aligned_cols=68  Identities=9%  Similarity=0.054  Sum_probs=57.0

Q ss_pred             EEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEE--cCEEcC---CCCccccCCCCCCCEEEEE
Q 044874            2 DVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVF--NGQVLQ---DDRDVEHCEILQNSRIQLL   70 (269)
Q Consensus         2 ~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~--~G~~L~---d~~tL~~~~i~~~~~i~l~   70 (269)
                      +|-||..+|+...-.+..++++.+|-.-+... |.++...+|+.  --+.+.   .+.+|.+.|+....++.+-
T Consensus         6 ~i~iRlP~G~r~~rrF~~t~~L~~l~~fv~~~-~~~~~~f~L~t~fPRk~~~~~d~~~TL~e~gL~p~~~L~Ve   78 (80)
T cd01771           6 KLRVRTPSGDFLERRFLGDTPLQVLLNFVASK-GYPIDEYKLLSSWPRRDLTQLDPNFTLLELKLYPQETLILE   78 (80)
T ss_pred             EEEEECCCCCEEEEEeCCCCcHHHHHHHHHhc-CCCCCCEEEecCCCCCCCcCCCCCCcHHHcCCCCCcEEEEE
Confidence            67889999999999999999999999999875 77777888874  466663   3579999999988888764

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

>cd00754 MoaD Ubiquitin domain of MoaD-like proteins

Probab=94.78  E-value=0.19  Score=35.06  Aligned_cols=65  Identities=17%  Similarity=0.175  Sum_probs=44.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCcccCC
Q 044874          197 KRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSVTGG  268 (269)
Q Consensus       197 ~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~~~~  268 (269)
                      ....++++...||.+|.+.+.+..... .+.......+.-+|+...     .++-+++||.|.+++ .++||
T Consensus        16 ~~~~~~~~~~~tv~~ll~~l~~~~~~~-~~~~~~~~~v~vNg~~v~-----~~~~l~~gD~v~i~p-pv~GG   80 (80)
T cd00754          16 DEEELELPEGATVGELLDALEARYPGL-LEELLARVRIAVNGEYVR-----LDTPLKDGDEVAIIP-PVSGG   80 (80)
T ss_pred             ceEEEECCCCCcHHHHHHHHHHHCchH-HHhhhhcEEEEECCeEcC-----CCcccCCCCEEEEeC-CCCCC
Confidence            456778877899999999998853100 011223455667888776     456799999999986 56665

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.

>cd00565 ThiS ThiaminS ubiquitin-like sulfur carrier protein

Probab=94.73  E-value=0.14  Score=34.48  Aligned_cols=57  Identities=28%  Similarity=0.425  Sum_probs=42.3

Q ss_pred             EEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCcccCC
Q 044874          201 VEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSVTGG  268 (269)
Q Consensus       201 l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~~~~  268 (269)
                      ++++...||.+|.+++         +++.+...+..+|+....+ ...++-+++||.|.++. .++||
T Consensus         9 ~~~~~~~tv~~ll~~l---------~~~~~~i~V~vNg~~v~~~-~~~~~~L~~gD~V~ii~-~v~GG   65 (65)
T cd00565           9 REVEEGATLAELLEEL---------GLDPRGVAVALNGEIVPRS-EWASTPLQDGDRIEIVT-AVGGG   65 (65)
T ss_pred             EEcCCCCCHHHHHHHc---------CCCCCcEEEEECCEEcCHH-HcCceecCCCCEEEEEE-eccCC
Confidence            3566778999888665         6777777888999988654 45556799999999985 45554

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.

>PRK06488 sulfur carrier protein ThiS; Validated

Probab=94.47  E-value=0.28  Score=32.97  Aligned_cols=60  Identities=18%  Similarity=0.288  Sum_probs=42.2

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCcccCC
Q 044874          194 CGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSVTGG  268 (269)
Q Consensus       194 ~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~~~~  268 (269)
                      +| +.+.+  + ..|+.+|.+.+         +++.....+-.++..+.- ....+.-+++||.|.++. .|+||
T Consensus         6 Ng-~~~~~--~-~~tl~~Ll~~l---------~~~~~~vavavN~~iv~~-~~~~~~~L~dgD~Ieiv~-~V~GG   65 (65)
T PRK06488          6 NG-ETLQT--E-ATTLALLLAEL---------DYEGNWLATAVNGELVHK-EARAQFVLHEGDRIEILS-PMQGG   65 (65)
T ss_pred             CC-eEEEc--C-cCcHHHHHHHc---------CCCCCeEEEEECCEEcCH-HHcCccccCCCCEEEEEE-eccCC
Confidence            45 66655  3 35888887654         566655667789998863 356678899999999985 45554

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

Probab=94.35  E-value=0.14  Score=42.32  Aligned_cols=62  Identities=19%  Similarity=0.316  Sum_probs=50.5

Q ss_pred             EEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEE-EcC-----EEc-CCCCccccCCCCCCCEEEEEEecC
Q 044874           13 FTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLV-FNG-----QVL-QDDRDVEHCEILQNSRIQLLVASD   74 (269)
Q Consensus        13 ~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~-~~G-----~~L-~d~~tL~~~~i~~~~~i~l~~~~~   74 (269)
                      .....+++.||++||.+++..+|.+++.++|. |.|     ..| +++..|..|+..+|..||++=...
T Consensus        15 ~Ekr~~~~ltl~q~K~KLe~~~G~~~~~M~l~l~~~~d~~~~~lsn~d~~lg~~~~~Dg~rihviD~~~   83 (234)
T KOG3206|consen   15 TEKRLSNSLTLAQFKDKLELLTGTEAESMELELYDGDDKKVSALSNEDADLGFYKVEDGLRIHVIDSNA   83 (234)
T ss_pred             hhhhcCCcCcHHHHHhhhhhhhCCCccceEEEEEcCCCceeeeccCCcccccccCCCCceEEEEEecCc
Confidence            34456899999999999999999999999885 443     246 467889999999999999885543

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

Probab=94.24  E-value=0.55  Score=33.73  Aligned_cols=66  Identities=14%  Similarity=0.164  Sum_probs=47.0

Q ss_pred             CEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEc----CE-Ec-CCCCccccCCCCCCCEEEEEEecCCCC
Q 044874           11 KAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFN----GQ-VL-QDDRDVEHCEILQNSRIQLLVASDNKP   77 (269)
Q Consensus        11 ~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~----G~-~L-~d~~tL~~~~i~~~~~i~l~~~~~~g~   77 (269)
                      ..++..++..|||+.+...+.+.+.| ...-||.-.    +. .| +.+.|+.+.++.+|.+|.+-.+..+|.
T Consensus        14 ~~~t~~FSk~DTI~~v~~~~rklf~i-~~E~RLW~~~~~~~~e~L~~~~~Tv~da~L~~gQ~vliE~rn~DGt   85 (88)
T PF14836_consen   14 SVLTKQFSKTDTIGFVEKEMRKLFNI-QEETRLWNKYSENSYELLNNPEITVEDAGLYDGQVVLIEERNEDGT   85 (88)
T ss_dssp             EEEEEEE-TTSBHHHHHHHHHHHCT--TS-EEEEEECTTTCEEEE--TTSBTTTTT--TTEEEEEEE--TTS-
T ss_pred             cHhHhhccccChHHHHHHHHHHHhCC-CccceehhccCCcchhhhCCCCccHHHccCcCCCEEEEEeeccCCC
Confidence            46777889999999999999999999 566787542    33 36 456799999999999999999887764

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

Probab=94.01  E-value=0.25  Score=34.07  Aligned_cols=65  Identities=20%  Similarity=0.257  Sum_probs=49.3

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCcccCC
Q 044874          198 RIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSVTGG  268 (269)
Q Consensus       198 ~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~~~~  268 (269)
                      ...+.+....||.+|.+.+..+..+..   ......+..+|+...+  .-.++-+++||.|.+++ .++||
T Consensus        13 ~~~~~~~~~~tv~~ll~~l~~~~p~~~---~~~~~~v~vN~~~v~~--~~~~~~l~~gD~V~i~p-pvsGG   77 (77)
T PF02597_consen   13 EEEIEVPEGSTVRDLLEALAERYPELA---LRDRVAVAVNGEIVPD--DGLDTPLKDGDEVAILP-PVSGG   77 (77)
T ss_dssp             EEEEEESSTSBHHHHHHHHCHHTGGGH---TTTTEEEEETTEEEGG--GTTTSBEETTEEEEEEE-STSTS
T ss_pred             CeEEecCCCCcHHHHHHHHHhhccccc---cCccEEEEECCEEcCC--ccCCcCcCCCCEEEEEC-CCCCC
Confidence            455778889999999999988642111   3356778899999988  36677889999999986 56655

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

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

Probab=93.93  E-value=0.11  Score=36.46  Aligned_cols=56  Identities=16%  Similarity=0.189  Sum_probs=46.5

Q ss_pred             ecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCcccccc-CCCCCEEEEec
Q 044874          203 VNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHH-VGQGDTIEIFN  262 (269)
Q Consensus       203 v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~-i~~~~~i~l~~  262 (269)
                      |.+.++|.++|+-+....    .-..-..+.|.++|+.|+|...|.+.. +++|.+|.|+.
T Consensus         1 v~~~d~v~dvrq~L~~~~----~t~~~Tn~~L~~~g~~L~~~~el~~i~~~~~~~~L~lve   57 (76)
T PF15044_consen    1 VSPTDTVQDVRQVLAESP----ETCYLTNFSLEHNGQRLDDFVELSEIEGIKDGCVLELVE   57 (76)
T ss_pred             CChhhHHHHHHHHHHhCc----cccceeEEEEEECCCccCCchhhhhhhCCCCCcEEEEEe
Confidence            567899999999998864    134445688999999999988888875 99999999985

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

Probab=93.85  E-value=0.13  Score=36.05  Aligned_cols=58  Identities=21%  Similarity=0.235  Sum_probs=46.6

Q ss_pred             EcCCCCHHHHHHHHHHHhC-CCCCcEEEEEcCEEcCCCCccccC-CCCCCCEEEEEEecC
Q 044874           17 VGFFDTVLEIKEKIEKYQG-IPVPKQTLVFNGQVLQDDRDVEHC-EILQNSRIQLLVASD   74 (269)
Q Consensus        17 v~~~~tV~~lK~~I~~~~g-i~~~~q~L~~~G~~L~d~~tL~~~-~i~~~~~i~l~~~~~   74 (269)
                      |+++++|.++++-+..... ..-....|.++|..|++...|++. |+++++++.++..+-
T Consensus         1 v~~~d~v~dvrq~L~~~~~t~~~Tn~~L~~~g~~L~~~~el~~i~~~~~~~~L~lve~pY   60 (76)
T PF15044_consen    1 VSPTDTVQDVRQVLAESPETCYLTNFSLEHNGQRLDDFVELSEIEGIKDGCVLELVEEPY   60 (76)
T ss_pred             CChhhHHHHHHHHHHhCccccceeEEEEEECCCccCCchhhhhhhCCCCCcEEEEEecCC
Confidence            5788999999999988754 444557888999999998888887 688899888886543

>TIGR01683 thiS thiamine biosynthesis protein ThiS

Probab=93.81  E-value=0.28  Score=32.94  Aligned_cols=56  Identities=23%  Similarity=0.293  Sum_probs=40.6

Q ss_pred             EecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCcccCC
Q 044874          202 EVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSVTGG  268 (269)
Q Consensus       202 ~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~~~~  268 (269)
                      ++....||.+|.+.+         +++++...+..+|+....+ ...++-+++||.|.++. .|+||
T Consensus         9 ~~~~~~tv~~ll~~l---------~~~~~~v~v~vN~~iv~~~-~~~~~~L~~gD~veii~-~V~GG   64 (64)
T TIGR01683         9 EVEDGLTLAALLESL---------GLDPRRVAVAVNGEIVPRS-EWDDTILKEGDRIEIVT-FVGGG   64 (64)
T ss_pred             EcCCCCcHHHHHHHc---------CCCCCeEEEEECCEEcCHH-HcCceecCCCCEEEEEE-eccCC
Confidence            456677888888754         6677777778899988533 34567799999999985 44444

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

>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=93.79  E-value=0.17  Score=35.87  Aligned_cols=56  Identities=16%  Similarity=0.229  Sum_probs=40.5

Q ss_pred             CcchHHHHHHhhhhhcCCCCcceEEEeCCeeeccCCcccccCCCCCCEEEEEEccC
Q 044874          115 VNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVRPS  170 (269)
Q Consensus       115 ~~~TV~~lK~~I~~~~gip~~~q~L~~~g~~L~d~~~L~~y~i~~~~~i~l~~~~~  170 (269)
                      ...++..||..++++.|+..+...+...+..|+++++|.+-+++-...+.+.+...
T Consensus        11 I~epl~~Lk~lLe~Rl~~~L~~~~f~LQD~~L~~~k~L~dQcVqgeGlVQlnvQi~   66 (88)
T PF11620_consen   11 IREPLSTLKKLLERRLGISLSDYEFWLQDIQLEPHKSLVDQCVQGEGLVQLNVQIK   66 (88)
T ss_dssp             SSSBGGGHHHHSHHHH-S--SS-EEEETTEE--TTSBTTTSS----SEEEEEEEEE
T ss_pred             cCCcHHHHHHHHHHhhCCCcCCCeEEeccceecCCccHHHhhccccCEEEEEEEEE
Confidence            45678899999999999999999998888889999999999999999999877655

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.

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

Probab=93.33  E-value=0.74  Score=31.98  Aligned_cols=58  Identities=19%  Similarity=0.147  Sum_probs=47.1

Q ss_pred             EEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCC-cEEEEE----cC--EEcCCCCccccCCCC
Q 044874            5 FEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVP-KQTLVF----NG--QVLQDDRDVEHCEIL   62 (269)
Q Consensus         5 vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~-~q~L~~----~G--~~L~d~~tL~~~~i~   62 (269)
                      |+.++|...+++++++.|+.++=++|++..++... -.-|.|    +|  .-|+.+++|.++...
T Consensus         1 V~llD~~~~~~~v~~~~t~~~l~~~v~~~l~l~e~~~FgL~~~~~~~~~~~wL~~~k~l~~q~~~   65 (80)
T PF09379_consen    1 VRLLDGTTKTFEVDPKTTGQDLLEQVCDKLGLKEKEYFGLQYQVDKDGEHHWLDLDKKLKKQLKK   65 (80)
T ss_dssp             EEESSEEEEEEEEETTSBHHHHHHHHHHHHTTSSGGGEEEEE-EBTTSSEEEE-SSSBGGGSTBT
T ss_pred             CCCcCCCcEEEEEcCCCcHHHHHHHHHHHcCCCCccEEEEEEeecCCCcceeccCcccHHHHcCC
Confidence            56789999999999999999999999999997644 367888    22  247888899988776

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

>PRK06437 hypothetical protein; Provisional

Probab=93.25  E-value=1.2  Score=30.30  Aligned_cols=58  Identities=19%  Similarity=0.211  Sum_probs=45.9

Q ss_pred             CCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCC
Q 044874            9 RGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDN   75 (269)
Q Consensus         9 ~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~   75 (269)
                      +++...++++...|+.+|-+.    .++++....+..+|..+.     .++-+++|+.|.++--..|
T Consensus         9 g~~~~~~~i~~~~tv~dLL~~----Lgi~~~~vaV~vNg~iv~-----~~~~L~dgD~Veiv~~V~G   66 (67)
T PRK06437          9 GHINKTIEIDHELTVNDIIKD----LGLDEEEYVVIVNGSPVL-----EDHNVKKEDDVLILEVFSG   66 (67)
T ss_pred             CCcceEEEcCCCCcHHHHHHH----cCCCCccEEEEECCEECC-----CceEcCCCCEEEEEecccC
Confidence            566788888888999988765    588888888889999987     5566778999988765444

>PRK07440 hypothetical protein; Provisional

Probab=93.08  E-value=0.88  Score=31.20  Aligned_cols=62  Identities=18%  Similarity=0.307  Sum_probs=45.7

Q ss_pred             ceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEec
Q 044874          185 KLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       185 ~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      .|+|.+   +| +.  +++....||.+|-+++         ++++....+-.+|.++.-+ ...++-+++||.|.++.
T Consensus         4 ~m~i~v---NG-~~--~~~~~~~tl~~lL~~l---------~~~~~~vav~~N~~iv~r~-~w~~~~L~~gD~IEIv~   65 (70)
T PRK07440          4 PITLQV---NG-ET--RTCSSGTSLPDLLQQL---------GFNPRLVAVEYNGEILHRQ-FWEQTQVQPGDRLEIVT   65 (70)
T ss_pred             ceEEEE---CC-EE--EEcCCCCCHHHHHHHc---------CCCCCeEEEEECCEEeCHH-HcCceecCCCCEEEEEE
Confidence            466666   45 54  4566778888776432         7888788888999998743 56667799999999984

>TIGR01687 moaD_arch MoaD family protein, archaeal

Probab=92.78  E-value=0.92  Score=32.31  Aligned_cols=67  Identities=21%  Similarity=0.302  Sum_probs=43.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhhhccCC-CC-----CCCceEEEecCeeecCCCccccccCCCCCEEEEecCcccCC
Q 044874          197 KRIPVEVNASDNVSELRKELQKLHQRYHF-HL-----PQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSVTGG  268 (269)
Q Consensus       197 ~~~~l~v~~~~tV~~lK~~i~~~~~~~~~-~~-----p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~~~~  268 (269)
                      ....++++ ..||.+|.+.+.++.++... -+     ..+...+..+|+....+..   .-+++||.|.+++ .|+||
T Consensus        16 ~~~~v~~~-~~tv~~l~~~l~~~~p~~~~~~l~~~~~~~~~~~v~vN~~~v~~~~~---~~l~dgdev~i~P-pvsGG   88 (88)
T TIGR01687        16 KSEEIEIE-GKTVGDLLNELMARYPKEFSELFKEGLGLVPNVIILVNGRNVDWGLG---TELKDGDVVAIFP-PVSGG   88 (88)
T ss_pred             ceEEEEeC-CCCHHHHHHHHHHHCcHHHHHhCccCCcccccEEEEECCEecCccCC---CCCCCCCEEEEeC-CCcCC
Confidence            45667776 88999999999886421000 01     1123455667776654432   5789999999987 67766

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

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

Probab=92.73  E-value=0.058  Score=47.78  Aligned_cols=62  Identities=16%  Similarity=0.266  Sum_probs=46.8

Q ss_pred             eeEEEEecCC-CeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCC-ceEEEecCeeecCCCcccccc
Q 044874          186 LKLLVLTQCG-NKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQD-GYFFIYKQNVMDDDRSFRWHH  251 (269)
Q Consensus       186 ~~i~V~~~~g-~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~-~q~l~~~g~~L~d~~tL~~~~  251 (269)
                      ..++++..+- .+.+.+..+...||.+||..+.....    +=|.. .|||+|.|+.|.|...|.|.=
T Consensus        10 v~lliks~Nq~y~dl~i~~dl~wtv~~Lk~hls~VyP----skpl~~dqrliYsgkllld~qcl~d~l   73 (391)
T KOG4583|consen   10 VTLLIKSPNQSYKDLSISLDLKWTVGDLKVHLSQVYP----SKPLELDQRLIYSGKLLLDHQCLTDWL   73 (391)
T ss_pred             eEEEecCCCccccceeeehhhhhhHHHHhhhHhhcCC----CCCchhhHHHHhhccccccchhHHHHH
Confidence            5666666553 45677888899999999999988652    22222 499999999999998887643

>PRK06488 sulfur carrier protein ThiS; Validated

Probab=92.65  E-value=1.2  Score=29.80  Aligned_cols=65  Identities=12%  Similarity=0.215  Sum_probs=46.2

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNK   76 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g   76 (269)
                      |+|+|   +|+.+.+  + ..|+.+|.+.+    ++++....+-.++..+. .....+.-+.+|+.|.++-...||
T Consensus         1 m~i~~---Ng~~~~~--~-~~tl~~Ll~~l----~~~~~~vavavN~~iv~-~~~~~~~~L~dgD~Ieiv~~V~GG   65 (65)
T PRK06488          1 MKLFV---NGETLQT--E-ATTLALLLAEL----DYEGNWLATAVNGELVH-KEARAQFVLHEGDRIEILSPMQGG   65 (65)
T ss_pred             CEEEE---CCeEEEc--C-cCcHHHHHHHc----CCCCCeEEEEECCEEcC-HHHcCccccCCCCEEEEEEeccCC
Confidence            66766   5676666  3 35899888764    67776667788898776 344567778899999988665544

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

Probab=92.51  E-value=0.99  Score=31.57  Aligned_cols=64  Identities=19%  Similarity=0.324  Sum_probs=43.6

Q ss_pred             eEEEEEecCC-CcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCcccCC
Q 044874          197 KRIPVEVNAS-DNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSVTGG  268 (269)
Q Consensus       197 ~~~~l~v~~~-~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~~~~  268 (269)
                      ....+++... .||.+|++.+.++.+.  +.-......+..+++...+     +.-+++||.|.+++ .|+||
T Consensus        16 ~~~~~~~~~~~~tv~~L~~~L~~~~p~--l~~~~~~~~v~vn~~~v~~-----~~~l~dgDevai~P-pvsGG   80 (80)
T TIGR01682        16 DEETLELPDESTTVGELKEHLAKEGPE--LAASRGQVMVAVNEEYVTD-----DALLNEGDEVAFIP-PVSGG   80 (80)
T ss_pred             CeEEEECCCCCcCHHHHHHHHHHhCch--hhhhccceEEEECCEEcCC-----CcCcCCCCEEEEeC-CCCCC
Confidence            4456778766 8999999999987521  0001122445567777663     56789999999987 67666

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

>PLN02799 Molybdopterin synthase sulfur carrier subunit

Probab=92.42  E-value=0.59  Score=32.90  Aligned_cols=62  Identities=16%  Similarity=0.297  Sum_probs=42.1

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhhhccCCCCCC--CceEEEecCeeecCCCccccccCCCCCEEEEecCcccCC
Q 044874          197 KRIPVEVNASDNVSELRKELQKLHQRYHFHLPQ--DGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSVTGG  268 (269)
Q Consensus       197 ~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~--~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~~~~  268 (269)
                      ....++++...||.+|++.+...++    ++..  ....+..+|+...     .++-+++||+|.+++ .|+||
T Consensus        19 ~~~~~~~~~~~tv~~L~~~l~~~~p----~l~~~~~~~~vavN~~~v~-----~~~~l~dgDeVai~P-pvsGG   82 (82)
T PLN02799         19 SDMTLELPAGSTTADCLAELVAKFP----SLEEVRSCCVLALNEEYTT-----ESAALKDGDELAIIP-PISGG   82 (82)
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHCh----hHHHHhhCcEEEECCEEcC-----CCcCcCCCCEEEEeC-CCCCC
Confidence            4566778888999999999987541    1111  1123556777654     345689999999986 56665

>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=92.03  E-value=0.65  Score=32.96  Aligned_cols=63  Identities=13%  Similarity=0.183  Sum_probs=45.7

Q ss_pred             EEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecC
Q 044874           12 AFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASD   74 (269)
Q Consensus        12 ~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~   74 (269)
                      .+...++-..++..||..++.+.+++-+.-.++..+..|+++++|.+.+++-...+.+.+...
T Consensus         4 vI~q~mDI~epl~~Lk~lLe~Rl~~~L~~~~f~LQD~~L~~~k~L~dQcVqgeGlVQlnvQi~   66 (88)
T PF11620_consen    4 VIMQHMDIREPLSTLKKLLERRLGISLSDYEFWLQDIQLEPHKSLVDQCVQGEGLVQLNVQIK   66 (88)
T ss_dssp             EEEEEEESSSBGGGHHHHSHHHH-S--SS-EEEETTEE--TTSBTTTSS----SEEEEEEEEE
T ss_pred             eEEEEEecCCcHHHHHHHHHHhhCCCcCCCeEEeccceecCCccHHHhhccccCEEEEEEEEE
Confidence            345567778899999999999999999999999999889999999999999999888886544

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.

>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A

Probab=91.77  E-value=2.3  Score=35.82  Aligned_cols=117  Identities=13%  Similarity=0.146  Sum_probs=58.2

Q ss_pred             CEEEEEEcCCCCHHHHHHHHHHHhCCCCC---cEEEE--EcCEE---cCCCCccccCCCCCCCEEEEEEecCCCCCCccc
Q 044874           11 KAFTIEVGFFDTVLEIKEKIEKYQGIPVP---KQTLV--FNGQV---LQDDRDVEHCEILQNSRIQLLVASDNKPQVKTE   82 (269)
Q Consensus        11 ~~~~l~v~~~~tV~~lK~~I~~~~gi~~~---~q~L~--~~G~~---L~d~~tL~~~~i~~~~~i~l~~~~~~g~~~~~~   82 (269)
                      +.+.+-|+.+.||.+|.++++.+.+++..   ..||+  ++++.   +..+..+.+.  .+...+.+-.-+..-.     
T Consensus        34 ~~~~~~vpk~~tV~Dll~~l~~k~~~~~~~~~~lrl~ev~~~ki~~~~~~d~~i~~l--~~~~~~r~E~ip~ee~-----  106 (213)
T PF14533_consen   34 QEYELLVPKTGTVSDLLEELQKKVGFSEEGTGKLRLWEVSNHKIYKILSEDEPISSL--NDYITLRIEEIPEEEL-----  106 (213)
T ss_dssp             -EEEE--BTT-BHHHHHHHHHTT----TT----EEEEEEETTEEEEEE-TTSBGGGS----TTEEEEEE--GGGS-----
T ss_pred             eEEEEEECCCCCHHHHHHHHHHHcCCCcCCcCcEEEEEeECCEEEeecCCCCchhhc--cCcceeeeecCChHHh-----
Confidence            35788899999999999999999998765   34443  45654   6778888886  3444444432222111     


Q ss_pred             CCC-C-CceEEEEEecCCCCCCccccccceeecCCcchHHHHHHhhhhhcCCCC
Q 044874           83 QSS-P-SKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPV  134 (269)
Q Consensus        83 ~~~-~-~~~i~i~Vk~~~~~~~~~~~~~~~~~v~~~~TV~~lK~~I~~~~gip~  134 (269)
                      +.. . ....-|.|.......................|..++|++|+++.|+|.
T Consensus       107 ~~~~~~~~~~li~V~hf~k~~~~~hGiPF~f~v~~gE~f~~tK~Rl~~rlgv~~  160 (213)
T PF14533_consen  107 NLDDESEGEKLIPVFHFHKDPSRTHGIPFLFVVKPGETFSDTKERLQKRLGVSD  160 (213)
T ss_dssp             S--TT--TEEEEEEEEESSSTT-EEEEEEEEEEETT--HHHHHHHHHHHH---H
T ss_pred             hcccccccceEEEEEEEecCccccCCCCEEEEeeCCCcHHHHHHHHHHHhCCCh
Confidence            111 1 122344444433322112222334455678899999999999999993

>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=91.67  E-value=0.66  Score=32.68  Aligned_cols=36  Identities=19%  Similarity=0.219  Sum_probs=33.9

Q ss_pred             EEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcC
Q 044874           12 AFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNG   47 (269)
Q Consensus        12 ~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G   47 (269)
                      ++.+.+.++.+..+|.++|.++.++|++...|.|..
T Consensus        12 tIaIrvp~~~~y~~L~~ki~~kLkl~~e~i~LsYkd   47 (80)
T cd06406          12 TVAIQVARGLSYATLLQKISSKLELPAEHITLSYKS   47 (80)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhCCCchhcEEEecc
Confidence            899999999999999999999999999999999963

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

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

Probab=91.64  E-value=0.85  Score=32.68  Aligned_cols=44  Identities=14%  Similarity=0.212  Sum_probs=38.3

Q ss_pred             EEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCC---CcEEEEE
Q 044874            2 DVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPV---PKQTLVF   45 (269)
Q Consensus         2 ~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~---~~q~L~~   45 (269)
                      .++++...|+.+.+.+.++..+.+|++.|.++.|+..   ....|.|
T Consensus         2 ~FK~~~~~GrvhRf~~~~s~~~~~L~~~I~~Rl~~d~~~~~~~~L~Y   48 (86)
T cd06409           2 AFKFKDPKGRVHRFRLRPSESLEELRTLISQRLGDDDFETHLYALSY   48 (86)
T ss_pred             cEEeeCCCCCEEEEEecCCCCHHHHHHHHHHHhCCccccCCcccEEE
Confidence            3577888999999999999999999999999999886   4566666

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

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

Probab=91.62  E-value=0.79  Score=38.07  Aligned_cols=60  Identities=13%  Similarity=0.302  Sum_probs=49.1

Q ss_pred             EEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEE-ecC-----eee-cCCCccccccCCCCCEEEEecCc
Q 044874          200 PVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFI-YKQ-----NVM-DDDRSFRWHHVGQGDTIEIFNGS  264 (269)
Q Consensus       200 ~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~-~~g-----~~L-~d~~tL~~~~i~~~~~i~l~~~~  264 (269)
                      ..+...+.||+++|.+++-.-     |.+++.+.|. |.|     -.| +++..|..|+..+|-.||++...
T Consensus        16 Ekr~~~~ltl~q~K~KLe~~~-----G~~~~~M~l~l~~~~d~~~~~lsn~d~~lg~~~~~Dg~rihviD~~   82 (234)
T KOG3206|consen   16 EKRLSNSLTLAQFKDKLELLT-----GTEAESMELELYDGDDKKVSALSNEDADLGFYKVEDGLRIHVIDSN   82 (234)
T ss_pred             hhhcCCcCcHHHHHhhhhhhh-----CCCccceEEEEEcCCCceeeeccCCcccccccCCCCceEEEEEecC
Confidence            346677899999999999986     9999998876 655     245 45679999999999999999643

>PRK08364 sulfur carrier protein ThiS; Provisional

Probab=91.36  E-value=2.2  Score=29.13  Aligned_cols=56  Identities=14%  Similarity=0.128  Sum_probs=42.1

Q ss_pred             EEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCC
Q 044874           12 AFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNK   76 (269)
Q Consensus        12 ~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g   76 (269)
                      ...++++...|+.+|-+.+    ++++..-.+..+|..+..     ++-+++|+.|.++--..||
T Consensus        15 ~~~~~~~~~~tv~~ll~~l----~~~~~~v~v~vNg~iv~~-----~~~l~~gD~Veii~~V~GG   70 (70)
T PRK08364         15 EKEIEWRKGMKVADILRAV----GFNTESAIAKVNGKVALE-----DDPVKDGDYVEVIPVVSGG   70 (70)
T ss_pred             ceEEEcCCCCcHHHHHHHc----CCCCccEEEEECCEECCC-----CcCcCCCCEEEEEccccCC
Confidence            5677888889999988764    777777778889998853     5567789998887554443

>PF12436 USP7_ICP0_bdg: ICP0-binding domain of Ubiquitin-specific protease 7; InterPro: IPR024729 This domain is found in eukaryotes, and is approximately 40 amino acids in length

Probab=91.06  E-value=1.8  Score=37.48  Aligned_cols=142  Identities=13%  Similarity=0.122  Sum_probs=81.5

Q ss_pred             ceEEEEEecCCCCCCccccccceeecCCcchHHHHHHhhhhhcCCCCcceEEEeC----C--eeeccCCcccccCCCCCC
Q 044874           88 KKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSS----G--AELQDHRSLRDCELMDNA  161 (269)
Q Consensus        88 ~~i~i~Vk~~~~~~~~~~~~~~~~~v~~~~TV~~lK~~I~~~~gip~~~q~L~~~----g--~~L~d~~~L~~y~i~~~~  161 (269)
                      ..+-||+|....... ..............+|+++-..|.+..|+|++...++|.    +  ..++...++....+++|+
T Consensus        67 ~~iLlFlK~fDp~~q-~L~~iGh~~v~~~~~v~~l~~~i~~~~g~p~~t~l~lyEEi~~~~ie~i~~~~t~~~~el~~Gd  145 (249)
T PF12436_consen   67 DDILLFLKYFDPETQ-TLRYIGHVYVPKNDKVSELVPLINERAGLPPDTPLLLYEEIKPNMIEPIDPNQTFEKAELQDGD  145 (249)
T ss_dssp             TEEEEEEEEEETTTT-EEEEEEEEEEETT-BGGGTHHHHHHHHT--TT--EEEEEEEETTEEEE--SSSBHHHTT--TTE
T ss_pred             CcEEEEEEeeCCCCC-EEEEEeEEEECCCCCHHHHHHHHHHHcCCCCCCceEEEEEeccceeeEcCCCCchhhcccCCCC
Confidence            456666666544321 112223444556788999999999999999988777763    2  346779999999999999


Q ss_pred             EEEEEEccCCCCCCCCCCCCC-------CcceeEEEEecCC--CeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCce
Q 044874          162 EIDVHVRPSPTATSTTSSGMG-------PRKLKLLVLTQCG--NKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGY  232 (269)
Q Consensus       162 ~i~l~~~~~~~~~~~~~~~~~-------~~~~~i~V~~~~g--~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q  232 (269)
                      .|-.-........+...-...       -.++.|.+.....  ...|.+.++..+|-.+|-++|.++-     ++.++..
T Consensus       146 Ii~fQ~~~~~~~~~~~~~~~v~~Yy~~l~nrv~V~f~~~~~~~~~~F~l~ls~~~tY~~la~~Va~~l-----~~dP~~l  220 (249)
T PF12436_consen  146 IICFQRAPSEDLDKSSRYPDVKEYYDFLYNRVEVEFKPKDNPNDPEFTLWLSKKMTYDQLAEKVAEHL-----NVDPEHL  220 (249)
T ss_dssp             EEEEEE--GG--GGGSSS-SHHHHHHHHHHEEEEEEEETTSTT---EEEEEETT--HHHHHHHHHHHH-----TS-GGGE
T ss_pred             EEEEEeccccccccccCCCCHHHHHHHHhCeEEEEEEECCCCCCCCEEEEECCCCCHHHHHHHHHHHH-----CCChHHE
Confidence            988876554200000000000       0135556655322  2589999999999999999999974     8888887


Q ss_pred             EEE
Q 044874          233 FFI  235 (269)
Q Consensus       233 ~l~  235 (269)
                      +|.
T Consensus       221 r~~  223 (249)
T PF12436_consen  221 RFF  223 (249)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            765

It is found in proteins of the peptidase C19 family, which contains contains ubiquitinyl hydrolases like ubiquitin-specific protease 7 (USP7). USP7 regulates the turnover of p53 [].; PDB: 2KVR_A 2YLM_A.

>PF14453 ThiS-like: ThiS-like ubiquitin

Probab=90.99  E-value=1.8  Score=28.43  Aligned_cols=55  Identities=18%  Similarity=0.328  Sum_probs=39.8

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEE
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLV   71 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~   71 (269)
                      |+|+|.   |+  .+++..+.|+.+||.++..      +.--++++|-+..++..|     ++++.|.+.-
T Consensus         1 M~I~vN---~k--~~~~~~~~tl~~lr~~~k~------~~DI~I~NGF~~~~d~~L-----~e~D~v~~Ik   55 (57)
T PF14453_consen    1 MKIKVN---EK--EIETEENTTLFELRKESKP------DADIVILNGFPTKEDIEL-----KEGDEVFLIK   55 (57)
T ss_pred             CEEEEC---CE--EEEcCCCcCHHHHHHhhCC------CCCEEEEcCcccCCcccc-----CCCCEEEEEe
Confidence            777774   44  5677788899999988544      333789999988775554     5588887754

>PRK05863 sulfur carrier protein ThiS; Provisional

Probab=90.58  E-value=1  Score=30.34  Aligned_cols=60  Identities=20%  Similarity=0.417  Sum_probs=41.0

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCcccCC
Q 044874          194 CGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSVTGG  268 (269)
Q Consensus       194 ~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~~~~  268 (269)
                      +| +..  ++.+..|+.+|=+   +      ++++.....+.+++.++.-+ ....+ +++||.|.++. .|.||
T Consensus         6 NG-~~~--~~~~~~tl~~ll~---~------l~~~~~~vav~~N~~iv~r~-~~~~~-L~~gD~ieIv~-~VgGG   65 (65)
T PRK05863          6 NE-EQV--EVDEQTTVAALLD---S------LGFPEKGIAVAVDWSVLPRS-DWATK-LRDGARLEVVT-AVQGG   65 (65)
T ss_pred             CC-EEE--EcCCCCcHHHHHH---H------cCCCCCcEEEEECCcCcChh-Hhhhh-cCCCCEEEEEe-eccCC
Confidence            45 444  4556677776654   3      27888888889999977544 33456 99999999985 44444

>PRK06083 sulfur carrier protein ThiS; Provisional

Probab=90.29  E-value=2.9  Score=29.82  Aligned_cols=68  Identities=22%  Similarity=0.492  Sum_probs=47.8

Q ss_pred             cceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecC
Q 044874          184 RKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNG  263 (269)
Q Consensus       184 ~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~  263 (269)
                      ..|+|+|   +| +..  +++...||.+|=+.+         +++.....+-.+|.++.- .....+-+++||.|.++. 
T Consensus        17 ~~m~I~V---NG-~~~--~~~~~~tl~~LL~~l---------~~~~~~vAVevNg~iVpr-~~w~~t~L~egD~IEIv~-   79 (84)
T PRK06083         17 VLITISI---ND-QSI--QVDISSSLAQIIAQL---------SLPELGCVFAINNQVVPR-SEWQSTVLSSGDAISLFQ-   79 (84)
T ss_pred             ceEEEEE---CC-eEE--EcCCCCcHHHHHHHc---------CCCCceEEEEECCEEeCH-HHcCcccCCCCCEEEEEE-
Confidence            3466665   45 544  456677887776532         788877888899999953 367788899999999984 


Q ss_pred             cccCC
Q 044874          264 SVTGG  268 (269)
Q Consensus       264 ~~~~~  268 (269)
                      .|.||
T Consensus        80 ~VgGG   84 (84)
T PRK06083         80 AIAGG   84 (84)
T ss_pred             EecCC
Confidence            34443

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

Probab=90.14  E-value=0.12  Score=45.86  Aligned_cols=73  Identities=15%  Similarity=0.195  Sum_probs=52.9

Q ss_pred             EEEEEcCCCC--EEEEEEcCCCCHHHHHHHHHHHhC--CCCCcEEEEEcCEEcCCCCccccCCCC--CCCEEEEEEecC
Q 044874            2 DVIFEPQRGK--AFTIEVGFFDTVLEIKEKIEKYQG--IPVPKQTLVFNGQVLQDDRDVEHCEIL--QNSRIQLLVASD   74 (269)
Q Consensus         2 ~i~vk~~~g~--~~~l~v~~~~tV~~lK~~I~~~~g--i~~~~q~L~~~G~~L~d~~tL~~~~i~--~~~~i~l~~~~~   74 (269)
                      .+++|..+.+  .+.|..+..-||++||..++..+-  --+..|||+|.|+.|.|...|.+.-.+  ...++||+...+
T Consensus        11 ~lliks~Nq~y~dl~i~~dl~wtv~~Lk~hls~VyPskpl~~dqrliYsgkllld~qcl~d~lrkq~k~Hv~hlvcnsk   89 (391)
T KOG4583|consen   11 TLLIKSPNQSYKDLSISLDLKWTVGDLKVHLSQVYPSKPLELDQRLIYSGKLLLDHQCLTDWLRKQVKEHVKHLVCNSK   89 (391)
T ss_pred             EEEecCCCccccceeeehhhhhhHHHHhhhHhhcCCCCCchhhHHHHhhccccccchhHHHHHHHHHHHHHHHHhcCCC
Confidence            4567776644  556666778899999999998864  223469999999999999999887553  345556555443

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

Probab=90.09  E-value=1.7  Score=29.67  Aligned_cols=52  Identities=21%  Similarity=0.358  Sum_probs=41.6

Q ss_pred             EEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEec
Q 044874          201 VEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       201 l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      ++++...|+++|=+++         +++.+...+..+|.+...+ .-.++-+++||.|.++.
T Consensus        12 ~e~~~~~tv~dLL~~l---------~~~~~~vav~vNg~iVpr~-~~~~~~l~~gD~ievv~   63 (68)
T COG2104          12 VEIAEGTTVADLLAQL---------GLNPEGVAVAVNGEIVPRS-QWADTILKEGDRIEVVR   63 (68)
T ss_pred             EEcCCCCcHHHHHHHh---------CCCCceEEEEECCEEccch-hhhhccccCCCEEEEEE
Confidence            4566678999987655         8998889999999998744 45667889999999984

>PRK08053 sulfur carrier protein ThiS; Provisional

Probab=89.96  E-value=1.7  Score=29.23  Aligned_cols=61  Identities=26%  Similarity=0.451  Sum_probs=42.2

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCcccCC
Q 044874          194 CGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSVTGG  268 (269)
Q Consensus       194 ~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~~~~  268 (269)
                      +| +.+  ++....||.+|-+++         +++.....+-.++.++.-+ ....+-+++||.|.++. .+.||
T Consensus         6 Ng-~~~--~~~~~~tl~~ll~~l---------~~~~~~vaVavN~~iv~r~-~w~~~~L~~gD~Ieii~-~v~GG   66 (66)
T PRK08053          6 ND-QPM--QCAAGQTVHELLEQL---------NQLQPGAALAINQQIIPRE-QWAQHIVQDGDQILLFQ-VIAGG   66 (66)
T ss_pred             CC-eEE--EcCCCCCHHHHHHHc---------CCCCCcEEEEECCEEeChH-HcCccccCCCCEEEEEE-EccCC
Confidence            45 454  456677899888654         5555567778899988532 45666799999999985 44444

>cd00754 MoaD Ubiquitin domain of MoaD-like proteins

Probab=89.77  E-value=2.3  Score=29.36  Aligned_cols=60  Identities=12%  Similarity=0.119  Sum_probs=44.0

Q ss_pred             EEEEEEcCCCCHHHHHHHHHHHhCC----CCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCC
Q 044874           12 AFTIEVGFFDTVLEIKEKIEKYQGI----PVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNK   76 (269)
Q Consensus        12 ~~~l~v~~~~tV~~lK~~I~~~~gi----~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g   76 (269)
                      ...++++...||.+|.+.+...++-    ......+..+|+...     .++-+.+|+.|.++-...||
T Consensus        17 ~~~~~~~~~~tv~~ll~~l~~~~~~~~~~~~~~~~v~vNg~~v~-----~~~~l~~gD~v~i~ppv~GG   80 (80)
T cd00754          17 EEELELPEGATVGELLDALEARYPGLLEELLARVRIAVNGEYVR-----LDTPLKDGDEVAIIPPVSGG   80 (80)
T ss_pred             eEEEECCCCCcHHHHHHHHHHHCchHHHhhhhcEEEEECCeEcC-----CCcccCCCCEEEEeCCCCCC
Confidence            4667777789999999999987642    234557777898877     34568889999887655443

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.

>PLN02799 Molybdopterin synthase sulfur carrier subunit

Probab=89.65  E-value=1.9  Score=30.30  Aligned_cols=70  Identities=10%  Similarity=0.090  Sum_probs=46.3

Q ss_pred             CEEEEEcCC------C-CEEEEEEcCCCCHHHHHHHHHHHhC-CCC--CcEEEEEcCEEcCCCCccccCCCCCCCEEEEE
Q 044874            1 MDVIFEPQR------G-KAFTIEVGFFDTVLEIKEKIEKYQG-IPV--PKQTLVFNGQVLQDDRDVEHCEILQNSRIQLL   70 (269)
Q Consensus         1 M~i~vk~~~------g-~~~~l~v~~~~tV~~lK~~I~~~~g-i~~--~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~   70 (269)
                      |+|+|+...      | ....++++...|+.+|.+.+..... +..  ..-.+..||+...     .++-+++|+.|.+.
T Consensus         2 m~i~V~~fa~~re~~g~~~~~~~~~~~~tv~~L~~~l~~~~p~l~~~~~~~~vavN~~~v~-----~~~~l~dgDeVai~   76 (82)
T PLN02799          2 VEIKVLFFARARELTGVSDMTLELPAGSTTADCLAELVAKFPSLEEVRSCCVLALNEEYTT-----ESAALKDGDELAII   76 (82)
T ss_pred             eEEEEEehHHHHHHhCCCeEEEECCCCCcHHHHHHHHHHHChhHHHHhhCcEEEECCEEcC-----CCcCcCCCCEEEEe
Confidence            678887542      3 5677788889999999999987652 111  1124566787654     34456779998887


Q ss_pred             EecCC
Q 044874           71 VASDN   75 (269)
Q Consensus        71 ~~~~~   75 (269)
                      -...|
T Consensus        77 PpvsG   81 (82)
T PLN02799         77 PPISG   81 (82)
T ss_pred             CCCCC
Confidence            54444

>PRK11130 moaD molybdopterin synthase small subunit; Provisional

Probab=89.49  E-value=2.9  Score=29.35  Aligned_cols=57  Identities=26%  Similarity=0.397  Sum_probs=33.6

Q ss_pred             CCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCcccCC
Q 044874          206 SDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSVTGG  268 (269)
Q Consensus       206 ~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~~~~  268 (269)
                      ..||.+|++.+.++......-+.....+.--++. +..    .+.-+++||.|.+++ .|+||
T Consensus        25 ~~tv~~l~~~L~~~~~~~~~~~~~~~~~~aVN~~-~~~----~~~~l~dgDeVai~P-PVsGG   81 (81)
T PRK11130         25 FPTVEALRQHLAQKGDRWALALEDGKLLAAVNQT-LVS----FDHPLTDGDEVAFFP-PVTGG   81 (81)
T ss_pred             CCCHHHHHHHHHHhCccHHhhhcCCCEEEEECCE-EcC----CCCCCCCCCEEEEeC-CCCCC
Confidence            4799999999988642100011112222223343 322    244699999999997 67776

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

Probab=89.37  E-value=1.6  Score=30.13  Aligned_cols=45  Identities=16%  Similarity=0.062  Sum_probs=40.5

Q ss_pred             EEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcC
Q 044874            3 VIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNG   47 (269)
Q Consensus         3 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G   47 (269)
                      +.|-..+|+...+.+.|++|+.++=+++.++.|+.++.-.+++.|
T Consensus         2 ~~V~LPng~~t~V~vrpg~ti~d~L~~~c~kr~l~~~~~~v~~~~   46 (72)
T cd01760           2 CRVYLPNGQRTVVPVRPGMSVRDVLAKACKKRGLNPECCDVFLLG   46 (72)
T ss_pred             EEEECcCCCeEEEEECCCCCHHHHHHHHHHHcCCCHHHEEEEEec
Confidence            456778999999999999999999999999999999988887764

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

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

Probab=88.99  E-value=2.7  Score=28.15  Aligned_cols=66  Identities=20%  Similarity=0.293  Sum_probs=52.0

Q ss_pred             CCCEEEEEEcCCCCHHHHHHHHHHHhC---CCCCcEEEE-EcCEEcCCCCccccCCCCCCCEEEEEEecC
Q 044874            9 RGKAFTIEVGFFDTVLEIKEKIEKYQG---IPVPKQTLV-FNGQVLQDDRDVEHCEILQNSRIQLLVASD   74 (269)
Q Consensus         9 ~g~~~~l~v~~~~tV~~lK~~I~~~~g---i~~~~q~L~-~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~   74 (269)
                      +|+...++.++...+-...++-.+.+|   -|++...|- -+|..|+-++.++|||+.++.++.+.++..
T Consensus         4 NGqPv~VEANvnaPLh~v~akALe~sgNvgQP~ENWElkDe~G~vlD~~kKveD~GftngvkLFLsLKAG   73 (76)
T PF10790_consen    4 NGQPVQVEANVNAPLHPVRAKALEQSGNVGQPPENWELKDESGQVLDVNKKVEDFGFTNGVKLFLSLKAG   73 (76)
T ss_pred             CCCceeeecCCCCcchHHHHHHHhhccccCCCcccceeeccCCcEeeccchhhhccccccceEEEEeecc
Confidence            688888999999888888777766654   555544443 258899999999999999999999887653

>smart00455 RBD Raf-like Ras-binding domain

Probab=88.94  E-value=2  Score=29.48  Aligned_cols=45  Identities=16%  Similarity=0.064  Sum_probs=40.4

Q ss_pred             EEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcC
Q 044874            3 VIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNG   47 (269)
Q Consensus         3 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G   47 (269)
                      ..|-..+|+...+.+.|+.|+.++=+.+.++.|+.++.-.++..|
T Consensus         2 ~~v~LP~~~~~~V~vrpg~tl~e~L~~~~~kr~l~~~~~~v~~~g   46 (70)
T smart00455        2 CKVHLPDNQRTVVKVRPGKTVRDALAKALKKRGLNPECCVVRLRG   46 (70)
T ss_pred             eEEECCCCCEEEEEECCCCCHHHHHHHHHHHcCCCHHHEEEEEcC
Confidence            346678899999999999999999999999999999998888855

>PRK05659 sulfur carrier protein ThiS; Validated

Probab=88.70  E-value=2.1  Score=28.60  Aligned_cols=52  Identities=15%  Similarity=0.188  Sum_probs=38.6

Q ss_pred             EEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEec
Q 044874          201 VEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       201 l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      +++....|+.++=+.+         +++.....+..+|.++.-. .-.++-+++||.|.++.
T Consensus        10 ~~~~~~~tl~~lL~~l---------~~~~~~vav~vNg~iv~r~-~~~~~~l~~gD~vei~~   61 (66)
T PRK05659         10 RELPDGESVAALLARE---------GLAGRRVAVEVNGEIVPRS-QHASTALREGDVVEIVH   61 (66)
T ss_pred             EEcCCCCCHHHHHHhc---------CCCCCeEEEEECCeEeCHH-HcCcccCCCCCEEEEEE
Confidence            3566778888776433         7888888888999887644 44556689999999985

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

Probab=88.56  E-value=5  Score=27.67  Aligned_cols=58  Identities=16%  Similarity=0.176  Sum_probs=45.3

Q ss_pred             EEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCc-eEEEe----c--CeeecCCCccccccCC
Q 044874          190 VLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDG-YFFIY----K--QNVMDDDRSFRWHHVG  253 (269)
Q Consensus       190 V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~-q~l~~----~--g~~L~d~~tL~~~~i~  253 (269)
                      |..++| ....++++++.|+.+|=++|+++-     ++.... .-|.|    +  ..-|+.+++|.++...
T Consensus         1 V~llD~-~~~~~~v~~~~t~~~l~~~v~~~l-----~l~e~~~FgL~~~~~~~~~~~wL~~~k~l~~q~~~   65 (80)
T PF09379_consen    1 VRLLDG-TTKTFEVDPKTTGQDLLEQVCDKL-----GLKEKEYFGLQYQVDKDGEHHWLDLDKKLKKQLKK   65 (80)
T ss_dssp             EEESSE-EEEEEEEETTSBHHHHHHHHHHHH-----TTSSGGGEEEEE-EBTTSSEEEE-SSSBGGGSTBT
T ss_pred             CCCcCC-CcEEEEEcCCCcHHHHHHHHHHHc-----CCCCccEEEEEEeecCCCcceeccCcccHHHHcCC
Confidence            456787 889999999999999999999975     777544 44667    1  3467889999999887

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

>smart00666 PB1 PB1 domain

Probab=88.50  E-value=2.6  Score=29.28  Aligned_cols=44  Identities=20%  Similarity=0.224  Sum_probs=37.2

Q ss_pred             EEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEc
Q 044874            2 DVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFN   46 (269)
Q Consensus         2 ~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~   46 (269)
                      +|.++. ++..+.+.++++.|..+|+.+|..+++.+....+|.|.
T Consensus         3 ~vK~~~-~~~~~~~~~~~~~s~~dL~~~i~~~~~~~~~~~~l~Y~   46 (81)
T smart00666        3 DVKLRY-GGETRRLSVPRDISFEDLRSKVAKRFGLDNQSFTLKYQ   46 (81)
T ss_pred             cEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHhCCCCCCeEEEEE
Confidence            345544 67889999999999999999999999988777888886

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.

>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=88.22  E-value=2.5  Score=29.97  Aligned_cols=45  Identities=13%  Similarity=0.010  Sum_probs=36.5

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCC-CcEEEEEc
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPV-PKQTLVFN   46 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~-~~q~L~~~   46 (269)
                      |+|.+. .+|..+.+.+.++.+..+|+++|++++++.. ....|.|-
T Consensus         1 ~~vK~~-~~~d~~r~~l~~~~~~~~L~~~i~~r~~~~~~~~f~LkY~   46 (82)
T cd06407           1 VRVKAT-YGEEKIRFRLPPSWGFTELKQEIAKRFKLDDMSAFDLKYL   46 (82)
T ss_pred             CEEEEE-eCCeEEEEEcCCCCCHHHHHHHHHHHhCCCCCCeeEEEEE
Confidence            445553 4778999999999999999999999999875 56777774

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

>KOG4598 consensus Putative ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]

Probab=88.09  E-value=0.96  Score=44.21  Aligned_cols=202  Identities=18%  Similarity=0.197  Sum_probs=103.7

Q ss_pred             EEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEE----cCEEc--CCCCccccCCCCCCCEEEEEEecCCCCCCcccCCC
Q 044874           12 AFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVF----NGQVL--QDDRDVEHCEILQNSRIQLLVASDNKPQVKTEQSS   85 (269)
Q Consensus        12 ~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~----~G~~L--~d~~tL~~~~i~~~~~i~l~~~~~~g~~~~~~~~~   85 (269)
                      .+.+.|+.-+++..||+.|+...+++.+..+++-    +|..+  .++.+|..  ..++++|.+.+-..=.        +
T Consensus       878 ~~kl~Vd~rmr~~AFKkHiE~~i~V~~~HFKi~R~~~~N~~~~S~~~NetLs~--~~~~~~iTI~LG~~Lk--------~  947 (1203)
T KOG4598|consen  878 FHKLDVDSRMRVLAFKKHVEEQLEVDKDHFKIVRHASDNGSEASFMDNETLSG--AFQSCFITIKLGAPLK--------S  947 (1203)
T ss_pred             heeeeccceeeHHHHHHHHHHHhCcChhHeEEEEEecCCcchhhhccchhhhh--hcccceEEEEecCcCC--------C
Confidence            5778899999999999999999999999998864    23333  46677776  4466766665533210        1


Q ss_pred             CCceEEEEEecCCCCCCccccccceeecCCcchHHHHHHhh-hhhcCCC-------CcceEEEe-----CCeeecc-CCc
Q 044874           86 PSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKI-HEMESIP-------VNRLLVQS-----SGAELQD-HRS  151 (269)
Q Consensus        86 ~~~~i~i~Vk~~~~~~~~~~~~~~~~~v~~~~TV~~lK~~I-~~~~gip-------~~~q~L~~-----~g~~L~d-~~~  151 (269)
                      ...+++|+.=......................||.+.|..+ .....|.       ..+.|+.-     -|+.+.| +.+
T Consensus       948 dE~~~KI~~L~~l~NE~e~~k~l~e~V~~~~tT~~Q~K~ELi~~L~~i~~~~ltLS~~r~R~~~K~g~~Pg~~~lD~~~~ 1027 (1203)
T KOG4598|consen  948 DEKMMKIILLDILENERENWKPLFELVVSQSTTIGQVKLELLRMLKEVYGEELTLSMVRLRELGKSGVGPGRAVLDPNDT 1027 (1203)
T ss_pred             CceeeEEEeehhhhccccCCcchhhhhhcCcccHHHHHHHHHHHHHHHhhcccchhHHHHHHHccCCcCCceEecCcchh
Confidence            11333443221111100011112334455678888886554 2222222       22222221     1344444 333


Q ss_pred             ccccCCCCCCEEEEEEccC-CCCCCCCCCCCCCcceeEEEEecCCCeEEEE----Ee-cCCCcHHHHHHHHHHhhhccCC
Q 044874          152 LRDCELMDNAEIDVHVRPS-PTATSTTSSGMGPRKLKLLVLTQCGNKRIPV----EV-NASDNVSELRKELQKLHQRYHF  225 (269)
Q Consensus       152 L~~y~i~~~~~i~l~~~~~-~~~~~~~~~~~~~~~~~i~V~~~~g~~~~~l----~v-~~~~tV~~lK~~i~~~~~~~~~  225 (269)
                      +.|.+-  ...-++.+.-. ..+.    .+.+...+.|+|+-++- .++.+    +| -..+.+.++|+.+.+..     
T Consensus      1028 ~eD~~~--~~~~~~~~qE~~deV~----~~k~~~sL~i~vRRW~P-s~~e~~pFQEV~Ld~~~~~E~Re~LS~IS----- 1095 (1203)
T KOG4598|consen 1028 LEDRSY--NWCSHLYLQEITDEVM----IGKPGESLPIMVRRWRP-STVEVNPFQEVLLDANAEVEFREALSKIS----- 1095 (1203)
T ss_pred             hhhhhh--hhHHHHHHHHHHhhcc----cCCCCccchhhheeccc-cceecCCceeEEecCcchHHHHHHHHHhc-----
Confidence            333321  00001110000 0000    01112246677766553 33222    11 22567899999999987     


Q ss_pred             CCCCCceEEE
Q 044874          226 HLPQDGYFFI  235 (269)
Q Consensus       226 ~~p~~~q~l~  235 (269)
                      |||.+...+.
T Consensus      1096 gIPiD~l~~~ 1105 (1203)
T KOG4598|consen 1096 GIPVDRLAIT 1105 (1203)
T ss_pred             CCchhhhhhh
Confidence            9999875443

>PRK07696 sulfur carrier protein ThiS; Provisional

Probab=88.06  E-value=2.3  Score=28.79  Aligned_cols=56  Identities=29%  Similarity=0.368  Sum_probs=40.5

Q ss_pred             CCCeEEEEEecCC-CcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEec
Q 044874          194 CGNKRIPVEVNAS-DNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       194 ~g~~~~~l~v~~~-~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      +| +..  ++... .||.+|-+   .      +++++....+..+|.++.-+ ....+-+++||.|.++.
T Consensus         6 NG-~~~--~~~~~~~tv~~lL~---~------l~~~~~~vav~vN~~iv~r~-~w~~~~L~~gD~iEIv~   62 (67)
T PRK07696          6 NG-NQI--EVPESVKTVAELLT---H------LELDNKIVVVERNKDILQKD-DHTDTSVFDGDQIEIVT   62 (67)
T ss_pred             CC-EEE--EcCCCcccHHHHHH---H------cCCCCCeEEEEECCEEeCHH-HcCceecCCCCEEEEEE
Confidence            45 444  45544 57776654   3      27888778888999999754 56777899999999984

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

Probab=87.55  E-value=0.88  Score=40.95  Aligned_cols=75  Identities=17%  Similarity=0.190  Sum_probs=62.8

Q ss_pred             CEEEEEcC--CCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCC--CCccccCCCCCCCEEEEEEecCC
Q 044874            1 MDVIFEPQ--RGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQD--DRDVEHCEILQNSRIQLLVASDN   75 (269)
Q Consensus         1 M~i~vk~~--~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d--~~tL~~~~i~~~~~i~l~~~~~~   75 (269)
                      |.++|-..  ..+.+.+.+..+.....++..+....|++.+.--|+|+++.+..  ...+..||+..++++.+.-+..+
T Consensus         1 M~~tvs~~l~~~~~~~i~v~~dg~L~nl~aL~~~d~g~~~~~~~li~n~~~l~s~~s~~l~Q~g~~~~dsl~lr~ks~d   79 (380)
T KOG0012|consen    1 MSLTVSVALNFEKKFPIPVTTDGELNNLAALCWKDTGIVYDPSDLIYNPRPLVSNESQGLTQIGLKDGDSLALRCKSSD   79 (380)
T ss_pred             CeEEEEEEecceeeeccccccccchhhHHHHHHHHhCcccchhhcccCCCccccchhhhhhhcccccceeEeccCCCCC
Confidence            56666544  67789999999999999999999999999999999999999864  47799999999998887655443

>PRK05863 sulfur carrier protein ThiS; Provisional

Probab=87.42  E-value=4.9  Score=26.90  Aligned_cols=65  Identities=17%  Similarity=0.211  Sum_probs=45.6

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNK   76 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g   76 (269)
                      |+|+|   +|+.+.  +....|+.+|-..    .++++...-+.+++..+..+. ...+ +++|+.|.++--..||
T Consensus         1 m~i~v---NG~~~~--~~~~~tl~~ll~~----l~~~~~~vav~~N~~iv~r~~-~~~~-L~~gD~ieIv~~VgGG   65 (65)
T PRK05863          1 MIVVV---NEEQVE--VDEQTTVAALLDS----LGFPEKGIAVAVDWSVLPRSD-WATK-LRDGARLEVVTAVQGG   65 (65)
T ss_pred             CEEEE---CCEEEE--cCCCCcHHHHHHH----cCCCCCcEEEEECCcCcChhH-hhhh-cCCCCEEEEEeeccCC
Confidence            66766   466544  4567788877664    688988899999998775322 2345 8999999988655543

>PRK05659 sulfur carrier protein ThiS; Validated

Probab=87.32  E-value=6.3  Score=26.24  Aligned_cols=66  Identities=12%  Similarity=0.265  Sum_probs=46.6

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNK   76 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g   76 (269)
                      |+|+|   +|+.  +++....|+.++-..    .++++..--+..+|..+... ...+.-+++|+.|.++--..||
T Consensus         1 m~i~v---NG~~--~~~~~~~tl~~lL~~----l~~~~~~vav~vNg~iv~r~-~~~~~~l~~gD~vei~~~vgGG   66 (66)
T PRK05659          1 MNIQL---NGEP--RELPDGESVAALLAR----EGLAGRRVAVEVNGEIVPRS-QHASTALREGDVVEIVHALGGG   66 (66)
T ss_pred             CEEEE---CCeE--EEcCCCCCHHHHHHh----cCCCCCeEEEEECCeEeCHH-HcCcccCCCCCEEEEEEEecCC
Confidence            66666   4664  455667888887754    68888888888999877632 3455667889999987655443

>PRK06944 sulfur carrier protein ThiS; Provisional

Probab=86.66  E-value=4.4  Score=26.89  Aligned_cols=60  Identities=10%  Similarity=0.224  Sum_probs=39.0

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCcccCC
Q 044874          194 CGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSVTGG  268 (269)
Q Consensus       194 ~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~~~~  268 (269)
                      +| +.+  ++....||.+|-+.+         +++ ....+..+|...... .-.+.-+++||.|.++. .|.||
T Consensus         6 Ng-~~~--~~~~~~tl~~ll~~l---------~~~-~~~~v~vN~~~v~~~-~~~~~~L~~gD~vei~~-~v~GG   65 (65)
T PRK06944          6 NQ-QTL--SLPDGATVADALAAY---------GAR-PPFAVAVNGDFVART-QHAARALAAGDRLDLVQ-PVAGG   65 (65)
T ss_pred             CC-EEE--ECCCCCcHHHHHHhh---------CCC-CCeEEEECCEEcCch-hcccccCCCCCEEEEEe-eccCC
Confidence            45 444  566678999888765         343 235666788876532 24455589999999985 44444

>PF11069 DUF2870: Protein of unknown function (DUF2870); InterPro: IPR021298 This is a eukaryotic family of proteins with unknown function

Probab=86.25  E-value=0.86  Score=33.24  Aligned_cols=33  Identities=24%  Similarity=0.303  Sum_probs=25.5

Q ss_pred             EEEeCCeeeccCCcccccCCCCCCEEEEEEccCC
Q 044874          138 LVQSSGAELQDHRSLRDCELMDNAEIDVHVRPSP  171 (269)
Q Consensus       138 ~L~~~g~~L~d~~~L~~y~i~~~~~i~l~~~~~~  171 (269)
                      .|-|.|++|..+.+|++| +-.+..-.+++++.+
T Consensus         3 ~LW~aGK~l~~~k~l~dy-~GkNEKtKiivKl~~   35 (98)
T PF11069_consen    3 QLWWAGKELQRGKKLSDY-IGKNEKTKIIVKLQK   35 (98)
T ss_pred             eEEeccccccCCCcHHHh-cCCCcceeEEEEecc
Confidence            477999999999999999 555555666666653

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

Probab=85.94  E-value=3.1  Score=39.93  Aligned_cols=65  Identities=17%  Similarity=0.404  Sum_probs=42.7

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhhhccCCCCC------CCceEEEec----Ce-eecCC-------------CccccccC
Q 044874          197 KRIPVEVNASDNVSELRKELQKLHQRYHFHLP------QDGYFFIYK----QN-VMDDD-------------RSFRWHHV  252 (269)
Q Consensus       197 ~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p------~~~q~l~~~----g~-~L~d~-------------~tL~~~~i  252 (269)
                      ..+.++|-.+|||..+|++|-+.-.+   +.|      ++..-|.+.    |+ +|.|.             +||.+|+|
T Consensus       202 ~~i~VkVLdCDTItQVKeKiLDavyk---~~p~S~rp~~~d~dLEwr~~~~~~~iL~D~D~ts~~~~~wkrLNTL~HY~V  278 (539)
T PF08337_consen  202 EEIPVKVLDCDTITQVKEKILDAVYK---NTPYSQRPRADDVDLEWRQGRGGRLILQDEDSTSKVEGGWKRLNTLAHYKV  278 (539)
T ss_dssp             TCEEEEEETTSBHHHHHHHHHHHHTT---TS-GGGS--GGGEEEEEEETTSEEEEESSSSTTSEEETTEEE--BHHHHT-
T ss_pred             ceEEEEEEecCcccHHHHHHHHHHHc---CCCCCCCCCccccceeeecCCCCcccccCCCCCcccCCCceEeccHhhcCC
Confidence            45778888899999999998875322   444      233445432    23 55552             48999999


Q ss_pred             CCCCEEEEecCc
Q 044874          253 GQGDTIEIFNGS  264 (269)
Q Consensus       253 ~~~~~i~l~~~~  264 (269)
                      .+|+++-+++..
T Consensus       279 ~dga~vaLv~k~  290 (539)
T PF08337_consen  279 PDGATVALVPKQ  290 (539)
T ss_dssp             -TTEEEEEEES-
T ss_pred             CCCceEEEeecc
Confidence            999999999754

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

>PF14453 ThiS-like: ThiS-like ubiquitin

Probab=85.86  E-value=2.9  Score=27.43  Aligned_cols=47  Identities=23%  Similarity=0.360  Sum_probs=36.3

Q ss_pred             EEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEec
Q 044874          200 PVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       200 ~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      .++++...|..+||+++..           +.-.+|++|=...++.     -+++||.|++.+
T Consensus         9 ~~~~~~~~tl~~lr~~~k~-----------~~DI~I~NGF~~~~d~-----~L~e~D~v~~Ik   55 (57)
T PF14453_consen    9 EIETEENTTLFELRKESKP-----------DADIVILNGFPTKEDI-----ELKEGDEVFLIK   55 (57)
T ss_pred             EEEcCCCcCHHHHHHhhCC-----------CCCEEEEcCcccCCcc-----ccCCCCEEEEEe
Confidence            3578888999999987744           2337799999888775     457889998875

>smart00455 RBD Raf-like Ras-binding domain

Probab=85.68  E-value=3.8  Score=28.06  Aligned_cols=44  Identities=16%  Similarity=0.095  Sum_probs=37.5

Q ss_pred             EEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecC
Q 044874          189 LVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQ  238 (269)
Q Consensus       189 ~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g  238 (269)
                      .|..++| +...+.+.+..|+.++=+.+.++.     |+.++...+.+.|
T Consensus         3 ~v~LP~~-~~~~V~vrpg~tl~e~L~~~~~kr-----~l~~~~~~v~~~g   46 (70)
T smart00455        3 KVHLPDN-QRTVVKVRPGKTVRDALAKALKKR-----GLNPECCVVRLRG   46 (70)
T ss_pred             EEECCCC-CEEEEEECCCCCHHHHHHHHHHHc-----CCCHHHEEEEEcC
Confidence            4556787 888999999999999999999997     8998887777755

>PRK08053 sulfur carrier protein ThiS; Provisional

Probab=85.57  E-value=8.6  Score=25.74  Aligned_cols=66  Identities=18%  Similarity=0.263  Sum_probs=45.6

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNK   76 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g   76 (269)
                      |+|+|   +|+.+  ++....|+.+|-+.    .+++.....+-.++..+.. ....++-+++|+.|.++--..||
T Consensus         1 m~i~v---Ng~~~--~~~~~~tl~~ll~~----l~~~~~~vaVavN~~iv~r-~~w~~~~L~~gD~Ieii~~v~GG   66 (66)
T PRK08053          1 MQILF---NDQPM--QCAAGQTVHELLEQ----LNQLQPGAALAINQQIIPR-EQWAQHIVQDGDQILLFQVIAGG   66 (66)
T ss_pred             CEEEE---CCeEE--EcCCCCCHHHHHHH----cCCCCCcEEEEECCEEeCh-HHcCccccCCCCEEEEEEEccCC
Confidence            67766   45654  44567789988865    4666666788889988752 33455568889999988665544

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

Probab=83.81  E-value=6.3  Score=28.22  Aligned_cols=44  Identities=11%  Similarity=0.169  Sum_probs=35.4

Q ss_pred             EEEEcC-CCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcC
Q 044874            3 VIFEPQ-RGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNG   47 (269)
Q Consensus         3 i~vk~~-~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G   47 (269)
                      |.||.. +|....+.++++.+..+|.++|.+++++. ...++-|..
T Consensus         3 ikVKv~~~~Dv~~i~v~~~i~f~dL~~kIrdkf~~~-~~~~iKykD   47 (86)
T cd06408           3 IRVKVHAQDDTRYIMIGPDTGFADFEDKIRDKFGFK-RRLKIKMKD   47 (86)
T ss_pred             EEEEEEecCcEEEEEcCCCCCHHHHHHHHHHHhCCC-CceEEEEEc
Confidence            445543 68899999999999999999999999995 456666654

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

>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=83.61  E-value=5.5  Score=28.08  Aligned_cols=45  Identities=16%  Similarity=0.270  Sum_probs=36.9

Q ss_pred             EEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCee
Q 044874          190 VLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNV  240 (269)
Q Consensus       190 V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~  240 (269)
                      ||..-. -++.+.|.+.-+..+|+++|.++     +.+|++...|.|+-..
T Consensus         5 vKV~f~-~tIaIrvp~~~~y~~L~~ki~~k-----Lkl~~e~i~LsYkde~   49 (80)
T cd06406           5 VKVHFK-YTVAIQVARGLSYATLLQKISSK-----LELPAEHITLSYKSEA   49 (80)
T ss_pred             EEEEEE-EEEEEEcCCCCCHHHHHHHHHHH-----hCCCchhcEEEeccCC
Confidence            343333 38999999999999999999998     4899999999997553

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

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

Probab=83.31  E-value=4.3  Score=27.99  Aligned_cols=45  Identities=18%  Similarity=0.088  Sum_probs=37.2

Q ss_pred             EEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecC
Q 044874          188 LLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQ  238 (269)
Q Consensus       188 i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g  238 (269)
                      +.|..++| ..-.+.+.+..|+.++=.++.++.     |+.++...+.+.|
T Consensus         2 ~~V~LPng-~~t~V~vrpg~ti~d~L~~~c~kr-----~l~~~~~~v~~~~   46 (72)
T cd01760           2 CRVYLPNG-QRTVVPVRPGMSVRDVLAKACKKR-----GLNPECCDVFLLG   46 (72)
T ss_pred             EEEECcCC-CeEEEEECCCCCHHHHHHHHHHHc-----CCCHHHEEEEEec
Confidence            45666788 788899999999999999999987     8988876666554

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

>cd00565 ThiS ThiaminS ubiquitin-like sulfur carrier protein

Probab=83.29  E-value=8.6  Score=25.58  Aligned_cols=61  Identities=20%  Similarity=0.328  Sum_probs=43.6

Q ss_pred             CCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCC
Q 044874            9 RGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNK   76 (269)
Q Consensus         9 ~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g   76 (269)
                      +|+.  ++++...|+.+|.+++    ++++....+..+|+.+.. ....++-+.+|+.|.++-...||
T Consensus         5 Ng~~--~~~~~~~tv~~ll~~l----~~~~~~i~V~vNg~~v~~-~~~~~~~L~~gD~V~ii~~v~GG   65 (65)
T cd00565           5 NGEP--REVEEGATLAELLEEL----GLDPRGVAVALNGEIVPR-SEWASTPLQDGDRIEIVTAVGGG   65 (65)
T ss_pred             CCeE--EEcCCCCCHHHHHHHc----CCCCCcEEEEECCEEcCH-HHcCceecCCCCEEEEEEeccCC
Confidence            4554  4556678999888764    678888888899988754 23445568889999988665554

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.

>smart00295 B41 Band 4

Probab=83.17  E-value=14  Score=30.17  Aligned_cols=61  Identities=18%  Similarity=0.165  Sum_probs=44.1

Q ss_pred             EEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCc-EEEEEc---C---EEcCCCCccccCCCC
Q 044874            2 DVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPK-QTLVFN---G---QVLQDDRDVEHCEIL   62 (269)
Q Consensus         2 ~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~-q~L~~~---G---~~L~d~~tL~~~~i~   62 (269)
                      .+.|...+|....+.+++..|+.++-+.++.+.|++... .-|.+-   +   ..|+...++.+....
T Consensus         5 ~~~V~l~dg~~~~~~~~~~~t~~ev~~~v~~~~~l~~~~~F~L~~~~~~~~~~~~l~~~~~l~~~~~~   72 (207)
T smart00295        5 VLKVYLLDGTTLEFEVDSSTTAEELLETVCRKLGIRESEYFGLQFEDPDEDLSHWLDPAKTLLDQDVK   72 (207)
T ss_pred             EEEEEecCCCEEEEEECCCCCHHHHHHHHHHHhCCCccceeEEEEEcCCCCcCeeCCCccCHHHhcCC
Confidence            467788899999999999999999999999999995422 244432   1   235555555555443

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

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

Probab=83.00  E-value=8  Score=25.93  Aligned_cols=64  Identities=14%  Similarity=0.167  Sum_probs=47.4

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEE-ecCeeecCCCccccccCCCCCEEEEec
Q 044874          197 KRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFI-YKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       197 ~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~-~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      +-..++.+.+....-.+++--+  +.+..+-|++.-.|- -+|..|+-++.+.|||+..|-++++..
T Consensus         6 qPv~VEANvnaPLh~v~akALe--~sgNvgQP~ENWElkDe~G~vlD~~kKveD~GftngvkLFLsL   70 (76)
T PF10790_consen    6 QPVQVEANVNAPLHPVRAKALE--QSGNVGQPPENWELKDESGQVLDVNKKVEDFGFTNGVKLFLSL   70 (76)
T ss_pred             CceeeecCCCCcchHHHHHHHh--hccccCCCcccceeeccCCcEeeccchhhhccccccceEEEEe
Confidence            5566777777766666655433  234567888765554 579999999999999999999999874

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

Probab=82.97  E-value=8.9  Score=36.92  Aligned_cols=92  Identities=21%  Similarity=0.351  Sum_probs=51.2

Q ss_pred             EcCCCCccccCCCCCCCEEEEEEecCCCCCCcccCCCCCceEEEEEecCCCCCCccccccceeecCCcchHHHHHHhhhh
Q 044874           49 VLQDDRDVEHCEILQNSRIQLLVASDNKPQVKTEQSSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHE  128 (269)
Q Consensus        49 ~L~d~~tL~~~~i~~~~~i~l~~~~~~g~~~~~~~~~~~~~i~i~Vk~~~~~~~~~~~~~~~~~v~~~~TV~~lK~~I~~  128 (269)
                      .|.+++.|.+ .| +..++.+.+...++..         ..  |.|+..                 ...||.++|++|-+
T Consensus       174 TLnE~~LLre-~i-d~~~ltl~v~~~~~~~---------~~--i~VkVL-----------------dCDTItQVKeKiLD  223 (539)
T PF08337_consen  174 TLNEDKLLRE-QI-DYKTLTLNVVPQEEGS---------EE--IPVKVL-----------------DCDTITQVKEKILD  223 (539)
T ss_dssp             -SSCCCB--S-SS--S-EEEEEEECTTTSS---------TC--EEEEEE-----------------TTSBHHHHHHHHHH
T ss_pred             eechhhhhcc-cc-ceEEEEEEEEecCCCC---------ce--EEEEEE-----------------ecCcccHHHHHHHH
Confidence            3667777766 44 4566666654443221         22  334332                 26799999999976


Q ss_pred             hc--CCC------CcceEEEe----CCe-eeccC-------------CcccccCCCCCCEEEEEEccC
Q 044874          129 ME--SIP------VNRLLVQS----SGA-ELQDH-------------RSLRDCELMDNAEIDVHVRPS  170 (269)
Q Consensus       129 ~~--gip------~~~q~L~~----~g~-~L~d~-------------~~L~~y~i~~~~~i~l~~~~~  170 (269)
                      ..  +.|      +++.-|-+    .|+ .|+|.             .||+.|+|.+|+++-|+-+..
T Consensus       224 avyk~~p~S~rp~~~d~dLEwr~~~~~~~iL~D~D~ts~~~~~wkrLNTL~HY~V~dga~vaLv~k~~  291 (539)
T PF08337_consen  224 AVYKNTPYSQRPRADDVDLEWRQGRGGRLILQDEDSTSKVEGGWKRLNTLAHYKVPDGATVALVPKQH  291 (539)
T ss_dssp             HHTTTS-GGGS--GGGEEEEEEETTSEEEEESSSSTTSEEETTEEE--BHHHHT--TTEEEEEEES--
T ss_pred             HHHcCCCCCCCCCccccceeeecCCCCcccccCCCCCcccCCCceEeccHhhcCCCCCceEEEeeccc
Confidence            43  555      45555543    223 45543             689999999999999997753

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

>PF14451 Ub-Mut7C: Mut7-C ubiquitin

Probab=82.22  E-value=5.7  Score=28.10  Aligned_cols=52  Identities=12%  Similarity=0.209  Sum_probs=38.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEE-ecCeeecCCCccccccCCCCCEEEEec
Q 044874          197 KRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFI-YKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       197 ~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~-~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      ..+.+..+...||+++=+   .      +|+|....-++ -+|+.-+=     +|-+++||.|.+++
T Consensus        23 ~~~~~~~~~~~tvkd~IE---s------LGVP~tEV~~i~vNG~~v~~-----~~~~~~Gd~v~V~P   75 (81)
T PF14451_consen   23 GPFTHPFDGGATVKDVIE---S------LGVPHTEVGLILVNGRPVDF-----DYRLKDGDRVAVYP   75 (81)
T ss_pred             CceEEecCCCCcHHHHHH---H------cCCChHHeEEEEECCEECCC-----cccCCCCCEEEEEe
Confidence            567788888888877754   4      39998886555 46665543     48899999999985

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

Probab=82.17  E-value=3.9  Score=37.30  Aligned_cols=68  Identities=13%  Similarity=0.229  Sum_probs=51.0

Q ss_pred             ceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEE--ecCeeecCC-CccccccCCCCCE
Q 044874          185 KLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFI--YKQNVMDDD-RSFRWHHVGQGDT  257 (269)
Q Consensus       185 ~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~--~~g~~L~d~-~tL~~~~i~~~~~  257 (269)
                      .-.|-++..+| ..+....+.+.||.|+|.-|+....    +.+...+.|+  |--+.|.|+ .||++.|+.+--.
T Consensus       305 tTsIQIRLanG-~RlV~~fN~sHTv~DIR~fI~~aRp----~~~~~~F~L~~~FPpk~l~D~sqTle~AgL~Nsvl  375 (380)
T KOG2086|consen  305 TTSIQIRLANG-TRLVLKFNHSHTVSDIREFIDTARP----GDSSTYFILMMAFPPKPLSDDSQTLEEAGLLNSVL  375 (380)
T ss_pred             cceEEEEecCC-ceeeeeccCcccHHHHHHHHHhcCC----CCcCCceeeeecCCCcccCCcchhHHhccchhhhh
Confidence            34677788888 6777788889999999999999541    3444345555  788899775 5999999887543

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

Probab=82.16  E-value=14  Score=25.61  Aligned_cols=60  Identities=17%  Similarity=0.167  Sum_probs=42.4

Q ss_pred             EEEEEEcCC-CCHHHHHHHHHHHhC-CC--CCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCC
Q 044874           12 AFTIEVGFF-DTVLEIKEKIEKYQG-IP--VPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNK   76 (269)
Q Consensus        12 ~~~l~v~~~-~tV~~lK~~I~~~~g-i~--~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g   76 (269)
                      ...+++..+ .|+.+|.+.+..+++ +-  .....+..+++...+     +.-+++|+.|.+.-...||
T Consensus        17 ~~~~~~~~~~~tv~~L~~~L~~~~p~l~~~~~~~~v~vn~~~v~~-----~~~l~dgDevai~PpvsGG   80 (80)
T TIGR01682        17 EETLELPDESTTVGELKEHLAKEGPELAASRGQVMVAVNEEYVTD-----DALLNEGDEVAFIPPVSGG   80 (80)
T ss_pred             eEEEECCCCCcCHHHHHHHHHHhCchhhhhccceEEEECCEEcCC-----CcCcCCCCEEEEeCCCCCC
Confidence            357788766 899999999998864 11  123466778887764     4567889998887555443

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

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

Probab=81.87  E-value=6.2  Score=27.06  Aligned_cols=55  Identities=18%  Similarity=0.114  Sum_probs=40.2

Q ss_pred             EEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcC--EEcCCCCccc
Q 044874            3 VIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNG--QVLQDDRDVE   57 (269)
Q Consensus         3 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G--~~L~d~~tL~   57 (269)
                      +.|-..+|+...+.+.+..||.++-.++.++.++.++.-.++..|  +.|.-+....
T Consensus         3 ~~v~LP~~q~t~V~vrpg~ti~d~L~~~~~kr~L~~~~~~V~~~~~~k~l~~~~d~~   59 (71)
T PF02196_consen    3 CRVHLPNGQRTVVQVRPGMTIRDALSKACKKRGLNPECCDVRLVGEKKPLDWDQDSS   59 (71)
T ss_dssp             EEEEETTTEEEEEEE-TTSBHHHHHHHHHHTTT--CCCEEEEEEEEEEEE-TTSBGG
T ss_pred             EEEECCCCCEEEEEEcCCCCHHHHHHHHHHHcCCCHHHEEEEEcCCCccccCCCcee
Confidence            456678999999999999999999999999999999887776544  4455444433

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

>COG1977 MoaD Molybdopterin converting factor, small subunit [Coenzyme metabolism]

Probab=81.85  E-value=4.6  Score=28.65  Aligned_cols=61  Identities=21%  Similarity=0.298  Sum_probs=35.1

Q ss_pred             ecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCcccCC
Q 044874          203 VNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSVTGG  268 (269)
Q Consensus       203 v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~~~~  268 (269)
                      .....||.+|++++.++..+..............+...+.+.    ++-+++||+|.+++ .|+||
T Consensus        24 ~~~~~tv~~L~~~l~~~~~~~~~~~~~~~~v~~~~~~~~~~~----~t~L~dGDeVa~~P-PVsGG   84 (84)
T COG1977          24 LTVGATVGELEELLPKEGERWLLALEDNIVVNAANNEFLVGL----DTPLKDGDEVAFFP-PVSGG   84 (84)
T ss_pred             ccHHHHHHHHHHHHHhhhhhHHhccCccceEEeeeceeeccc----cccCCCCCEEEEeC-CCCCC
Confidence            344679999999986643110011111111222333444443    45699999999997 67776

>PRK07440 hypothetical protein; Provisional

Probab=81.84  E-value=14  Score=25.21  Aligned_cols=61  Identities=11%  Similarity=0.229  Sum_probs=44.1

Q ss_pred             CCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCC
Q 044874            9 RGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNK   76 (269)
Q Consensus         9 ~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g   76 (269)
                      +|+.  .++....||.+|-.    ..++++...-+-.+|..+.. ....++-+++|+.|.++--..||
T Consensus        10 NG~~--~~~~~~~tl~~lL~----~l~~~~~~vav~~N~~iv~r-~~w~~~~L~~gD~IEIv~~v~GG   70 (70)
T PRK07440         10 NGET--RTCSSGTSLPDLLQ----QLGFNPRLVAVEYNGEILHR-QFWEQTQVQPGDRLEIVTIVGGG   70 (70)
T ss_pred             CCEE--EEcCCCCCHHHHHH----HcCCCCCeEEEEECCEEeCH-HHcCceecCCCCEEEEEEEecCC
Confidence            5664  55567788888775    46788888888899988762 33566678889999987655543

>PF12436 USP7_ICP0_bdg: ICP0-binding domain of Ubiquitin-specific protease 7; InterPro: IPR024729 This domain is found in eukaryotes, and is approximately 40 amino acids in length

Probab=80.88  E-value=4.7  Score=34.84  Aligned_cols=72  Identities=24%  Similarity=0.354  Sum_probs=46.4

Q ss_pred             cceeEEEEecCC-CeEE----EEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecC------eeecCCCccccccC
Q 044874          184 RKLKLLVLTQCG-NKRI----PVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQ------NVMDDDRSFRWHHV  252 (269)
Q Consensus       184 ~~~~i~V~~~~g-~~~~----~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g------~~L~d~~tL~~~~i  252 (269)
                      ..+-||+|-.+- .+++    .+-|+..++|.+|-..|.++-     |+|++.-.++|.-      ..++.+.||..+.+
T Consensus        67 ~~iLlFlK~fDp~~q~L~~iGh~~v~~~~~v~~l~~~i~~~~-----g~p~~t~l~lyEEi~~~~ie~i~~~~t~~~~el  141 (249)
T PF12436_consen   67 DDILLFLKYFDPETQTLRYIGHVYVPKNDKVSELVPLINERA-----GLPPDTPLLLYEEIKPNMIEPIDPNQTFEKAEL  141 (249)
T ss_dssp             TEEEEEEEEEETTTTEEEEEEEEEEETT-BGGGTHHHHHHHH-----T--TT--EEEEEEEETTEEEE--SSSBHHHTT-
T ss_pred             CcEEEEEEeeCCCCCEEEEEeEEEECCCCCHHHHHHHHHHHc-----CCCCCCceEEEEEeccceeeEcCCCCchhhccc
Confidence            356667665432 1233    357899999999999999986     9999887777653      35688899999999


Q ss_pred             CCCCEEEE
Q 044874          253 GQGDTIEI  260 (269)
Q Consensus       253 ~~~~~i~l  260 (269)
                      .+||+|.+
T Consensus       142 ~~GdIi~f  149 (249)
T PF12436_consen  142 QDGDIICF  149 (249)
T ss_dssp             -TTEEEEE
T ss_pred             CCCCEEEE
Confidence            99997654

It is found in proteins of the peptidase C19 family, which contains contains ubiquitinyl hydrolases like ubiquitin-specific protease 7 (USP7). USP7 regulates the turnover of p53 [].; PDB: 2KVR_A 2YLM_A.

>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A

Probab=80.88  E-value=32  Score=28.87  Aligned_cols=129  Identities=13%  Similarity=0.137  Sum_probs=61.8

Q ss_pred             ecCCcchHHHHHHhhhhhcCCCCc---ceEEE--eCCee---eccCCcccccCCCCCCEEEEEEccCCCCCCCCCCCCCC
Q 044874          112 DMDVNDTVLRLKEKIHEMESIPVN---RLLVQ--SSGAE---LQDHRSLRDCELMDNAEIDVHVRPSPTATSTTSSGMGP  183 (269)
Q Consensus       112 ~v~~~~TV~~lK~~I~~~~gip~~---~q~L~--~~g~~---L~d~~~L~~y~i~~~~~i~l~~~~~~~~~~~~~~~~~~  183 (269)
                      ......||.+|-+.++.+.+++.+   ..+|.  ++++.   +..+.++.+.  .+...+++..-+..-.  .. .....
T Consensus        39 ~vpk~~tV~Dll~~l~~k~~~~~~~~~~lrl~ev~~~ki~~~~~~d~~i~~l--~~~~~~r~E~ip~ee~--~~-~~~~~  113 (213)
T PF14533_consen   39 LVPKTGTVSDLLEELQKKVGFSEEGTGKLRLWEVSNHKIYKILSEDEPISSL--NDYITLRIEEIPEEEL--NL-DDESE  113 (213)
T ss_dssp             --BTT-BHHHHHHHHHTT----TT----EEEEEEETTEEEEEE-TTSBGGGS----TTEEEEEE--GGGS--S---TT--
T ss_pred             EECCCCCHHHHHHHHHHHcCCCcCCcCcEEEEEeECCEEEeecCCCCchhhc--cCcceeeeecCChHHh--hc-ccccc
Confidence            344588999999999999998865   45554  56654   5677888776  3444555542222110  00 00000


Q ss_pred             cceeEEEEecCC------CeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCC---c--eEEEecC-----eeecCCC--
Q 044874          184 RKLKLLVLTQCG------NKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQD---G--YFFIYKQ-----NVMDDDR--  245 (269)
Q Consensus       184 ~~~~i~V~~~~g------~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~---~--q~l~~~g-----~~L~d~~--  245 (269)
                      ..+-|.|-....      +.-|.+.|.+.++..++|+.|+.+-     |++..   .  ..++-.+     ..++|+.  
T Consensus       114 ~~~li~V~hf~k~~~~~hGiPF~f~v~~gE~f~~tK~Rl~~rl-----gv~~keF~K~Kfaiv~~~~~~~~~yl~d~~~~  188 (213)
T PF14533_consen  114 GEKLIPVFHFHKDPSRTHGIPFLFVVKPGETFSDTKERLQKRL-----GVSDKEFEKWKFAIVQNSRYSKPRYLEDDDDL  188 (213)
T ss_dssp             TEEEEEEEEESSSTT-EEEEEEEEEEETT--HHHHHHHHHHHH--------HHHHTT-EEEEEETTEE---EE--TT-T-
T ss_pred             cceEEEEEEEecCccccCCCCEEEEeeCCCcHHHHHHHHHHHh-----CCChhhheeEEEEEEecCCcccceeccccchh
Confidence            124444433221      1456789999999999999999985     77732   2  3444344     4566654  


Q ss_pred             ccccc
Q 044874          246 SFRWH  250 (269)
Q Consensus       246 tL~~~  250 (269)
                      .|.+.
T Consensus       189 il~~~  193 (213)
T PF14533_consen  189 ILFDE  193 (213)
T ss_dssp             ---GG
T ss_pred             hhhhh
Confidence            44443

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

Probab=80.85  E-value=0.5  Score=41.74  Aligned_cols=58  Identities=12%  Similarity=0.238  Sum_probs=0.0

Q ss_pred             CCCHHHHHHHHHH----------HhCCCCCcEE-----EEEcCEEcCCCCccccCCCC-------CCCEEEEEEecCCCC
Q 044874           20 FDTVLEIKEKIEK----------YQGIPVPKQT-----LVFNGQVLQDDRDVEHCEIL-------QNSRIQLLVASDNKP   77 (269)
Q Consensus        20 ~~tV~~lK~~I~~----------~~gi~~~~q~-----L~~~G~~L~d~~tL~~~~i~-------~~~~i~l~~~~~~g~   77 (269)
                      +.+|.++|..+++          ++++|.+..+     |.|+.+.+.|.++|.+..-.       .+.++.+.+...||.
T Consensus       103 ttSv~dlk~~v~~rv~~~~~~~~~~~vp~dKik~~~~~lL~~kkPv~~~ktl~e~l~~~~~~l~~~~~~vE~gvMVlGGa  182 (309)
T PF12754_consen  103 TTSVQDLKDAVQQRVHPSQATYDETRVPLDKIKNFRCRLLYKKKPVGDSKTLAEVLADSESRLLSGGKEVEFGVMVLGGA  182 (309)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cCcHHHHHHHHHhhhcccccccccccCCHHHhhhhhhhheecCccCCCcCcHHHHHhcccchhccCCceEEEEEEEECCc
Confidence            6899999999999          8999999988     99999999899998887543       345555555555554

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

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

Probab=80.83  E-value=5.9  Score=30.19  Aligned_cols=60  Identities=23%  Similarity=0.379  Sum_probs=41.6

Q ss_pred             EecC-CCcHHHHHHHHHHhhhccCCCCCC------CceEEEec----------------C-eee---cCCCccccccCCC
Q 044874          202 EVNA-SDNVSELRKELQKLHQRYHFHLPQ------DGYFFIYK----------------Q-NVM---DDDRSFRWHHVGQ  254 (269)
Q Consensus       202 ~v~~-~~tV~~lK~~i~~~~~~~~~~~p~------~~q~l~~~----------------g-~~L---~d~~tL~~~~i~~  254 (269)
                      .|+. +.||.+|++.+.+.- ...-|+||      +.+++++.                . =+|   +++.||.++||++
T Consensus        21 ~vdL~~~Tv~~l~~~v~~~I-~t~~~~~Pfrn~~yDtlKIy~~AHg~Kt~nLvInle~De~~iL~~~~~~~tL~~~gv~n   99 (122)
T PF10209_consen   21 NVDLKDTTVKDLKEQVKQDI-KTRPGLPPFRNVKYDTLKIYTKAHGSKTNNLVINLEDDEDWILDVSDDDKTLKELGVEN   99 (122)
T ss_pred             cCCcccCcHHHHHHHHHHHH-hcCCCCCCceeeecceEEEEecCCCCCcCCceeeccCCcceeeecCCCCCcHHHcCCCc
Confidence            4676 889999999888753 11123443      33444432                1 366   7889999999999


Q ss_pred             CCEEEEec
Q 044874          255 GDTIEIFN  262 (269)
Q Consensus       255 ~~~i~l~~  262 (269)
                      +..|-+|.
T Consensus       100 ETEiSfF~  107 (122)
T PF10209_consen  100 ETEISFFN  107 (122)
T ss_pred             cceeeeeC
Confidence            99998885

>PRK06083 sulfur carrier protein ThiS; Provisional

Probab=80.54  E-value=12  Score=26.57  Aligned_cols=61  Identities=15%  Similarity=0.219  Sum_probs=44.1

Q ss_pred             CCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCC
Q 044874            9 RGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNK   76 (269)
Q Consensus         9 ~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g   76 (269)
                      +|+.+  +++...||.+|-+.    .++++...-+-.+|..+. ....+++-+++|+.|.++--..||
T Consensus        24 NG~~~--~~~~~~tl~~LL~~----l~~~~~~vAVevNg~iVp-r~~w~~t~L~egD~IEIv~~VgGG   84 (84)
T PRK06083         24 NDQSI--QVDISSSLAQIIAQ----LSLPELGCVFAINNQVVP-RSEWQSTVLSSGDAISLFQAIAGG   84 (84)
T ss_pred             CCeEE--EcCCCCcHHHHHHH----cCCCCceEEEEECCEEeC-HHHcCcccCCCCCEEEEEEEecCC
Confidence            45544  44567788877664    578887778889999884 445677788999999988655543

>TIGR01683 thiS thiamine biosynthesis protein ThiS

Probab=80.18  E-value=13  Score=24.59  Aligned_cols=61  Identities=16%  Similarity=0.261  Sum_probs=43.0

Q ss_pred             CCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCC
Q 044874            9 RGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNK   76 (269)
Q Consensus         9 ~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g   76 (269)
                      +|+.+  ++....|+.+|.+.    .++++....+..+|..+.. ....++-+++|+.|.++--..||
T Consensus         4 Ng~~~--~~~~~~tv~~ll~~----l~~~~~~v~v~vN~~iv~~-~~~~~~~L~~gD~veii~~V~GG   64 (64)
T TIGR01683         4 NGEPV--EVEDGLTLAALLES----LGLDPRRVAVAVNGEIVPR-SEWDDTILKEGDRIEIVTFVGGG   64 (64)
T ss_pred             CCeEE--EcCCCCcHHHHHHH----cCCCCCeEEEEECCEEcCH-HHcCceecCCCCEEEEEEeccCC
Confidence            55544  44567789988876    4677777788889987743 23445678899999988665544

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

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	269
2kk8_A	84	Nmr Solution Structure Of A Putative Uncharacterize		2e-10
2y5b_B	152	Structure Of Usp21 In Complex With Linear Diubiquit		4e-09
3u30_A	172	Crystal Structure Of A Linear-Specific Ubiquitin Fa		8e-09
2zvn_A	154	Nemo Cozi Domain Incomplex With Diubiquitin In P212		1e-08
3b08_A	152	Crystal Structure Of The Mouse Hoil1-L-Nzf In Compl		1e-08
2w9n_A	152	Crystal Structure Of Linear Di-Ubiquitin Length = 1		3e-08
1ud7_A	76	Solution Structure Of The Designed Hydrophobic Core		1e-05
2bwe_S	77	The Crystal Structure Of The Complex Between The Ub		2e-05
3m63_B	101	Crystal Structure Of Ufd2 In Complex With The Ubiqu		2e-05
2k25_A	103	Automated Nmr Structure Of The Ubb By Fapsy Length		2e-05
3olm_D	79	Structure And Function Of A Ubiquitin Binding Site		2e-05
3u5e_m	128	The Structure Of The Eukaryotic Ribosome At 3.0 A R		2e-05
4ii3_B	96	Crystal Structure Of S. Pombe Ubiquitin Activating		3e-05
3u5g_f	152	The Structure Of The Eukaryotic Ribosome At 3.0 A R		3e-05
1yx5_B	98	Solution Structure Of S5a Uim-1UBIQUITIN COMPLEX Le		3e-05
3k9o_B	96	The Crystal Structure Of E2-25k And Ubb+1 Complex L		3e-05
1otr_B	76	Solution Structure Of A Cue-Ubiquitin Complex Lengt		3e-05
3u5c_f	152	The Structure Of The Eukaryotic Ribosome At 3.0 A R		4e-05
4hcn_B	98	Crystal Structure Of Burkholderia Pseudomallei Effe		4e-05
3dvg_X	80	Crystal Structure Of K63-Specific Fab Apu.3a8 Bound		4e-05
2khw_B	79	Solution Structure Of The Human Polymerase Iota Ubm		4e-05
3nob_A	78	Structure Of K11-Linked Di-Ubiquitin Length = 78		4e-05
3ai5_A	307	Crystal Structure Of Yeast Enhanced Green Fluoresce		4e-05
3dvg_Y	79	Crystal Structure Of K63-Specific Fab Apu.3a8 Bound		4e-05
3jvz_X	81	E2~ubiquitin-Hect Length = 81		4e-05
2kan_A	94	Solution Nmr Structure Of Ubiquitin-Like Domain Of		5e-05
2ojr_A	111	Structure Of Ubiquitin Solved By Sad Using The Lant		5e-05
3vdz_A	111	Tailoring Encodable Lanthanide-Binding Tags As Mri		5e-05
2znv_C	77	Crystal Structure Of Human Amsh-Lp Dub Domain In Co		5e-05
4a18_K	129	T.Thermophila 60s Ribosomal Subunit In Complex With		5e-05
2ld9_A	77	Backbone Structure Of Ubiquitin Determined Using Ba		5e-05
1sif_A	88	Crystal Structure Of A Multiple Hydrophobic Core Mu		5e-05
3rul_A	79	New Strategy To Analyze Structures Of Glycopeptide-		5e-05
4ap4_C	80	Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex Le		5e-05
1aar_A	76	Structure Of A Diubiquitin Conjugate And A Model Fo		5e-05
2xk5_B	76	Crystal Structure Of K6-Linked Diubiquitin Length =		6e-05
2znv_B	76	Crystal Structure Of Human Amsh-Lp Dub Domain In Co		6e-05
1xd3_B	75	Crystal Structure Of Uchl3-Ubvme Complex Length = 7		6e-05
1cmx_B	76	Structural Basis For The Specificity Of Ubiquitin C		6e-05
1zgu_B	76	Solution Structure Of The Human Mms2-Ubiquitin Comp		6e-05
3ons_A	72	Crystal Structure Of Human Ubiquitin In A New Cryst		6e-05
2o6v_D	76	Crystal Structure And Solution Nmr Studies Of Lys48		6e-05
2k6d_B	76	Cin85 Sh3-C Domain In Complex With Ubiquitin Length		6e-05
3ldz_F	73	Crystal Structure Of Human Stam1 Vhs Domain In Comp		6e-05
3l0w_B	169	Structure Of Split Monoubiquitinated Pcna With Ubiq		7e-05
3v6e_B	91	Crystal Structure Of Usp2 And A Mutant Form Of Ubiq		7e-05
3q3f_A	189	Engineering Domain-Swapped Binding Interfaces By Mu		8e-05
2o6v_B	76	Crystal Structure And Solution Nmr Studies Of Lys48		9e-05
1c3t_A	76	Rotamer Strain As A Determinant Of Protein Structur		1e-04
2jwz_A	76	Mutations In The Hydrophobic Core Of Ubiquitin Diff		1e-04
1s1q_B	76	Tsg101(Uev) Domain In Complex With Ubiquitin Length		1e-04
1yiw_A	76	X-Ray Crystal Structure Of A Chemically Synthesized		1e-04
2gbk_A	83	Crystal Structure Of The 9-10 Moad Insertion Mutant		2e-04
2kdi_A	114	Solution Structure Of A UbiquitinUIM FUSION PROTEIN		2e-04
4hk2_A	78	U7ub25.2540 Length = 78		2e-04
1zw7_A	82	Elimination Of The C-Cap In Ubiquitin Structure, Dy		2e-04
2jvc_A	82	Nmr Solution Structure Of Ubiquitin Like Protein Le		2e-04
2zcb_A	76	Crystal Structure Of Ubiquitin P37aP38A Length = 76		2e-04
3zf7_s	128	High-resolution Cryo-electron Microscopy Structure		3e-04
2nvu_I	81	Structure Of Appbp1-Uba3~nedd8-Nedd8-Mgatp-Ubc12(C1		3e-04
4f8c_B	88	Structure Of The Cif:nedd8 Complex - Yersinia Pseud		3e-04
2bkr_B	77	Nedd8 Nedp1 Complex Length = 77		3e-04
1ndd_B	76	Structure Of Nedd8 Length = 76		3e-04
3gzn_I	82	Structure Of Nedd8-Activating Enzyme In Complex Wit		3e-04
3v6c_B	91	Crystal Structure Of Usp2 In Complex With Mutated U		3e-04
3mtn_B	85	Usp21 In Complex With A Ubiquitin-based, Usp21-spec		3e-04
4hcp_B	78	Crystal Structure Of Burkholderia Pseudomallei Effe		4e-04
3h7s_A	76	Crystal Structures Of K63-Linked Di- And Tri-Ubiqui		4e-04
1bt0_A	76	Structure Of Ubiquitin-Like Protein, Rub1 Length =		4e-04
4ii2_B	83	Crystal Structure Of Ubiquitin Activating Enzyme 1		5e-04
2knb_A	81	Solution Nmr Structure Of The Parkin Ubl Domain In		5e-04
1ogw_A	76	Synthetic Ubiquitin With Fluoro-Leu At 50 And 67 Le		5e-04
2gbj_A	84	Crystal Structure Of The 9-10 8 Glycine Insertion M		7e-04
4gsw_A	80	Crystal Structure Of Ubiquitin From Entamoeba Histo		7e-04
3dbh_I	88	Structural Dissection Of A Gating Mechanism Prevent		8e-04
3dbl_I	88	Structural Dissection Of A Gating Mechanism Prevent		8e-04
1iyf_A	81	Solution Structure Of Ubiquitin-Like Domain Of Huma		9e-04

>pdb|2KK8|A Chain A, Nmr Solution Structure Of A Putative Uncharacterized Protein Obtained From Arabidopsis Thaliana: Northeast Structural Genomics Consortium Target Ar3449a Length = 84

Iteration: 1
 Score = 63.2 bits (152), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 35/74 (47%), Positives = 50/74 (67%), Gaps = 1/74 (1%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQV-LQDDRDVEHC 59
          M  + E   G +F +EV + DT+L +K+KIE+ Q IPV KQTL+ +G V L++D  VE C
Sbjct: 11 MKFLVENLNGSSFELEVDYRDTLLVVKQKIERSQHIPVSKQTLIVDGIVILREDLTVEQC 70
Query: 60 EILQNSRIQLLVAS 73
          +I+  S IQL V+S
Sbjct: 71 QIVPTSDIQLEVSS 84

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

Iteration: 1
 Score = 58.5 bits (140), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 44/169 (26%), Positives = 84/169 (49%), Gaps = 22/169 (13%)
Query: 1   MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
           M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 1   MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61  ILQNSRIQLLVASDNKPQVKTEQSSPSKKIHLKINIPS-NSKTXXXXXXLPLDMDVNDTV 119
           I + S + L++                   H++I + +   KT      + L+++ +DT+
Sbjct: 61  IQKESTLHLVLRLRG---------------HMQIFVKTLTGKT------ITLEVEPSDTI 99
Query: 120 LRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVR 168
             +K KI + E IP ++  +  +G +L+D R+L D  +   + + + +R
Sbjct: 100 ENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR 148

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

Iteration: 1
 Score = 57.4 bits (137), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 43/168 (25%), Positives = 82/168 (48%), Gaps = 20/168 (11%)
Query: 1   MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
           M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 21  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 80
Query: 61  ILQNSRIQLLVASDNKPQVKTEQSSPSKKIHLKINIPSNSKTXXXXXXLPLDMDVNDTVL 120
           I + S + L++      Q+  +  +               KT      + L+++ +DT+ 
Sbjct: 81  IQKESTLHLVLRLRGGMQIFVKTLT--------------GKT------ITLEVEPSDTIE 120
Query: 121 RLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVR 168
            +K KI + E IP ++  +  +G +L+D R+L D  +   + + + +R
Sbjct: 121 NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR 168

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

Iteration: 1
 Score = 57.0 bits (136), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 43/168 (25%), Positives = 82/168 (48%), Gaps = 20/168 (11%)
Query: 1   MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
           M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 3   MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 62
Query: 61  ILQNSRIQLLVASDNKPQVKTEQSSPSKKIHLKINIPSNSKTXXXXXXLPLDMDVNDTVL 120
           I + S + L++      Q+  +  +               KT      + L+++ +DT+ 
Sbjct: 63  IQKESTLHLVLRLRGGMQIFVKTLT--------------GKT------ITLEVEPSDTIE 102
Query: 121 RLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVR 168
            +K KI + E IP ++  +  +G +L+D R+L D  +   + + + +R
Sbjct: 103 NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR 150

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

Iteration: 1
 Score = 57.0 bits (136), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 43/168 (25%), Positives = 82/168 (48%), Gaps = 20/168 (11%)
Query: 1   MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
           M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 1   MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61  ILQNSRIQLLVASDNKPQVKTEQSSPSKKIHLKINIPSNSKTXXXXXXLPLDMDVNDTVL 120
           I + S + L++      Q+  +  +               KT      + L+++ +DT+ 
Sbjct: 61  IQKESTLHLVLRLRGGMQIFVKTLT--------------GKT------ITLEVEPSDTIE 100
Query: 121 RLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVR 168
            +K KI + E IP ++  +  +G +L+D R+L D  +   + + + +R
Sbjct: 101 NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR 148

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

Iteration: 1
 Score = 55.8 bits (133), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 42/159 (26%), Positives = 79/159 (49%), Gaps = 20/159 (12%)
Query: 10  GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
           GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    I + S + L
Sbjct: 10  GKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHL 69
Query: 70  LVASDNKPQVKTEQSSPSKKIHLKINIPSNSKTXXXXXXLPLDMDVNDTVLRLKEKIHEM 129
           ++      Q+  +  +               KT      + L+++ +DT+  +K KI + 
Sbjct: 70  VLRLRGGMQIFVKTLT--------------GKT------ITLEVEPSDTIENVKAKIQDK 109
Query: 130 ESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVR 168
           E IP ++  +  +G +L+D R+L D  +   + + + +R
Sbjct: 110 EGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR 148

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

Iteration: 1
 Score = 46.6 bits (109), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 28/71 (39%), Positives = 39/71 (54%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M V  +   GK  TIEV   DTV   K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 1  MQVFLKTLTGKTVTIEVEPSDTVENFKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 ILQNSRIQLLV 71
          I + S I L++
Sbjct: 61 IQKESTIHLVL 71

>pdb|2BWE|S Chain S, The Crystal Structure Of The Complex Between The Uba And Ubl Domains Of Dsk2 Length = 77

Iteration: 1
 Score = 46.6 bits (109), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 22/58 (37%), Positives = 34/58 (58%)
Query: 13 FTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLL 70
          + + V    TVL+ KE I K  GIPV  Q L+++G++L+DD+ VE   I     + L+
Sbjct: 16 WEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESYHIQDGHSVHLV 73

>pdb|3M63|B Chain B, Crystal Structure Of Ufd2 In Complex With The Ubiquitin-Like (Ubl) Domain Of Dsk2 Length = 101

Iteration: 1
 Score = 46.6 bits (109), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 22/58 (37%), Positives = 34/58 (58%)
Query: 13 FTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLL 70
          + + V    TVL+ KE I K  GIPV  Q L+++G++L+DD+ VE   I     + L+
Sbjct: 40 WEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESYHIQDGHSVHLV 97

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

Iteration: 1
 Score = 46.2 bits (108), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 40/71 (56%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 9  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSEYN 68
Query: 61 ILQNSRIQLLV 71
          I + S + L++
Sbjct: 69 IQKESTLHLVL 79

>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 = 45.8 bits (107), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 40/71 (56%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 4  MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 63
Query: 61 ILQNSRIQLLV 71
          I + S + L++
Sbjct: 64 IQKESTLHLVL 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 = 45.8 bits (107), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 40/71 (56%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 1  MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 ILQNSRIQLLV 71
          I + S + L++
Sbjct: 61 IQKESTLHLVL 71

>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 = 45.8 bits (107), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 40/71 (56%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 21 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 80
Query: 61 ILQNSRIQLLV 71
          I + S + L++
Sbjct: 81 IQKESTLHLVL 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 = 45.8 bits (107), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 40/71 (56%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 1  MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 ILQNSRIQLLV 71
          I + S + L++
Sbjct: 61 IQKESTLHLVL 71

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

Iteration: 1
 Score = 45.4 bits (106), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 40/71 (56%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 ILQNSRIQLLV 71
          I + S + L++
Sbjct: 61 IQKESTLHLVL 71

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

Iteration: 1
 Score = 45.4 bits (106), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 40/71 (56%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 2  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 61
Query: 61 ILQNSRIQLLV 71
          I + S + L++
Sbjct: 62 IQKESTLHLVL 72

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

Iteration: 1
 Score = 45.4 bits (106), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 40/71 (56%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 1  MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 ILQNSRIQLLV 71
          I + S + L++
Sbjct: 61 IQKESTLHLVL 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 = 45.4 bits (106), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 24/70 (34%), Positives = 39/70 (55%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 1  MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 ILQNSRIQLL 70
          I + S + L+
Sbjct: 61 IQKESTLHLV 70

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

Iteration: 1
 Score = 45.4 bits (106), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 40/71 (56%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 23 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 82
Query: 61 ILQNSRIQLLV 71
          I + S + L++
Sbjct: 83 IQKESTLHLVL 93

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

Iteration: 1
 Score = 45.1 bits (105), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 40/71 (56%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 4  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 63
Query: 61 ILQNSRIQLLV 71
          I + S + L++
Sbjct: 64 IQKESTLHLVL 74

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

Iteration: 1
 Score = 45.1 bits (105), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 40/71 (56%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 4  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 63
Query: 61 ILQNSRIQLLV 71
          I + S + L++
Sbjct: 64 IQKESTLHLVL 74

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

Iteration: 1
 Score = 45.1 bits (105), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 40/71 (56%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 3  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 62
Query: 61 ILQNSRIQLLV 71
          I + S + L++
Sbjct: 63 IQKESTLHLVL 73

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

Iteration: 1
 Score = 45.1 bits (105), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 40/71 (56%)
Query: 1   MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
           M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 234 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 293
Query: 61  ILQNSRIQLLV 71
           I + S + L++
Sbjct: 294 IQKESTLHLVL 304

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

Iteration: 1
 Score = 45.1 bits (105), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 40/71 (56%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 4  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 63
Query: 61 ILQNSRIQLLV 71
          I + S + L++
Sbjct: 64 IQRESTLHLVL 74

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

Iteration: 1
 Score = 45.1 bits (105), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 40/71 (56%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 6  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 65
Query: 61 ILQNSRIQLLV 71
          I + S + L++
Sbjct: 66 IQKESTLHLVL 76

>pdb|2KAN|A Chain A, Solution Nmr Structure Of Ubiquitin-Like Domain Of Arabidopsis Thaliana Protein At2g32350. Northeast Structural Genomics Consortium Target Ar3433a Length = 94

Iteration: 1
 Score = 45.1 bits (105), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 27/85 (31%), Positives = 49/85 (57%), Gaps = 9/85 (10%)
Query: 85  SPSKKIHLKINIPSNSKTXXXXXXLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGA 144
           +  +KIH+ +  PS   T        +++D  +TV  LK+KIH +E+ P+ R+ +  SG 
Sbjct: 11  AAVRKIHVTVKFPSKQFT--------VEVDRTETVSSLKDKIHIVENTPIKRMQLYYSGI 62
Query: 145 ELQ-DHRSLRDCELMDNAEIDVHVR 168
           EL  D+R+L +  + + +EI V ++
Sbjct: 63  ELADDYRNLNEYGITEFSEIVVFLK 87

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

Iteration: 1
 Score = 45.1 bits (105), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 40/71 (56%)
Query: 1   MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
           M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 36  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 95
Query: 61  ILQNSRIQLLV 71
           I + S + L++
Sbjct: 96  IQKESTLHLVL 106

>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 = 44.7 bits (104), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 40/71 (56%)
Query: 1   MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
           M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 36  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 95
Query: 61  ILQNSRIQLLV 71
           I + S + L++
Sbjct: 96  IQKESTLHLVL 106

>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 = 44.7 bits (104), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 40/71 (56%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 ILQNSRIQLLV 71
          I + S + L++
Sbjct: 61 IQKESTLHLVL 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 = 44.7 bits (104), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 23/71 (32%), Positives = 40/71 (56%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK  T++V   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 1  MQIFVKTLTGKTITLDVEASDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 ILQNSRIQLLV 71
          I + S + L++
Sbjct: 61 IQKESTLHLVL 71

>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 = 44.7 bits (104), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 40/71 (56%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 2  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 61
Query: 61 ILQNSRIQLLV 71
          I + S + L++
Sbjct: 62 IQKESTLHLVL 72

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

Iteration: 1
 Score = 44.7 bits (104), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 23/62 (37%), Positives = 38/62 (61%)
Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
          GK FT+E+   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    I + S + L
Sbjct: 19 GKTFTVEMEPSDTIENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHL 78
Query: 70 LV 71
          ++
Sbjct: 79 VL 80

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

Iteration: 1
 Score = 44.7 bits (104), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 40/71 (56%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 ILQNSRIQLLV 71
          I + S + L++
Sbjct: 61 IQKESTLHLVL 71

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

Iteration: 1
 Score = 44.7 bits (104), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 40/71 (56%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 5  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 64
Query: 61 ILQNSRIQLLV 71
          I + S + L++
Sbjct: 65 IQKESTLHLVL 75

>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 = 44.7 bits (104), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 40/71 (56%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 ILQNSRIQLLV 71
          I + S + L++
Sbjct: 61 IQKESTLHLVL 71

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

Iteration: 1
 Score = 44.7 bits (104), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 40/71 (56%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPQQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 ILQNSRIQLLV 71
          I + S + L++
Sbjct: 61 IQKESTLHLVL 71

>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 = 44.7 bits (104), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 40/71 (56%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 ILQNSRIQLLV 71
          I + S + L++
Sbjct: 61 IQRESTLHLVL 71

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

Iteration: 1
 Score = 44.7 bits (104), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 40/71 (56%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 ILQNSRIQLLV 71
          I + S + L++
Sbjct: 61 IQKESTLHLVL 71

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

Iteration: 1
 Score = 44.7 bits (104), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 40/71 (56%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 ILQNSRIQLLV 71
          I + S + L++
Sbjct: 61 IQKESTLHLVL 71

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

Iteration: 1
 Score = 44.7 bits (104), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 40/71 (56%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGRQLEDGRTLSDYN 60
Query: 61 ILQNSRIQLLV 71
          I + S + L++
Sbjct: 61 IQKESTLHLVL 71

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

Iteration: 1
 Score = 44.7 bits (104), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 40/71 (56%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 ILQNSRIQLLV 71
          I + S + L++
Sbjct: 61 IQKESTLHLVL 71

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

Iteration: 1
 Score = 44.7 bits (104), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 40/71 (56%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGRQLEDGRTLSDYN 60
Query: 61 ILQNSRIQLLV 71
          I + S + L++
Sbjct: 61 IQRESTLHLVL 71

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

Iteration: 1
 Score = 44.3 bits (103), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 40/71 (56%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 ILQNSRIQLLV 71
          I + S + L++
Sbjct: 61 IQKESTLHLVL 71

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

Iteration: 1
 Score = 44.3 bits (103), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 40/71 (56%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 ILQNSRIQLLV 71
          I + S + L++
Sbjct: 61 IQKESTLHLVL 71

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

Iteration: 1
 Score = 44.3 bits (103), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 40/71 (56%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 1  MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 ILQNSRIQLLV 71
          I + S + L++
Sbjct: 61 IQKESTLHLVL 71

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

Iteration: 1
 Score = 44.3 bits (103), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 39/71 (54%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +      GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 18 MQIFVNTLSGKHITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 77
Query: 61 ILQNSRIQLLV 71
          I + S + L++
Sbjct: 78 IQKESTLHLVL 88

>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 = 44.3 bits (103), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 23/62 (37%), Positives = 37/62 (59%)
Query: 10  GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
           GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    I + S + L
Sbjct: 115 GKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHL 174
Query: 70  LV 71
           ++
Sbjct: 175 VL 176

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

Iteration: 1
 Score = 43.9 bits (102), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 39/71 (54%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G  L+D R +    
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGXQLEDGRTLSDYN 60
Query: 61 ILQNSRIQLLV 71
          I + S + L++
Sbjct: 61 IQRESTLHLVL 71

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

Iteration: 1
 Score = 43.9 bits (102), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 40/71 (56%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK  T+E+   DTV  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 1  MQLFVKTLTGKTLTVELEPSDTVENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 ILQNSRIQLLV 71
          + + S I L++
Sbjct: 61 LQKESTIHLVL 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 = 43.5 bits (101), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 23/67 (34%), Positives = 37/67 (55%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 1  MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 ILQNSRI 67
          I + S +
Sbjct: 61 IQKESTL 67

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

Iteration: 1
 Score = 43.5 bits (101), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 23/62 (37%), Positives = 37/62 (59%)
Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
          GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    I + S + L
Sbjct: 10 GKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHL 69
Query: 70 LV 71
          ++
Sbjct: 70 VL 71

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

Iteration: 1
 Score = 43.5 bits (101), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 23/62 (37%), Positives = 37/62 (59%)
Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
          GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    I + S + L
Sbjct: 10 GKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHL 69
Query: 70 LV 71
          ++
Sbjct: 70 VL 71

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

Iteration: 1
 Score = 43.1 bits (100), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 23/62 (37%), Positives = 37/62 (59%)
Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
          GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    I + S + L
Sbjct: 17 GKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHL 76
Query: 70 LV 71
          ++
Sbjct: 77 VL 78

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

Iteration: 1
 Score = 43.1 bits (100), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/62 (35%), Positives = 37/62 (59%)
Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
          GK  T+EV   DT+  +K KI+  +GIP  +Q L++ G+ L+D R +    I + S + L
Sbjct: 19 GKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIWAGKQLEDGRTLSDYNIQRESTLHL 78
Query: 70 LV 71
          ++
Sbjct: 79 VL 80

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

Iteration: 1
 Score = 43.1 bits (100), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 23/68 (33%), Positives = 39/68 (57%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  + + GK +T+EV   DT+  +K KI+   GIP  +Q L+F G+ L+D R +    
Sbjct: 3  MQIFVKFRTGKTYTLEVEPSDTIENVKAKIQDKLGIPPDQQWLIFAGKRLEDGRTLSDYN 62
Query: 61 ILQNSRIQ 68
          I + S ++
Sbjct: 63 IQKESTLR 70

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

Iteration: 1
 Score = 43.1 bits (100), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 23/71 (32%), Positives = 38/71 (53%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   G   T+EV   DT+  +K KI+   GIP  +Q L+F G+ L+D R +    
Sbjct: 1  MQIFVKTLTGATITLEVESSDTIDNVKSKIQAAPGIPPDQQELIFAGKQLEDGRTLSDYN 60
Query: 61 ILQNSRIQLLV 71
          I + S + L++
Sbjct: 61 IQKESTLHLVL 71

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

Iteration: 1
 Score = 43.1 bits (100), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 23/71 (32%), Positives = 38/71 (53%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK  TI+V   DTV  +K KI   +GIP  +Q L+F G+ L+D   +    
Sbjct: 6  MQIFVKTLTGKTITIDVDHADTVGAVKAKIYDKEGIPPDQQRLIFGGKQLEDSNAMSDYN 65
Query: 61 ILQNSRIQLLV 71
          + + S + L++
Sbjct: 66 VQKESTLHLVL 76

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

Iteration: 1
 Score = 43.1 bits (100), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 23/71 (32%), Positives = 39/71 (54%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK  T+EV   DT+  +K KI+  +GI   +Q L+F G+ L+D R +    
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIAADQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 ILQNSRIQLLV 71
          I + S + L++
Sbjct: 61 IQKESTLHLVL 71

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

Iteration: 1
 Score = 42.4 bits (98), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 22/71 (30%), Positives = 39/71 (54%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK   +EV   DT+  +K KI+  +GIP  +Q L+F G+ L++ R +    
Sbjct: 1  MQIFVKTLTGKTIALEVEASDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEEGRTLADYN 60
Query: 61 ILQNSRIQLLV 71
          I + S + L++
Sbjct: 61 IQKESTLHLVL 71

>pdb|2NVU|I Chain I, Structure Of Appbp1-Uba3~nedd8-Nedd8-Mgatp-Ubc12(C111a), A Trapped Ubiquitin-Like Protein Activation Complex Length = 81

Iteration: 1
 Score = 42.4 bits (98), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 21/63 (33%), Positives = 39/63 (61%)
Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
          GK   I++   D V  IKE++E+ +GIP  +Q L+++G+ + D++     +IL  S + L
Sbjct: 15 GKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHL 74
Query: 70 LVA 72
          ++A
Sbjct: 75 VLA 77

>pdb|4F8C|B Chain B, Structure Of The Cif:nedd8 Complex - Yersinia Pseudotuberculosis Cycle Inhibiting Factor In Complex With Human Nedd8 Length = 88

Iteration: 1
 Score = 42.4 bits (98), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 21/63 (33%), Positives = 39/63 (61%)
Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
          GK   I++   D V  IKE++E+ +GIP  +Q L+++G+ + D++     +IL  S + L
Sbjct: 10 GKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHL 69
Query: 70 LVA 72
          ++A
Sbjct: 70 VLA 72

>pdb|2BKR|B Chain B, Nedd8 Nedp1 Complex Length = 77

Iteration: 1
 Score = 42.4 bits (98), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 21/63 (33%), Positives = 39/63 (61%)
Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
          GK   I++   D V  IKE++E+ +GIP  +Q L+++G+ + D++     +IL  S + L
Sbjct: 11 GKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHL 70
Query: 70 LVA 72
          ++A
Sbjct: 71 VLA 73

>pdb|1NDD|B Chain B, Structure Of Nedd8 Length = 76

Iteration: 1
 Score = 42.4 bits (98), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 21/63 (33%), Positives = 39/63 (61%)
Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
          GK   I++   D V  IKE++E+ +GIP  +Q L+++G+ + D++     +IL  S + L
Sbjct: 10 GKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHL 69
Query: 70 LVA 72
          ++A
Sbjct: 70 VLA 72

>pdb|3GZN|I Chain I, Structure Of Nedd8-Activating Enzyme In Complex With Nedd8 And Mln4924 Length = 82

Iteration: 1
 Score = 42.4 bits (98), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 21/63 (33%), Positives = 39/63 (61%)
Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
          GK   I++   D V  IKE++E+ +GIP  +Q L+++G+ + D++     +IL  S + L
Sbjct: 16 GKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHL 75
Query: 70 LVA 72
          ++A
Sbjct: 76 VLA 78

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

Iteration: 1
 Score = 42.0 bits (97), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 23/71 (32%), Positives = 38/71 (53%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +      G   T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 18 MQIFVNTLTGTHITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 77
Query: 61 ILQNSRIQLLV 71
          I + S + L++
Sbjct: 78 IQKESTLHLVL 88

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

Iteration: 1
 Score = 42.0 bits (97), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 23/67 (34%), Positives = 37/67 (55%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 4  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 63
Query: 61 ILQNSRI 67
          I + S +
Sbjct: 64 IQKWSTL 70

>pdb|4HCP|B Chain B, Crystal Structure Of Burkholderia Pseudomallei Effector Protein Chbp In Complex With Nedd8 Length = 78

Iteration: 1
 Score = 42.0 bits (97), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 21/63 (33%), Positives = 39/63 (61%)
Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
          GK   I++   D V  IKE++E+ +GIP  +Q L+++G+ + D++     +IL  S + L
Sbjct: 12 GKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHL 71
Query: 70 LVA 72
          ++A
Sbjct: 72 VLA 74

>pdb|3H7S|A Chain A, Crystal Structures Of K63-Linked Di- And Tri-Ubiquitin Reveal A Highly Extended Chain Architecture Length = 76

Iteration: 1
 Score = 42.0 bits (97), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 22/61 (36%), Positives = 34/61 (55%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 I 61
          I
Sbjct: 61 I 61

>pdb|1BT0|A Chain A, Structure Of Ubiquitin-Like Protein, Rub1 Length = 76

Iteration: 1
 Score = 41.6 bits (96), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 22/63 (34%), Positives = 38/63 (60%)
Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
          GK   I++   DT+  IKE++E+ +GIP  +Q L++ G+ L DD+  +   I   S + L
Sbjct: 10 GKEIEIDIEPTDTIDRIKERVEEKEGIPPVQQRLIYAGKQLADDKTAKDYNIEGGSVLHL 69
Query: 70 LVA 72
          ++A
Sbjct: 70 VLA 72

>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 = 41.6 bits (96), Expect = 5e-04,   Method: Composition-based stats.
 Identities = 21/71 (29%), Positives = 39/71 (54%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +      G+  T+EV   DT+  ++ +I+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 8  MQIFVRTLTGRTITLEVESSDTIDNVRARIQDREGIPPDQQRLIFAGRQLEDGRTLADYN 67
Query: 61 ILQNSRIQLLV 71
          I + S + L++
Sbjct: 68 IQRESTLHLVL 78

>pdb|2KNB|A Chain A, Solution Nmr Structure Of The Parkin Ubl Domain In Complex With The Endophilin-A1 Sh3 Domain Length = 81

Iteration: 1
 Score = 41.6 bits (96), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 15/49 (30%), Positives = 35/49 (71%)
Query: 109 LPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCEL 157
            P+++D + ++ +LKE + + + +P ++L V  +G ELQ+H ++++C+L
Sbjct: 18  FPVEVDSDTSIFQLKEVVAKRQGVPADQLRVIFAGKELQNHLTVQNCDL 66

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

Iteration: 1
 Score = 41.6 bits (96), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 23/71 (32%), Positives = 38/71 (53%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+  +D R +    
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQXEDGRTLSDYN 60
Query: 61 ILQNSRIQLLV 71
          I + S   L++
Sbjct: 61 IQKESTXHLVL 71

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

Iteration: 1
 Score = 40.8 bits (94), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 22/61 (36%), Positives = 36/61 (59%)
Query: 11 KAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLL 70
          K  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    I + S + L+
Sbjct: 19 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 78
Query: 71 V 71
          +
Sbjct: 79 L 79

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

Iteration: 1
 Score = 40.8 bits (94), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 22/71 (30%), Positives = 41/71 (57%)
Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK  T+EV   D++  IK KI++ +GIP  +Q L+F G+ L++ + +    
Sbjct: 4  MQIFVKTLTGKTITLEVEPNDSIDAIKAKIQEKEGIPPDQQRLIFAGKQLEEGKTLSDYN 63
Query: 61 ILQNSRIQLLV 71
          I + S + L++
Sbjct: 64 IQKESTLHLVL 74

>pdb|3DBH|I Chain I, Structural Dissection Of A Gating Mechanism Preventing Misactivation Of Ubiquitin By Nedd8's E1 (Appbp1- Uba3arg190ala-Nedd8ala72arg) Length = 88

Iteration: 1
 Score = 40.8 bits (94), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 20/62 (32%), Positives = 38/62 (61%)
Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
          GK   I++   D V  IKE++E+ +GIP  +Q L+++G+ + D++     +IL  S + L
Sbjct: 22 GKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHL 81
Query: 70 LV 71
          ++
Sbjct: 82 VL 83

>pdb|3DBL|I Chain I, Structural Dissection Of A Gating Mechanism Preventing Misactivation Of Ubiquitin By Nedd8's E1 (Appbp1- Uba3arg190wt-Nedd8ala72gln) Length = 88

Iteration: 1
 Score = 40.8 bits (94), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 20/62 (32%), Positives = 38/62 (61%)
Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
          GK   I++   D V  IKE++E+ +GIP  +Q L+++G+ + D++     +IL  S + L
Sbjct: 22 GKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHL 81
Query: 70 LV 71
          ++
Sbjct: 82 VL 83

>pdb|1IYF|A Chain A, Solution Structure Of Ubiquitin-Like Domain Of Human Parkin Length = 81

Iteration: 1
 Score = 40.8 bits (94), Expect = 9e-04,   Method: Compositional matrix adjust.
 Identities = 17/59 (28%), Positives = 37/59 (62%)
Query: 12 AFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLL 70
           F +EV    ++ ++KE + K QG+P  +  ++F G+ L++D  V++C++ Q S + ++
Sbjct: 17 GFPVEVDSDTSIFQLKEVVAKRQGVPADQLRVIFAGKELRNDWTVQNCDLDQQSIVHIV 75

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	269
2kk8_A	84	Uncharacterized protein AT4G05270; solution arabid	6e-23
2kk8_A	84	Uncharacterized protein AT4G05270; solution arabid	2e-06
3b08_A	152	Polyubiquitin-C, ubiquitin; protein complex, signa	7e-22
3b08_A	152	Polyubiquitin-C, ubiquitin; protein complex, signa	5e-10
3u30_A	172	Ubiquitin, linear DI-ubiquitin; immune system; 2.4	3e-21
3u30_A	172	Ubiquitin, linear DI-ubiquitin; immune system; 2.4	4e-10
3m62_B	106	UV excision repair protein RAD23; armadillo-like r	1e-18
3m62_B	106	UV excision repair protein RAD23; armadillo-like r	4e-07
3rt3_B	159	Ubiquitin-like protein ISG15; ubiquitin-like domai	3e-18
1ndd_A	76	NEDD8, protein (ubiquitin-like protein NEDD8); pro	7e-15
1ndd_A	76	NEDD8, protein (ubiquitin-like protein NEDD8); pro	1e-07
1ttn_A	106	DC-UBP, dendritic cell-derived ubiquitin-like prot	8e-14
1ttn_A	106	DC-UBP, dendritic cell-derived ubiquitin-like prot	6e-07
2kan_A	94	Uncharacterized protein AR3433A; ubiquitin fold, a	1e-13
2kan_A	94	Uncharacterized protein AR3433A; ubiquitin fold, a	1e-12
4fbj_B	88	NEDD8; effector-HOST target complex, glutamine dea	2e-13
4fbj_B	88	NEDD8; effector-HOST target complex, glutamine dea	3e-07
1uel_A	95	HHR23B, UV excision repair protein RAD23 homolog B	2e-13
1uel_A	95	HHR23B, UV excision repair protein RAD23 homolog B	2e-06
3n3k_B	85	Ubiquitin; hydrolase, protease, thiol protease, DU	2e-13
3n3k_B	85	Ubiquitin; hydrolase, protease, thiol protease, DU	1e-07
2wyq_A	85	HHR23A, UV excision repair protein RAD23 homolog A	2e-13
2wyq_A	85	HHR23A, UV excision repair protein RAD23 homolog A	2e-05
3u5c_F	225	RP14, S2, YS8, 40S ribosomal protein S5; translati	3e-13
3u5c_F	225	RP14, S2, YS8, 40S ribosomal protein S5; translati	2e-07
3dbh_I	88	NEDD8; cell cycle, activating enzyme, apoptosis, m	4e-13
3dbh_I	88	NEDD8; cell cycle, activating enzyme, apoptosis, m	4e-07
4dwf_A	90	HLA-B-associated transcript 3; ubiquitin-like doma	4e-13
4dwf_A	90	HLA-B-associated transcript 3; ubiquitin-like doma	2e-07
2dzi_A	81	Ubiquitin-like protein 4A; GDX, structural genomic	6e-13
2dzi_A	81	Ubiquitin-like protein 4A; GDX, structural genomic	2e-06
3b1l_X	76	E3 ubiquitin-protein ligase parkin; proteasome, AL	8e-13
3b1l_X	76	E3 ubiquitin-protein ligase parkin; proteasome, AL	2e-07
3mtn_B	85	UBA80, ubcep1, ubiquitin variant UBV.21.4; ubiquit	9e-13
3mtn_B	85	UBA80, ubcep1, ubiquitin variant UBV.21.4; ubiquit	5e-08
1wx7_A	106	Ubiquilin 3; ubiquitin-like domain, structural gen	1e-12
1wx7_A	106	Ubiquilin 3; ubiquitin-like domain, structural gen	4e-10
3q3f_A	189	Ribonuclease/ubiquitin chimeric protein; domain SW	2e-12
3q3f_A	189	Ribonuclease/ubiquitin chimeric protein; domain SW	4e-09
1sif_A	88	Ubiquitin; hydrophobic mutants, folding, stability	2e-12
1sif_A	88	Ubiquitin; hydrophobic mutants, folding, stability	1e-07
2bwf_A	77	Ubiquitin-like protein DSK2; signaling protein, UB	3e-12
2bwf_A	77	Ubiquitin-like protein DSK2; signaling protein, UB	3e-06
4eew_A	88	Large proline-rich protein BAG6; ubiquitin-like fo	4e-12
4eew_A	88	Large proline-rich protein BAG6; ubiquitin-like fo	4e-06
1yx5_B	98	Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo s	7e-12
1yx5_B	98	Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo s	3e-07
1wh3_A	87	59 kDa 2'-5'-oligoadenylate synthetase like protei	8e-12
1wh3_A	87	59 kDa 2'-5'-oligoadenylate synthetase like protei	6e-07
3l0w_B	169	Monoubiquitinated proliferating cell nuclear antig	9e-12
3l0w_B	169	Monoubiquitinated proliferating cell nuclear antig	8e-06
3m63_B	101	Ubiquitin domain-containing protein DSK2; armadill	1e-11
3m63_B	101	Ubiquitin domain-containing protein DSK2; armadill	2e-05
1we7_A	115	SF3A1 protein; structural genomics, ubiquitin-like	1e-11
1we7_A	115	SF3A1 protein; structural genomics, ubiquitin-like	2e-07
3k9o_B	96	Ubiquitin, UBB+1; E2-25K, complex structure, ATP-b	1e-11
3k9o_B	96	Ubiquitin, UBB+1; E2-25K, complex structure, ATP-b	3e-07
1j8c_A	125	Ubiquitin-like protein hplic-2; ubiquitin-like dom	1e-11
1j8c_A	125	Ubiquitin-like protein hplic-2; ubiquitin-like dom	3e-07
3a9j_A	76	Ubiquitin; protein complex, cytoplasm, isopeptide	1e-11
3a9j_A	76	Ubiquitin; protein complex, cytoplasm, isopeptide	5e-08
1wx8_A	96	Riken cDNA 4931431F19; ubiquitin-like domain, ubiq	1e-11
1wx8_A	96	Riken cDNA 4931431F19; ubiquitin-like domain, ubiq	7e-08
2ojr_A	111	Ubiquitin; lanthide-binding TAG, terbium, TB, SAD	1e-11
2ojr_A	111	Ubiquitin; lanthide-binding TAG, terbium, TB, SAD	3e-07
2kdi_A	114	Ubiquitin, vacuolar protein sorting-associated pro	1e-11
2kdi_A	114	Ubiquitin, vacuolar protein sorting-associated pro	6e-07
1oqy_A	368	HHR23A, UV excision repair protein RAD23 homolog A	2e-11
1oqy_A	368	HHR23A, UV excision repair protein RAD23 homolog A	9e-06
2l7r_A	93	Ubiquitin-like protein FUBI; structural genomics,	3e-11
2l7r_A	93	Ubiquitin-like protein FUBI; structural genomics,	3e-09
2xzm_9	189	RPS31E; ribosome, translation; 3.93A {Tetrahymena	3e-11
2xzm_9	189	RPS31E; ribosome, translation; 3.93A {Tetrahymena	1e-05
1yqb_A	100	Ubiquilin 3; structural genomics consortium, ubiqu	5e-11
1yqb_A	100	Ubiquilin 3; structural genomics consortium, ubiqu	5e-07
2kd0_A	85	LRR repeats and ubiquitin-like domain-containing p	6e-11
2kd0_A	85	LRR repeats and ubiquitin-like domain-containing p	1e-06
2klc_A	101	Ubiquilin-1; ubiquitin-like, structural genomics,	8e-11
2klc_A	101	Ubiquilin-1; ubiquitin-like, structural genomics,	6e-06
1we6_A	111	Splicing factor, putative; structural genomics, ub	2e-10
1we6_A	111	Splicing factor, putative; structural genomics, ub	5e-05
1wy8_A	89	NP95-like ring finger protein, isoform A; ubiquiti	5e-10
1wy8_A	89	NP95-like ring finger protein, isoform A; ubiquiti	4e-07
3u5e_m	128	60S ribosomal protein L40; translation, ribosome,	5e-10
3u5e_m	128	60S ribosomal protein L40; translation, ribosome,	6e-05
3phx_B	79	Ubiquitin-like protein ISG15; OTU domain, DE-ubiqu	6e-10
3phx_B	79	Ubiquitin-like protein ISG15; OTU domain, DE-ubiqu	4e-06
1v86_A	95	DNA segment, CHR 7, wayne state university 128, ex	9e-10
1v86_A	95	DNA segment, CHR 7, wayne state university 128, ex	6e-06
2hj8_A	88	Interferon-induced 17 kDa protein; HR2873B, human	1e-09
2hj8_A	88	Interferon-induced 17 kDa protein; HR2873B, human	7e-07
2faz_A	78	Ubiquitin-like containing PHD and ring finger DOM	5e-09
2faz_A	78	Ubiquitin-like containing PHD and ring finger DOM	2e-06
1v5o_A	102	1700011N24RIK protein; hypothetical protein, ubiqu	8e-09
1v5o_A	102	1700011N24RIK protein; hypothetical protein, ubiqu	7e-05
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-07
1wgg_A	96	Ubiquitin carboxyl-terminal hydrolase 14; ubiquiti	2e-07
1wgg_A	96	Ubiquitin carboxyl-terminal hydrolase 14; ubiquiti	2e-05
3ai5_A	307	Yeast enhanced green fluorescent protein, ubiquit;	5e-07
2gow_A	125	HCG-1 protein, ubiquitin-like protein 3; BC059385,	2e-06
2fnj_B	118	Transcription elongation factor B polypeptide 2; b	1e-05
2fnj_B	118	Transcription elongation factor B polypeptide 2; b	5e-04
1wgd_A	93	Homocysteine-responsive endoplasmic reticulum- res	4e-05
1wgd_A	93	Homocysteine-responsive endoplasmic reticulum- res	2e-04
2dzm_A	100	FAS-associated factor 1; ubiquitin-like domain, HF	1e-04
4dbg_A	105	Ranbp-type and C3HC4-type zinc finger-containing;	2e-04
1wxv_A	92	BAG-family molecular chaperone regulator-1; struct	2e-04
1x1m_A	107	Ubiquitin-like protein SB132; structural genomics,	3e-04

>2kk8_A Uncharacterized protein AT4G05270; solution arabidopsis thaliana, uncharacterized putative protein, NESG, structural genomics; NMR {Arabidopsis thaliana} Length = 84

 Score = 88.8 bits (221), Expect = 6e-23
 Identities = 34/74 (45%), Positives = 50/74 (67%), Gaps = 1/74 (1%)

Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNG-QVLQDDRDVEHC 59
          M  + E   G +F +EV + DT+L +K+KIE+ Q IPV KQTL+ +G  +L++D  VE C
Sbjct: 11 MKFLVENLNGSSFELEVDYRDTLLVVKQKIERSQHIPVSKQTLIVDGIVILREDLTVEQC 70

Query: 60 EILQNSRIQLLVAS 73
          +I+  S IQL V+S
Sbjct: 71 QIVPTSDIQLEVSS 84

>2kk8_A Uncharacterized protein AT4G05270; solution arabidopsis thaliana, uncharacterized putative protein, NESG, structural genomics; NMR {Arabidopsis thaliana} Length = 84

 Score = 44.2 bits (105), Expect = 2e-06
 Identities = 21/76 (27%), Positives = 39/76 (51%), Gaps = 15/76 (19%)

Query: 103 HHHHHH--------------LPLDMDVNDTVLRLKEKIHEMESIPVNRL-LVQSSGAELQ 147
           HHHHHH                L++D  DT+L +K+KI   + IPV++  L+      L+
Sbjct: 3   HHHHHHSHMKFLVENLNGSSFELEVDYRDTLLVVKQKIERSQHIPVSKQTLIVDGIVILR 62

Query: 148 DHRSLRDCELMDNAEI 163
           +  ++  C+++  ++I
Sbjct: 63  EDLTVEQCQIVPTSDI 78

>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 = 88.2 bits (218), Expect = 7e-22
 Identities = 39/168 (23%), Positives = 74/168 (44%), Gaps = 20/168 (11%)

Query: 1   MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
           M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 1   MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60

Query: 61  ILQNSRIQLLVASDNKPQVKTEQSSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVL 120
           I + S +                      +                  + L+++ +DT+ 
Sbjct: 61  IQKESTLH--------------------LVLRLRGGMQIFVKTLTGKTITLEVEPSDTIE 100

Query: 121 RLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVR 168
            +K KI + E IP ++  +  +G +L+D R+L D  +   + + + +R
Sbjct: 101 NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR 148

>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 = 55.8 bits (134), Expect = 5e-10
 Identities = 31/150 (20%), Positives = 66/150 (44%), Gaps = 19/150 (12%)

Query: 109 LPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVR 168
           + L+++ +DT+  +K KI + E IP ++  +  +G +L+D R+L D  +           
Sbjct: 13  ITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKE-------- 64

Query: 169 PSPTATSTTSSGMGPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLP 228
                 ST    +  R    + +     K I +EV  SD +  ++ ++Q         +P
Sbjct: 65  ------STLHLVLRLRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKE-----GIP 113

Query: 229 QDGYFFIYKQNVMDDDRSFRWHHVGQGDTI 258
            D    I+    ++D R+   +++ +  T+
Sbjct: 114 PDQQRLIFAGKQLEDGRTLSDYNIQKESTL 143

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

 Score = 87.0 bits (215), Expect = 3e-21
 Identities = 40/168 (23%), Positives = 75/168 (44%), Gaps = 20/168 (11%)

Query: 1   MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
           M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 21  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 80

Query: 61  ILQNSRIQLLVASDNKPQVKTEQSSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVL 120
           I + S + L                    +                  + L+++ +DT+ 
Sbjct: 81  IQKESTLHL--------------------VLRLRGGMQIFVKTLTGKTITLEVEPSDTIE 120

Query: 121 RLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVR 168
            +K KI + E IP ++  +  +G +L+D R+L D  +   + + + +R
Sbjct: 121 NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR 168

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

 Score = 56.6 bits (136), Expect = 4e-10
 Identities = 37/179 (20%), Positives = 73/179 (40%), Gaps = 41/179 (22%)

Query: 102 THHHHHH----------------------LPLDMDVNDTVLRLKEKIHEMESIPVNRLLV 139
           +HHHHHH                      + L+++ +DT+  +K KI + E IP ++  +
Sbjct: 4   SHHHHHHSSGLVPRGSHMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRL 63

Query: 140 QSSGAELQDHRSLRDCELMDNAEIDVHVRPSPTATSTTSSGMGPRKLKLLVLTQCGNKRI 199
             +G +L+D R+L D  +                 ST    +  R    + +     K I
Sbjct: 64  IFAGKQLEDGRTLSDYNIQKE--------------STLHLVLRLRGGMQIFVKTLTGKTI 109

Query: 200 PVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTI 258
            +EV  SD +  ++ ++Q         +P D    I+    ++D R+   +++ +  T+
Sbjct: 110 TLEVEPSDTIENVKAKIQD-----KEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTL 163

>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 = 78.2 bits (193), Expect = 1e-18
 Identities = 23/108 (21%), Positives = 53/108 (49%), Gaps = 3/108 (2%)

Query: 1   MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
           + + F+  + +   +++   +T+LE K K+ +       +  L+++G+VLQD + V  C 
Sbjct: 2   VSLTFKNFKKEKVPLDLEPSNTILETKTKLAQSISCEESQIKLIYSGKVLQDSKTVSECG 61

Query: 61  ILQNSRIQLLVASDNKPQVKTEQSSPSKKIHLKINIPSNSKTHHHHHH 108
           +    ++  +V+     + K  +  P+      ++  + +  HHHHHH
Sbjct: 62  LKDGDQVVFMVSQKKSTKTKVTERDPNSS---SVDKLAAALEHHHHHH 106

>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 = 46.6 bits (111), Expect = 4e-07
 Identities = 20/77 (25%), Positives = 39/77 (50%), Gaps = 1/77 (1%)

Query: 108 HLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHV 167
            +PLD++ ++T+L  K K+ +  S   +++ +  SG  LQD +++ +C L D  ++   V
Sbjct: 13  KVPLDLEPSNTILETKTKLAQSISCEESQIKLIYSGKVLQDSKTVSECGLKDGDQVVFMV 72

Query: 168 -RPSPTATSTTSSGMGP 183
            +   T T  T      
Sbjct: 73  SQKKSTKTKVTERDPNS 89

>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 = 78.5 bits (193), Expect = 3e-18
 Identities = 28/170 (16%), Positives = 62/170 (36%), Gaps = 21/170 (12%)

Query: 1   MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFN--GQVLQDDRDVEH 58
            D+  +   G  F + +    +V E+K +I +  G+   +Q L  +  G  LQD   +  
Sbjct: 3   WDLTVKMLAGNEFQVSLSSSMSVSELKAQITQKIGVHAFQQRLAVHPSGVALQDRVPLAS 62

Query: 59  CEILQNSRIQLLVASDNKPQVKTEQSSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDT 118
             +   S +                        L I +      ++       ++ +  T
Sbjct: 63  QGLGPGSTVL--------------LVVDKSDEPLSILV-----RNNKGRSSTYEVRLTQT 103

Query: 119 VLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVR 168
           V  LK+++  +E +  +   +   G  L+D   L +  L   + + +++R
Sbjct: 104 VAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNLR 153

>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 = 66.9 bits (164), Expect = 7e-15
 Identities = 22/72 (30%), Positives = 42/72 (58%)

Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK   I++   D V  IKE++E+ +GIP  +Q L+++G+ + D++     +
Sbjct: 1  MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYK 60

Query: 61 ILQNSRIQLLVA 72
          IL  S + L++A
Sbjct: 61 ILGGSVLHLVLA 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 = 46.8 bits (112), Expect = 1e-07
 Identities = 14/54 (25%), Positives = 31/54 (57%)

Query: 108 HLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNA 161
            + +D++  D V R+KE++ E E IP  +  +  SG ++ D ++  D +++  +
Sbjct: 12  EIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGS 65

>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 = 65.1 bits (159), Expect = 8e-14
 Identities = 18/73 (24%), Positives = 34/73 (46%)

Query: 10  GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
           GK   + V   DTV  +K ++   +G+    Q   F+G+ L D    E  +I ++  +Q+
Sbjct: 33  GKDLKLVVRSTDTVFHMKRRLHAAEGVEPGSQRWFFSGRPLTDKMKFEELKIPKDYVVQV 92

Query: 70  LVASDNKPQVKTE 82
           +V+   +     E
Sbjct: 93  IVSQPVQNPTPVE 105

>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 = 45.9 bits (109), Expect = 6e-07
 Identities = 14/72 (19%), Positives = 26/72 (36%)

Query: 108 HLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHV 167
            L L +   DTV  +K ++H  E +         SG  L D     + ++  +  + V V
Sbjct: 35  DLKLVVRSTDTVFHMKRRLHAAEGVEPGSQRWFFSGRPLTDKMKFEELKIPKDYVVQVIV 94

Query: 168 RPSPTATSTTSS 179
                  +   +
Sbjct: 95  SQPVQNPTPVEN 106

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

 Score = 64.0 bits (156), Expect = 1e-13
 Identities = 22/76 (28%), Positives = 39/76 (51%), Gaps = 1/76 (1%)

Query: 4  IFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDD-RDVEHCEIL 62
          +      K FT+EV   +TV  +K+KI   +  P+ +  L ++G  L DD R++    I 
Sbjct: 18 VTVKFPSKQFTVEVDRTETVSSLKDKIHIVENTPIKRMQLYYSGIELADDYRNLNEYGIT 77

Query: 63 QNSRIQLLVASDNKPQ 78
          + S I + + S N+ +
Sbjct: 78 EFSEIVVFLKSINRAK 93

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

 Score = 61.6 bits (150), Expect = 1e-12
 Identities = 27/99 (27%), Positives = 49/99 (49%), Gaps = 9/99 (9%)

Query: 76  KPQVKTEQSSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVN 135
                    +  +KIH+ +  PS            +++D  +TV  LK+KIH +E+ P+ 
Sbjct: 2   GHHHHHHSHAAVRKIHVTVKFPSK--------QFTVEVDRTETVSSLKDKIHIVENTPIK 53

Query: 136 RLLVQSSGAELQD-HRSLRDCELMDNAEIDVHVRPSPTA 173
           R+ +  SG EL D +R+L +  + + +EI V ++    A
Sbjct: 54  RMQLYYSGIELADDYRNLNEYGITEFSEIVVFLKSINRA 92

>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 = 63.5 bits (155), Expect = 2e-13
 Identities = 21/63 (33%), Positives = 39/63 (61%)

Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
          GK   I++   D V  IKE++E+ +GIP  +Q L+++G+ + D++     +IL  S + L
Sbjct: 10 GKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHL 69

Query: 70 LVA 72
          ++A
Sbjct: 70 VLA 72

>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 = 46.2 bits (110), Expect = 3e-07
 Identities = 14/54 (25%), Positives = 31/54 (57%)

Query: 108 HLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNA 161
            + +D++  D V R+KE++ E E IP  +  +  SG ++ D ++  D +++  +
Sbjct: 12  EIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGS 65

>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 = 63.9 bits (156), Expect = 2e-13
 Identities = 30/110 (27%), Positives = 55/110 (50%), Gaps = 18/110 (16%)

Query: 1   MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQG---IPVPKQTLVFNGQVLQDDRDVE 57
           M V  +  + + F I++   +TV  +KEKIE  +G    PV  Q L++ G++L DD  ++
Sbjct: 1   MQVTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALK 60

Query: 58  HCEILQNSRIQLLVASDNKPQVKTEQSSPSKKIHLKINIPSNSKTHHHHH 107
             +I + + + ++V    KP+  +  +            P+  + HHHHH
Sbjct: 61  EYKIDEKNFVVVMV---TKPKAVSTPA------------PATLEHHHHHH 95

>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 = 44.6 bits (106), Expect = 2e-06
 Identities = 20/81 (24%), Positives = 36/81 (44%), Gaps = 4/81 (4%)

Query: 108 HLPLDMDVNDTVLRLKEKIHEME---SIPVNRLLVQSSGAELQDHRSLRDCELMDNAEID 164
              +D+D  +TV  LKEKI   +   + PV    +  +G  L D  +L++ ++ +   + 
Sbjct: 12  TFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALKEYKIDEKNFV- 70

Query: 165 VHVRPSPTATSTTSSGMGPRK 185
           V +   P A ST +       
Sbjct: 71  VVMVTKPKAVSTPAPATLEHH 91

>3n3k_B Ubiquitin; hydrolase, protease, thiol protease, DUB, zinc ribbon, inhibitor, ubiqu acetylation, cytoplasm, isopeptide bond, nucleus; 2.60A {Homo sapiens} Length = 85

 Score = 63.1 bits (154), Expect = 2e-13
 Identities = 23/72 (31%), Positives = 40/72 (55%)

Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M ++ +   G+   +EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 4  MRIVVKTLMGRTIILEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 63

Query: 61 ILQNSRIQLLVA 72
          I  +S + LL+ 
Sbjct: 64 IHNHSALYLLLK 75

>3n3k_B Ubiquitin; hydrolase, protease, thiol protease, DUB, zinc ribbon, inhibitor, ubiqu acetylation, cytoplasm, isopeptide bond, nucleus; 2.60A {Homo sapiens} Length = 85

 Score = 47.7 bits (114), Expect = 1e-07
 Identities = 15/61 (24%), Positives = 38/61 (62%)

Query: 108 HLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHV 167
            + L+++ +DT+  +K KI + E IP ++  +  +G +L+D R+L D  + +++ + + +
Sbjct: 15  TIILEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIHNHSALYLLL 74

Query: 168 R 168
           +
Sbjct: 75  K 75

>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 = 63.0 bits (154), Expect = 2e-13
 Identities = 20/75 (26%), Positives = 39/75 (52%), Gaps = 3/75 (4%)

Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQG---IPVPKQTLVFNGQVLQDDRDVE 57
          + +  +  + + F I +   +TV  +KEKIE  +G    PV  Q L++ G++L DD  + 
Sbjct: 6  VTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIR 65

Query: 58 HCEILQNSRIQLLVA 72
             I + + + ++V 
Sbjct: 66 DYRIDEKNFVVVMVT 80

>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 = 41.5 bits (98), Expect = 2e-05
 Identities = 17/64 (26%), Positives = 29/64 (45%), Gaps = 3/64 (4%)

Query: 108 HLPLDMDVNDTVLRLKEKIHEME---SIPVNRLLVQSSGAELQDHRSLRDCELMDNAEID 164
              + M+ ++TV  LKEKI   +   + PV    +  +G  L D   +RD  + +   + 
Sbjct: 17  TFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIRDYRIDEKNFVV 76

Query: 165 VHVR 168
           V V 
Sbjct: 77  VMVT 80

>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 = 64.8 bits (158), Expect = 3e-13
 Identities = 7/62 (11%), Positives = 17/62 (27%)

Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
           +     V  F  V+      E+ Q      +          + +D    + +Q  +   
Sbjct: 10 VQEDFEVVEEFTPVVLATPIPEEVQQAQTEIKLFNKWSFEEVEVKDASLVDYVQVRQPIF 69

Query: 70 LV 71
          + 
Sbjct: 70 VA 71

>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 = 48.3 bits (115), Expect = 2e-07
 Identities = 4/60 (6%), Positives = 14/60 (23%)

Query: 109 LPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVR 168
               ++    V+       E++       L      E  + +     + +   +      
Sbjct: 13  DFEVVEEFTPVVLATPIPEEVQQAQTEIKLFNKWSFEEVEVKDASLVDYVQVRQPIFVAH 72

>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 = 62.8 bits (153), Expect = 4e-13
 Identities = 20/60 (33%), Positives = 36/60 (60%)

Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
          GK   I++   D V  IKE++E+ +GIP  +Q L+++G+ + D++     +IL  S + L
Sbjct: 22 GKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHL 81

>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 = 45.8 bits (109), Expect = 4e-07
 Identities = 14/56 (25%), Positives = 32/56 (57%)

Query: 108 HLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEI 163
            + +D++  D V R+KE++ E E IP  +  +  SG ++ D ++  D +++  + +
Sbjct: 24  EIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGSVL 79

>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 = 62.7 bits (153), Expect = 4e-13
 Identities = 23/76 (30%), Positives = 36/76 (47%), Gaps = 1/76 (1%)

Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
           +  T  VG    V E KE I     IP  KQ L++ G+VLQDD+ ++   +     I L
Sbjct: 15 SQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEYNV-GGKVIHL 73

Query: 70 LVASDNKPQVKTEQSS 85
          +  +  +  + +  SS
Sbjct: 74 VERAPPQTHLPSGASS 89

>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 = 46.9 bits (112), Expect = 2e-07
 Identities = 22/89 (24%), Positives = 32/89 (35%), Gaps = 17/89 (19%)

Query: 98  SNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVN--RLLVQSSGAELQDHRSLRDC 155
            +S+T          +     V   KE I    SIP    RL+    G  LQD + L++ 
Sbjct: 13  LDSQTR------TFIVGAQMNVKEFKEHIAASVSIPSEKQRLI--YQGRVLQDDKKLQEY 64

Query: 156 ELMDNAEIDVHV----RPSPTATSTTSSG 180
            +       +H+     P     S  SSG
Sbjct: 65  NVGGKV---IHLVERAPPQTHLPSGASSG 90

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

 Score = 61.9 bits (151), Expect = 6e-13
 Identities = 17/62 (27%), Positives = 35/62 (56%)

Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
          G+  +++V   + V  +K+ + +   +PV +Q L+F G+ L D + +    I  NS++ L
Sbjct: 17 GRECSLQVPEDELVSTLKQLVSEKLNVPVRQQRLLFKGKALADGKRLSDYSIGPNSKLNL 76

Query: 70 LV 71
          +V
Sbjct: 77 VV 78

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

 Score = 44.2 bits (105), Expect = 2e-06
 Identities = 18/61 (29%), Positives = 34/61 (55%), Gaps = 4/61 (6%)

Query: 111 LDMDVNDTVLRLKEKIHEMESIPVN--RLLVQSSGAELQDHRSLRDCELMDNAEIDVHVR 168
           L +  ++ V  LK+ + E  ++PV   RLL +  G  L D + L D  +  N+++++ V+
Sbjct: 22  LQVPEDELVSTLKQLVSEKLNVPVRQQRLLFK--GKALADGKRLSDYSIGPNSKLNLVVK 79

Query: 169 P 169
           P
Sbjct: 80  P 80

>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 = 61.5 bits (150), Expect = 8e-13
 Identities = 17/60 (28%), Positives = 35/60 (58%)

Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
             F +EV    ++L++KE + K QG+P  +  ++F G+ L +   V++C++ Q S + +
Sbjct: 10 SYGFPVEVDSDTSILQLKEVVAKQQGVPADQLRVIFAGKELPNHLTVQNCDLEQQSIVHI 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 = 46.9 bits (112), Expect = 2e-07
 Identities = 15/55 (27%), Positives = 37/55 (67%)

Query: 107 HHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNA 161
           +  P+++D + ++L+LKE + + + +P ++L V  +G EL +H ++++C+L   +
Sbjct: 11  YGFPVEVDSDTSILQLKEVVAKQQGVPADQLRVIFAGKELPNHLTVQNCDLEQQS 65

>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 = 61.6 bits (150), Expect = 9e-13
 Identities = 24/63 (38%), Positives = 37/63 (58%)

Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
          GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    I + S + L
Sbjct: 13 GKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKWSTLFL 72

Query: 70 LVA 72
          L+ 
Sbjct: 73 LLR 75

>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 = 48.5 bits (116), Expect = 5e-08
 Identities = 16/61 (26%), Positives = 36/61 (59%)

Query: 108 HLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHV 167
            + L+++ +DT+  +K KI + E IP ++  +  +G +L+D R+L D  +   + + + +
Sbjct: 15  TITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKWSTLFLLL 74

Query: 168 R 168
           R
Sbjct: 75  R 75

>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 = 61.6 bits (150), Expect = 1e-12
 Identities = 13/75 (17%), Positives = 31/75 (41%)

Query: 13  FTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVA 72
               V    T+ ++KE+I +       +  L+F G++L+D   +  C +     + L++ 
Sbjct: 29  EDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQCGVRDGLTVHLVIK 88

Query: 73  SDNKPQVKTEQSSPS 87
             ++       +S  
Sbjct: 89  RQHRAMGNECPASGP 103

>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 = 55.1 bits (133), Expect = 4e-10
 Identities = 18/111 (16%), Positives = 39/111 (35%), Gaps = 8/111 (7%)

Query: 73  SDNKPQVKTEQSSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESI 132
             +              I + +  P + +           +    T+ +LKE+I +    
Sbjct: 1   GSSGSSGSPAPVQDPHLIKVTVKTPKDKED--------FSVTDTCTIQQLKEEISQRFKA 52

Query: 133 PVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVRPSPTATSTTSSGMGP 183
             ++L++  +G  L+D  SL  C + D   + + ++    A        GP
Sbjct: 53  HPDQLVLIFAGKILKDPDSLAQCGVRDGLTVHLVIKRQHRAMGNECPASGP 103

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

 Score = 63.5 bits (154), Expect = 2e-12
 Identities = 25/148 (16%), Positives = 54/148 (36%), Gaps = 25/148 (16%)

Query: 21  DTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKPQVK 80
           D     + K+    G    +  + +       DR      IL +S   +   +D+     
Sbjct: 55  DIFSNREGKLPGKSGRTWREADINYTSGFRNSDR------ILYSSDWLIYKTTDHYGG-- 106

Query: 81  TEQSSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQ 140
                                       + L+++ +DT+  +K KI + E IP ++  + 
Sbjct: 107 -----------------QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLI 149

Query: 141 SSGAELQDHRSLRDCELMDNAEIDVHVR 168
            +G +L+D R+L D  +   + + + +R
Sbjct: 150 FAGKQLEDGRTLSDYNIQKESTLHLVLR 177

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

 Score = 53.8 bits (129), Expect = 4e-09
 Identities = 23/69 (33%), Positives = 37/69 (53%)

Query: 1   MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
             +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 106 GQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 165

Query: 61  ILQNSRIQL 69
           I + S + L
Sbjct: 166 IQKESTLHL 174

>1sif_A Ubiquitin; hydrophobic mutants, folding, stability, structural protein; 2.18A {Homo sapiens} SCOP: d.15.1.1 Length = 88

 Score = 60.8 bits (148), Expect = 2e-12
 Identities = 23/63 (36%), Positives = 38/63 (60%)

Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
          GK FT+E+   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    I + S + L
Sbjct: 19 GKTFTVEMEPSDTIENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHL 78

Query: 70 LVA 72
          ++ 
Sbjct: 79 VLR 81

>1sif_A Ubiquitin; hydrophobic mutants, folding, stability, structural protein; 2.18A {Homo sapiens} SCOP: d.15.1.1 Length = 88

 Score = 47.4 bits (113), Expect = 1e-07
 Identities = 23/81 (28%), Positives = 41/81 (50%), Gaps = 15/81 (18%)

Query: 103 HHHHHH---------------LPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQ 147
           HHHHHH                 ++M+ +DT+  LK KI + E IP ++  +  +G +L+
Sbjct: 1   HHHHHHLQGLQLFIKTLTGKTFTVEMEPSDTIENLKAKIQDKEGIPPDQQRLIFAGKQLE 60

Query: 148 DHRSLRDCELMDNAEIDVHVR 168
           D R+L D  +   + + + +R
Sbjct: 61  DGRTLSDYNIQKESTLHLVLR 81

>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 = 59.9 bits (146), Expect = 3e-12
 Identities = 22/62 (35%), Positives = 34/62 (54%)

Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
             + + V    TVL+ KE I K  GIPV  Q L+++G++L+DD+ VE   I     + L
Sbjct: 13 QDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESYHIQDGHSVHL 72

Query: 70 LV 71
          + 
Sbjct: 73 VK 74

>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 = 43.3 bits (103), Expect = 3e-06
 Identities = 18/79 (22%), Positives = 33/79 (41%), Gaps = 6/79 (7%)

Query: 91  HLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHR 150
            L I+I S            +++    TVL+ KE I++   IPV    +  SG  L+D +
Sbjct: 4   SLNIHIKSGQDKW------EVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQ 57

Query: 151 SLRDCELMDNAEIDVHVRP 169
           ++    + D   + +    
Sbjct: 58  TVESYHIQDGHSVHLVKSQ 76

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

 Score = 59.6 bits (145), Expect = 4e-12
 Identities = 21/60 (35%), Positives = 29/60 (48%), Gaps = 1/60 (1%)

Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
           +  T  VG    V E KE I     IP  KQ L++ G+VLQDD+ ++   +     I L
Sbjct: 27 SQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEYNV-GGKVIHL 85

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

 Score = 43.4 bits (103), Expect = 4e-06
 Identities = 17/78 (21%), Positives = 31/78 (39%), Gaps = 11/78 (14%)

Query: 81  TEQSSPSKKIHLKINI-PSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVN--RL 137
           +  ++  +   L++ +   +S+T          +     V   KE I    SIP    RL
Sbjct: 7   STSTAVEEPDSLEVLVKTLDSQTR------TFIVGAQMNVKEFKEHIAASVSIPSEKQRL 60

Query: 138 LVQSSGAELQDHRSLRDC 155
           +    G  LQD + L++ 
Sbjct: 61  I--YQGRVLQDDKKLQEY 76

>1yx5_B Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo sapiens} SCOP: d.15.1.1 PDB: 1yx6_B Length = 98

 Score = 59.4 bits (144), Expect = 7e-12
 Identities = 30/101 (29%), Positives = 47/101 (46%), Gaps = 14/101 (13%)

Query: 10  GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
           GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    I + S + L
Sbjct: 10  GKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHL 69

Query: 70  LVA--SDNKPQVKTEQSSPSKKIHLKINIPSNSKTHHHHHH 108
           ++       P   +     +            +  HHHHHH
Sbjct: 70  VLRLRGGRDPNSSSVDKLAA------------ALEHHHHHH 98

>1yx5_B Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo sapiens} SCOP: d.15.1.1 PDB: 1yx6_B Length = 98

 Score = 46.3 bits (110), Expect = 3e-07
 Identities = 16/61 (26%), Positives = 36/61 (59%)

Query: 108 HLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHV 167
            + L+++ +DT+  +K KI + E IP ++  +  +G +L+D R+L D  +   + + + +
Sbjct: 12  TITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVL 71

Query: 168 R 168
           R
Sbjct: 72  R 72

>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 = 58.9 bits (143), Expect = 8e-12
 Identities = 19/60 (31%), Positives = 31/60 (51%)

Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
          G ++   +     +L +K++IE  QG+P  +Q L F GQVLQD   +    I  +  + L
Sbjct: 17 GGSYAYAINPNSFILGLKQQIEDQQGLPKKQQQLEFQGQVLQDWLGLGIYGIQDSDTLIL 76

>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 = 45.5 bits (108), Expect = 6e-07
 Identities = 12/54 (22%), Positives = 26/54 (48%)

Query: 110 PLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEI 163
              ++ N  +L LK++I + + +P  +  ++  G  LQD   L    + D+  +
Sbjct: 21  AYAINPNSFILGLKQQIEDQQGLPKKQQQLEFQGQVLQDWLGLGIYGIQDSDTL 74

>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 = 61.1 bits (148), Expect = 9e-12
 Identities = 28/106 (26%), Positives = 47/106 (44%)

Query: 10  GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
           GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    I + S + L
Sbjct: 10  GKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHL 69

Query: 70  LVASDNKPQVKTEQSSPSKKIHLKINIPSNSKTHHHHHHLPLDMDV 115
           ++          +  +        + I       H    + L+MD 
Sbjct: 70  VLRLRGGGGETIKFVADGDIGSGSVIIKPFVDMEHPETSIKLEMDQ 115

>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 = 44.2 bits (104), Expect = 8e-06
 Identities = 16/61 (26%), Positives = 36/61 (59%)

Query: 108 HLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHV 167
            + L+++ +DT+  +K KI + E IP ++  +  +G +L+D R+L D  +   + + + +
Sbjct: 12  TITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVL 71

Query: 168 R 168
           R
Sbjct: 72  R 72

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

 Score = 59.3 bits (144), Expect = 1e-11
 Identities = 22/57 (38%), Positives = 33/57 (57%)

Query: 13 FTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
          + + V    TVL+ KE I K  GIPV  Q L+++G++L+DD+ VE   I     + L
Sbjct: 40 WEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESYHIQDGHSVHL 96

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

 Score = 41.9 bits (99), Expect = 2e-05
 Identities = 14/54 (25%), Positives = 27/54 (50%)

Query: 110 PLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEI 163
            +++    TVL+ KE I++   IPV    +  SG  L+D +++    + D   +
Sbjct: 41  EVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESYHIQDGHSV 94

>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 = 59.4 bits (144), Expect = 1e-11
 Identities = 16/63 (25%), Positives = 28/63 (44%)

Query: 10  GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
           G+     +   D V  IK KI +  G+P  KQ L + G  ++D   + +  +   + I L
Sbjct: 45  GQGLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDSNSLAYYNMASGAVIHL 104

Query: 70  LVA 72
            + 
Sbjct: 105 ALK 107

>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 = 47.9 bits (114), Expect = 2e-07
 Identities = 18/88 (20%), Positives = 35/88 (39%), Gaps = 3/88 (3%)

Query: 84  SSPSKKIHLKINIPSNSKTHHHH---HHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQ 140
                 + +K+ +P+             L   + + D V  +K KIHE   +P  +  +Q
Sbjct: 20  RRNKGPVSIKVQVPNMQDKTEWKLNGQGLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQ 79

Query: 141 SSGAELQDHRSLRDCELMDNAEIDVHVR 168
             G  ++D  SL    +   A I + ++
Sbjct: 80  YEGIFIKDSNSLAYYNMASGAVIHLALK 107

>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 = 59.0 bits (143), Expect = 1e-11
 Identities = 23/63 (36%), Positives = 37/63 (58%)

Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
          GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    I + S + L
Sbjct: 11 GKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHL 70

Query: 70 LVA 72
          ++ 
Sbjct: 71 VLR 73

>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 = 46.7 bits (111), Expect = 3e-07
 Identities = 16/61 (26%), Positives = 36/61 (59%)

Query: 108 HLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHV 167
            + L+++ +DT+  +K KI + E IP ++  +  +G +L+D R+L D  +   + + + +
Sbjct: 13  TITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVL 72

Query: 168 R 168
           R
Sbjct: 73  R 73

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

 Score = 59.9 bits (145), Expect = 1e-11
 Identities = 20/96 (20%), Positives = 34/96 (35%), Gaps = 14/96 (14%)

Query: 13  FTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVA 72
               V    +V + KE I K       +  L+F G++L+D   +    I     + L++ 
Sbjct: 44  EEFAVPENSSVQQFKEAISKRFKSQTDQLVLIFAGKILKDQDTLIQHGIHDGLTVHLVIK 103

Query: 73  SDNKPQVKTEQSSPSKKIHLKINIPSNSKTHHHHHH 108
            D       +               + +  HHHHHH
Sbjct: 104 RDPNSSSVDK--------------YAAALEHHHHHH 125

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

 Score = 47.5 bits (113), Expect = 3e-07
 Identities = 17/108 (15%), Positives = 39/108 (36%), Gaps = 8/108 (7%)

Query: 77  PQVKTEQSSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVNR 136
            Q      +  K I + +  P   +           +  N +V + KE I +      ++
Sbjct: 20  AQGSAAAPAEPKIIKVTVKTPKEKEE--------FAVPENSSVQQFKEAISKRFKSQTDQ 71

Query: 137 LLVQSSGAELQDHRSLRDCELMDNAEIDVHVRPSPTATSTTSSGMGPR 184
           L++  +G  L+D  +L    + D   + + ++  P ++S         
Sbjct: 72  LVLIFAGKILKDQDTLIQHGIHDGLTVHLVIKRDPNSSSVDKYAAALE 119

>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 = 58.1 bits (141), Expect = 1e-11
 Identities = 23/63 (36%), Positives = 37/63 (58%)

Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
          GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    I + S + L
Sbjct: 10 GKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQRESTLHL 69

Query: 70 LVA 72
          ++ 
Sbjct: 70 VLR 72

>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 = 48.1 bits (115), Expect = 5e-08
 Identities = 16/61 (26%), Positives = 36/61 (59%)

Query: 108 HLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHV 167
            + L+++ +DT+  +K KI + E IP ++  +  +G +L+D R+L D  +   + + + +
Sbjct: 12  TITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQRESTLHLVL 71

Query: 168 R 168
           R
Sbjct: 72  R 72

>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 = 58.5 bits (142), Expect = 1e-11
 Identities = 16/66 (24%), Positives = 29/66 (43%)

Query: 13 FTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVA 72
              +     V   K++I KY      +  L+F G++L+D   +    IL  S + ++V 
Sbjct: 29 HEFFLAENSNVRRFKKQISKYLHCNADRLVLIFTGKILRDQDILSQRGILDGSTVHVVVR 88

Query: 73 SDNKPQ 78
          S + P 
Sbjct: 89 SHSGPS 94

>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 = 48.5 bits (116), Expect = 7e-08
 Identities = 19/99 (19%), Positives = 39/99 (39%), Gaps = 8/99 (8%)

Query: 77  PQVKTEQSSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVNR 136
               + +   S+ I + +  P +             +  N  V R K++I +      +R
Sbjct: 5   SSGVSGREPSSRIIRVSVKTPQDCHE--------FFLAENSNVRRFKKQISKYLHCNADR 56

Query: 137 LLVQSSGAELQDHRSLRDCELMDNAEIDVHVRPSPTATS 175
           L++  +G  L+D   L    ++D + + V VR     +S
Sbjct: 57  LVLIFTGKILRDQDILSQRGILDGSTVHVVVRSHSGPSS 95

>2ojr_A Ubiquitin; lanthide-binding TAG, terbium, TB, SAD phasing, protein binding; 2.60A {Homo sapiens} Length = 111

 Score = 59.1 bits (143), Expect = 1e-11
 Identities = 23/63 (36%), Positives = 37/63 (58%)

Query: 10  GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
           GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    I + S + L
Sbjct: 45  GKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHL 104

Query: 70  LVA 72
           ++ 
Sbjct: 105 VLR 107

>2ojr_A Ubiquitin; lanthide-binding TAG, terbium, TB, SAD phasing, protein binding; 2.60A {Homo sapiens} Length = 111

 Score = 46.8 bits (111), Expect = 3e-07
 Identities = 16/60 (26%), Positives = 36/60 (60%)

Query: 109 LPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVR 168
           + L+++ +DT+  +K KI + E IP ++  +  +G +L+D R+L D  +   + + + +R
Sbjct: 48  ITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR 107

>2kdi_A Ubiquitin, vacuolar protein sorting-associated protein 27 fusion protein; ubiquitin interacting motif, UIM, protein domain interface; NMR {Saccharomyces cerevisiae} Length = 114

 Score = 59.1 bits (143), Expect = 1e-11
 Identities = 22/63 (34%), Positives = 37/63 (58%)

Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
          GK  T+EV   DT+  +K KI+  +GIP  +Q L++ G+ L+D R +    I + S + L
Sbjct: 19 GKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIWAGKQLEDGRTLSDYNIQRESTLHL 78

Query: 70 LVA 72
          ++ 
Sbjct: 79 VLR 81

>2kdi_A Ubiquitin, vacuolar protein sorting-associated protein 27 fusion protein; ubiquitin interacting motif, UIM, protein domain interface; NMR {Saccharomyces cerevisiae} Length = 114

 Score = 46.3 bits (110), Expect = 6e-07
 Identities = 16/59 (27%), Positives = 35/59 (59%)

Query: 110 PLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVR 168
            L+++ +DT+  +K KI + E IP ++  +  +G +L+D R+L D  +   + + + +R
Sbjct: 23  TLEVESSDTIDNVKSKIQDKEGIPPDQQRLIWAGKQLEDGRTLSDYNIQRESTLHLVLR 81

>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 = 62.7 bits (151), Expect = 2e-11
 Identities = 24/113 (21%), Positives = 46/113 (40%), Gaps = 3/113 (2%)

Query: 1   MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQG---IPVPKQTLVFNGQVLQDDRDVE 57
           + +  +  + + F I +   +TV  +KEKIE  +G    PV  Q L++ G++L DD  + 
Sbjct: 8   VTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIR 67

Query: 58  HCEILQNSRIQLLVASDNKPQVKTEQSSPSKKIHLKINIPSNSKTHHHHHHLP 110
              I + + + ++V      Q  +     S     + +            H P
Sbjct: 68  DYRIDEKNFVVVMVTKTKAGQGTSAPPEASPTAAPESSTSFPPAPTSGMSHPP 120

>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 = 45.4 bits (106), Expect = 9e-06
 Identities = 18/79 (22%), Positives = 33/79 (41%), Gaps = 3/79 (3%)

Query: 108 HLPLDMDVNDTVLRLKEKIHEME---SIPVNRLLVQSSGAELQDHRSLRDCELMDNAEID 164
              + M+ ++TV  LKEKI   +   + PV    +  +G  L D   +RD  + +   + 
Sbjct: 19  TFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIRDYRIDEKNFVV 78

Query: 165 VHVRPSPTATSTTSSGMGP 183
           V V  +     T++     
Sbjct: 79  VMVTKTKAGQGTSAPPEAS 97

>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 = 3e-11
 Identities = 14/63 (22%), Positives = 29/63 (46%)

Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
           +  T EV   +TV +IK  +   +GI    Q ++  G  L+D+  +  C +   + +++
Sbjct: 27 QELHTFEVTGQETVAQIKAHVASLEGIAPEDQVVLLAGAPLEDEATLGQCGVEALTTLEV 86

Query: 70 LVA 72
             
Sbjct: 87 AGR 89

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

 Score = 52.1 bits (125), Expect = 3e-09
 Identities = 20/86 (23%), Positives = 35/86 (40%), Gaps = 19/86 (22%)

Query: 102 THHHHHHLP-------------------LDMDVNDTVLRLKEKIHEMESIPVNRLLVQSS 142
           +HHHHHH                      ++   +TV ++K  +  +E I     +V  +
Sbjct: 4   SHHHHHHSSGLVPRGSMQLFVRAQELHTFEVTGQETVAQIKAHVASLEGIAPEDQVVLLA 63

Query: 143 GAELQDHRSLRDCELMDNAEIDVHVR 168
           GA L+D  +L  C +     ++V  R
Sbjct: 64  GAPLEDEATLGQCGVEALTTLEVAGR 89

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

 Score = 60.1 bits (145), Expect = 3e-11
 Identities = 16/96 (16%), Positives = 38/96 (39%), Gaps = 1/96 (1%)

Query: 10  GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDR-DVEHCEILQNSRIQ 68
           G+     +    +VL++K +I +  G  +   TLV NG +  +     +      + ++ 
Sbjct: 10  GETKIYTLEQGTSVLDLKSQISQDMGFEIDMMTLVNNGFIAPNTELVTDDVTYYLSLKLL 69

Query: 69  LLVASDNKPQVKTEQSSPSKKIHLKINIPSNSKTHH 104
                  K    T++ +  + +H K+   +  K  +
Sbjct: 70  GGKKKKKKKSYTTKKKTKHRHVHTKLGALAFYKLEN 105

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

 Score = 44.3 bits (104), Expect = 1e-05
 Identities = 7/47 (14%), Positives = 20/47 (42%)

Query: 108 HLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRD 154
                ++   +VL LK +I +     ++ + + ++G    +   + D
Sbjct: 12  TKIYTLEQGTSVLDLKSQISQDMGFEIDMMTLVNNGFIAPNTELVTD 58

>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 = 57.4 bits (139), Expect = 5e-11
 Identities = 12/66 (18%), Positives = 29/66 (43%)

Query: 13 FTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVA 72
              V    T+ ++KE+I +       +  L+F G++L+D   +  C +     + L++ 
Sbjct: 34 EDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQCGVRDGLTVHLVIK 93

Query: 73 SDNKPQ 78
            ++  
Sbjct: 94 RQHRAM 99

>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 = 46.2 bits (110), Expect = 5e-07
 Identities = 16/91 (17%), Positives = 36/91 (39%), Gaps = 8/91 (8%)

Query: 84  SSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSG 143
                 I + +  P + +           +    T+ +LKE+I +      ++L++  +G
Sbjct: 17  RGSPHLIKVTVKTPKDKED--------FSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAG 68

Query: 144 AELQDHRSLRDCELMDNAEIDVHVRPSPTAT 174
             L+D  SL  C + D   + + ++    A 
Sbjct: 69  KILKDPDSLAQCGVRDGLTVHLVIKRQHRAM 99

>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 = 56.5 bits (137), Expect = 6e-11
 Identities = 13/61 (21%), Positives = 32/61 (52%)

Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
          GK+  + V    TV ++K +++    +    Q L+F G+VL +   ++  ++   +++ L
Sbjct: 21 GKSIPLSVSPDCTVKDLKSQLQPITNVLPRGQKLIFKGKVLVETSTLKQSDVGSGAKLML 80

Query: 70 L 70
          +
Sbjct: 81 M 81

>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 = 44.6 bits (106), Expect = 1e-06
 Identities = 15/84 (17%), Positives = 35/84 (41%), Gaps = 13/84 (15%)

Query: 82  EQSSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVN--RLLV 139
              S S    +K+ +    K+       PL +  + TV  LK ++  + ++     +L+ 
Sbjct: 6   HHHSHST---IKLTVKFGGKSI------PLSVSPDCTVKDLKSQLQPITNVLPRGQKLIF 56

Query: 140 QSSGAELQDHRSLRDCELMDNAEI 163
              G  L +  +L+  ++   A++
Sbjct: 57  --KGKVLVETSTLKQSDVGSGAKL 78

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

 Score = 56.6 bits (137), Expect = 8e-11
 Identities = 15/65 (23%), Positives = 29/65 (44%)

Query: 13  FTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVA 72
               V    +V + KE+I K       +  L+F G++L+D   +    I     + L++ 
Sbjct: 37  EEFAVPENSSVQQFKEEISKRFKSHTDQLVLIFAGKILKDQDTLSQHGIHDGLTVHLVIK 96

Query: 73  SDNKP 77
           + N+P
Sbjct: 97  TQNRP 101

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

 Score = 43.1 bits (102), Expect = 6e-06
 Identities = 13/99 (13%), Positives = 36/99 (36%), Gaps = 8/99 (8%)

Query: 73  SDNKPQVKTEQSSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESI 132
             +  +         K + + +  P   +           +  N +V + KE+I +    
Sbjct: 9   HHSSGRENLYFQGHPKIMKVTVKTPKEKEE--------FAVPENSSVQQFKEEISKRFKS 60

Query: 133 PVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVRPSP 171
             ++L++  +G  L+D  +L    + D   + + ++   
Sbjct: 61  HTDQLVLIFAGKILKDQDTLSQHGIHDGLTVHLVIKTQN 99

>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 = 56.0 bits (135), Expect = 2e-10
 Identities = 17/64 (26%), Positives = 26/64 (40%), Gaps = 1/64 (1%)

Query: 10  GKAFTIEVG-FFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQ 68
           G+   I V    + V  +KEKI     IP  KQ L      L+D+  + H  +     + 
Sbjct: 40  GQFMEITVQSLSENVGSLKEKIAGEIQIPANKQKLSGKAGFLKDNMSLAHYNVGAGEILT 99

Query: 69  LLVA 72
           L + 
Sbjct: 100 LSLR 103

>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 = 40.6 bits (95), Expect = 5e-05
 Identities = 14/55 (25%), Positives = 25/55 (45%)

Query: 114 DVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVR 168
            +++ V  LKEKI     IP N+  +      L+D+ SL    +     + + +R
Sbjct: 49  SLSENVGSLKEKIAGEIQIPANKQKLSGKAGFLKDNMSLAHYNVGAGEILTLSLR 103

>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 = 54.3 bits (131), Expect = 5e-10
 Identities = 18/64 (28%), Positives = 31/64 (48%), Gaps = 1/64 (1%)

Query: 10 GKAFTIE-VGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQ 68
           K  TIE V    T+ E++E++     +    Q L + G+ L++   +   ++  N  IQ
Sbjct: 18 SKTCTIEDVSRKATIEELRERVWALFDVRPECQRLFYRGKQLENGYTLFDYDVGLNDIIQ 77

Query: 69 LLVA 72
          LLV 
Sbjct: 78 LLVR 81

>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 = 46.2 bits (110), Expect = 4e-07
 Identities = 19/86 (22%), Positives = 38/86 (44%), Gaps = 5/86 (5%)

Query: 84  SSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSG 143
           SS S  + +++     SKT         D+    T+  L+E++  +  +      +   G
Sbjct: 2   SSGSSGMWIQVRTIDGSKTC-----TIEDVSRKATIEELRERVWALFDVRPECQRLFYRG 56

Query: 144 AELQDHRSLRDCELMDNAEIDVHVRP 169
            +L++  +L D ++  N  I + VRP
Sbjct: 57  KQLENGYTLFDYDVGLNDIIQLLVRP 82

>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 = 55.1 bits (132), Expect = 5e-10
 Identities = 23/86 (26%), Positives = 39/86 (45%), Gaps = 1/86 (1%)

Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNS-RIQ 68
          GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    I + S    
Sbjct: 10 GKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHL 69

Query: 69 LLVASDNKPQVKTEQSSPSKKIHLKI 94
          +L       +   +  +        +
Sbjct: 70 VLRLRGGIIEPSLKALASKYNCDKSV 95

>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 = 40.8 bits (95), Expect = 6e-05
 Identities = 15/54 (27%), Positives = 32/54 (59%)

Query: 108 HLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNA 161
            + L+++ +DT+  +K KI + E IP ++  +  +G +L+D R+L D  +   +
Sbjct: 12  TITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKES 65

>3phx_B Ubiquitin-like protein ISG15; OTU domain, DE-ubiquitinase, DE-isgylase, hydrolase-protein complex; 1.60A {Homo sapiens} Length = 79

 Score = 53.5 bits (129), Expect = 6e-10
 Identities = 14/60 (23%), Positives = 28/60 (46%)

Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
          G++ T EV    TV  +K+++   +G+      L F G+ L+D   +    +   S + +
Sbjct: 14 GRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFM 73

>3phx_B Ubiquitin-like protein ISG15; OTU domain, DE-ubiquitinase, DE-isgylase, hydrolase-protein complex; 1.60A {Homo sapiens} Length = 79

 Score = 43.1 bits (102), Expect = 4e-06
 Identities = 11/59 (18%), Positives = 28/59 (47%)

Query: 110 PLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVR 168
             ++ +  TV  LK+++  +E +  +   +   G  L+D   L +  L   + + +++R
Sbjct: 18  TYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNLR 76

>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 Length = 95

 Score = 53.6 bits (129), Expect = 9e-10
 Identities = 13/69 (18%), Positives = 35/69 (50%), Gaps = 1/69 (1%)

Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
               ++V    T  E+K+KI    G+P   Q +++ G ++ +D+ +   ++   ++I +
Sbjct: 26 KTKHDVKVPLDSTGSELKQKIHSITGLPPAMQKVMYKG-LVPEDKTLREIKVTSGAKIMV 84

Query: 70 LVASDNKPQ 78
          + ++ + P 
Sbjct: 85 VGSTISGPS 93

>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 Length = 95

 Score = 42.8 bits (101), Expect = 6e-06
 Identities = 17/84 (20%), Positives = 35/84 (41%), Gaps = 7/84 (8%)

Query: 80  KTEQSSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLV 139
             +      K  + + I  N   H       + + ++ T   LK+KIH +  +P     V
Sbjct: 6   SGDAGGGVGKELVDLKIIWNKTKH------DVKVPLDSTGSELKQKIHSITGLPPAMQKV 59

Query: 140 QSSGAELQDHRSLRDCELMDNAEI 163
              G  + + ++LR+ ++   A+I
Sbjct: 60  MYKGL-VPEDKTLREIKVTSGAKI 82

>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 = 53.2 bits (128), Expect = 1e-09
 Identities = 14/60 (23%), Positives = 28/60 (46%)

Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
          G++ T EV    TV  +K+++   +G+      L F G+ L+D   +    +   S + +
Sbjct: 14 GRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFM 73

>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 = 45.5 bits (108), Expect = 7e-07
 Identities = 11/60 (18%), Positives = 28/60 (46%)

Query: 109 LPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVR 168
              ++ +  TV  LK+++  +E +  +   +   G  L+D   L +  L   + + +++R
Sbjct: 17  STYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNLR 76

>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 = 51.2 bits (123), Expect = 5e-09
 Identities = 15/59 (25%), Positives = 27/59 (45%)

Query: 13 FTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLV 71
              +     V E++ KI++   +    Q L + G+ ++D   +   E+  N  IQLLV
Sbjct: 17 TVDSLSRLTKVEELRRKIQELFHVEPGLQRLFYRGKQMEDGHTLFDYEVRLNDTIQLLV 75

>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 = 43.9 bits (104), Expect = 2e-06
 Identities = 16/63 (25%), Positives = 27/63 (42%)

Query: 108 HLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHV 167
           H    +     V  L+ KI E+  +      +   G +++D  +L D E+  N  I + V
Sbjct: 16  HTVDSLSRLTKVEELRRKIQELFHVEPGLQRLFYRGKQMEDGHTLFDYEVRLNDTIQLLV 75

Query: 168 RPS 170
           R S
Sbjct: 76  RQS 78

>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 = 51.1 bits (122), Expect = 8e-09
 Identities = 13/78 (16%), Positives = 28/78 (35%), Gaps = 1/78 (1%)

Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDD-RDVEHCEILQNSRIQ 68
             F+++V     +   +   E   G+P  +  +V+  Q+L DD   +    +     + 
Sbjct: 21 EVTFSLQVNPDFELSNFRVLCELESGVPAEEAQIVYMEQLLTDDHCSLGSYGLKDGDMVV 80

Query: 69 LLVASDNKPQVKTEQSSP 86
          LL   +   +      S 
Sbjct: 81 LLQKDNVGLRTPGRTPSG 98

>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 = 40.0 bits (93), Expect = 7e-05
 Identities = 11/76 (14%), Positives = 24/76 (31%), Gaps = 1/76 (1%)

Query: 110 PLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQD-HRSLRDCELMDNAEIDVHVR 168
            L ++ +  +   +        +P     +      L D H SL    L D   + +  +
Sbjct: 25  SLQVNPDFELSNFRVLCELESGVPAEEAQIVYMEQLLTDDHCSLGSYGLKDGDMVVLLQK 84

Query: 169 PSPTATSTTSSGMGPR 184
            +    +   +  GP 
Sbjct: 85  DNVGLRTPGRTPSGPS 100

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 54.9 bits (131), Expect = 1e-08
 Identities = 44/310 (14%), Positives = 89/310 (28%), Gaps = 116/310 (37%)

Query: 25  EIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQ--NSRIQLLVASDNKPQVKTE 82
            I+ ++ +       +  L+    VL    +V++ +     N   ++L+ +  K QV T+
Sbjct: 229 SIQAELRRLLKSKPYENCLL----VL---LNVQNAKAWNAFNLSCKILLTTRFK-QV-TD 279

Query: 83  QSSPSKKIHLKINIPSNSKTHHHHHHL---PLDMDVNDTVLRLKEKIHEMESIPVNRLLV 139
             S +   H+ ++  S + T      L    LD    D  L       E+ +   N   +
Sbjct: 280 FLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQD--LP-----REVLTT--NPRRL 330

Query: 140 QSSGAELQDHRSLRD-----------------CELMDNAEI------------DVHVRPS 170
                 ++D  +  D                   +++ AE               H+   
Sbjct: 331 SIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHI--- 387

Query: 171 PTATSTTSSGMGPRKLKLL-----------VLTQCGNKRIPVEVNASDNVSEL------- 212
           PT             L L+           V+ +     + VE    ++   +       
Sbjct: 388 PTIL-----------LSLIWFDVIKSDVMVVVNKLHKYSL-VEKQPKESTISIPSIYLEL 435

Query: 213 ---RKELQKLHQR----YHFH----------LPQDGYFFIYKQNVMDDDRSFRWHH---V 252
               +    LH+     Y+               D YF+           S   HH   +
Sbjct: 436 KVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFY-----------SHIGHHLKNI 484

Query: 253 GQGDTIEIFN 262
              + + +F 
Sbjct: 485 EHPERMTLFR 494

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 50.2 bits (119), Expect = 3e-07
 Identities = 30/158 (18%), Positives = 65/158 (41%), Gaps = 35/158 (22%)

Query: 103 HHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAE 162
           HHHHHH  +D +  +   + K+ +   E   V+    +    ++QD    +   ++   E
Sbjct: 1   HHHHHH--MDFETGEHQYQYKDILSVFEDAFVDNFDCK----DVQD--MPK--SILSKEE 50

Query: 163 IDVHVRPSPTATSTTSSGMGPRKLKLLVLTQCGNKRIPVEVNASDN------VSELRKEL 216
           ID H+  S  A S T       +L   +L++   + +   V           +S ++ E 
Sbjct: 51  ID-HIIMSKDAVSGT------LRLFWTLLSK-QEEMVQKFVEEVLRINYKFLMSPIKTEQ 102

Query: 217 QKLHQRYHFHLPQDGY-FFIYKQNVM-DDDRSFRWHHV 252
           ++         P      +I +++ + +D++ F  ++V
Sbjct: 103 RQ---------PSMMTRMYIEQRDRLYNDNQVFAKYNV 131

>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 Length = 96

 Score = 47.6 bits (113), Expect = 2e-07
 Identities = 15/81 (18%), Positives = 36/81 (44%), Gaps = 4/81 (4%)

Query: 8  QRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRI 67
           + K   +E+   +  +  K ++    G+   +Q ++  G  L+DD D  + ++     +
Sbjct: 15 GKEKFEGVELNTDEPPMVFKAQLFALTGVQPARQKVMVKGGTLKDD-DWGNIKMKNGMTV 73

Query: 68 QLLVASDN---KPQVKTEQSS 85
           ++ ++D    +P  KT   S
Sbjct: 74 LMMGSADALPEEPSAKTSGPS 94

>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 Length = 96

 Score = 41.8 bits (98), Expect = 2e-05
 Identities = 12/95 (12%), Positives = 32/95 (33%), Gaps = 12/95 (12%)

Query: 92  LKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRS 151
             + +    +         ++++ ++  +  K ++  +  +   R  V   G  L+D   
Sbjct: 8   YSVTVKWGKEKFE-----GVELNTDEPPMVFKAQLFALTGVQPARQKVMVKGGTLKDD-D 61

Query: 152 LRDCELMDNAEI------DVHVRPSPTATSTTSSG 180
             + ++ +   +      D         TS  SSG
Sbjct: 62  WGNIKMKNGMTVLMMGSADALPEEPSAKTSGPSSG 96

>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 = 49.0 bits (116), Expect = 5e-07
 Identities = 24/69 (34%), Positives = 38/69 (55%)

Query: 1   MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
           M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 234 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 293

Query: 61  ILQNSRIQL 69
           I + S + L
Sbjct: 294 IQKESTLHL 302

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

 Score = 45.0 bits (106), Expect = 2e-06
 Identities = 18/118 (15%), Positives = 37/118 (31%), Gaps = 15/118 (12%)

Query: 76  KPQVKTEQSSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIH-------- 127
                   + P+  I+L++ + S                 ND+   + + ++        
Sbjct: 4   HHHHLESSNVPADMINLRLILVSGKTK-------EFLFSPNDSASDIAKHVYDNWPMDWE 56

Query: 128 EMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVRPSPTATSTTSSGMGPRK 185
           E +    N L +   G  L  + +L   +L       +H+    T     S G   R+
Sbjct: 57  EEQVSSPNILRLIYQGRFLHGNVTLGALKLPFGKTTVMHLVARETLPEPNSQGQRNRE 114

>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 Length = 118

 Score = 42.3 bits (99), Expect = 1e-05
 Identities = 17/62 (27%), Positives = 26/62 (41%), Gaps = 1/62 (1%)

Query: 1  MDVIFEPQRGKA-FTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHC 59
          MDV    +R K     +     TV E+K  +E     P  +Q L  + Q+L D + +  C
Sbjct: 1  MDVFLMIRRHKTTIFTDAKESSTVFELKRIVEGILKRPPEEQRLYKDDQLLDDGKTLGEC 60

Query: 60 EI 61
            
Sbjct: 61 GF 62

>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 Length = 118

 Score = 38.1 bits (88), Expect = 5e-04
 Identities = 11/57 (19%), Positives = 19/57 (33%)

Query: 101 KTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCEL 157
               H   +  D   + TV  LK  +  +   P     +      L D ++L +C  
Sbjct: 6   MIRRHKTTIFTDAKESSTVFELKRIVEGILKRPPEEQRLYKDDQLLDDGKTLGECGF 62

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

 Score = 40.7 bits (95), Expect = 4e-05
 Identities = 22/96 (22%), Positives = 36/96 (37%), Gaps = 7/96 (7%)

Query: 84  SSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEM--ESIPVNRLLVQS 141
           SS S  + L +  P+       H  L L  D   +V  LK  +  +  E        +  
Sbjct: 2   SSGSSGVTLLVKSPNQR-----HRDLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIY 56

Query: 142 SGAELQDHRSLRDCELMDNAEIDVHVRPSPTATSTT 177
           SG  L DH+ LRD          +H+  +  +  ++
Sbjct: 57  SGKLLLDHQCLRDLLPKQEKRHVLHLVCNVKSGPSS 92

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

 Score = 38.8 bits (90), Expect = 2e-04
 Identities = 13/75 (17%), Positives = 30/75 (40%), Gaps = 4/75 (5%)

Query: 8  QRGKAFTIEVGFFDTVLEIKEKIEK--YQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNS 65
          QR +   +      +V  +K  + +   +      Q L+++G++L D + +      Q  
Sbjct: 17 QRHRDLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLLDHQCLRDLLPKQEK 76

Query: 66 R--IQLLVASDNKPQ 78
          R  + L+    + P 
Sbjct: 77 RHVLHLVCNVKSGPS 91

>2dzm_A FAS-associated factor 1; ubiquitin-like domain, HFAF1, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 100

 Score = 39.7 bits (92), Expect = 1e-04
 Identities = 16/84 (19%), Positives = 36/84 (42%), Gaps = 1/84 (1%)

Query: 9   RGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLV-FNGQVLQDDRDVEHCEILQNSRI 67
           R +   + +    TV EIK+ +E    IPV K  L  +    ++D   ++   + +N+ +
Sbjct: 17  RDRNVDVVLEDTCTVGEIKQILENELQIPVSKMLLKGWKTGDVEDSTVLKSLHLPKNNSL 76

Query: 68  QLLVASDNKPQVKTEQSSPSKKIH 91
            +L      P   +   +  + ++
Sbjct: 77  YVLTPDLPPPSSSSHAGALQESLN 100

>4dbg_A Ranbp-type and C3HC4-type zinc finger-containing; ubiquitin fold, ubiquitination, ligase; 2.71A {Homo sapiens} PDB: 2lgy_A Length = 105

 Score = 39.2 bits (91), Expect = 2e-04
 Identities = 11/56 (19%), Positives = 20/56 (35%)

Query: 9  RGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQN 64
                + V    TV  +K+ +    G P   Q  V   ++ +D   +    + QN
Sbjct: 35 HTVTIWLTVRPDMTVASLKDMVFLDYGFPPVLQQWVIGQRLARDQETLHSHGVRQN 90

>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 Length = 92

 Score = 38.6 bits (89), Expect = 2e-04
 Identities = 13/57 (22%), Positives = 29/57 (50%), Gaps = 1/57 (1%)

Query: 22 TVLEIKEKIEKYQGIPVPKQTLVFNGQVLQD-DRDVEHCEILQNSRIQLLVASDNKP 77
           V ++ + +E+  G+P   Q L+F G+ L++ +  +    I    R+ L+   ++ P
Sbjct: 33 VVQDLAQVVEEVIGVPQSFQKLIFKGKSLKEMETPLSALGIQDGCRVMLIGKKNSGP 89

>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 Length = 107

 Score = 38.3 bits (88), Expect = 3e-04
 Identities = 14/60 (23%), Positives = 28/60 (46%), Gaps = 3/60 (5%)

Query: 22  TVLEIKEKIEKYQGIPVP---KQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKPQ 78
           ++  +K+ I       VP      L++ G+ L+DD+ ++   I   S + +L  S + P 
Sbjct: 46  SISFLKQLIAGKLQESVPDPELIDLIYCGRKLKDDQTLDFYGIQPGSTVHVLRKSWSGPS 105

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	269
3rt3_B	159	Ubiquitin-like protein ISG15; ubiquitin-like domai	100.0
3u30_A	172	Ubiquitin, linear DI-ubiquitin; immune system; 2.4	100.0
3u30_A	172	Ubiquitin, linear DI-ubiquitin; immune system; 2.4	100.0
3rt3_B	159	Ubiquitin-like protein ISG15; ubiquitin-like domai	100.0
3b08_A	152	Polyubiquitin-C, ubiquitin; protein complex, signa	100.0
3b08_A	152	Polyubiquitin-C, ubiquitin; protein complex, signa	99.97
3phx_B	79	Ubiquitin-like protein ISG15; OTU domain, DE-ubiqu	99.81
3plu_A	93	Ubiquitin-like modifier HUB1; ubiquitin-like, HUB-	99.81
4fbj_B	88	NEDD8; effector-HOST target complex, glutamine dea	99.81
3plu_A	93	Ubiquitin-like modifier HUB1; ubiquitin-like, HUB-	99.81
1ndd_A	76	NEDD8, protein (ubiquitin-like protein NEDD8); pro	99.79
3a9j_A	76	Ubiquitin; protein complex, cytoplasm, isopeptide	99.78
2kk8_A	84	Uncharacterized protein AT4G05270; solution arabid	99.78
2uyz_B	79	Small ubiquitin-related modifier 1; sumoylation, c	99.78
3dbh_I	88	NEDD8; cell cycle, activating enzyme, apoptosis, m	99.78
4hcn_B	98	Polyubiquitin, ubiquitin; ubiquitin/NEDD8 deamidas	99.78
3n3k_B	85	Ubiquitin; hydrolase, protease, thiol protease, DU	99.77
1sif_A	88	Ubiquitin; hydrophobic mutants, folding, stability	99.77
1uh6_A	100	Ubiquitin-like 5; beta-grAsp fold, structural geno	99.77
4dwf_A	90	HLA-B-associated transcript 3; ubiquitin-like doma	99.77
3k9o_B	96	Ubiquitin, UBB+1; E2-25K, complex structure, ATP-b	99.77
1wy8_A	89	NP95-like ring finger protein, isoform A; ubiquiti	99.77
1wyw_B	97	Ubiquitin-like protein SMT3C; hydrolase; 2.10A {Ho	99.77
1uh6_A	100	Ubiquitin-like 5; beta-grAsp fold, structural geno	99.77
3mtn_B	85	UBA80, ubcep1, ubiquitin variant UBV.21.4; ubiquit	99.76
2lxa_A	87	Ubiquitin-like protein MDY2; ubiquitin-like domain	99.76
1wh3_A	87	59 kDa 2'-5'-oligoadenylate synthetase like protei	99.76
3v6c_B	91	Ubiquitin; structural genomics, structural genomic	99.76
1yx5_B	98	Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo s	99.76
2hj8_A	88	Interferon-induced 17 kDa protein; HR2873B, human	99.76
2faz_A	78	Ubiquitin-like containing PHD and ring finger DOM	99.76
4eew_A	88	Large proline-rich protein BAG6; ubiquitin-like fo	99.76
2kan_A	94	Uncharacterized protein AR3433A; ubiquitin fold, a	99.76
1uel_A	95	HHR23B, UV excision repair protein RAD23 homolog B	99.75
3phx_B	79	Ubiquitin-like protein ISG15; OTU domain, DE-ubiqu	99.75
3vdz_A	111	Ubiquitin-40S ribosomal protein S27A; gadolinium,	99.75
4fbj_B	88	NEDD8; effector-HOST target complex, glutamine dea	99.75
3v6c_B	91	Ubiquitin; structural genomics, structural genomic	99.75
3dbh_I	88	NEDD8; cell cycle, activating enzyme, apoptosis, m	99.75
4hcn_B	98	Polyubiquitin, ubiquitin; ubiquitin/NEDD8 deamidas	99.75
4eew_A	88	Large proline-rich protein BAG6; ubiquitin-like fo	99.75
2l7r_A	93	Ubiquitin-like protein FUBI; structural genomics,	99.74
3m62_B	106	UV excision repair protein RAD23; armadillo-like r	99.74
2wyq_A	85	HHR23A, UV excision repair protein RAD23 homolog A	99.74
1wh3_A	87	59 kDa 2'-5'-oligoadenylate synthetase like protei	99.74
4a20_A	98	Ubiquitin-like protein MDY2; protein binding, GET-	99.74
1wgd_A	93	Homocysteine-responsive endoplasmic reticulum- res	99.73
4dwf_A	90	HLA-B-associated transcript 3; ubiquitin-like doma	99.73
2kk8_A	84	Uncharacterized protein AT4G05270; solution arabid	99.73
3l0w_B	169	Monoubiquitinated proliferating cell nuclear antig	99.73
2dzi_A	81	Ubiquitin-like protein 4A; GDX, structural genomic	99.73
2fnj_B	118	Transcription elongation factor B polypeptide 2; b	99.72
1uel_A	95	HHR23B, UV excision repair protein RAD23 homolog B	99.72
2ojr_A	111	Ubiquitin; lanthide-binding TAG, terbium, TB, SAD	99.72
3q3f_A	189	Ribonuclease/ubiquitin chimeric protein; domain SW	99.72
2uyz_B	79	Small ubiquitin-related modifier 1; sumoylation, c	99.72
1yqb_A	100	Ubiquilin 3; structural genomics consortium, ubiqu	99.72
2bwf_A	77	Ubiquitin-like protein DSK2; signaling protein, UB	99.72
3b1l_X	76	E3 ubiquitin-protein ligase parkin; proteasome, AL	99.56
3n3k_B	85	Ubiquitin; hydrolase, protease, thiol protease, DU	99.72
3m63_B	101	Ubiquitin domain-containing protein DSK2; armadill	99.72
2lxa_A	87	Ubiquitin-like protein MDY2; ubiquitin-like domain	99.71
1wx8_A	96	Riken cDNA 4931431F19; ubiquitin-like domain, ubiq	99.71
2hj8_A	88	Interferon-induced 17 kDa protein; HR2873B, human	99.71
1wju_A	100	NEDD8 ultimate buster-1; ubiquitin-like domain, st	99.71
1wyw_B	97	Ubiquitin-like protein SMT3C; hydrolase; 2.10A {Ho	99.71
2l7r_A	93	Ubiquitin-like protein FUBI; structural genomics,	99.71
3mtn_B	85	UBA80, ubcep1, ubiquitin variant UBV.21.4; ubiquit	99.71
2kan_A	94	Uncharacterized protein AR3433A; ubiquitin fold, a	99.71
4ajy_B	118	Transcription elongation factor B polypeptide 2; E	99.71
1ndd_A	76	NEDD8, protein (ubiquitin-like protein NEDD8); pro	99.7
1sif_A	88	Ubiquitin; hydrophobic mutants, folding, stability	99.7
1wy8_A	89	NP95-like ring finger protein, isoform A; ubiquiti	99.7
2wyq_A	85	HHR23A, UV excision repair protein RAD23 homolog A	99.7
4a20_A	98	Ubiquitin-like protein MDY2; protein binding, GET-	99.7
1ttn_A	106	DC-UBP, dendritic cell-derived ubiquitin-like prot	99.7
1v2y_A	105	3300001G02RIK protein; hypothetical protein, ubiqu	99.7
2faz_A	78	Ubiquitin-like containing PHD and ring finger DOM	99.7
2kdi_A	114	Ubiquitin, vacuolar protein sorting-associated pro	99.7
1v5o_A	102	1700011N24RIK protein; hypothetical protein, ubiqu	99.7
2klc_A	101	Ubiquilin-1; ubiquitin-like, structural genomics,	99.7
2dzi_A	81	Ubiquitin-like protein 4A; GDX, structural genomic	99.7
1wx7_A	106	Ubiquilin 3; ubiquitin-like domain, structural gen	99.69
1wju_A	100	NEDD8 ultimate buster-1; ubiquitin-like domain, st	99.69
3m62_B	106	UV excision repair protein RAD23; armadillo-like r	99.69
1v2y_A	105	3300001G02RIK protein; hypothetical protein, ubiqu	99.69
2fnj_B	118	Transcription elongation factor B polypeptide 2; b	99.69
1wgh_A	116	Ubiquitin-like 3, HCG-1 protein; ubiquitin-like fo	99.69
3k9o_B	96	Ubiquitin, UBB+1; E2-25K, complex structure, ATP-b	99.69
3a9j_A	76	Ubiquitin; protein complex, cytoplasm, isopeptide	99.69
1j8c_A	125	Ubiquitin-like protein hplic-2; ubiquitin-like dom	99.69
3vdz_A	111	Ubiquitin-40S ribosomal protein S27A; gadolinium,	99.69
1we6_A	111	Splicing factor, putative; structural genomics, ub	99.68
2bwf_A	77	Ubiquitin-like protein DSK2; signaling protein, UB	99.68
1se9_A	126	Ubiquitin family; ubiquitin-like, cell-free, wheat	99.68
4ajy_B	118	Transcription elongation factor B polypeptide 2; E	99.68
4dbg_A	105	Ranbp-type and C3HC4-type zinc finger-containing;	99.67
2ojr_A	111	Ubiquitin; lanthide-binding TAG, terbium, TB, SAD	99.67
1ttn_A	106	DC-UBP, dendritic cell-derived ubiquitin-like prot	99.67
3u5e_m	128	60S ribosomal protein L40; translation, ribosome,	99.67
1wx8_A	96	Riken cDNA 4931431F19; ubiquitin-like domain, ubiq	99.67
1wgd_A	93	Homocysteine-responsive endoplasmic reticulum- res	99.66
2gow_A	125	HCG-1 protein, ubiquitin-like protein 3; BC059385,	99.66
1wgh_A	116	Ubiquitin-like 3, HCG-1 protein; ubiquitin-like fo	99.66
1v5o_A	102	1700011N24RIK protein; hypothetical protein, ubiqu	99.66
1yx5_B	98	Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo s	99.66
3u5c_f	152	40S ribosomal protein S31; translation, ribosome,	99.65
1yqb_A	100	Ubiquilin 3; structural genomics consortium, ubiqu	99.65
2klc_A	101	Ubiquilin-1; ubiquitin-like, structural genomics,	99.65
3l0w_B	169	Monoubiquitinated proliferating cell nuclear antig	99.65
2kdb_A	99	Homocysteine-responsive endoplasmic reticulum- res	99.64
1j8c_A	125	Ubiquitin-like protein hplic-2; ubiquitin-like dom	99.64
4dbg_A	105	Ranbp-type and C3HC4-type zinc finger-containing;	99.64
1wx7_A	106	Ubiquilin 3; ubiquitin-like domain, structural gen	99.64
2kdb_A	99	Homocysteine-responsive endoplasmic reticulum- res	99.64
3m63_B	101	Ubiquitin domain-containing protein DSK2; armadill	99.64
1we7_A	115	SF3A1 protein; structural genomics, ubiquitin-like	99.64
1wia_A	95	Hypothetical ubiquitin-like protein (riken cDNA 20	99.63
1v5t_A	90	8430435I17RIK protein; hypothetical protein, ubiqu	99.63
1v5t_A	90	8430435I17RIK protein; hypothetical protein, ubiqu	99.63
2gow_A	125	HCG-1 protein, ubiquitin-like protein 3; BC059385,	99.63
1se9_A	126	Ubiquitin family; ubiquitin-like, cell-free, wheat	99.63
1wgg_A	96	Ubiquitin carboxyl-terminal hydrolase 14; ubiquiti	99.63
3q3f_A	189	Ribonuclease/ubiquitin chimeric protein; domain SW	99.63
1we6_A	111	Splicing factor, putative; structural genomics, ub	99.63
1wgg_A	96	Ubiquitin carboxyl-terminal hydrolase 14; ubiquiti	99.63
2kdi_A	114	Ubiquitin, vacuolar protein sorting-associated pro	99.62
2kd0_A	85	LRR repeats and ubiquitin-like domain-containing p	99.62
1x1m_A	107	Ubiquitin-like protein SB132; structural genomics,	99.61
3b1l_X	76	E3 ubiquitin-protein ligase parkin; proteasome, AL	99.4
2daf_A	118	FLJ35834 protein; hypothetical protein FLJ35834, u	99.6
2kd0_A	85	LRR repeats and ubiquitin-like domain-containing p	99.6
1wxv_A	92	BAG-family molecular chaperone regulator-1; struct	99.59
1wia_A	95	Hypothetical ubiquitin-like protein (riken cDNA 20	99.59
1v86_A	95	DNA segment, CHR 7, wayne state university 128, ex	99.59
2dzj_A	88	Synaptic glycoprotein SC2; ubiquitin-like fold, st	99.58
2dzm_A	100	FAS-associated factor 1; ubiquitin-like domain, HF	99.58
1v86_A	95	DNA segment, CHR 7, wayne state university 128, ex	99.58
1wxv_A	92	BAG-family molecular chaperone regulator-1; struct	99.57
2dzm_A	100	FAS-associated factor 1; ubiquitin-like domain, HF	99.57
4b6w_A	86	Tubulin-specific chaperone; CAP-Gly, ubiquitin-lik	99.57
2dzj_A	88	Synaptic glycoprotein SC2; ubiquitin-like fold, st	99.56
1x1m_A	107	Ubiquitin-like protein SB132; structural genomics,	99.56
3u5c_f	152	40S ribosomal protein S31; translation, ribosome,	99.56
1we7_A	115	SF3A1 protein; structural genomics, ubiquitin-like	99.56
2daf_A	118	FLJ35834 protein; hypothetical protein FLJ35834, u	99.56
2kjr_A	95	CG11242; UBL, ubiquitin, ubiquitin-like, structura	99.56
3u5e_m	128	60S ribosomal protein L40; translation, ribosome,	99.55
2xzm_9	189	RPS31E; ribosome, translation; 3.93A {Tetrahymena	99.55
2kj6_A	97	Tubulin folding cofactor B; methods development, N	99.53
2kjr_A	95	CG11242; UBL, ubiquitin, ubiquitin-like, structura	99.53
3ai5_A	307	Yeast enhanced green fluorescent protein, ubiquit;	99.52
2io1_B	94	Small ubiquitin-related modifier 3 precursor; SUMO	99.51
4b6w_A	86	Tubulin-specific chaperone; CAP-Gly, ubiquitin-lik	99.51
2io1_B	94	Small ubiquitin-related modifier 3 precursor; SUMO	99.49
1oqy_A	368	HHR23A, UV excision repair protein RAD23 homolog A	99.49
1v6e_A	95	Cytoskeleton-associated protein 1; tubulin-specifi	99.48
1oqy_A	368	HHR23A, UV excision repair protein RAD23 homolog A	99.48
1wf9_A	107	NPL4 family protein; beta-grAsp fold like domain,	99.47
2kj6_A	97	Tubulin folding cofactor B; methods development, N	99.47
2io0_B	91	Small ubiquitin-related modifier 2 precursor; SUMO	99.45
3ai5_A	307	Yeast enhanced green fluorescent protein, ubiquit;	99.45
1wf9_A	107	NPL4 family protein; beta-grAsp fold like domain,	99.43
1v6e_A	95	Cytoskeleton-associated protein 1; tubulin-specifi	99.42
2d07_B	93	Ubiquitin-like protein SMT3B; hydrolase; 2.10A {Ho	99.41
2xzm_9	189	RPS31E; ribosome, translation; 3.93A {Tetrahymena	99.4
2io0_B	91	Small ubiquitin-related modifier 2 precursor; SUMO	99.39
1wm3_A	72	Ubiquitin-like protein SMT3B; ubiquitin fold, half	99.38
1t0y_A	122	Tubulin folding cofactor B; ubiquitin-like, cytosk	99.38
1t0y_A	122	Tubulin folding cofactor B; ubiquitin-like, cytosk	99.37
2kzr_A	86	Ubiquitin thioesterase OTU1; structural genomics,	99.37
3a4r_A	79	Nfatc2-interacting protein; ubiquitin fold, coiled	99.35
2eke_C	106	Ubiquitin-like protein SMT3; UBC9, SUMO binding mo	99.34
1wz0_A	104	Ubiquitin-like protein SMT3B; SUMO-2, ubiquitin-li	99.34
1wm3_A	72	Ubiquitin-like protein SMT3B; ubiquitin fold, half	99.32
3a4r_A	79	Nfatc2-interacting protein; ubiquitin fold, coiled	99.31
3shq_A	320	UBLCP1; phosphatase, hydrolase; 1.96A {Drosophila	99.3
1wz0_A	104	Ubiquitin-like protein SMT3B; SUMO-2, ubiquitin-li	99.3
2kzr_A	86	Ubiquitin thioesterase OTU1; structural genomics,	99.29
2k8h_A	110	Small ubiquitin protein; SUMO, post-translational	99.29
2d07_B	93	Ubiquitin-like protein SMT3B; hydrolase; 2.10A {Ho	99.27
3shq_A	320	UBLCP1; phosphatase, hydrolase; 1.96A {Drosophila	99.27
2eke_C	106	Ubiquitin-like protein SMT3; UBC9, SUMO binding mo	99.26
2k8h_A	110	Small ubiquitin protein; SUMO, post-translational	99.25
1wjn_A	97	Tubulin-folding protein TBCE; ubiquitin-like domai	99.17
1wjn_A	97	Tubulin-folding protein TBCE; ubiquitin-like domai	99.06
3kyd_D	115	Small ubiquitin-related modifier 1; SUMO, thioeste	99.03
3kyd_D	115	Small ubiquitin-related modifier 1; SUMO, thioeste	98.89
3pge_A	200	SUMO-modified proliferating cell nuclear antigen;	98.87
3tix_A	207	Ubiquitin-like protein SMT3, RNA-induced transcri	98.8
3pge_A	200	SUMO-modified proliferating cell nuclear antigen;	98.79
3tix_A	207	Ubiquitin-like protein SMT3, RNA-induced transcri	98.72
3v7o_A	227	Minor nucleoprotein VP30; ssgcid, seattle structur	98.61
3goe_A	82	DNA repair protein RAD60; SUMO-like domain, sumoyl	98.59
2pjh_A	80	Protein NPL4, nuclear protein localization protein	98.54
3v7o_A	227	Minor nucleoprotein VP30; ssgcid, seattle structur	98.49
2jxx_A	97	Nfatc2-interacting protein; nuclear factor of acti	98.4
2jxx_A	97	Nfatc2-interacting protein; nuclear factor of acti	98.39
3goe_A	82	DNA repair protein RAD60; SUMO-like domain, sumoyl	98.33
2pjh_A	80	Protein NPL4, nuclear protein localization protein	98.33
4efo_A	94	Serine/threonine-protein kinase TBK1; ubiquitin li	98.22
3uf8_A	209	Ubiquitin-like protein SMT3, peptidyl-prolyl CIS-	98.19
2l76_A	95	Nfatc2-interacting protein; ubiquitin-like domain,	98.09
3ix6_A	360	TS, tsase, thymidylate synthase; niaid, ssgcid, se	98.09
3uf8_A	209	Ubiquitin-like protein SMT3, peptidyl-prolyl CIS-	97.98
2al3_A	90	TUG long isoform; TUG UBL1 insulin, endocytosis/ex	97.92
2l76_A	95	Nfatc2-interacting protein; ubiquitin-like domain,	97.92
4efo_A	94	Serine/threonine-protein kinase TBK1; ubiquitin li	97.91
2al3_A	90	TUG long isoform; TUG UBL1 insulin, endocytosis/ex	97.83
2kc2_A	128	Talin-1, F1; FERM, adhesion, cell membrane, cell p	97.79
3ix6_A	360	TS, tsase, thymidylate synthase; niaid, ssgcid, se	97.79
2kc2_A	128	Talin-1, F1; FERM, adhesion, cell membrane, cell p	97.71
4da1_A	389	Protein phosphatase 1K, mitochondrial; metal-ION-a	97.68
2bps_A	81	YUKD protein; ubiquitin-like protein, ubiquitin; 2	97.64
2bps_A	81	YUKD protein; ubiquitin-like protein, ubiquitin; 2	97.54
4da1_A	389	Protein phosphatase 1K, mitochondrial; metal-ION-a	97.49
3ivf_A	371	Talin-1; FERM domain, cell membrane, cell projecti	97.39
3ivf_A	371	Talin-1; FERM domain, cell membrane, cell projecti	97.32
3qx1_A	84	FAS-associated factor 1; UBX, protein binding, P97	97.29
3qx1_A	84	FAS-associated factor 1; UBX, protein binding, P97	97.19
2ylm_A	530	Ubiquitin carboxyl-terminal hydrolase 7; UBL; 2.70	97.01
2dzk_A	109	UBX domain-containing protein 2; ubiquitin-like fo	96.97
1ryj_A	70	Unknown; beta/alpha protein, structural genomics,	96.69
4e71_A	111	Plexin-B2, MM1; transmembrane, signaling, RBD, str	96.59
2dzk_A	109	UBX domain-containing protein 2; ubiquitin-like fo	96.47
1wj4_A	124	KIAA0794 protein; UBX domain, beta-grAsp fold, str	96.42
2r2o_A	138	Plexin-B1; effector domain, structural genomics, s	96.35
2l32_A	74	Small archaeal modifier protein 2; protein BIN; NM	96.35
1wj4_A	124	KIAA0794 protein; UBX domain, beta-grAsp fold, str	96.28
1tyg_B	87	YJBS; alpha beta barrel, protein-protein complex,	96.24
2cr5_A	109	Reproduction 8; UBX domain, D0H8S2298E protein, st	96.22
2daj_A	91	KIAA0977 protein, COBL-like 1; ubiquitin-like doma	95.88
4e74_A	117	Plexin-A4; RBD, structural genomics, structural ge	95.59
3h6n_A	127	Plexin-D1; structural genomics consortium, SGC, me	95.32
2kl0_A	73	Putative thiamin biosynthesis THis; structural gen	95.32
4e71_A	111	Plexin-B2, MM1; transmembrane, signaling, RBD, str	95.3
2cr5_A	109	Reproduction 8; UBX domain, D0H8S2298E protein, st	95.27
2l32_A	74	Small archaeal modifier protein 2; protein BIN; NM	95.17
2ylm_A	530	Ubiquitin carboxyl-terminal hydrolase 7; UBL; 2.70	95.04
2daj_A	91	KIAA0977 protein, COBL-like 1; ubiquitin-like doma	95.0
3jyu_A	231	Ubiquitin carboxyl-terminal hydrolase; domain in u	94.97
1s3s_G	127	P47 protein; AAA ATPase, protein-protein complex,	94.96
2k5p_A	78	THis protein, thiamine-biosynthesis protein; NESG,	94.87
3rpf_C	74	Molybdopterin converting factor, subunit 1 (MOAD);	94.79
4a3p_A	217	Ubiquitin carboxyl-terminal hydrolase 15; 1.40A {H	94.74
3kuz_A	126	Plexin-C1; structural genomics, structural genomic	94.73
1s3s_G	127	P47 protein; AAA ATPase, protein-protein complex,	94.54
3h6n_A	127	Plexin-D1; structural genomics consortium, SGC, me	94.11
1ryj_A	70	Unknown; beta/alpha protein, structural genomics,	94.07
1vjk_A	98	Molybdopterin converting factor, subunit 1; struct	94.01
2juo_A	89	GA-binding protein alpha chain; OST, ubiquitin, tr	93.8
2cu3_A	64	Unknown function protein; thermus thermophilus HB8	93.55
1oey_A	83	P67-PHOX, neutrophil cytosol factor 2; immune syst	93.21
3po0_A	89	Small archaeal modifier protein 1; ubiquitin-like	93.18
4e74_A	117	Plexin-A4; RBD, structural genomics, structural ge	93.05
1f0z_A	66	THis protein; ubiquitin fold, transport protein; N	92.8
1fm0_D	81	Molybdopterin convertin factor, subunit 1; molybde	92.69
2r2o_A	138	Plexin-B1; effector domain, structural genomics, s	92.67
2juo_A	89	GA-binding protein alpha chain; OST, ubiquitin, tr	92.35
2q5w_D	77	Molybdopterin converting factor, subunit 1; MOCO,	91.79
3hm6_X	644	Plexin-B1; structural genomics consortium, SGC, me	91.33
1rws_A	77	Hypothetical protein PF1061; residual dipolar coup	91.27
3rpf_C	74	Molybdopterin converting factor, subunit 1 (MOAD);	90.67
3jyu_A	231	Ubiquitin carboxyl-terminal hydrolase; domain in u	90.62
4a3p_A	217	Ubiquitin carboxyl-terminal hydrolase 15; 1.40A {H	90.59
1vjk_A	98	Molybdopterin converting factor, subunit 1; struct	90.52
3ig3_A	627	Plxna3 protein; plexin intracellular GAP RBD inact	90.41
3kuz_A	126	Plexin-C1; structural genomics, structural genomic	89.54
1tyg_B	87	YJBS; alpha beta barrel, protein-protein complex,	88.61
1wgk_A	114	Riken cDNA 2900073H19 protein; THis domain, ubiqut	88.37
2kvr_A	130	Ubiquitin carboxyl-terminal hydrolase 7; USP7, ubi	88.09
1oey_A	83	P67-PHOX, neutrophil cytosol factor 2; immune syst	87.7
2kl0_A	73	Putative thiamin biosynthesis THis; structural gen	87.7
2g1e_A	90	Hypothetical protein TA0895; MOAD, molybdopterin,	87.68
3dwg_C	93	9.5 kDa culture filtrate antigen CFP10A; sulfur ca	85.59
3dwg_C	93	9.5 kDa culture filtrate antigen CFP10A; sulfur ca	85.46
2qjl_A	99	URM1, ubiquitin-related modifier 1; ubiquitin-like	84.62
1f0z_A	66	THis protein; ubiquitin fold, transport protein; N	84.33
3po0_A	89	Small archaeal modifier protein 1; ubiquitin-like	84.14
1ef1_A	294	Moesin; membrane, FERM domain, tail domain, membra	81.21
2k5p_A	78	THis protein, thiamine-biosynthesis protein; NESG,	80.89
3ig3_A	627	Plxna3 protein; plexin intracellular GAP RBD inact	80.41
1h4r_A	314	Merlin; FERM, neurofibromatosis, NF2, structural p	80.2

>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=100.00  E-value=9.1e-34  Score=228.11  Aligned_cols=150  Identities=19%  Similarity=0.288  Sum_probs=139.8

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEE-E-cCEEcCCCCccccCCCCCCCEEEEEEec-CCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLV-F-NGQVLQDDRDVEHCEILQNSRIQLLVAS-DNKP   77 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~-~-~G~~L~d~~tL~~~~i~~~~~i~l~~~~-~~g~   77 (269)
                      |+|+||+++|++++++|++++||.+||++|++.+|+|+++|+|+ | +|+.|+|+.+|++|+|.++++|+++++. ++  
T Consensus         3 m~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gip~~~QrL~~~~~g~~L~d~~tL~~y~i~~~~~l~l~~~~~~~--   80 (159)
T 3rt3_B            3 WDLTVKMLAGNEFQVSLSSSMSVSELKAQITQKIGVHAFQQRLAVHPSGVALQDRVPLASQGLGPGSTVLLVVDKSDE--   80 (159)
T ss_dssp             CEEEEEETTSCEEEEECCTTCCHHHHHHHHHHHHCCCGGGEEEEEETTCCBCCTTSCGGGGTCCTTCEEEEEECCCCC--
T ss_pred             eEEEEEECCCCEEEEEeCCCCcHHHHHHHHHHHhCCCHHHEEEEEcCCCCCCCCCCCHHHcCCCCCCEEEEEccCCCC--
Confidence            89999999999999999999999999999999999999999999 9 7999999999999999999999999984 43  


Q ss_pred             CCcccCCCCCceEEEEEecCCCCCCccccccceeecCCcchHHHHHHhhhhhcCCCCcceEEEeCCeeeccCCcccccCC
Q 044874           78 QVKTEQSSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCEL  157 (269)
Q Consensus        78 ~~~~~~~~~~~~i~i~Vk~~~~~~~~~~~~~~~~~v~~~~TV~~lK~~I~~~~gip~~~q~L~~~g~~L~d~~~L~~y~i  157 (269)
                                 .|+|+|+......       .........||++||++|++++|+|+++|+|+|+|+.|+|+.+|++|+|
T Consensus        81 -----------~m~i~vk~~~g~~-------~~~~v~~~~tV~~lK~~i~~~~gip~~~q~L~~~G~~L~d~~tL~~y~i  142 (159)
T 3rt3_B           81 -----------PLSILVRNNKGRS-------STYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGL  142 (159)
T ss_dssp             -----------CEEEEEECTTSCE-------EEEEECTTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBGGGGTC
T ss_pred             -----------cEEEEEECCCCCE-------EEEEeCCCCCHHHHHHHHHHHHCCCHHHEEEEECCeecCCCCCHHHcCC
Confidence                       4689999875544       4556677899999999999999999999999999999999999999999


Q ss_pred             CCCCEEEEEEccC
Q 044874          158 MDNAEIDVHVRPS  170 (269)
Q Consensus       158 ~~~~~i~l~~~~~  170 (269)
                      ++|++|||+++++
T Consensus       143 ~~g~~l~l~~rl~  155 (159)
T 3rt3_B          143 KPLSTVFMNLRLR  155 (159)
T ss_dssp             CTTCEEEEEECCC
T ss_pred             CCCCEEEEEEecC
Confidence            9999999999998

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

Probab=100.00  E-value=1.3e-33  Score=230.03  Aligned_cols=150  Identities=27%  Similarity=0.476  Sum_probs=137.6

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCCCCc
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKPQVK   80 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~~~~   80 (269)
                      |+|+|++++|+++.++|++++||.+||++|++++|+|+++|+|+|+|+.|+|+.+|++|+|.++++|+++++..+++   
T Consensus        21 m~i~Vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gip~~~QrL~~~g~~L~d~~tL~~~~i~~~~~l~l~~~~~gg~---   97 (172)
T 3u30_A           21 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGM---   97 (172)
T ss_dssp             EEEEEEETTTEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTCBTGGGTCCTTCEEEEEECCCCCE---
T ss_pred             EEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcChHHEEEEECCccccccCCHhHcCCcccceeeeeecccccc---
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999988765   


Q ss_pred             ccCCCCCceEEEEEecCCCCCCccccccceeecCCcchHHHHHHhhhhhcCCCCcceEEEeCCeeeccCCcccccCCCCC
Q 044874           81 TEQSSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDN  160 (269)
Q Consensus        81 ~~~~~~~~~i~i~Vk~~~~~~~~~~~~~~~~~v~~~~TV~~lK~~I~~~~gip~~~q~L~~~g~~L~d~~~L~~y~i~~~  160 (269)
                                +|+|+......       .........||.+||++|++++|+|+++|+|+|+|+.|+|+++|++|+|++|
T Consensus        98 ----------~i~Vk~~~g~~-------~~l~v~~~~tV~~lK~~I~~~~gip~~~q~L~~~g~~L~D~~tL~~y~i~~g  160 (172)
T 3u30_A           98 ----------QIFVKTLTGKT-------ITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKE  160 (172)
T ss_dssp             ----------EEEEEESSCCE-------EEEEECTTCBHHHHHHHHHHHHCCCGGGCCEEETTEECCTTSBSGGGTCCTT
T ss_pred             ----------cceeecccCcc-------eeEEecCCCCHHHHHHHHHHHhCCCceeEEEEECCccCCCCCcHHHhCCCCC
Confidence                      78888765543       4455567889999999999999999999999999999999999999999999


Q ss_pred             CEEEEEEccC
Q 044874          161 AEIDVHVRPS  170 (269)
Q Consensus       161 ~~i~l~~~~~  170 (269)
                      ++|||+++++
T Consensus       161 ~tl~l~~rlr  170 (172)
T 3u30_A          161 STLHLVLRLR  170 (172)
T ss_dssp             CEEEECC---
T ss_pred             CEEEEEEecC
Confidence            9999999987

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

Probab=100.00  E-value=1.4e-32  Score=223.93  Aligned_cols=157  Identities=22%  Similarity=0.452  Sum_probs=138.4

Q ss_pred             CCCceEEEEEecCCCCCCccccccceeecCCcchHHHHHHhhhhhcCCCCcceEEEeCCeeeccCCcccccCCCCCCEEE
Q 044874           85 SPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEID  164 (269)
Q Consensus        85 ~~~~~i~i~Vk~~~~~~~~~~~~~~~~~v~~~~TV~~lK~~I~~~~gip~~~q~L~~~g~~L~d~~~L~~y~i~~~~~i~  164 (269)
                      ++...|+|+|+......       .........||.+||++|++++|+|+++|+|+|+|+.|+|+.+|++|+|+++++|+
T Consensus        16 ~~~~~m~i~Vk~~~g~~-------~~l~v~~~~tV~~lK~~I~~~~gip~~~QrL~~~g~~L~d~~tL~~~~i~~~~~l~   88 (172)
T 3u30_A           16 PRGSHMQIFVKTLTGKT-------ITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLH   88 (172)
T ss_dssp             ---CCEEEEEEETTTEE-------EEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTCBTGGGTCCTTCEEE
T ss_pred             CCCCcEEEEEEeCCCCE-------EEEEECCCCcHHHHHHHHHHHHCcChHHEEEEECCccccccCCHhHcCCcccceee
Confidence            45678999999765543       44566778999999999999999999999999999999999999999999999999


Q ss_pred             EEEccCCCCCCCCCCCCCCcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCC
Q 044874          165 VHVRPSPTATSTTSSGMGPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDD  244 (269)
Q Consensus       165 l~~~~~~~~~~~~~~~~~~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~  244 (269)
                      |+++++        ++     +.++|+..+| +++.++|++++||.+||++|++++     |+|+++|+|+|+|+.|+|+
T Consensus        89 l~~~~~--------gg-----~~i~Vk~~~g-~~~~l~v~~~~tV~~lK~~I~~~~-----gip~~~q~L~~~g~~L~D~  149 (172)
T 3u30_A           89 LVLRLR--------GG-----MQIFVKTLTG-KTITLEVEPSDTIENVKAKIQDKE-----GIPPDQQRLIFAGKQLEDG  149 (172)
T ss_dssp             EEECCC--------CC-----EEEEEEESSC-CEEEEEECTTCBHHHHHHHHHHHH-----CCCGGGCCEEETTEECCTT
T ss_pred             eeeccc--------cc-----ccceeecccC-cceeEEecCCCCHHHHHHHHHHHh-----CCCceeEEEEECCccCCCC
Confidence            999987        33     8999999998 999999999999999999999997     9999999999999999999


Q ss_pred             CccccccCCCCCEEEEecCcccCC
Q 044874          245 RSFRWHHVGQGDTIEIFNGSVTGG  268 (269)
Q Consensus       245 ~tL~~~~i~~~~~i~l~~~~~~~~  268 (269)
                      ++|.+|+|++|++|+|+. |+.||
T Consensus       150 ~tL~~y~i~~g~tl~l~~-rlrgG  172 (172)
T 3u30_A          150 RTLSDYNIQKESTLHLVL-RLRGG  172 (172)
T ss_dssp             SBSGGGTCCTTCEEEECC------
T ss_pred             CcHHHhCCCCCCEEEEEE-ecCCC
Confidence            999999999999999986 45444

>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=100.00  E-value=2.1e-32  Score=220.12  Aligned_cols=152  Identities=17%  Similarity=0.240  Sum_probs=135.7

Q ss_pred             EEEEEecCCCCCCccccccceeecCCcchHHHHHHhhhhhcCCCCcceEEE-e-CCeeeccCCcccccCCCCCCEEEEEE
Q 044874           90 IHLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQ-S-SGAELQDHRSLRDCELMDNAEIDVHV  167 (269)
Q Consensus        90 i~i~Vk~~~~~~~~~~~~~~~~~v~~~~TV~~lK~~I~~~~gip~~~q~L~-~-~g~~L~d~~~L~~y~i~~~~~i~l~~  167 (269)
                      |+|+|+......       .........||++||++|++.+|+|+++|+|+ | +|+.|+|+.+|++|+|++|++|+|++
T Consensus         3 m~i~vk~~~g~~-------~~l~v~~~~tV~~lK~~I~~~~gip~~~QrL~~~~~g~~L~d~~tL~~y~i~~~~~l~l~~   75 (159)
T 3rt3_B            3 WDLTVKMLAGNE-------FQVSLSSSMSVSELKAQITQKIGVHAFQQRLAVHPSGVALQDRVPLASQGLGPGSTVLLVV   75 (159)
T ss_dssp             CEEEEEETTSCE-------EEEECCTTCCHHHHHHHHHHHHCCCGGGEEEEEETTCCBCCTTSCGGGGTCCTTCEEEEEE
T ss_pred             eEEEEEECCCCE-------EEEEeCCCCcHHHHHHHHHHHhCCCHHHEEEEEcCCCCCCCCCCCHHHcCCCCCCEEEEEc
Confidence            578888655443       44566678999999999999999999999999 9 89999999999999999999999999


Q ss_pred             cc-CCCCCCCCCCCCCCcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCc
Q 044874          168 RP-SPTATSTTSSGMGPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRS  246 (269)
Q Consensus       168 ~~-~~~~~~~~~~~~~~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~t  246 (269)
                      +. +             ..|+|+|+...| +++.++|++++||++||++|++++     |+|+++|+|+|+|+.|+|+++
T Consensus        76 ~~~~-------------~~m~i~vk~~~g-~~~~~~v~~~~tV~~lK~~i~~~~-----gip~~~q~L~~~G~~L~d~~t  136 (159)
T 3rt3_B           76 DKSD-------------EPLSILVRNNKG-RSSTYEVRLTQTVAHLKQQVSGLE-----GVQDDLFWLTFEGKPLEDQLP  136 (159)
T ss_dssp             CCCC-------------CCEEEEEECTTS-CEEEEEECTTSBHHHHHHHHHHHH-----TCCGGGEEEEETTEECCTTSB
T ss_pred             cCCC-------------CcEEEEEECCCC-CEEEEEeCCCCCHHHHHHHHHHHH-----CCCHHHEEEEECCeecCCCCC
Confidence            84 4             139999999988 999999999999999999999987     999999999999999999999


Q ss_pred             cccccCCCCCEEEEecCcccC
Q 044874          247 FRWHHVGQGDTIEIFNGSVTG  267 (269)
Q Consensus       247 L~~~~i~~~~~i~l~~~~~~~  267 (269)
                      |++|||++|++|+++.+...|
T Consensus       137 L~~y~i~~g~~l~l~~rl~GG  157 (159)
T 3rt3_B          137 LGEYGLKPLSTVFMNLRLRGG  157 (159)
T ss_dssp             GGGGTCCTTCEEEEEECCC--
T ss_pred             HHHcCCCCCCEEEEEEecCCC
Confidence            999999999999998744333

>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=100.00  E-value=9.5e-32  Score=214.28  Aligned_cols=150  Identities=27%  Similarity=0.487  Sum_probs=139.2

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCCCCc
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKPQVK   80 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~~~~   80 (269)
                      |+|+|++.+|+++.+++++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|+|.++++++++.+..++    
T Consensus         1 M~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~gip~~~q~L~~~g~~L~d~~tL~~~~i~~~~~l~l~~~~~~~----   76 (152)
T 3b08_A            1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG----   76 (152)
T ss_dssp             CEEEEEETTSCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEECCTTC----
T ss_pred             CEEEEEeCCCCEEEEEECCCCCHHHHHHHHHHHHCcChHHeEEEECCeECcCcccHHHhccCCCCeeEEEeecccc----
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999988754    


Q ss_pred             ccCCCCCceEEEEEecCCCCCCccccccceeecCCcchHHHHHHhhhhhcCCCCcceEEEeCCeeeccCCcccccCCCCC
Q 044874           81 TEQSSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDN  160 (269)
Q Consensus        81 ~~~~~~~~~i~i~Vk~~~~~~~~~~~~~~~~~v~~~~TV~~lK~~I~~~~gip~~~q~L~~~g~~L~d~~~L~~y~i~~~  160 (269)
                               |+|+|+......       .........||++||++|+++.|+|+++|+|+|+|+.|+|+.+|++|+|++|
T Consensus        77 ---------~~i~Vk~~~g~~-------~~~~v~~~~tv~~lK~~i~~~~gi~~~~qrL~~~g~~L~d~~tL~~~~i~~~  140 (152)
T 3b08_A           77 ---------MQIFVKTLTGKT-------ITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKE  140 (152)
T ss_dssp             ---------EEEEEEESSSCE-------EEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTT
T ss_pred             ---------cceeeeecCCCE-------EEEEeCCCCcHHHHHHHHHHHhCcChhhEEEEECCEECCCCCCHHHcCCCCC
Confidence                     478888765443       4445567899999999999999999999999999999999999999999999


Q ss_pred             CEEEEEEccC
Q 044874          161 AEIDVHVRPS  170 (269)
Q Consensus       161 ~~i~l~~~~~  170 (269)
                      ++|+|+++++
T Consensus       141 ~~i~l~~r~~  150 (152)
T 3b08_A          141 STLHLVLRLR  150 (152)
T ss_dssp             CEEEEEECCC
T ss_pred             CEEEEEEecC
Confidence            9999999987

>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=99.97  E-value=1.9e-30  Score=206.72  Aligned_cols=152  Identities=22%  Similarity=0.444  Sum_probs=134.3

Q ss_pred             EEEEEecCCCCCCccccccceeecCCcchHHHHHHhhhhhcCCCCcceEEEeCCeeeccCCcccccCCCCCCEEEEEEcc
Q 044874           90 IHLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVRP  169 (269)
Q Consensus        90 i~i~Vk~~~~~~~~~~~~~~~~~v~~~~TV~~lK~~I~~~~gip~~~q~L~~~g~~L~d~~~L~~y~i~~~~~i~l~~~~  169 (269)
                      |+|+|+......       .........||++||++|+++.|+|+++|+|+|+|+.|+|+.+|++|+|+++++|+|+.+.
T Consensus         1 M~i~vk~~~g~~-------~~~~v~~~~tv~~lK~~i~~~~gip~~~q~L~~~g~~L~d~~tL~~~~i~~~~~l~l~~~~   73 (152)
T 3b08_A            1 MQIFVKTLTGKT-------ITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRL   73 (152)
T ss_dssp             CEEEEEETTSCE-------EEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEECC
T ss_pred             CEEEEEeCCCCE-------EEEEECCCCCHHHHHHHHHHHHCcChHHeEEEECCeECcCcccHHHhccCCCCeeEEEeec
Confidence            467777644332       3344556889999999999999999999999999999999999999999999999999987


Q ss_pred             CCCCCCCCCCCCCCcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCcccc
Q 044874          170 SPTATSTTSSGMGPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRW  249 (269)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~  249 (269)
                      ++             .|+|+|+...| +++.+++++++||.+||++|+++.     |+|+++|+|+|+|+.|+|+.+|++
T Consensus        74 ~~-------------~~~i~Vk~~~g-~~~~~~v~~~~tv~~lK~~i~~~~-----gi~~~~qrL~~~g~~L~d~~tL~~  134 (152)
T 3b08_A           74 RG-------------GMQIFVKTLTG-KTITLEVEPSDTIENVKAKIQDKE-----GIPPDQQRLIFAGKQLEDGRTLSD  134 (152)
T ss_dssp             TT-------------CEEEEEEESSS-CEEEEEECTTCBHHHHHHHHHHHH-----CCCGGGEEEEETTEECCTTSBTGG
T ss_pred             cc-------------ccceeeeecCC-CEEEEEeCCCCcHHHHHHHHHHHh-----CcChhhEEEEECCEECCCCCCHHH
Confidence            62             38999999998 999999999999999999999987     999999999999999999999999


Q ss_pred             ccCCCCCEEEEecCcccCC
Q 044874          250 HHVGQGDTIEIFNGSVTGG  268 (269)
Q Consensus       250 ~~i~~~~~i~l~~~~~~~~  268 (269)
                      |||++|++|+++. |..||
T Consensus       135 ~~i~~~~~i~l~~-r~~GG  152 (152)
T 3b08_A          135 YNIQKESTLHLVL-RLRGG  152 (152)
T ss_dssp             GTCCTTCEEEEEE-CCCC-
T ss_pred             cCCCCCCEEEEEE-ecCCC
Confidence            9999999999986 44444

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

Probab=99.81  E-value=1.4e-19  Score=128.09  Aligned_cols=75  Identities=19%  Similarity=0.312  Sum_probs=72.9

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDN   75 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~   75 (269)
                      |+|+||+.+|+++.++|++++||.+||++|++++|+|+++|+|+|+|+.|+|+.+|++|+|+++++|+++++.+|
T Consensus         5 m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~qrL~~~G~~L~d~~tL~~~~i~~~~~l~l~~rl~G   79 (79)
T 3phx_B            5 LSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNLRLRG   79 (79)
T ss_dssp             EEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEECCBC
T ss_pred             EEEEEEeCCCCEEEEEECCcChHHHHHHHHHhhcCCCHHHEEEEECCEECCCCCcHHHCCCCCCCEEEEEEecCC
Confidence            799999999999999999999999999999999999999999999999999999999999999999999998764

>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=99.81  E-value=1.2e-19  Score=130.46  Aligned_cols=75  Identities=19%  Similarity=0.285  Sum_probs=69.9

Q ss_pred             CCCcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEE
Q 044874          181 MGPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEI  260 (269)
Q Consensus       181 ~~~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l  260 (269)
                      +.++.|+|+|++..| +++.+++++++||.+||++|++++     |+|+++|+|+|+|++|+|+.||++|+|++|++|+|
T Consensus        17 ~~~~mIqI~Vk~~~G-kk~~v~v~p~DTI~~LK~~I~~k~-----Gip~~qQrLif~Gk~LkD~~TL~dY~I~dgstLhL   90 (93)
T 3plu_A           17 RGSHMIEVVVNDRLG-KKVRVKCLGEDSVGDFKKVLSLQI-----GTQPNKIVLQKGGSVLKDHISLEDYEVHDQTNLEL   90 (93)
T ss_dssp             ---CEEEEEEECTTS-CEEEEEEETTSBHHHHHHHHHHHH-----TCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEE
T ss_pred             CCCceEEEEEECCCC-CEEEEEECCcCHHHHHHHHHHHHh-----CCCHHHEEEEeCCEEccCcCCHHHcCCCCCCEEEE
Confidence            345689999999998 999999999999999999999998     99999999999999999999999999999999998


Q ss_pred             e
Q 044874          261 F  261 (269)
Q Consensus       261 ~  261 (269)
                      .
T Consensus        91 ~   91 (93)
T 3plu_A           91 Y   91 (93)
T ss_dssp             E
T ss_pred             E
Confidence            5

>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=99.81  E-value=1.2e-19  Score=131.24  Aligned_cols=78  Identities=28%  Similarity=0.480  Sum_probs=73.3

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKPQ   78 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~~   78 (269)
                      |+|+|++.+|+++.++|++++||.+||++|++++|+|+++|+|+|+|+.|+|+.+|++|+|+++++|+++++.+||..
T Consensus         1 M~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~~i~~g~~l~l~~rl~Gg~~   78 (88)
T 4fbj_B            1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLALRGGGG   78 (88)
T ss_dssp             CEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTSBTTTTTCCTTCEEEEECBCC----
T ss_pred             CEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHHCcChhHEEEEECCeECCCCCcHHHcCCCCCCEEEEEEECCCCCC
Confidence            899999999999999999999999999999999999999999999999999999999999999999999999999874

>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=99.81  E-value=1.5e-19  Score=129.94  Aligned_cols=70  Identities=23%  Similarity=0.312  Sum_probs=68.6

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEE
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLL   70 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~   70 (269)
                      |+|+||+++|+++.++++|++||.+||++|+++.|+|+++|||+|+|+.|+|+.+|++|+|++|++|+|.
T Consensus        22 IqI~Vk~~~Gkk~~v~v~p~DTI~~LK~~I~~k~Gip~~qQrLif~Gk~LkD~~TL~dY~I~dgstLhL~   91 (93)
T 3plu_A           22 IEVVVNDRLGKKVRVKCLGEDSVGDFKKVLSLQIGTQPNKIVLQKGGSVLKDHISLEDYEVHDQTNLELY   91 (93)
T ss_dssp             EEEEEECTTSCEEEEEEETTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEE
T ss_pred             EEEEEECCCCCEEEEEECCcCHHHHHHHHHHHHhCCCHHHEEEEeCCEEccCcCCHHHcCCCCCCEEEEE
Confidence            6899999999999999999999999999999999999999999999999999999999999999999986

>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=99.79  E-value=5.8e-19  Score=123.55  Aligned_cols=76  Identities=29%  Similarity=0.503  Sum_probs=72.8

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNK   76 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g   76 (269)
                      |+|+|+..+|+++.+++++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++|+|.++++|++.++.+||
T Consensus         1 M~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~~i~~~~q~L~~~g~~L~d~~tL~~~~i~~g~~i~l~~~~~GG   76 (76)
T 1ndd_A            1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLALRGG   76 (76)
T ss_dssp             CEEEEECTTSCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEECCC--
T ss_pred             CEEEEECCCCCEEEEEECCCChHHHHHHHHHHHHCcChHHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEeCCCC
Confidence            8999999999999999999999999999999999999999999999999999999999999999999999999876

>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=99.78  E-value=1.3e-18  Score=121.76  Aligned_cols=76  Identities=32%  Similarity=0.535  Sum_probs=74.2

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNK   76 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g   76 (269)
                      |+|+|+..+|+++.+++++++||.+||++|++.+++|+++|+|+|+|+.|+|+.+|++|+|.++++|++.++..||
T Consensus         1 M~i~vk~~~g~~~~i~v~~~~tv~~lK~~i~~~~~i~~~~q~L~~~g~~L~d~~tL~~~~i~~g~~i~l~~~~~GG   76 (76)
T 3a9j_A            1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQRESTLHLVLRLRGG   76 (76)
T ss_dssp             CEEEEEETTSCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTCBTGGGTCCTTCEEEEEECCCCC
T ss_pred             CEEEEEcCCCCEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEEeCCCC
Confidence            8999999999999999999999999999999999999999999999999999999999999999999999999876

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

Probab=99.78  E-value=5e-19  Score=126.68  Aligned_cols=73  Identities=48%  Similarity=0.747  Sum_probs=70.9

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEE-cCCCCccccCCCCCCCEEEEEEec
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQV-LQDDRDVEHCEILQNSRIQLLVAS   73 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~-L~d~~tL~~~~i~~~~~i~l~~~~   73 (269)
                      |+|+|++++|+++.++|++++||++||++|++++|+|+++|||+|+|+. |+|+.+|++|+|.++++|+|++++
T Consensus        11 ~~i~vk~l~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~lL~D~~tL~~y~I~~gs~i~lv~~p   84 (84)
T 2kk8_A           11 MKFLVENLNGSSFELEVDYRDTLLVVKQKIERSQHIPVSKQTLIVDGIVILREDLTVEQCQIVPTSDIQLEVSS   84 (84)
T ss_dssp             EEEEEEETTSCEEEEEECTTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCCSSSBHHHHTCCTTSCEEEEECC
T ss_pred             eEEEEEecCCcEEEEEECCCChHHHHHHHHHHHHCcChHHEEEEECCEEecCCcCCHHHcCCCCCCEEEEEEcC
Confidence            8999999999999999999999999999999999999999999999999 999999999999999999998864

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

Probab=99.78  E-value=5.5e-19  Score=124.95  Aligned_cols=76  Identities=16%  Similarity=0.283  Sum_probs=73.5

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNK   76 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g   76 (269)
                      |+|+|++.+|+++.++|++++||.+||++|+++.|+|+++|+|+|+|+.|+|+.+|++|+|+++++|+++++..||
T Consensus         4 m~i~vk~~~g~~~~~~v~~~~tv~~lk~~i~~~~gi~~~~qrL~~~G~~L~d~~tl~~~~i~~~~~i~l~~~~~GG   79 (79)
T 2uyz_B            4 IKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQEQTGG   79 (79)
T ss_dssp             EEEEEECTTCCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCHHHHTCCTTEEEEEEECCCC-
T ss_pred             EEEEEECCCCCEEEEEECCCChHHHHHHHHHHHHCCCcccEEEEECCEEeCCCCCHHHcCCCCCCEEEEEEeccCC
Confidence            7899999999999999999999999999999999999999999999999999999999999999999999999876

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

Probab=99.78  E-value=6.1e-19  Score=127.22  Aligned_cols=76  Identities=28%  Similarity=0.490  Sum_probs=74.2

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNK   76 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g   76 (269)
                      |+|+|+..+|+++.++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++|+|.++++|+++++..||
T Consensus        13 m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~qrL~~~G~~L~d~~tL~~~~i~~~~~i~l~~rl~GG   88 (88)
T 3dbh_I           13 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLRLRGG   88 (88)
T ss_dssp             EEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCCEEETTEECCTTSBGGGGTCCTTCEEEECCCCCCC
T ss_pred             EEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHHCcCHHHEEEEECCeECCCCCcHHHcCCCCCCEEEEEEeCCCC
Confidence            7999999999999999999999999999999999999999999999999999999999999999999999999876

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

Probab=99.78  E-value=9.5e-19  Score=128.98  Aligned_cols=76  Identities=32%  Similarity=0.535  Sum_probs=74.4

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNK   76 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g   76 (269)
                      |+|+||..+|+++.++|++++||.+||++|++++++|+++|||+|+|+.|+|+.+|++|+|+++++|+|+++.+||
T Consensus        23 m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~~i~~g~~i~l~~rl~GG   98 (98)
T 4hcn_B           23 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG   98 (98)
T ss_dssp             CEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTCBSGGGTCCTTEEEEEECBCSCC
T ss_pred             EEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHhCCChhHEEEEECCEECCCCCcHHHCCCCCCCEEEEEEecCCC
Confidence            8999999999999999999999999999999999999999999999999999999999999999999999999876

>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=99.77  E-value=1.1e-18  Score=124.99  Aligned_cols=77  Identities=30%  Similarity=0.495  Sum_probs=73.0

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKP   77 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~   77 (269)
                      |+|+|+..+|+++.+++++++||.+||++|++++++|+++|+|+|+|+.|+|+.+|++|+|+++++|+++++.+||.
T Consensus         4 m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~~ip~~~qrL~~~g~~L~d~~tL~~~~i~~~~~i~l~~rl~GG~   80 (85)
T 3n3k_B            4 MRIVVKTLMGRTIILEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIHNHSALYLLLKLRGGG   80 (85)
T ss_dssp             CEEEEECGGGCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETBEECCTTCBTTTTTCCTTCEEEEEECCC---
T ss_pred             EEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCeECCCCCCHHHCCCCCCCEEEEEEeccCCC
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999875

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

Probab=99.77  E-value=1.1e-18  Score=126.01  Aligned_cols=77  Identities=30%  Similarity=0.531  Sum_probs=70.2

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKP   77 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~   77 (269)
                      |+|+|++.+|+++.+++++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|+|.++++|+++++.+||.
T Consensus        10 ~~i~v~~~~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~i~l~~r~~GG~   86 (88)
T 1sif_A           10 LQLFIKTLTGKTFTVEMEPSDTIENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGG   86 (88)
T ss_dssp             CEEEEEETTSCEEEEECCTTSBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTSBSGGGTCCTTCEEEEEC------
T ss_pred             eEEEEEeCCCCEEEEEECCCChHHHHHHHHHHHHCcChhhEEEEECCEECCCCCcHHHcCCCCCCEEEEEEeCCCCC
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999874

>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=99.77  E-value=8.8e-19  Score=128.32  Aligned_cols=74  Identities=15%  Similarity=0.270  Sum_probs=70.0

Q ss_pred             CCcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEe
Q 044874          182 GPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIF  261 (269)
Q Consensus       182 ~~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~  261 (269)
                      +...|+|+|++..| +++.++|++++||.+||++|++++     |+|+++|+|+|.|++|+|+.||++|||++|++|+|+
T Consensus        25 ~~~mm~I~VKtl~G-k~i~lev~p~dTV~~lK~~Ia~k~-----Gip~~qQrLi~~Gk~L~D~~TL~dygI~~gstlhL~   98 (100)
T 1uh6_A           25 AATMIEVVCNDRLG-KKVRVKCNTDDTIGDLKKLIAAQT-----GTRWNKIVLKKWYTIFKDHVSLGDYEIHDGMNLELY   98 (100)
T ss_dssp             CCCEEEEEEECSSS-SCEEEEEETTSBHHHHHHHHHHHH-----CCCGGGCEEEETTEECCSSCBHHHHTCCTTEEEEEE
T ss_pred             CCCeEEEEEECCCC-CEEEEEeCCCCcHHHHHHHHHHHh-----CCCHHHEEEEECCEECCCCCCHHHcCCCCCCEEEEE
Confidence            34559999999988 999999999999999999999998     999999999999999999999999999999999986

>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=99.77  E-value=1.7e-18  Score=125.54  Aligned_cols=76  Identities=29%  Similarity=0.448  Sum_probs=72.3

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKP   77 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~   77 (269)
                      |+|+||.++|+++.++|++++||.+||++|++++|+|+++|||+|+|+.|+|+.+|++|+| ++++|+|+++.+++.
T Consensus         6 m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~qrLi~~Gk~L~d~~tL~~~~i-~g~~i~l~~~~~~~~   81 (90)
T 4dwf_A            6 LEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEYNV-GGKVIHLVERAPPQT   81 (90)
T ss_dssp             EEEEEEETTCCEEEEEEETTCBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBGGGGTC-TTEEEEEEECCCC--
T ss_pred             EEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHhCCCHHHEEEEECCeECCCCCCHHHcCC-CCcEEEEEecCCCCC
Confidence            8999999999999999999999999999999999999999999999999999999999999 899999999988655

>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=99.77  E-value=2.2e-18  Score=126.43  Aligned_cols=78  Identities=31%  Similarity=0.522  Sum_probs=74.1

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKPQ   78 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~~   78 (269)
                      |+|+|+..+|+++.++|++++||.+||++|++.+++|+++|+|+|+|+.|+|+.+|++|+|.++++|+++++..||..
T Consensus         2 m~i~vk~~~g~~~~~~v~~~~TV~~LK~~i~~~~gip~~~qrL~~~G~~L~d~~tL~~~~i~~~~~i~l~~r~~gG~~   79 (96)
T 3k9o_B            2 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGYAD   79 (96)
T ss_dssp             CEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEECCCC---
T ss_pred             cEEEEEeCCCCEEEEEECCCCCHHHHHHHHHhhhCCChhHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEEcCCCCc
Confidence            899999999999999999999999999999999999999999999999999999999999999999999999998863

>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=99.77  E-value=2.6e-18  Score=124.25  Aligned_cols=77  Identities=27%  Similarity=0.348  Sum_probs=74.4

Q ss_pred             CEEEEEcCCC-CEEEE-EEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCC
Q 044874            1 MDVIFEPQRG-KAFTI-EVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKP   77 (269)
Q Consensus         1 M~i~vk~~~g-~~~~l-~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~   77 (269)
                      |+|+|+..+| +++.+ +|++++||.+||++|++.+++|+++|+|+|+|+.|+|+.+|++|+|.++++|+|+++..||+
T Consensus         8 m~i~Vk~~~g~~~~~l~~v~~~~tV~~lK~~i~~~~gip~~~qrL~~~gk~L~d~~tL~~~~i~~g~~i~l~~~~~gG~   86 (89)
T 1wy8_A            8 MWIQVRTIDGSKTCTIEDVSRKATIEELRERVWALFDVRPECQRLFYRGKQLENGYTLFDYDVGLNDIIQLLVRPDSGP   86 (89)
T ss_dssp             EEEEEEETTCSCEEEEEEECTTCBHHHHHHHHHHHSCCCTTTEEEEETTEECCSSSBHHHHTCCTTCEEEEEECCCCSS
T ss_pred             EEEEEEECCCCceEEEEecCCCCCHHHHHHHHHHHHCcChhhEEEEECCeECCCCCCHHHCCCCCCCEEEEEEeCCCCC
Confidence            7999999999 79999 59999999999999999999999999999999999999999999999999999999999886

>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=99.77  E-value=1.5e-18  Score=127.59  Aligned_cols=76  Identities=16%  Similarity=0.283  Sum_probs=74.2

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNK   76 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g   76 (269)
                      |+|+|++.+|+++.++|++++||.+||++|+++.|+|+++|||+|+|+.|+|+.+|++|+|+++++|+++++..||
T Consensus        22 m~I~Vk~~~g~~~~l~v~~~~tv~~lK~~i~~~~gip~~~qrLif~Gk~L~d~~tl~dy~i~~g~~I~l~~~~~GG   97 (97)
T 1wyw_B           22 IKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQEQTGG   97 (97)
T ss_dssp             EEEEEECTTCCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCHHHHTCCTTCEEEEEESSSCC
T ss_pred             EEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCChhhEEEEECCeEcCCCCCHHHCCCCCCCEEEEEEecCCC
Confidence            7899999999999999999999999999999999999999999999999999999999999999999999999876

>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=99.77  E-value=9e-19  Score=128.26  Aligned_cols=71  Identities=20%  Similarity=0.246  Sum_probs=68.9

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEE
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLV   71 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~   71 (269)
                      |+|+||+++|+++.++|++++||.+||++|++++|+|+++|||+|+|++|+|+.+|++|+|+++++|+|..
T Consensus        29 m~I~VKtl~Gk~i~lev~p~dTV~~lK~~Ia~k~Gip~~qQrLi~~Gk~L~D~~TL~dygI~~gstlhL~~   99 (100)
T 1uh6_A           29 IEVVCNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTRWNKIVLKKWYTIFKDHVSLGDYEIHDGMNLELYY   99 (100)
T ss_dssp             EEEEEECSSSSCEEEEEETTSBHHHHHHHHHHHHCCCGGGCEEEETTEECCSSCBHHHHTCCTTEEEEEEC
T ss_pred             EEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCHHHEEEEECCEECCCCCCHHHcCCCCCCEEEEEe
Confidence            78999999999999999999999999999999999999999999999999999999999999999999863

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

Probab=99.76  E-value=2.3e-18  Score=123.19  Aligned_cols=77  Identities=32%  Similarity=0.494  Sum_probs=74.4

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKP   77 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~   77 (269)
                      |+|+|+..+|+++.+++++++||.+||++|++++++|+++|+|+|+|+.|+|+.+|++|+|.++++|+++++..||.
T Consensus         4 m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~~i~~~~qrL~~~g~~L~d~~tL~~~~i~~~~~l~l~~r~~GG~   80 (85)
T 3mtn_B            4 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKWSTLFLLLRLRGGG   80 (85)
T ss_dssp             EEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTSBTGGGTCCTTCEEEEECCCCCC-
T ss_pred             EEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHHCcChHHEEEEECCEECCCCCCHHHcCCCCCCEEEEEEECcCCC
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999864

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

Probab=99.76  E-value=7e-19  Score=126.42  Aligned_cols=74  Identities=22%  Similarity=0.404  Sum_probs=70.3

Q ss_pred             CEEEEEcCCCCEEEEEEc--CCCCHHHHHHHH-HHHhCCCCCcEEEEEcCEEcCCCCccccCCC-CCCCEEEEEEecC
Q 044874            1 MDVIFEPQRGKAFTIEVG--FFDTVLEIKEKI-EKYQGIPVPKQTLVFNGQVLQDDRDVEHCEI-LQNSRIQLLVASD   74 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~--~~~tV~~lK~~I-~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i-~~~~~i~l~~~~~   74 (269)
                      |+|+||+++|++++++|+  +++||.+||++| +++.|+|+++|||+|+|+.|+|+.+|++|+| .++++|+|.+++.
T Consensus         2 mqI~VKtl~g~~~~i~v~v~~~~TV~~lK~~I~~~~~gip~~~QrLi~~Gk~L~D~~tL~~y~I~~~~stl~v~~~~~   79 (87)
T 2lxa_A            2 VHLTLKKIQAPKFSIEHDFSPSDTILQIKQHLISEEKASHISEIKLLLKGKVLHDNLFLSDLKVTPANSTITVMIKPN   79 (87)
T ss_dssp             CEEEEEECSSSCEECCEECCTTCBHHHHHHHHHHTTSCSSSTTEEEEETTEECCTTCBHHHHCCCGGGCEEEEEECCC
T ss_pred             EEEEEEcCCCCEEEEEEcCCCCCcHHHHHHHHHHHhcCCChHHEEEEECCEECcCcCCHHHcCCCCCCCEEEEEcCCC
Confidence            899999999999998866  999999999999 9999999999999999999999999999999 6999999998864

>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=99.76  E-value=2.5e-18  Score=123.82  Aligned_cols=77  Identities=27%  Similarity=0.411  Sum_probs=75.0

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKP   77 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~   77 (269)
                      |+|+|+..+|+++.+++++++||.+||++|++.+++|+++|+|+|+|+.|+|+.+|++|+|.++++|+++++..||.
T Consensus         8 m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi~~~~qrL~~~Gk~L~d~~tL~~~~i~~g~~i~l~~~~~GG~   84 (87)
T 1wh3_A            8 IQVFVKNPDGGSYAYAINPNSFILGLKQQIEDQQGLPKKQQQLEFQGQVLQDWLGLGIYGIQDSDTLILSKKKGSGP   84 (87)
T ss_dssp             EEEEEEETTTEEEEEEECSSSBHHHHHHHHHHHTCCCTTTEEEEETTEECCSSSBHHHHTCCTTEEEEEEECSCCCS
T ss_pred             EEEEEEcCCCCEEEEEeCCCChHHHHHHHHHHHhCCChHHEEEEECCEEccCCCCHHHCCCCCCCEEEEEEeccCCC
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999875

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

Probab=99.76  E-value=2.4e-18  Score=125.06  Aligned_cols=74  Identities=31%  Similarity=0.530  Sum_probs=71.6

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASD   74 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~   74 (269)
                      |+|+||+.+|+++.++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||++|++|+++++.+
T Consensus        18 m~i~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~i~l~~rlr   91 (91)
T 3v6c_B           18 MQIFVNTLTGTHITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLR   91 (91)
T ss_dssp             EEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTCBTGGGTCCTTCEEEEECCCC
T ss_pred             EEEEEEeCCCCEEEEEECCCCCHHHHHHHHHhhhCCChhhEEEEECCeECCCcCcHHHCCCCCCCEEEEEEecC
Confidence            89999999999999999999999999999999999999999999999999999999999999999999998753

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

Probab=99.76  E-value=4e-18  Score=125.58  Aligned_cols=77  Identities=31%  Similarity=0.524  Sum_probs=74.7

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKP   77 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~   77 (269)
                      |+|+|+..+|+++.+++++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++|+|.++++|+++.+..||+
T Consensus         1 M~I~Vk~~~g~~~~~~v~~~~TV~~LK~~I~~~~gi~~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~i~l~~~~~gG~   77 (98)
T 1yx5_B            1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGR   77 (98)
T ss_dssp             CEEEEEETTSCEEEEECCTTCBHHHHHHHHHHHTCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEECCCCC-
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcChhhEEEEECCEECCCCCCHHHcCCCCCCEEEEEEeCCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999887

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

Probab=99.76  E-value=1e-18  Score=126.29  Aligned_cols=77  Identities=18%  Similarity=0.289  Sum_probs=70.8

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKP   77 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~   77 (269)
                      |+|+|++.+|+++.++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++|+|.++++|+++++..+|.
T Consensus         5 m~I~Vk~~~g~~~~~~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~tL~~~~I~~g~~i~l~~~~~gg~   81 (88)
T 2hj8_A            5 LSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNLRLRGGL   81 (88)
T ss_dssp             EEEEEEETTSCEEEEEEESSSBHHHHHHHHHHHTCSCTTTEEEESSSSCCCTTSBHHHHHCSTTCEEEEEEC-----
T ss_pred             EEEEEECCCCCEEEEEECCCCcHHHHHHHHHHHhCCChhHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEEcCCCc
Confidence            78999999999999999999999999999999999999999999999999999999999999999999999999876

>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=99.76  E-value=3.6e-18  Score=120.37  Aligned_cols=73  Identities=25%  Similarity=0.368  Sum_probs=70.4

Q ss_pred             CEEEEEcCCCCEE-EEE-EcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEec
Q 044874            1 MDVIFEPQRGKAF-TIE-VGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVAS   73 (269)
Q Consensus         1 M~i~vk~~~g~~~-~l~-v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~   73 (269)
                      |+|+|++.+|+++ .++ +++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|+|.++++|++++++
T Consensus         3 m~i~Vk~~~g~~~~~l~~v~~~~tv~~lK~~i~~~~gip~~~qrL~~~g~~L~d~~tL~~~~i~~g~~i~l~~r~   77 (78)
T 2faz_A            3 MWIQVRTMDGRQTHTVDSLSRLTKVEELRRKIQELFHVEPGLQRLFYRGKQMEDGHTLFDYEVRLNDTIQLLVRQ   77 (78)
T ss_dssp             EEEEEEETTSSCEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTCBTTTTTCCTTCEEEEEECC
T ss_pred             EEEEEEECCCCEEEEEeccCCCCCHHHHHHHHHHHHCcChhhEEEEECCEECCCCCCHHHcCCCCCCEEEEEEeC
Confidence            8999999999985 999 999999999999999999999999999999999999999999999999999999875

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

Probab=99.76  E-value=3.4e-18  Score=123.38  Aligned_cols=86  Identities=23%  Similarity=0.346  Sum_probs=68.8

Q ss_pred             CCCCCEEEEEEccCCCCCCCCCCCCCCcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEe
Q 044874          157 LMDNAEIDVHVRPSPTATSTTSSGMGPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIY  236 (269)
Q Consensus       157 i~~~~~i~l~~~~~~~~~~~~~~~~~~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~  236 (269)
                      ..+++++++.++.+             ..|+|+|+..+| +++.++|++++||.+||++|+++.     |+|+++|+|+|
T Consensus         2 ~~~~~~~~~~~~~~-------------~~m~i~Vk~~~g-~~~~~~v~~~~tV~~lK~~i~~~~-----gip~~~qrLi~   62 (88)
T 4eew_A            2 MEPNDSTSTAVEEP-------------DSLEVLVKTLDS-QTRTFIVGAQMNVKEFKEHIAASV-----SIPSEKQRLIY   62 (88)
T ss_dssp             -------------C-------------CEEEEEEEETTS-CEEEEEEETTCBHHHHHHHHHHHH-----TCCGGGEEEEE
T ss_pred             CCCCCceEEeecCC-------------CeEEEEEEcCCC-CEEEEEECCCCCHHHHHHHHHHHh-----CCCHHHEEEEE
Confidence            34566777766654             369999999988 899999999999999999999987     99999999999


Q ss_pred             cCeeecCCCccccccCCCCCEEEEec
Q 044874          237 KQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       237 ~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      +|+.|+|+.+|++||| +|++||++.
T Consensus        63 ~Gk~L~D~~tL~~~~i-~g~~i~lv~   87 (88)
T 4eew_A           63 QGRVLQDDKKLQEYNV-GGKVIHLVE   87 (88)
T ss_dssp             TTEECCTTSBGGGGTC-TTEEEEEEE
T ss_pred             CCEECCCCCcHHHcCC-CCcEEEEEE
Confidence            9999999999999999 899999975

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

Probab=99.76  E-value=3.2e-18  Score=125.07  Aligned_cols=76  Identities=29%  Similarity=0.437  Sum_probs=73.3

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCC-CccccCCCCCCCEEEEEEecCCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDD-RDVEHCEILQNSRIQLLVASDNKP   77 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~-~tL~~~~i~~~~~i~l~~~~~~g~   77 (269)
                      |+|+||+.++ ++.++|++++||.+||++|++++|+|+++|+|+|+|+.|+|+ .+|++|+|+++++|+|+++.+||.
T Consensus        16 ~~I~Vk~~~~-~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~~tL~~ygI~~gstl~lv~r~~gg~   92 (94)
T 2kan_A           16 IHVTVKFPSK-QFTVEVDRTETVSSLKDKIHIVENTPIKRMQLYYSGIELADDYRNLNEYGITEFSEIVVFLKSINRA   92 (94)
T ss_dssp             EEEEEECSSC-EEEEEECTTCBHHHHHHHHHHHSSSCTTTEEEEETTEEECCTTSBHHHHTCCTTEEEEEEECCCSSC
T ss_pred             EEEEEEcCCc-EEEEEECCCCcHHHHHHHHHHHHCcCHHHEEEEECCEECCCCcccHHHCCCCCCCEEEEEEeCCCCC
Confidence            7899999887 899999999999999999999999999999999999999999 999999999999999999999876

>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=99.75  E-value=9.7e-18  Score=122.82  Aligned_cols=77  Identities=27%  Similarity=0.479  Sum_probs=73.4

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHH---hCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKY---QGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKP   77 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~---~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~   77 (269)
                      |+|+|++.+|+.+.++|++++||.+||++|++.   +|+|+++|+|+|+|+.|+|+.+|++|||.++++|+++++...+.
T Consensus         1 M~I~Vk~~~g~~~~~~v~~~~TV~~LK~~I~~~~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~g~~i~l~~~~~~~~   80 (95)
T 1uel_A            1 MQVTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALKEYKIDEKNFVVVMVTKPKAV   80 (95)
T ss_dssp             CEEEEEETTCCEEEEECCTTSBHHHHHHHHHHHHCTTTCCTTTEEEEETTEECCTTSBGGGGTCCSSSEEEEEESSCCCC
T ss_pred             CEEEEEeCCCCEEEEEECCCCHHHHHHHHHHhhcccCCCChhhEEEEECCEECCCcCcHHHCCCCCCCEEEEEEeCCCCC
Confidence            999999999999999999999999999999999   78999999999999999999999999999999999999876544

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

Probab=99.75  E-value=5.8e-18  Score=119.63  Aligned_cols=72  Identities=17%  Similarity=0.271  Sum_probs=69.4

Q ss_pred             ceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEec
Q 044874          185 KLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       185 ~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      +|+|+|+..+| +++.++|++++||.+||++|+++.     |+|+++|+|+|+|+.|+|+.+|++|||++|++|+++.
T Consensus         4 ~m~i~Vk~~~g-~~~~~~v~~~~tV~~lK~~i~~~~-----gip~~~qrL~~~G~~L~d~~tL~~~~i~~~~~l~l~~   75 (79)
T 3phx_B            4 PLSILVRNNKG-RSSTYEVRLTQTVAHLKQQVSGLE-----GVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNL   75 (79)
T ss_dssp             CEEEEEECTTS-CEEEEEECTTSBHHHHHHHHHHHH-----TCCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEE
T ss_pred             CEEEEEEeCCC-CEEEEEECCcChHHHHHHHHHhhc-----CCCHHHEEEEECCEECCCCCcHHHCCCCCCCEEEEEE
Confidence            59999999998 999999999999999999999987     9999999999999999999999999999999999985

>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=99.75  E-value=5.8e-18  Score=127.56  Aligned_cols=76  Identities=32%  Similarity=0.535  Sum_probs=73.6

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNK   76 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g   76 (269)
                      |+|+|+.++|+++.++|++++||.+||++|++++++|+++|||+|+|+.|+|+.+|++|+|.++++|+|+++.+||
T Consensus        36 m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~~gI~~gs~I~l~~rl~GG  111 (111)
T 3vdz_A           36 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG  111 (111)
T ss_dssp             EEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTTTTTCCTTCEEEEEECCCC-
T ss_pred             EEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCChHHEEEEECCEECCCCCcHHHCCCCCCCEEEEEEecCCC
Confidence            7999999999999999999999999999999999999999999999999999999999999999999999999876

>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=99.75  E-value=5.4e-18  Score=122.44  Aligned_cols=76  Identities=20%  Similarity=0.423  Sum_probs=69.5

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCcc
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSV  265 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~  265 (269)
                      |+|+|++.+| +++.++|++++||.+||++|+++.     ++|+++|+|+|+|+.|+|+.+|++|||++|++|+++. ++
T Consensus         1 M~I~Vk~~~g-~~~~l~v~~~~TV~~LK~~I~~~~-----gip~~~qrLi~~Gk~L~D~~tL~~~~i~~g~~l~l~~-rl   73 (88)
T 4fbj_B            1 MLIKVKTLTG-KEIEIDIEPTDKVERIKERVEEKE-----GIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVL-AL   73 (88)
T ss_dssp             CEEEEEETTC-CEEEEECCTTCBHHHHHHHHHHHH-----CCCGGGCEEEETTEECCTTSBTTTTTCCTTCEEEEEC-BC
T ss_pred             CEEEEEcCCC-CEEEEEECCCCCHHHHHHHHHHHH-----CcChhHEEEEECCeECCCCCcHHHcCCCCCCEEEEEE-EC
Confidence            6899999998 999999999999999999999987     9999999999999999999999999999999999986 34


Q ss_pred             cCC
Q 044874          266 TGG  268 (269)
Q Consensus       266 ~~~  268 (269)
                      .||
T Consensus        74 ~Gg   76 (88)
T 4fbj_B           74 RGG   76 (88)
T ss_dssp             C--
T ss_pred             CCC
Confidence            443

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

Probab=99.75  E-value=8e-18  Score=122.27  Aligned_cols=78  Identities=19%  Similarity=0.362  Sum_probs=73.0

Q ss_pred             CCCCCcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEE
Q 044874          179 SGMGPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTI  258 (269)
Q Consensus       179 ~~~~~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i  258 (269)
                      ++..+..|+|+|+..+| +++.++|++++||.+||++|+++.     |+|+++|+|+|+|+.|+|+.+|.+|||++|++|
T Consensus        11 ~~~~~~~m~i~Vk~~~g-~~~~l~v~~~~TV~~LK~~I~~~~-----gip~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~i   84 (91)
T 3v6c_B           11 GLVPRGSMQIFVNTLTG-THITLEVEPSDTIENVKAKIQDKE-----GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTL   84 (91)
T ss_dssp             CCCCCCSEEEEEECTTS-CEEEEEECTTCBHHHHHHHHHHHH-----CCCGGGCEEEETTEECCTTCBTGGGTCCTTCEE
T ss_pred             CCCCCCeEEEEEEeCCC-CEEEEEECCCCCHHHHHHHHHhhh-----CCChhhEEEEECCeECCCcCcHHHCCCCCCCEE
Confidence            44556789999999988 999999999999999999999987     999999999999999999999999999999999


Q ss_pred             EEec
Q 044874          259 EIFN  262 (269)
Q Consensus       259 ~l~~  262 (269)
                      +++.
T Consensus        85 ~l~~   88 (91)
T 3v6c_B           85 HLVL   88 (91)
T ss_dssp             EEEC
T ss_pred             EEEE
Confidence            9984

>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=99.75  E-value=9.5e-18  Score=120.89  Aligned_cols=78  Identities=19%  Similarity=0.403  Sum_probs=72.2

Q ss_pred             cceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecC
Q 044874          184 RKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNG  263 (269)
Q Consensus       184 ~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~  263 (269)
                      ..|+|+|+...| +++.++|++++||.+||++|+++.     ++|++.|+|+|+|+.|+|+.+|++|+|++|++|+++. 
T Consensus        11 ~~m~i~vk~~~g-~~~~~~v~~~~tV~~lK~~i~~~~-----gip~~~qrL~~~G~~L~d~~tL~~~~i~~~~~i~l~~-   83 (88)
T 3dbh_I           11 GSMLIKVKTLTG-KEIEIDIEPTDKVERIKERVEEKE-----GIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVL-   83 (88)
T ss_dssp             CCEEEEEECTTS-CEEEEEECTTCBHHHHHHHHHHHH-----CCCGGGCCEEETTEECCTTSBGGGGTCCTTCEEEECC-
T ss_pred             CcEEEEEEcCCC-CEEEEEECCCCCHHHHHHHHHHHH-----CcCHHHEEEEECCeECCCCCcHHHcCCCCCCEEEEEE-
Confidence            469999999988 999999999999999999999987     9999999999999999999999999999999999986 


Q ss_pred             cccCC
Q 044874          264 SVTGG  268 (269)
Q Consensus       264 ~~~~~  268 (269)
                      ++.||
T Consensus        84 rl~GG   88 (88)
T 3dbh_I           84 RLRGG   88 (88)
T ss_dssp             CCCCC
T ss_pred             eCCCC
Confidence            44444

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

Probab=99.75  E-value=6e-18  Score=124.64  Aligned_cols=81  Identities=23%  Similarity=0.464  Sum_probs=72.1

Q ss_pred             CCCcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEE
Q 044874          181 MGPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEI  260 (269)
Q Consensus       181 ~~~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l  260 (269)
                      ++...|+|+|+..+| +++.++|++++||.+||++|+++.     ++|+++|+|+|+|+.|+|+.+|++|+|++|++|+|
T Consensus        18 ~~~~~m~I~Vk~~~g-~~~~l~v~~~~TV~~LK~~I~~~~-----gip~~~qrLi~~Gk~L~D~~tL~~~~i~~g~~i~l   91 (98)
T 4hcn_B           18 FQGRPMQIFVKTLTG-KTITLEVESSDTIDNVKSKIQDKE-----GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHL   91 (98)
T ss_dssp             ----CCEEEEEETTC-CEEEEECCTTCBHHHHHHHHHHHH-----CCCGGGCEEEETTEECCTTCBSGGGTCCTTEEEEE
T ss_pred             CCCCeEEEEEEeCCC-CEEEEEECCCCcHHHHHHHHHHHh-----CCChhHEEEEECCEECCCCCcHHHCCCCCCCEEEE
Confidence            445679999999998 899999999999999999999987     99999999999999999999999999999999999


Q ss_pred             ecCcccCC
Q 044874          261 FNGSVTGG  268 (269)
Q Consensus       261 ~~~~~~~~  268 (269)
                      +. |+.||
T Consensus        92 ~~-rl~GG   98 (98)
T 4hcn_B           92 VL-RLRGG   98 (98)
T ss_dssp             EC-BCSCC
T ss_pred             EE-ecCCC
Confidence            86 45554

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

Probab=99.75  E-value=6.9e-18  Score=121.78  Aligned_cols=71  Identities=31%  Similarity=0.474  Sum_probs=68.9

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEe
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVA   72 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~   72 (269)
                      |+|+||..+|+++.+++++++||.+||++|++++|+|+++|||+|+|+.|+|+.+|++|+| +|++||+++|
T Consensus        18 m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~qrLi~~Gk~L~D~~tL~~~~i-~g~~i~lv~R   88 (88)
T 4eew_A           18 LEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEYNV-GGKVIHLVER   88 (88)
T ss_dssp             EEEEEEETTSCEEEEEEETTCBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBGGGGTC-TTEEEEEEEC
T ss_pred             EEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHhCCCHHHEEEEECCEECCCCCcHHHcCC-CCcEEEEEEC
Confidence            7899999999999999999999999999999999999999999999999999999999999 8999999875

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

Probab=99.74  E-value=5.1e-18  Score=123.81  Aligned_cols=74  Identities=20%  Similarity=0.324  Sum_probs=71.8

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNK   76 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g   76 (269)
                      |+|+|+.  |+++.++|++++||.+||++|++++|+|+++|+|+|+|+.|+|+.+|++|+|.++++|+++++.+||
T Consensus        20 m~I~Vk~--g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~y~I~~gstI~lv~rl~GG   93 (93)
T 2l7r_A           20 MQLFVRA--QELHTFEVTGQETVAQIKAHVASLEGIAPEDQVVLLAGAPLEDEATLGQCGVEALTTLEVAGRMLGG   93 (93)
T ss_dssp             CEEEEES--SSEEEEECCSSCBHHHHHHHHHHHHTCCGGGCEEEETTEECCTTSBHHHHTCCSSCEEEEECCCCCC
T ss_pred             EEEEEEC--CCEEEEEeCCCCcHHHHHHHHHHHhCcChhHEEEEECCEECCCCCcHHHCCCCCCCEEEEEEecCCC
Confidence            8999998  8999999999999999999999999999999999999999999999999999999999999999876

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

Probab=99.74  E-value=3.5e-18  Score=127.66  Aligned_cols=75  Identities=20%  Similarity=0.443  Sum_probs=70.8

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDN   75 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~   75 (269)
                      |+|+||.++|+++.++|++++||.+||++|++++|+|+++|||+|+|+.|+|+.+|++|||++|++|+|+++...
T Consensus         2 m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~~~i~~g~~i~lv~~~~~   76 (106)
T 3m62_B            2 VSLTFKNFKKEKVPLDLEPSNTILETKTKLAQSISCEESQIKLIYSGKVLQDSKTVSECGLKDGDQVVFMVSQKK   76 (106)
T ss_dssp             -CEEEECTTCCEEEECCCTTSBHHHHHHHHHHTTTSCGGGCEEEETTEECCTTSBTTTTTCCTTCEEEEECCC--
T ss_pred             EEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCChhhEEEEECCEECCCcCCHHHcCCCCCCEEEEEEcCCC
Confidence            899999999999999999999999999999999999999999999999999999999999999999999998764

>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=99.74  E-value=1.4e-17  Score=119.22  Aligned_cols=74  Identities=26%  Similarity=0.442  Sum_probs=70.1

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHH---hCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKY---QGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASD   74 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~---~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~   74 (269)
                      |+|+|+..+|+.+.+++++++||.+||++|++.   +|+|+++|+|+|+|+.|+|+.+|++|+|.++++|+++++..
T Consensus         6 m~i~vk~~~g~~~~~~v~~~~TV~~lK~~i~~~~~~~gip~~~qrLi~~Gk~L~D~~tL~~~~i~~g~~i~l~~~~~   82 (85)
T 2wyq_A            6 VTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIRDYRIDEKNFVVVMVTKT   82 (85)
T ss_dssp             EEEEEEETTSCEEEEEECTTSBHHHHHHHHHHHHCTTTCCGGGEEEEETTEECCTTSBGGGGCCCTTSEEEEEEC--
T ss_pred             EEEEEEECCCCEEEEEECCCCCHHHHHHHHHhhccccCCCHHHeEEEECCEECcCCCCHHHcCCCCCCEEEEEEcCC
Confidence            789999999999999999999999999999998   89999999999999999999999999999999999998765

>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=99.74  E-value=1.7e-17  Score=119.41  Aligned_cols=81  Identities=15%  Similarity=0.258  Sum_probs=73.5

Q ss_pred             CCCcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEE
Q 044874          181 MGPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEI  260 (269)
Q Consensus       181 ~~~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l  260 (269)
                      .++..|+|+|+...| +++.++|++++||.+||++|+++.     ++|+++|+|+|+|+.|+|+.+|++|+|++|++|++
T Consensus         3 ~~~~~m~i~Vk~~~g-~~~~~~v~~~~tV~~lK~~i~~~~-----gi~~~~qrL~~~Gk~L~d~~tL~~~~i~~g~~i~l   76 (87)
T 1wh3_A            3 SGSSGIQVFVKNPDG-GSYAYAINPNSFILGLKQQIEDQQ-----GLPKKQQQLEFQGQVLQDWLGLGIYGIQDSDTLIL   76 (87)
T ss_dssp             CCSSSEEEEEEETTT-EEEEEEECSSSBHHHHHHHHHHHT-----CCCTTTEEEEETTEECCSSSBHHHHTCCTTEEEEE
T ss_pred             CCCCCEEEEEEcCCC-CEEEEEeCCCChHHHHHHHHHHHh-----CCChHHEEEEECCEEccCCCCHHHCCCCCCCEEEE
Confidence            345679999999988 999999999999999999999986     99999999999999999999999999999999999


Q ss_pred             ecCcccCC
Q 044874          261 FNGSVTGG  268 (269)
Q Consensus       261 ~~~~~~~~  268 (269)
                      +.+ +.||
T Consensus        77 ~~~-~~GG   83 (87)
T 1wh3_A           77 SKK-KGSG   83 (87)
T ss_dssp             EEC-SCCC
T ss_pred             EEe-ccCC
Confidence            864 3343

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

Probab=99.74  E-value=7.7e-18  Score=123.62  Aligned_cols=74  Identities=20%  Similarity=0.411  Sum_probs=69.1

Q ss_pred             CEEEEEcCCCCEEEE--EEcCCCCHHHHHHHH-HHHhCCCCCcEEEEEcCEEcCCCCccccCCC-CCCCEEEEEEecC
Q 044874            1 MDVIFEPQRGKAFTI--EVGFFDTVLEIKEKI-EKYQGIPVPKQTLVFNGQVLQDDRDVEHCEI-LQNSRIQLLVASD   74 (269)
Q Consensus         1 M~i~vk~~~g~~~~l--~v~~~~tV~~lK~~I-~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i-~~~~~i~l~~~~~   74 (269)
                      |+|+||+++|+++++  +|++++||.+||++| ++..|+|+++|||+|+|+.|+|+.+|++|+| ++|++|+|+++.+
T Consensus        20 m~I~VKtl~g~~~~i~v~v~~~~TV~~lK~~I~~~~~gip~~~QrLi~~Gk~L~D~~tL~dy~I~~~g~ti~lmvskp   97 (98)
T 4a20_A           20 VHLTLKKIQAPKFSIEHDFSPSDTILQIKQHLISEEKASHISEIKLLLKGKVLHDNLFLSDLKVTPANSTITVMIKPN   97 (98)
T ss_dssp             EEEEEEECSSSCEEEEEEECTTCBHHHHHHHHHHTTSCSCGGGEEEEETTEEECTTCBGGGSCCBTTBCEEEEEECCC
T ss_pred             EEEEEEcCCCCEEEEEEecCCCChHHHHHHHHHHHhcCCChhhEEEEECCEECcCcCCHHHcCcCCCCCEEEEEEeCC
Confidence            799999999998777  556999999999999 8888999999999999999999999999999 9999999999764

>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=99.73  E-value=7.7e-18  Score=122.87  Aligned_cols=77  Identities=12%  Similarity=0.203  Sum_probs=73.0

Q ss_pred             CEEEEEcCCCC--EEEEEEcCCCCHHHHHHHHHHHh--CCCCCcEEEEEcCEEcCCCCccccC--CCCCCCEEEEEEecC
Q 044874            1 MDVIFEPQRGK--AFTIEVGFFDTVLEIKEKIEKYQ--GIPVPKQTLVFNGQVLQDDRDVEHC--EILQNSRIQLLVASD   74 (269)
Q Consensus         1 M~i~vk~~~g~--~~~l~v~~~~tV~~lK~~I~~~~--gi~~~~q~L~~~G~~L~d~~tL~~~--~i~~~~~i~l~~~~~   74 (269)
                      |+|+||..+++  ++.+++++++||.+||++|++++  ++|+++|||+|+|+.|+|+.+|++|  +|+++++|||+++.+
T Consensus         8 m~i~Vk~~~~~~~~~~v~v~~~~TV~~lK~~I~~~~~~~i~~~~QrLi~~Gk~L~D~~tL~~~~~~i~~~~~i~lv~~~~   87 (93)
T 1wgd_A            8 VTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLLDHQCLRDLLPKQEKRHVLHLVCNVK   87 (93)
T ss_dssp             CEEEEECSSSSCCCEEEECCTTSCHHHHHHHHHHHSTTCCCTTTCEEEETTEECCSSSCHHHHSCSSSCSEEEEEECCCC
T ss_pred             EEEEEEeCCCCeEEEEEecCCCCcHHHHHHHHHHHhcCCCChHHeEEEECCEECcCcCCHHHHhcCCCCCCEEEEEeCCC
Confidence            79999999988  67777889999999999999999  9999999999999999999999999  999999999999999


Q ss_pred             CCC
Q 044874           75 NKP   77 (269)
Q Consensus        75 ~g~   77 (269)
                      +|+
T Consensus        88 gg~   90 (93)
T 1wgd_A           88 SGP   90 (93)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            876

>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=99.73  E-value=1.6e-17  Score=120.38  Aligned_cols=75  Identities=25%  Similarity=0.401  Sum_probs=70.3

Q ss_pred             CcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEec
Q 044874          183 PRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       183 ~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      +..|+|+|+..+| +++.++|++++||.+||++|+++.     ++|+++|+|+|+|+.|+|+.+|.+||| +|++|+|+.
T Consensus         3 ~~~m~i~Vk~~~g-~~~~~~v~~~~tV~~lK~~i~~~~-----gip~~~qrLi~~Gk~L~d~~tL~~~~i-~g~~i~l~~   75 (90)
T 4dwf_A            3 PDSLEVLVKTLDS-QTRTFIVGAQMNVKEFKEHIAASV-----SIPSEKQRLIYQGRVLQDDKKLQEYNV-GGKVIHLVE   75 (90)
T ss_dssp             CCEEEEEEEETTC-CEEEEEEETTCBHHHHHHHHHHHH-----TCCGGGEEEEETTEECCTTSBGGGGTC-TTEEEEEEE
T ss_pred             CcEEEEEEEcCCC-CEEEEEECCCCCHHHHHHHHHHHh-----CCCHHHEEEEECCeECCCCCCHHHcCC-CCcEEEEEe
Confidence            3579999999998 999999999999999999999987     999999999999999999999999999 899999986


Q ss_pred             Cc
Q 044874          263 GS  264 (269)
Q Consensus       263 ~~  264 (269)
                      +.
T Consensus        76 ~~   77 (90)
T 4dwf_A           76 RA   77 (90)
T ss_dssp             CC
T ss_pred             cC
Confidence            43

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

Probab=99.73  E-value=1.1e-17  Score=119.63  Aligned_cols=73  Identities=18%  Similarity=0.302  Sum_probs=69.8

Q ss_pred             cceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCee-ecCCCccccccCCCCCEEEEec
Q 044874          184 RKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNV-MDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       184 ~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~-L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      .-|+|+|+...| +++.++|++++||++||++|+++.     |+|+++|+|+|+|+. |+|+++|++|||++|++|+|+.
T Consensus         9 ~~~~i~vk~l~g-~~~~l~v~~~~TV~~LK~~I~~~~-----gip~~~QrLi~~Gk~lL~D~~tL~~y~I~~gs~i~lv~   82 (84)
T 2kk8_A            9 SHMKFLVENLNG-SSFELEVDYRDTLLVVKQKIERSQ-----HIPVSKQTLIVDGIVILREDLTVEQCQIVPTSDIQLEV   82 (84)
T ss_dssp             CCEEEEEEETTS-CEEEEEECTTSBHHHHHHHHHHHH-----TCCGGGEEEEETTEECCCSSSBHHHHTCCTTSCEEEEE
T ss_pred             CceEEEEEecCC-cEEEEEECCCChHHHHHHHHHHHH-----CcChHHEEEEECCEEecCCcCCHHHcCCCCCCEEEEEE
Confidence            459999999998 999999999999999999999997     999999999999999 9999999999999999999974

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

Probab=99.73  E-value=2.2e-17  Score=133.40  Aligned_cols=78  Identities=31%  Similarity=0.510  Sum_probs=74.2

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKPQ   78 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~~   78 (269)
                      |+|+||+.+|+++.++|++++||.+||++|++++|+|+++|||+|+|+.|+|+.+|++|+|+++++||++++.+||..
T Consensus         1 MqI~Vk~~~Gk~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~y~I~~gstI~Lvlrl~GG~k   78 (169)
T 3l0w_B            1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGGG   78 (169)
T ss_dssp             CEEEEEETTSCEEEEECCTTCBHHHHHHHHHHHHCCCTTTEEEEETTEECCTTSBGGGGTCCTTCEEEEEECCCC---
T ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHHCcCHHHEEEEECCccccCcCcHHHcCCCCCCEEEEEEEeccccc
Confidence            999999999999999999999999999999999999999999999999999999999999999999999999998863

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

Probab=99.73  E-value=1.4e-17  Score=118.13  Aligned_cols=73  Identities=25%  Similarity=0.449  Sum_probs=70.6

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEec
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVAS   73 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~   73 (269)
                      |+|+|+..+|+.+.+++++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||.+|++|++++++
T Consensus         8 m~i~vk~~~g~~~~~~v~~~~tV~~LK~~i~~~~~i~~~~qrL~~~gk~L~d~~tL~~~~i~~g~~i~l~~~~   80 (81)
T 2dzi_A            8 MQLTVKALQGRECSLQVPEDELVSTLKQLVSEKLNVPVRQQRLLFKGKALADGKRLSDYSIGPNSKLNLVVKP   80 (81)
T ss_dssp             EEEEEEETTSCEEEEEECSSCBHHHHHHHHHHHTCCCTTTCEEEETTEECCTTSBGGGGTCCSSBCCEEECCC
T ss_pred             EEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcCHHHEEEEECCeECCCCCcHHHcCCCCCCEEEEEEeC
Confidence            7899999999999999999999999999999999999999999999999999999999999999999998875

>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=99.72  E-value=1.2e-17  Score=125.75  Aligned_cols=75  Identities=24%  Similarity=0.334  Sum_probs=69.9

Q ss_pred             CEEEEEcCCCC-EEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCC-------CCCEEEEEEe
Q 044874            1 MDVIFEPQRGK-AFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEIL-------QNSRIQLLVA   72 (269)
Q Consensus         1 M~i~vk~~~g~-~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~-------~~~~i~l~~~   72 (269)
                      |+++|+...++ +++++|++++||.+||++|+.++|+|+++|||+|+|+.|+|+++|++|||.       ++++|+|+++
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            78888887776 599999999999999999999999999999999999999999999999999       7999999999


Q ss_pred             cCCC
Q 044874           73 SDNK   76 (269)
Q Consensus        73 ~~~g   76 (269)
                       .+|
T Consensus        81 -~~g   83 (118)
T 2fnj_B           81 -ADD   83 (118)
T ss_dssp             -SSS
T ss_pred             -CCC
Confidence             544

>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=99.72  E-value=4.5e-17  Score=119.23  Aligned_cols=77  Identities=12%  Similarity=0.323  Sum_probs=70.7

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHh---hhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEec
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKL---HQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~---~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      |+|+|+...| +.+.++|++++||.+||++|++.   +     |+|+++|+|+|+|+.|+|+.+|++|||++|++|+++.
T Consensus         1 M~I~Vk~~~g-~~~~~~v~~~~TV~~LK~~I~~~~~~~-----gip~~~qrLi~~Gk~L~D~~tL~~ygI~~g~~i~l~~   74 (95)
T 1uel_A            1 MQVTLKTLQQ-QTFKIDIDPEETVKALKEKIESEKGKD-----AFPVAGQKLIYAGKILNDDTALKEYKIDEKNFVVVMV   74 (95)
T ss_dssp             CEEEEEETTC-CEEEEECCTTSBHHHHHHHHHHHHCTT-----TCCTTTEEEEETTEECCTTSBGGGGTCCSSSEEEEEE
T ss_pred             CEEEEEeCCC-CEEEEEECCCCHHHHHHHHHHhhcccC-----CCChhhEEEEECCEECCCcCcHHHCCCCCCCEEEEEE
Confidence            6899999888 89999999999999999999997   5     8999999999999999999999999999999999986


Q ss_pred             CcccCC
Q 044874          263 GSVTGG  268 (269)
Q Consensus       263 ~~~~~~  268 (269)
                      .+..++
T Consensus        75 ~~~~~~   80 (95)
T 1uel_A           75 TKPKAV   80 (95)
T ss_dssp             SSCCCC
T ss_pred             eCCCCC
Confidence            554443

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

Probab=99.72  E-value=4.3e-17  Score=122.79  Aligned_cols=76  Identities=32%  Similarity=0.535  Sum_probs=73.3

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNK   76 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g   76 (269)
                      |+|+|+..+|+.+.++|++++||.+||++|++.+++|+++|+|+|+|+.|+|+.+|++|+|.++++|+|+++.+||
T Consensus        36 m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~gI~~gs~I~l~~rl~GG  111 (111)
T 2ojr_A           36 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG  111 (111)
T ss_dssp             EEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHCCCTTTEEEEETTEECCSSCBTTTTTCCTTCEEEEEECCCC-
T ss_pred             EEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHHHHCcCcccEEEEECCEECCCCCcHHHcCCCCCCEEEEEEeCCCC
Confidence            7899999999999999999999999999999999999999999999999999999999999999999999999876

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

Probab=99.72  E-value=8.2e-18  Score=137.52  Aligned_cols=77  Identities=30%  Similarity=0.487  Sum_probs=75.6

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKP   77 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~   77 (269)
                      |+|+||+++|++++++|++++||.+||++|++++|+|+++|+|+|+|+.|+|+.+|++|+|+++++|+|+++..||.
T Consensus       106 MqI~VKtl~Gkt~~l~V~~s~TV~~LK~kI~~~~gIp~~~QrLi~~Gk~L~D~~tL~dygI~~gstI~LvlrlrGG~  182 (189)
T 3q3f_A          106 GQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGG  182 (189)
T ss_dssp             EEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCCEEETTEECCTTCBGGGGTCCTTCEEEECCCCCCCC
T ss_pred             eeeeeecCCCCEEEEEeCCCCcHHHHHHHHHhccCCCHHHEEEEECCEECCCCCCHHHCCCCCCCEEEEEEEcCCCC
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999887

>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=99.72  E-value=1.9e-17  Score=116.98  Aligned_cols=73  Identities=18%  Similarity=0.348  Sum_probs=69.8

Q ss_pred             ceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecC
Q 044874          185 KLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNG  263 (269)
Q Consensus       185 ~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~  263 (269)
                      .|+|+|++..| +++.++|++++||.+||++|++++     |+|+++|+|+|+|+.|+|++||++|+|++||+|+++..
T Consensus         3 ~m~i~vk~~~g-~~~~~~v~~~~tv~~lk~~i~~~~-----gi~~~~qrL~~~G~~L~d~~tl~~~~i~~~~~i~l~~~   75 (79)
T 2uyz_B            3 YIKLKVIGQDS-SEIHFKVKMTTHLKKLKESYCQRQ-----GVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQE   75 (79)
T ss_dssp             EEEEEEECTTC-CEEEEEEETTSCTHHHHHHHHHHH-----TCCGGGEEEEETTEECCTTCCHHHHTCCTTEEEEEEEC
T ss_pred             eEEEEEECCCC-CEEEEEECCCChHHHHHHHHHHHH-----CCCcccEEEEECCEEeCCCCCHHHcCCCCCCEEEEEEe
Confidence            58999999998 899999999999999999999997     99999999999999999999999999999999999864

>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=99.72  E-value=2.5e-17  Score=121.73  Aligned_cols=76  Identities=18%  Similarity=0.356  Sum_probs=72.8

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKP   77 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~   77 (269)
                      |+|+|+..+|+ +.++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++|+|.++++|+|+++..+++
T Consensus        23 m~I~Vk~~~g~-~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~~~p   98 (100)
T 1yqb_A           23 IKVTVKTPKDK-EDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQCGVRDGLTVHLVIKRQHRA   98 (100)
T ss_dssp             EEEEEECSSCE-EEEEEETTCBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBHHHHTCCTTCEEEEEECCCCSC
T ss_pred             EEEEEEcCCCc-EEEEECCCCcHHHHHHHHHHHHCcChhhEEEEECCEECCCcCcHHHCCCCCCCEEEEEEcCCCCC
Confidence            78999999886 79999999999999999999999999999999999999999999999999999999999998776

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

Probab=99.72  E-value=4e-17  Score=114.54  Aligned_cols=72  Identities=31%  Similarity=0.565  Sum_probs=68.9

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEec
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVAS   73 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~   73 (269)
                      |+|+|+. +|+.+.+++++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||.+|++|++..+.
T Consensus         5 m~i~vk~-~g~~~~~~v~~~~tV~~LK~~i~~~~~i~~~~qrL~~~gk~L~d~~tL~~~~i~~g~~i~l~~~~   76 (77)
T 2bwf_A            5 LNIHIKS-GQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESYHIQDGHSVHLVKSQ   76 (77)
T ss_dssp             EEEEEEE-TTEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEECC
T ss_pred             EEEEEEE-CCEEEEEEECCCCcHHHHHHHHHHHhCCCHHHEEEEECCeEcCCCCCHHHcCCCCCCEEEEEEcC
Confidence            7899999 89999999999999999999999999999999999999999999999999999999999998754

>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=99.56  E-value=4.7e-19  Score=124.31  Aligned_cols=75  Identities=25%  Similarity=0.471  Sum_probs=72.7

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDN   75 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~   75 (269)
                      |+|+|+..+|+++.+++++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++|+|.++++|+++++++|
T Consensus         1 M~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi~~~~qrL~~~gk~L~d~~tL~~~~i~~g~~i~l~~rlrg   75 (76)
T 3b1l_X            1 MIVFVRFNSSYGFPVEVDSDTSILQLKEVVAKQQGVPADQLRVIFAGKELPNHLTVQNCDLEQQSIVHIVQRPRR   75 (76)
Confidence            899999999999999999999999999999999999999999999999999999999999999999999998774

>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=99.72  E-value=2.9e-17  Score=117.48  Aligned_cols=76  Identities=18%  Similarity=0.353  Sum_probs=70.0

Q ss_pred             ceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCc
Q 044874          185 KLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGS  264 (269)
Q Consensus       185 ~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~  264 (269)
                      .|+|+|+..+| +++.+++++++||.+||++|+++.     ++|+++|+|+|+|+.|+|+.+|++|+|+++++|+++...
T Consensus         3 ~m~i~vk~~~g-~~~~~~v~~~~tV~~lK~~i~~~~-----~ip~~~qrL~~~g~~L~d~~tL~~~~i~~~~~i~l~~rl   76 (85)
T 3n3k_B            3 HMRIVVKTLMG-RTIILEVEPSDTIENVKAKIQDKE-----GIPPDQQRLIFAGKQLEDGRTLSDYNIHNHSALYLLLKL   76 (85)
T ss_dssp             -CEEEEECGGG-CEEEEECCTTCBHHHHHHHHHHHH-----CCCGGGEEEEETBEECCTTCBTTTTTCCTTCEEEEEECC
T ss_pred             eEEEEEEeCCC-CEEEEEECCCCcHHHHHHHHHHHH-----CCCHHHEEEEECCeECCCCCCHHHCCCCCCCEEEEEEec
Confidence            59999999988 899999999999999999999987     999999999999999999999999999999999998744


Q ss_pred             cc
Q 044874          265 VT  266 (269)
Q Consensus       265 ~~  266 (269)
                      ..
T Consensus        77 ~G   78 (85)
T 3n3k_B           77 RG   78 (85)
T ss_dssp             C-
T ss_pred             cC
Confidence            33

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

Probab=99.72  E-value=7e-18  Score=124.90  Aligned_cols=93  Identities=15%  Similarity=0.372  Sum_probs=66.9

Q ss_pred             CCcccccCCCCCCEEEEEEccCCCCCCCCCCCCCCcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCC
Q 044874          149 HRSLRDCELMDNAEIDVHVRPSPTATSTTSSGMGPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLP  228 (269)
Q Consensus       149 ~~~L~~y~i~~~~~i~l~~~~~~~~~~~~~~~~~~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p  228 (269)
                      ..++++|.|  ++|.+|.++..             -.++|+|+. .| +++.++|++++||.+||++|+++.     |+|
T Consensus         7 ~~~~~~~~~--~~t~~l~l~~~-------------m~i~I~Vk~-~g-~~~~l~v~~~~TV~~LK~~I~~~~-----gip   64 (101)
T 3m63_B            7 HHPMSDYDI--PTTENLYFQGA-------------MSLNIHIKS-GQ-DKWEVNVAPESTVLQFKEAINKAN-----GIP   64 (101)
T ss_dssp             -------------------------------------CCEEEEC-SS-CCCCBCCCTTSBHHHHHHHHHHHH-----SCC
T ss_pred             cCCccccCC--CcceeecccCC-------------cEEEEEEEE-CC-EEEEEEeCCCCCHHHHHHHHHHHH-----CcC
Confidence            567889987  45566654433             247888886 66 899999999999999999999987     999


Q ss_pred             CCceEEEecCeeecCCCccccccCCCCCEEEEecC
Q 044874          229 QDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNG  263 (269)
Q Consensus       229 ~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~  263 (269)
                      +++|+|+|+|+.|+|+.+|++|||++|++|+|+.+
T Consensus        65 ~~~QrLi~~Gk~L~D~~tL~~~gI~~g~tI~lv~~   99 (101)
T 3m63_B           65 VANQRLIYSGKILKDDQTVESYHIQDGHSVHLVKS   99 (101)
T ss_dssp             STTCCEEETTEECCTTSBTTTTTCCTTEEEEECCC
T ss_pred             hHHEEEEECCEECCCcCcHHHCCCCCCCEEEEEeC
Confidence            99999999999999999999999999999999865

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

Probab=99.71  E-value=1.1e-17  Score=120.19  Aligned_cols=71  Identities=15%  Similarity=0.212  Sum_probs=65.9

Q ss_pred             eeEEEEecCCCeEEEEEec--CCCcHHHHHHHH-HHhhhccCCCCCCCceEEEecCeeecCCCccccccC-CCCCEEEEe
Q 044874          186 LKLLVLTQCGNKRIPVEVN--ASDNVSELRKEL-QKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHV-GQGDTIEIF  261 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~--~~~tV~~lK~~i-~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i-~~~~~i~l~  261 (269)
                      |+|+|++..| +++.++|+  +++||.+||++| ++++     |+|+++|+|+|+|+.|+|+.+|++|+| ++|++|+|+
T Consensus         2 mqI~VKtl~g-~~~~i~v~v~~~~TV~~lK~~I~~~~~-----gip~~~QrLi~~Gk~L~D~~tL~~y~I~~~~stl~v~   75 (87)
T 2lxa_A            2 VHLTLKKIQA-PKFSIEHDFSPSDTILQIKQHLISEEK-----ASHISEIKLLLKGKVLHDNLFLSDLKVTPANSTITVM   75 (87)
T ss_dssp             CEEEEEECSS-SCEECCEECCTTCBHHHHHHHHHHTTS-----CSSSTTEEEEETTEECCTTCBHHHHCCCGGGCEEEEE
T ss_pred             EEEEEEcCCC-CEEEEEEcCCCCCcHHHHHHHHHHHhc-----CCChHHEEEEECCEECcCcCCHHHcCCCCCCCEEEEE
Confidence            7999999998 88888766  999999999999 8876     999999999999999999999999999 699999997


Q ss_pred             c
Q 044874          262 N  262 (269)
Q Consensus       262 ~  262 (269)
                      -
T Consensus        76 ~   76 (87)
T 2lxa_A           76 I   76 (87)
T ss_dssp             E
T ss_pred             c
Confidence            4

>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=99.71  E-value=1.4e-17  Score=122.23  Aligned_cols=77  Identities=22%  Similarity=0.359  Sum_probs=74.0

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKPQ   78 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~~   78 (269)
                      |+|+|+.. |+.+.++|++++||.+||++|++.+++|+++|+|+|+|+.|+|+.+|++|+|.++++|+|+++..+|++
T Consensus        18 m~i~Vk~~-g~~~~~~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~i~l~~~~~~g~~   94 (96)
T 1wx8_A           18 IRVSVKTP-QDCHEFFLAENSNVRRFKKQISKYLHCNADRLVLIFTGKILRDQDILSQRGILDGSTVHVVVRSHSGPS   94 (96)
T ss_dssp             EEEEEECS-SSEEEEEEETTCCHHHHHHHHHHHTCSCTTTBCCEETTEECCTTSCHHHHTCCTTEEEECCBCCSSCSS
T ss_pred             EEEEEEEC-CeEEEEEECCCCCHHHHHHHHHHHhCCCHHHEEEEECCEECCCcCCHHHCCCCCCCEEEEEEeCCCCCC
Confidence            78999998 999999999999999999999999999999999999999999999999999999999999999998763

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

Probab=99.71  E-value=2.8e-17  Score=118.63  Aligned_cols=76  Identities=16%  Similarity=0.230  Sum_probs=69.8

Q ss_pred             ceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCc
Q 044874          185 KLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGS  264 (269)
Q Consensus       185 ~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~  264 (269)
                      .|+|+|++..| +++.++|++++||.+||++|+++.     |+|+++|+|+|+|+.|+|+++|++|||++|++|+++...
T Consensus         4 ~m~I~Vk~~~g-~~~~~~v~~~~TV~~LK~~I~~~~-----gip~~~qrL~~~Gk~L~D~~tL~~~~I~~g~~i~l~~~~   77 (88)
T 2hj8_A            4 PLSILVRNNKG-RSSTYEVRLTQTVAHLKQQVSGLE-----GVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNLRL   77 (88)
T ss_dssp             EEEEEEEETTS-CEEEEEEESSSBHHHHHHHHHHHT-----CSCTTTEEEESSSSCCCTTSBHHHHHCSTTCEEEEEEC-
T ss_pred             cEEEEEECCCC-CEEEEEECCCCcHHHHHHHHHHHh-----CCChhHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEEc
Confidence            59999999988 999999999999999999999987     999999999999999999999999999999999998654


Q ss_pred             cc
Q 044874          265 VT  266 (269)
Q Consensus       265 ~~  266 (269)
                      ..
T Consensus        78 ~g   79 (88)
T 2hj8_A           78 RG   79 (88)
T ss_dssp             --
T ss_pred             CC
Confidence            33

>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=99.71  E-value=2.4e-17  Score=120.68  Aligned_cols=63  Identities=10%  Similarity=0.111  Sum_probs=59.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCc
Q 044874          197 KRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGS  264 (269)
Q Consensus       197 ~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~  264 (269)
                      +++.++|++++||.+||++|++++     |+|+++|+|||+|++|+|++||++|+|++|++|+++..|
T Consensus        30 ~~~~lev~~~~TV~~lK~kI~~k~-----gip~~qQrLI~~GKiL~D~~TL~~y~I~~gsti~vl~lr   92 (100)
T 1wju_A           30 RKNLLETRLHITGRELRSKIAETF-----GLQENYIKIVINKKQLQLGKTLEEQGVAHNVKAMVLELK   92 (100)
T ss_dssp             SSEEEEEESSSBHHHHHHHHHHHT-----TCCSTTCEEEETTEECCTTSBHHHHTCCSSEEEEEECCC
T ss_pred             cEEEEEeCCcCHHHHHHHHHHHHH-----CcCHHHeEEEeCCeECCCCCcHHHcCCCCCCEEEEEEEC
Confidence            789999999999999999999997     999999999999999999999999999999999888543

>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=99.71  E-value=3.4e-17  Score=120.38  Aligned_cols=80  Identities=20%  Similarity=0.368  Sum_probs=72.9

Q ss_pred             CCcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEe
Q 044874          182 GPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIF  261 (269)
Q Consensus       182 ~~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~  261 (269)
                      .+..|+|+|++..| +++.++|++++||.+||++|++++     |+|+++|+|+|+|+.|+|++||++|+|++||+|+++
T Consensus        18 ~~~~m~I~Vk~~~g-~~~~l~v~~~~tv~~lK~~i~~~~-----gip~~~qrLif~Gk~L~d~~tl~dy~i~~g~~I~l~   91 (97)
T 1wyw_B           18 EGEYIKLKVIGQDS-SEIHFKVKMTTHLKKLKESYCQRQ-----GVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVY   91 (97)
T ss_dssp             -CCEEEEEEECTTC-CEEEEEEETTSCTHHHHHHHHHHH-----TCCGGGEEEEETTEECCTTCCHHHHTCCTTCEEEEE
T ss_pred             CCCcEEEEEEeCCC-CEEEEEECCCCcHHHHHHHHHHHH-----CCChhhEEEEECCeEcCCCCCHHHCCCCCCCEEEEE
Confidence            34569999999998 899999999999999999999997     999999999999999999999999999999999998


Q ss_pred             cCcccCC
Q 044874          262 NGSVTGG  268 (269)
Q Consensus       262 ~~~~~~~  268 (269)
                      .+ ..||
T Consensus        92 ~~-~~GG   97 (97)
T 1wyw_B           92 QE-QTGG   97 (97)
T ss_dssp             ES-SSCC
T ss_pred             Ee-cCCC
Confidence            64 4443

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

Probab=99.71  E-value=3e-17  Score=119.72  Aligned_cols=81  Identities=15%  Similarity=0.267  Sum_probs=68.8

Q ss_pred             CCCCCcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEE
Q 044874          179 SGMGPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTI  258 (269)
Q Consensus       179 ~~~~~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i  258 (269)
                      |...+..|+|+|+.  | +++.++|++++||.+||++|+++.     ++|+++|+|+|+|+.|+|+++|++|+|++|++|
T Consensus        13 ~~~~~~~m~I~Vk~--g-~~~~l~v~~~~TV~~LK~~I~~~~-----gip~~~qrLi~~Gk~L~D~~tL~~y~I~~gstI   84 (93)
T 2l7r_A           13 GLVPRGSMQLFVRA--Q-ELHTFEVTGQETVAQIKAHVASLE-----GIAPEDQVVLLAGAPLEDEATLGQCGVEALTTL   84 (93)
T ss_dssp             -------CEEEEES--S-SEEEEECCSSCBHHHHHHHHHHHH-----TCCGGGCEEEETTEECCTTSBHHHHTCCSSCEE
T ss_pred             CCCCCCcEEEEEEC--C-CEEEEEeCCCCcHHHHHHHHHHHh-----CcChhHEEEEECCEECCCCCcHHHCCCCCCCEE
Confidence            33445679999997  6 899999999999999999999987     999999999999999999999999999999999


Q ss_pred             EEecCcccCC
Q 044874          259 EIFNGSVTGG  268 (269)
Q Consensus       259 ~l~~~~~~~~  268 (269)
                      +|+. |+.||
T Consensus        85 ~lv~-rl~GG   93 (93)
T 2l7r_A           85 EVAG-RMLGG   93 (93)
T ss_dssp             EEEC-CCCCC
T ss_pred             EEEE-ecCCC
Confidence            9986 45554

>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=99.71  E-value=6.7e-17  Score=115.53  Aligned_cols=75  Identities=21%  Similarity=0.371  Sum_probs=70.5

Q ss_pred             ceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCc
Q 044874          185 KLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGS  264 (269)
Q Consensus       185 ~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~  264 (269)
                      .|+|+|+..+| +++.+++++++||.+||++|+++.     ++|+++|+|+|+|+.|+|+.+|++|+|+++++|+++...
T Consensus         3 ~m~i~vk~~~g-~~~~~~v~~~~tV~~lK~~i~~~~-----~i~~~~qrL~~~g~~L~d~~tL~~~~i~~~~~l~l~~r~   76 (85)
T 3mtn_B            3 HMQIFVKTLTG-KTITLEVEPSDTIENVKAKIQDKE-----GIPPDQQRLIFAGKQLEDGRTLSDYNIQKWSTLFLLLRL   76 (85)
T ss_dssp             CEEEEEECTTS-CEEEEEECTTCBHHHHHHHHHHHH-----CCCGGGCEEEETTEECCTTSBTGGGTCCTTCEEEEECCC
T ss_pred             eEEEEEEcCCC-CEEEEEECCCCCHHHHHHHHHHHH-----CcChHHEEEEECCEECCCCCCHHHcCCCCCCEEEEEEEC
Confidence            59999999988 999999999999999999999987     999999999999999999999999999999999998643


Q ss_pred             c
Q 044874          265 V  265 (269)
Q Consensus       265 ~  265 (269)
                      .
T Consensus        77 ~   77 (85)
T 3mtn_B           77 R   77 (85)
T ss_dssp             C
T ss_pred             c
Confidence            3

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

Probab=99.71  E-value=7e-17  Score=117.93  Aligned_cols=79  Identities=22%  Similarity=0.320  Sum_probs=71.3

Q ss_pred             CcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCC-CccccccCCCCCEEEEe
Q 044874          183 PRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDD-RSFRWHHVGQGDTIEIF  261 (269)
Q Consensus       183 ~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~-~tL~~~~i~~~~~i~l~  261 (269)
                      ...|+|+|+...+  ++.++|++++||.+||++|+++.     |+|+++|+|+|+|+.|+|+ ++|++|||++|++|+|+
T Consensus        13 ~~~~~I~Vk~~~~--~~~l~v~~~~TV~~LK~~I~~~~-----gip~~~QrLi~~Gk~L~D~~~tL~~ygI~~gstl~lv   85 (94)
T 2kan_A           13 VRKIHVTVKFPSK--QFTVEVDRTETVSSLKDKIHIVE-----NTPIKRMQLYYSGIELADDYRNLNEYGITEFSEIVVF   85 (94)
T ss_dssp             SCCEEEEEECSSC--EEEEEECTTCBHHHHHHHHHHHS-----SSCTTTEEEEETTEEECCTTSBHHHHTCCTTEEEEEE
T ss_pred             CCCEEEEEEcCCc--EEEEEECCCCcHHHHHHHHHHHH-----CcCHHHEEEEECCEECCCCcccHHHCCCCCCCEEEEE
Confidence            3459999999765  88999999999999999999986     9999999999999999999 99999999999999998


Q ss_pred             cCcccCC
Q 044874          262 NGSVTGG  268 (269)
Q Consensus       262 ~~~~~~~  268 (269)
                      .+..+|+
T Consensus        86 ~r~~gg~   92 (94)
T 2kan_A           86 LKSINRA   92 (94)
T ss_dssp             ECCCSSC
T ss_pred             EeCCCCC
Confidence            7554443

>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=99.71  E-value=4.1e-17  Score=122.30  Aligned_cols=76  Identities=25%  Similarity=0.356  Sum_probs=71.4

Q ss_pred             CEEEEEcCCCC-EEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCC-------CCEEEEEEe
Q 044874            1 MDVIFEPQRGK-AFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQ-------NSRIQLLVA   72 (269)
Q Consensus         1 M~i~vk~~~g~-~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~-------~~~i~l~~~   72 (269)
                      |.+|++...++ ++.+++++++||.+||++|+.++|+|+++|||+|+|+.|+|++||++|||.+       +++|+|+++
T Consensus         1 m~vFl~Ikr~ktTI~ldve~sdTV~~lK~kI~~~~giPp~qQrLI~~Gk~LeD~kTL~dy~I~~~ta~~q~~atl~Lvlr   80 (118)
T 4ajy_B            1 MDVFLMIRRHKTTIFTDAKESSTVFELKRIVEGILKRPPDEQRLYKDDQLLDDGKTLGECGFTSQTARPQAPATVGLAFR   80 (118)
T ss_dssp             CEEEEEEEEBTEEEEEEEETTSBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTTTTTCCGGGSBTTBCEEEEEEEC
T ss_pred             CceEEEEecCCEEEEEEcCCCChHHHHHHHHHHHHCCCHHHeEEEeCCeECCCcCCHHHcCCCcCcccCCCCCEEEEEEe
Confidence            78899887777 7889999999999999999999999999999999999999999999999999       999999999


Q ss_pred             cCCC
Q 044874           73 SDNK   76 (269)
Q Consensus        73 ~~~g   76 (269)
                      ..+.
T Consensus        81 ~~~~   84 (118)
T 4ajy_B           81 ADDT   84 (118)
T ss_dssp             CSSC
T ss_pred             cCCC
Confidence            8543

>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=7.3e-17  Score=112.73  Aligned_cols=76  Identities=20%  Similarity=0.420  Sum_probs=69.1

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCcc
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSV  265 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~  265 (269)
                      |+|+|+..+| +++.+++++++||.+||++|++..     ++|++.|+|+|+|+.|+|+.+|++|||++|++|+++.+ +
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 MLIKVKTLTG-KEIEIDIEPTDKVERIKERVEEKE-----GIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLA-L   73 (76)
T ss_dssp             CEEEEECTTS-CEEEEECCTTCBHHHHHHHHHHHH-----CCCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEEC-C
T ss_pred             CEEEEECCCC-CEEEEEECCCChHHHHHHHHHHHH-----CcChHHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEe-C
Confidence            6899999888 899999999999999999999987     99999999999999999999999999999999999863 4


Q ss_pred             cCC
Q 044874          266 TGG  268 (269)
Q Consensus       266 ~~~  268 (269)
                      .||
T Consensus        74 ~GG   76 (76)
T 1ndd_A           74 RGG   76 (76)
T ss_dssp             C--
T ss_pred             CCC
Confidence            443

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

Probab=99.70  E-value=5.9e-17  Score=116.93  Aligned_cols=77  Identities=25%  Similarity=0.465  Sum_probs=69.0

Q ss_pred             ceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCc
Q 044874          185 KLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGS  264 (269)
Q Consensus       185 ~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~  264 (269)
                      -|+|+|++.+| +++.+++++++||++||++|+++.     ++|++.|+|+|+|+.|+|+.+|++|||++|++|+++.+ 
T Consensus         9 ~~~i~v~~~~G-~~~~l~v~~~~TV~~LK~~I~~~~-----gip~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~i~l~~r-   81 (88)
T 1sif_A            9 GLQLFIKTLTG-KTFTVEMEPSDTIENLKAKIQDKE-----GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR-   81 (88)
T ss_dssp             -CEEEEEETTS-CEEEEECCTTSBHHHHHHHHHHHH-----CCCGGGCEEEETTEECCTTSBSGGGTCCTTCEEEEEC--
T ss_pred             ceEEEEEeCCC-CEEEEEECCCChHHHHHHHHHHHH-----CcChhhEEEEECCEECCCCCcHHHcCCCCCCEEEEEEe-
Confidence            49999999998 999999999999999999999987     99999999999999999999999999999999999864 


Q ss_pred             ccCC
Q 044874          265 VTGG  268 (269)
Q Consensus       265 ~~~~  268 (269)
                      ..||
T Consensus        82 ~~GG   85 (88)
T 1sif_A           82 LRGG   85 (88)
T ss_dssp             ----
T ss_pred             CCCC
Confidence            4444

>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=99.70  E-value=1.2e-16  Score=115.41  Aligned_cols=76  Identities=18%  Similarity=0.289  Sum_probs=69.9

Q ss_pred             CcceeEEEEecCCCeEEEE-EecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEe
Q 044874          183 PRKLKLLVLTQCGNKRIPV-EVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIF  261 (269)
Q Consensus       183 ~~~~~i~V~~~~g~~~~~l-~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~  261 (269)
                      ...|+|+|+...|.+++.+ +|++++||.+||++|+++.     ++|+++|+|+|+|+.|+|+.+|++|+|++|++|+|+
T Consensus         5 ~~~m~i~Vk~~~g~~~~~l~~v~~~~tV~~lK~~i~~~~-----gip~~~qrL~~~gk~L~d~~tL~~~~i~~g~~i~l~   79 (89)
T 1wy8_A            5 SSGMWIQVRTIDGSKTCTIEDVSRKATIEELRERVWALF-----DVRPECQRLFYRGKQLENGYTLFDYDVGLNDIIQLL   79 (89)
T ss_dssp             SSCEEEEEEETTCSCEEEEEEECTTCBHHHHHHHHHHHS-----CCCTTTEEEEETTEECCSSSBHHHHTCCTTCEEEEE
T ss_pred             CCcEEEEEEECCCCceEEEEecCCCCCHHHHHHHHHHHH-----CcChhhEEEEECCeECCCCCCHHHCCCCCCCEEEEE
Confidence            3569999999887458999 5999999999999999986     999999999999999999999999999999999998


Q ss_pred             cC
Q 044874          262 NG  263 (269)
Q Consensus       262 ~~  263 (269)
                      ..
T Consensus        80 ~~   81 (89)
T 1wy8_A           80 VR   81 (89)
T ss_dssp             EC
T ss_pred             Ee
Confidence            64

>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=99.70  E-value=9.1e-17  Score=114.98  Aligned_cols=74  Identities=14%  Similarity=0.297  Sum_probs=69.2

Q ss_pred             ceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHh---hhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEe
Q 044874          185 KLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKL---HQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIF  261 (269)
Q Consensus       185 ~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~---~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~  261 (269)
                      .|+|+|+...| +.+.++|++++||.+||++|++.   +     |+|+++|+|+|+|+.|+|+.+|++|||++|++|+++
T Consensus         5 ~m~i~vk~~~g-~~~~~~v~~~~TV~~lK~~i~~~~~~~-----gip~~~qrLi~~Gk~L~D~~tL~~~~i~~g~~i~l~   78 (85)
T 2wyq_A            5 AVTITLKTLQQ-QTFKIRMEPDETVKVLKEKIEAEKGRD-----AFPVAGQKLIYAGKILSDDVPIRDYRIDEKNFVVVM   78 (85)
T ss_dssp             CEEEEEEETTS-CEEEEEECTTSBHHHHHHHHHHHHCTT-----TCCGGGEEEEETTEECCTTSBGGGGCCCTTSEEEEE
T ss_pred             eEEEEEEECCC-CEEEEEECCCCCHHHHHHHHHhhcccc-----CCCHHHeEEEECCEECcCCCCHHHcCCCCCCEEEEE
Confidence            59999999988 89999999999999999999997   5     899999999999999999999999999999999998


Q ss_pred             cCc
Q 044874          262 NGS  264 (269)
Q Consensus       262 ~~~  264 (269)
                      .+.
T Consensus        79 ~~~   81 (85)
T 2wyq_A           79 VTK   81 (85)
T ss_dssp             EC-
T ss_pred             EcC
Confidence            644

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

Probab=99.70  E-value=5.3e-17  Score=119.14  Aligned_cols=75  Identities=13%  Similarity=0.193  Sum_probs=67.3

Q ss_pred             cceeEEEEecCCCeEEEE--EecCCCcHHHHHHHH-HHhhhccCCCCCCCceEEEecCeeecCCCccccccC-CCCCEEE
Q 044874          184 RKLKLLVLTQCGNKRIPV--EVNASDNVSELRKEL-QKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHV-GQGDTIE  259 (269)
Q Consensus       184 ~~~~i~V~~~~g~~~~~l--~v~~~~tV~~lK~~i-~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i-~~~~~i~  259 (269)
                      ..|+|+|++..| +++.+  +|++++||.+||++| ++.+     |+|+++|+|+|+|+.|+|+.+|++|+| ++|++|+
T Consensus        18 ~~m~I~VKtl~g-~~~~i~v~v~~~~TV~~lK~~I~~~~~-----gip~~~QrLi~~Gk~L~D~~tL~dy~I~~~g~ti~   91 (98)
T 4a20_A           18 AAVHLTLKKIQA-PKFSIEHDFSPSDTILQIKQHLISEEK-----ASHISEIKLLLKGKVLHDNLFLSDLKVTPANSTIT   91 (98)
T ss_dssp             CCEEEEEEECSS-SCEEEEEEECTTCBHHHHHHHHHHTTS-----CSCGGGEEEEETTEEECTTCBGGGSCCBTTBCEEE
T ss_pred             CCEEEEEEcCCC-CEEEEEEecCCCChHHHHHHHHHHHhc-----CCChhhEEEEECCEECcCcCCHHHcCcCCCCCEEE
Confidence            459999999998 77666  666999999999999 7765     999999999999999999999999999 9999999


Q ss_pred             EecCc
Q 044874          260 IFNGS  264 (269)
Q Consensus       260 l~~~~  264 (269)
                      ++-+.
T Consensus        92 lmvsk   96 (98)
T 4a20_A           92 VMIKP   96 (98)
T ss_dssp             EEECC
T ss_pred             EEEeC
Confidence            98543

>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=99.70  E-value=3.7e-17  Score=122.13  Aligned_cols=76  Identities=22%  Similarity=0.363  Sum_probs=73.1

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNK   76 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g   76 (269)
                      |+|+|++.+|+++.++|++++||.+||++|+.++|+|+++|||+|+|+.|+|+.+|++|||.++++|+|+++....
T Consensus        24 m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~g~ti~lv~~~~~~   99 (106)
T 1ttn_A           24 CQLRLRLSTGKDLKLVVRSTDTVFHMKRRLHAAEGVEPGSQRWFFSGRPLTDKMKFEELKIPKDYVVQVIVSQPVQ   99 (106)
T ss_dssp             EEEEEEETTTEEEEEEECTTSHHHHHHHHHHHTTCCCSTTCEEEETTEECCTTSHHHHCCCSSSCEEEEECCCSSC
T ss_pred             EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHHCcCcccEEEEECCEECCCCCcHHHcCCCCCCEEEEEEeCCCC
Confidence            7899999999999999999999999999999999999999999999999999999999999999999999987754

>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=99.70  E-value=2.6e-17  Score=121.94  Aligned_cols=73  Identities=21%  Similarity=0.321  Sum_probs=66.9

Q ss_pred             cceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCC---------------CceEEEecCeeec-CCCcc
Q 044874          184 RKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQ---------------DGYFFIYKQNVMD-DDRSF  247 (269)
Q Consensus       184 ~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~---------------~~q~l~~~g~~L~-d~~tL  247 (269)
                      ..|+|+|++.+| +++.++|++++||++||++|++++     ++|+               ++|+|+|+|+.|+ |++||
T Consensus         6 ~~M~I~Vk~l~g-~~~~v~V~~~~TV~dLK~~I~~~~-----~i~~~~q~g~~~isw~~~w~q~~Li~~Gk~L~dD~~tL   79 (105)
T 1v2y_A            6 SGMTVRVCKMDG-EVMPVVVVQNATVLDLKKAIQRYV-----QLKQEREGGVQHISWSYVWRTYHLTSAGEKLTEDRKKL   79 (105)
T ss_dssp             CSEEEEEECSSS-CEEEEEECTTCBHHHHHHHHHHHH-----HHHHHHTTCCCCCCHHHHHTTEEEESSSCEECCSSSBH
T ss_pred             CcEEEEEEecCC-CEEEEEECCCChHHHHHHHHHHHh-----CCCcccccCcceeeeeecceeEEEEeCCcCccCCcCCH
Confidence            569999999998 999999999999999999999987     6765               5689999999996 56899


Q ss_pred             ccccCCCCCEEEEec
Q 044874          248 RWHHVGQGDTIEIFN  262 (269)
Q Consensus       248 ~~~~i~~~~~i~l~~  262 (269)
                      ++|||++|++|+++.
T Consensus        80 ~dygI~~g~~l~lv~   94 (105)
T 1v2y_A           80 RDYGIRNRDEVSFIK   94 (105)
T ss_dssp             HHHTCCSSEEEEEEE
T ss_pred             HHcCCCCCCEEEEEe
Confidence            999999999999996

>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=99.70  E-value=8.6e-17  Score=113.25  Aligned_cols=73  Identities=25%  Similarity=0.361  Sum_probs=68.2

Q ss_pred             ceeEEEEecCCCeEE-EEE-ecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEec
Q 044874          185 KLKLLVLTQCGNKRI-PVE-VNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       185 ~~~i~V~~~~g~~~~-~l~-v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      .|+|+|++..| +++ .++ |++++||++||++|+++.     |+|+++|+|+|+|+.|+|+++|++|||++|++|+++.
T Consensus         2 ~m~i~Vk~~~g-~~~~~l~~v~~~~tv~~lK~~i~~~~-----gip~~~qrL~~~g~~L~d~~tL~~~~i~~g~~i~l~~   75 (78)
T 2faz_A            2 SMWIQVRTMDG-RQTHTVDSLSRLTKVEELRRKIQELF-----HVEPGLQRLFYRGKQMEDGHTLFDYEVRLNDTIQLLV   75 (78)
T ss_dssp             CEEEEEEETTS-SCEEEEEEECTTCBHHHHHHHHHHHH-----CCCGGGEEEEETTEECCTTCBTTTTTCCTTCEEEEEE
T ss_pred             cEEEEEEECCC-CEEEEEeccCCCCCHHHHHHHHHHHH-----CcChhhEEEEECCEECCCCCCHHHcCCCCCCEEEEEE
Confidence            38999999988 664 899 999999999999999987     9999999999999999999999999999999999985


Q ss_pred             C
Q 044874          263 G  263 (269)
Q Consensus       263 ~  263 (269)
                      +
T Consensus        76 r   76 (78)
T 2faz_A           76 R   76 (78)
T ss_dssp             C
T ss_pred             e
Confidence            3

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

Probab=99.70  E-value=1.1e-16  Score=121.09  Aligned_cols=77  Identities=29%  Similarity=0.493  Sum_probs=74.7

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKP   77 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~   77 (269)
                      .+|+|+.++|+++.+++++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++|+|.++++|+|+++..||.
T Consensus        10 ~~i~vk~l~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~~~~GG~   86 (114)
T 2kdi_A           10 FQIFAKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIWAGKQLEDGRTLSDYNIQRESTLHLVLRLRGGS   86 (114)
T ss_dssp             CEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTCBTTTTTCCSSCEEEEEECCCSSC
T ss_pred             EEEEEEeCCCcEEEEEECCCCcHHHHHHHHHHHHCcChHHEEEEECCEECCCCCcHHHCCCCCCCEEEEEEEcCCCc
Confidence            37999999999999999999999999999999999999999999999999999999999999999999999999886

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

Probab=99.70  E-value=3.6e-17  Score=121.35  Aligned_cols=78  Identities=18%  Similarity=0.213  Sum_probs=73.0

Q ss_pred             CEEEEEcCCC----CEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCC-CccccCCCCCCCEEEEEEecCC
Q 044874            1 MDVIFEPQRG----KAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDD-RDVEHCEILQNSRIQLLVASDN   75 (269)
Q Consensus         1 M~i~vk~~~g----~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~-~tL~~~~i~~~~~i~l~~~~~~   75 (269)
                      |+|+|+..++    +++.++|++++||++||++|++++|+|+++|+|+|+|+.|+|+ .+|++|+|+++++|+|+.+.++
T Consensus         8 m~I~Vk~~~~~~~~~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~gk~L~D~~~tL~~ygI~~g~~l~l~~~~~g   87 (102)
T 1v5o_A            8 MLITVYCVRRDLTEVTFSLQVNPDFELSNFRVLCELESGVPAEEAQIVYMEQLLTDDHCSLGSYGLKDGDMVVLLQKDNV   87 (102)
T ss_dssp             EEEEEEECCCCCCCCEEEEEECTTCBHHHHHHHHHHHTCCCGGGBCEEETTEEECCSSSBHHHHTCCTTEEEEECBCCCC
T ss_pred             EEEEEEECCCCcCceEEEEEcCCCCCHHHHHHHHHHHHCcChHHeEEEECCEECCCCcccHHHCCCCCCCEEEEEECCCC
Confidence            7899998754    7999999999999999999999999999999999999999987 6899999999999999999998


Q ss_pred             CCC
Q 044874           76 KPQ   78 (269)
Q Consensus        76 g~~   78 (269)
                      |++
T Consensus        88 g~~   90 (102)
T 1v5o_A           88 GLR   90 (102)
T ss_dssp             CCS
T ss_pred             CCC
Confidence            864

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

Probab=99.70  E-value=1e-16  Score=118.59  Aligned_cols=74  Identities=22%  Similarity=0.317  Sum_probs=70.9

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDN   75 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~   75 (269)
                      |+|+|+.. |+.+.++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||.++++|+|+++...
T Consensus        26 m~I~Vk~~-g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~gI~~g~~I~l~~~~~~   99 (101)
T 2klc_A           26 MKVTVKTP-KEKEEFAVPENSSVQQFKEEISKRFKSHTDQLVLIFAGKILKDQDTLSQHGIHDGLTVHLVIKTQN   99 (101)
T ss_dssp             EEEEEECS-SCEEEEEECSCCCHHHHHHHHHHHHTCCGGGEEEEETTEEECTTCCTGGGTCCTTCEEEEEECCSS
T ss_pred             EEEEEEeC-CcEEEEEECCCCCHHHHHHHHHHHHCcChhhEEEEECCEECCCcCcHHHcCCCCCCEEEEEEcCCC
Confidence            78999998 899999999999999999999999999999999999999999999999999999999999998764

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

Probab=99.70  E-value=9e-17  Score=113.86  Aligned_cols=75  Identities=15%  Similarity=0.282  Sum_probs=70.0

Q ss_pred             CcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEec
Q 044874          183 PRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       183 ~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      +..|+|+|+...| +.+.+++++++||++||++|++..     ++|++.|+|+|+|+.|+|+.+|++|||++|++|+++.
T Consensus         5 ~~~m~i~vk~~~g-~~~~~~v~~~~tV~~LK~~i~~~~-----~i~~~~qrL~~~gk~L~d~~tL~~~~i~~g~~i~l~~   78 (81)
T 2dzi_A            5 SSGMQLTVKALQG-RECSLQVPEDELVSTLKQLVSEKL-----NVPVRQQRLLFKGKALADGKRLSDYSIGPNSKLNLVV   78 (81)
T ss_dssp             SSSEEEEEEETTS-CEEEEEECSSCBHHHHHHHHHHHT-----CCCTTTCEEEETTEECCTTSBGGGGTCCSSBCCEEEC
T ss_pred             CCcEEEEEEeCCC-CEEEEEECCCCcHHHHHHHHHHHH-----CcCHHHEEEEECCeECCCCCcHHHcCCCCCCEEEEEE
Confidence            3569999999888 899999999999999999999986     9999999999999999999999999999999999975


Q ss_pred             C
Q 044874          263 G  263 (269)
Q Consensus       263 ~  263 (269)
                      +
T Consensus        79 ~   79 (81)
T 2dzi_A           79 K   79 (81)
T ss_dssp             C
T ss_pred             e
Confidence            3

>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=99.69  E-value=1.4e-16  Score=118.90  Aligned_cols=77  Identities=18%  Similarity=0.347  Sum_probs=73.4

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKPQ   78 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~~   78 (269)
                      |+|+|+..+|+ +.++|++++||.+||++|++.+++++++|||+|+|+.|+|+.+|++|+|.++++|+|+++..+++.
T Consensus        18 m~I~Vk~~~g~-~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~gi~~g~~i~l~~~~~~~~~   94 (106)
T 1wx7_A           18 IKVTVKTPKDK-EDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQCGVRDGLTVHLVIKRQHRAM   94 (106)
T ss_dssp             EEEEEECSSCE-EEEEEETTCCHHHHHHHHHHHHTCCTTTEEEEETTEECCTTSCHHHHTCCTTEEEEEEECCCCCSC
T ss_pred             EEEEEEeCCCc-EEEEECCCCcHHHHHHHHHHHHCcChhhEEEEECCEECCCcCcHHHcCCCCCCEEEEEEcCCCCCC
Confidence            78999998886 799999999999999999999999999999999999999999999999999999999999998764

>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=7.3e-17  Score=118.10  Aligned_cols=73  Identities=16%  Similarity=0.179  Sum_probs=66.4

Q ss_pred             EEEEcCC----CCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCC
Q 044874            3 VIFEPQR----GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNK   76 (269)
Q Consensus         3 i~vk~~~----g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g   76 (269)
                      |.|+..+    +++++++|++++||.+||++|++++|+|+++|+|+|+|++|+|+.+|++|+|+++++| +++++++.
T Consensus        18 i~V~~~~~~~~~~~~~lev~~~~TV~~lK~kI~~k~gip~~qQrLI~~GKiL~D~~TL~~y~I~~gsti-~vl~lrg~   94 (100)
T 1wju_A           18 IEVFLPPRLKKDRKNLLETRLHITGRELRSKIAETFGLQENYIKIVINKKQLQLGKTLEEQGVAHNVKA-MVLELKQS   94 (100)
T ss_dssp             EEEECCTTTCCSSSEEEEEESSSBHHHHHHHHHHHTTCCSTTCEEEETTEECCTTSBHHHHTCCSSEEE-EEECCCCC
T ss_pred             EEEEecCCCCCCcEEEEEeCCcCHHHHHHHHHHHHHCcCHHHeEEEeCCeECCCCCcHHHcCCCCCCEE-EEEEECCC
Confidence            5666666    7799999999999999999999999999999999999999999999999999999999 66666643

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

Probab=99.69  E-value=6.3e-17  Score=120.83  Aligned_cols=72  Identities=15%  Similarity=0.302  Sum_probs=67.9

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecC
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNG  263 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~  263 (269)
                      |+|+|+...| +++.++|++++||.+||++|+++.     |+|+++|+|+|+|+.|+|+.+|++|||++|++|+|+.+
T Consensus         2 m~I~Vk~~~g-~~~~l~v~~~~TV~~LK~~I~~~~-----gip~~~QrLi~~Gk~L~D~~tL~~~~i~~g~~i~lv~~   73 (106)
T 3m62_B            2 VSLTFKNFKK-EKVPLDLEPSNTILETKTKLAQSI-----SCEESQIKLIYSGKVLQDSKTVSECGLKDGDQVVFMVS   73 (106)
T ss_dssp             -CEEEECTTC-CEEEECCCTTSBHHHHHHHHHHTT-----TSCGGGCEEEETTEECCTTSBTTTTTCCTTCEEEEECC
T ss_pred             EEEEEEeCCC-CEEEEEECCCCcHHHHHHHHHHHH-----CCChhhEEEEECCEECCCcCCHHHcCCCCCCEEEEEEc
Confidence            7899999888 899999999999999999999986     99999999999999999999999999999999999853

>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=99.69  E-value=1.7e-17  Score=122.86  Aligned_cols=77  Identities=21%  Similarity=0.299  Sum_probs=71.7

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCC---------------CcEEEEEcCEEcC-CCCccccCCCCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPV---------------PKQTLVFNGQVLQ-DDRDVEHCEILQN   64 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~---------------~~q~L~~~G~~L~-d~~tL~~~~i~~~   64 (269)
                      |+|+|++++|++++++|++++||.+||++|++++++|+               ++|+|+|+|+.|. |+.+|++|||+++
T Consensus         8 M~I~Vk~l~g~~~~v~V~~~~TV~dLK~~I~~~~~i~~~~q~g~~~isw~~~w~q~~Li~~Gk~L~dD~~tL~dygI~~g   87 (105)
T 1v2y_A            8 MTVRVCKMDGEVMPVVVVQNATVLDLKKAIQRYVQLKQEREGGVQHISWSYVWRTYHLTSAGEKLTEDRKKLRDYGIRNR   87 (105)
T ss_dssp             EEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHHHHHHHTTCCCCCCHHHHHTTEEEESSSCEECCSSSBHHHHTCCSS
T ss_pred             EEEEEEecCCCEEEEEECCCChHHHHHHHHHHHhCCCcccccCcceeeeeecceeEEEEeCCcCccCCcCCHHHcCCCCC
Confidence            89999999999999999999999999999999999987               3579999999996 6799999999999


Q ss_pred             CEEEEEEecCCCC
Q 044874           65 SRIQLLVASDNKP   77 (269)
Q Consensus        65 ~~i~l~~~~~~g~   77 (269)
                      ++|+++.+.++..
T Consensus        88 ~~l~lv~~lr~~~  100 (105)
T 1v2y_A           88 DEVSFIKKLGQKS  100 (105)
T ss_dssp             EEEEEEECSCSCC
T ss_pred             CEEEEEehhccCC
Confidence            9999999998653

>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=99.69  E-value=6.1e-17  Score=121.86  Aligned_cols=73  Identities=12%  Similarity=0.209  Sum_probs=64.8

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCC-------CCCEE
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVG-------QGDTI  258 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~-------~~~~i  258 (269)
                      |.++++...+..++.++|++++||.+||++|++++     |+|+++|+|+|+|+.|+|++||++|||+       .++||
T Consensus         1 M~mfl~ir~~ktti~lev~~sdTV~~lK~kI~~~e-----gIP~~qQrLi~~Gk~LeD~~TLsdy~I~~~~a~~q~~stL   75 (118)
T 2fnj_B            1 MDVFLMIRRHKTTIFTDAKESSTVFELKRIVEGIL-----KRPPEEQRLYKDDQLLDDGKTLGECGFTSQTARPQAPATV   75 (118)
T ss_dssp             CEEEEEEEEBTEEEEEEEETTSBHHHHHHHHHHHH-----CCCGGGEEEEETTEECCTTSBHHHHTCCTTTSBTTBCEEE
T ss_pred             CcEEEEEecCCEEEEEEeCCcChHHHHHHHHHHHh-----CCCHHHeEEEECCeECCCCCCHHHcCcccccccCCCCCEE
Confidence            34555555553579999999999999999999998     9999999999999999999999999999       79999


Q ss_pred             EEecC
Q 044874          259 EIFNG  263 (269)
Q Consensus       259 ~l~~~  263 (269)
                      +|+.+
T Consensus        76 ~L~lr   80 (118)
T 2fnj_B           76 GLAFR   80 (118)
T ss_dssp             EEEEB
T ss_pred             EEEec
Confidence            99865

>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=99.69  E-value=1.3e-16  Score=120.31  Aligned_cols=77  Identities=10%  Similarity=0.136  Sum_probs=69.5

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHH------HhCC--CCCcEEEEEcCEEcCCCCccccCCCCCC--CEEEEE
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEK------YQGI--PVPKQTLVFNGQVLQDDRDVEHCEILQN--SRIQLL   70 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~------~~gi--~~~~q~L~~~G~~L~d~~tL~~~~i~~~--~~i~l~   70 (269)
                      |+|+||+++|++++++|++++||.+||++|++      ++++  |+++|||+|+|+.|+|+.+|++|+|..+  .++||+
T Consensus        17 m~I~vKtl~G~t~~lev~~s~TV~~lK~kI~~~~p~dwke~~p~p~~qqrLIy~GK~LeD~~TL~~y~I~~~~~~tlhLv   96 (116)
T 1wgh_A           17 INLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVTLGALKLPFGKTTVMHLV   96 (116)
T ss_dssp             EEEEEECSSSCEEEEEECTTCBHHHHHHHHHHSSSCCSSCCCCCCTTTEEEEETTEEECSSCBTTTTTCCSSCEEEEEEE
T ss_pred             EEEEEEeCCCCEEEEEECCcCHHHHHHHHHHHhcccccccCCCCChHHEEEEECCcCCCCCCcHHHcCCCCCCceEEEEE
Confidence            78999999999999999999999999999999      6675  6999999999999999999999999765  678888


Q ss_pred             EecCCCC
Q 044874           71 VASDNKP   77 (269)
Q Consensus        71 ~~~~~g~   77 (269)
                      ++...+.
T Consensus        97 lr~~~~~  103 (116)
T 1wgh_A           97 ARETLPE  103 (116)
T ss_dssp             ECSSCSS
T ss_pred             ccCCCCC
Confidence            8877443

>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=99.69  E-value=1.5e-16  Score=116.57  Aligned_cols=73  Identities=22%  Similarity=0.413  Sum_probs=69.4

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCc
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGS  264 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~  264 (269)
                      |+|+|+..+| +++.++|++++||.+||++|+++.     ++|++.|+|+|+|+.|+|+.+|++|||++|++|+|+...
T Consensus         2 m~i~vk~~~g-~~~~~~v~~~~TV~~LK~~i~~~~-----gip~~~qrL~~~G~~L~d~~tL~~~~i~~~~~i~l~~r~   74 (96)
T 3k9o_B            2 MQIFVKTLTG-KTITLEVEPSDTIENVKAKIQDKE-----GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRL   74 (96)
T ss_dssp             CEEEEEETTC-CEEEEECCTTCBHHHHHHHHHHHH-----CCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEECC
T ss_pred             cEEEEEeCCC-CEEEEEECCCCCHHHHHHHHHhhh-----CCChhHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEEc
Confidence            8999999988 999999999999999999999987     999999999999999999999999999999999998643

>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=99.69  E-value=1.9e-16  Score=110.57  Aligned_cols=76  Identities=24%  Similarity=0.471  Sum_probs=69.9

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCcc
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSV  265 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~  265 (269)
                      |+|+|+..+| +.+.+++++++||.+||++|++..     ++|++.|+|+|+|+.|+|+.+|++|||++|++|+++.+ +
T Consensus         1 M~i~vk~~~g-~~~~i~v~~~~tv~~lK~~i~~~~-----~i~~~~q~L~~~g~~L~d~~tL~~~~i~~g~~i~l~~~-~   73 (76)
T 3a9j_A            1 MQIFVKTLTG-KTITLEVEPSDTIENVKAKIQDKE-----GIPPDQQRLIFAGKQLEDGRTLSDYNIQRESTLHLVLR-L   73 (76)
T ss_dssp             CEEEEEETTS-CEEEEECCTTCBHHHHHHHHHHHH-----CCCGGGEEEEETTEECCTTCBTGGGTCCTTCEEEEEEC-C
T ss_pred             CEEEEEcCCC-CEEEEEECCCCcHHHHHHHHHHHH-----CcCHHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEEe-C
Confidence            6899999888 899999999999999999999986     99999999999999999999999999999999999863 4


Q ss_pred             cCC
Q 044874          266 TGG  268 (269)
Q Consensus       266 ~~~  268 (269)
                      .||
T Consensus        74 ~GG   76 (76)
T 3a9j_A           74 RGG   76 (76)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            443

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

Probab=99.69  E-value=1.3e-16  Score=122.51  Aligned_cols=76  Identities=20%  Similarity=0.279  Sum_probs=69.5

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKP   77 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~   77 (269)
                      |+|+|+.. |+.+.++|++++||.+||++|+.++|+|+++|||+|+|+.|+|+.+|++|+|.++++|+|+++..+|.
T Consensus        33 m~I~Vk~~-g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~dygI~~gstI~lv~~~~gg~  108 (125)
T 1j8c_A           33 IKVTVKTP-KEKEEFAVPENSSVQQFKEAISKRFKSQTDQLVLIFAGKILKDQDTLIQHGIHDGLTVHLVIKRDPNS  108 (125)
T ss_dssp             EEEEEECS-SCEEEEEECTTCCHHHHHHHHHHHHCSCSSSEEEEETTEEESTTSCGGGTTCSSSEEEEEEEC-----
T ss_pred             EEEEEEeC-CeEEEEEECCCCcHHHHHHHHHHHHCcCcceEEEEECCEEcCCCCCHHHcCCCCCCEEEEEeccCCCC
Confidence            78999998 99999999999999999999999999999999999999999999999999999999999999998876

>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=99.69  E-value=1.9e-16  Score=119.19  Aligned_cols=78  Identities=23%  Similarity=0.451  Sum_probs=72.0

Q ss_pred             cceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecC
Q 044874          184 RKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNG  263 (269)
Q Consensus       184 ~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~  263 (269)
                      ..|+|+|+...| +++.++|++++||.+||++|+++.     ++|+++|+|+|+|+.|+|+.+|++|+|++|++|+++. 
T Consensus        34 ~~m~I~Vk~~~G-~~~~l~v~~~~TV~~LK~~I~~~~-----gip~~~QrLi~~Gk~L~D~~tL~~~gI~~gs~I~l~~-  106 (111)
T 3vdz_A           34 LAMQIFVKTLTG-KTITLEVEPSDTIENVKAKIQDKE-----GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVL-  106 (111)
T ss_dssp             GCEEEEEECSSS-CEEEEEECTTCBHHHHHHHHHHHH-----CCCGGGEEEEETTEECCTTSBTTTTTCCTTCEEEEEE-
T ss_pred             ccEEEEEEeCCC-CEEEEEeCCCCCHHHHHHHHHHHh-----CCChHHEEEEECCEECCCCCcHHHCCCCCCCEEEEEE-
Confidence            469999999998 999999999999999999999987     9999999999999999999999999999999999986 


Q ss_pred             cccCC
Q 044874          264 SVTGG  268 (269)
Q Consensus       264 ~~~~~  268 (269)
                      |+.||
T Consensus       107 rl~GG  111 (111)
T 3vdz_A          107 RLRGG  111 (111)
T ss_dssp             CCCC-
T ss_pred             ecCCC
Confidence            45544

>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=99.68  E-value=5.1e-17  Score=122.39  Aligned_cols=77  Identities=23%  Similarity=0.279  Sum_probs=74.0

Q ss_pred             CEEEEEcC---CCCEEEEEEcC-CCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCC
Q 044874            1 MDVIFEPQ---RGKAFTIEVGF-FDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNK   76 (269)
Q Consensus         1 M~i~vk~~---~g~~~~l~v~~-~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g   76 (269)
                      |+|+|++.   +|+.+.+++++ ++||.+||++|+..+|+|+++|+|+|+|+.|+|+.+|++|+|.++++|+|+++.+||
T Consensus        28 i~i~Vk~~~~~~g~~~~l~v~~l~~TV~~LK~~I~~~~gip~~~QrL~~~Gk~L~D~~tL~~y~I~~g~~l~l~~r~~GG  107 (111)
T 1we6_A           28 ATIRVSKPNENDGQFMEITVQSLSENVGSLKEKIAGEIQIPANKQKLSGKAGFLKDNMSLAHYNVGAGEILTLSLRERSG  107 (111)
T ss_dssp             EEEEECCTTCSSSCCEEEEESCSSSBHHHHHHHHHHHTTCCTTTSEEECSSSBCCTTSBTTTTTCSSSCEEEEECSSCCS
T ss_pred             EEEEEEecccCCCcEEEEEecCCCCcHHHHHHHHHHHHCCCHHHeEEEECCEECCCCCcHHHCCCCCCCEEEEEEEcCCC
Confidence            68999998   89999999998 999999999999999999999999999999999999999999999999999999987


Q ss_pred             C
Q 044874           77 P   77 (269)
Q Consensus        77 ~   77 (269)
                      .
T Consensus       108 k  108 (111)
T 1we6_A          108 P  108 (111)
T ss_dssp             S
T ss_pred             C
Confidence            5

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

Probab=99.68  E-value=2.7e-16  Score=110.28  Aligned_cols=71  Identities=17%  Similarity=0.404  Sum_probs=67.4

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecC
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNG  263 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~  263 (269)
                      |+|+|+. .| +.+.+++++++||.+||++|++..     |+|++.|+|+|+|+.|+|+.+|++|||++|++|+++.+
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-GQ-DKWEVNVAPESTVLQFKEAINKAN-----GIPVANQRLIYSGKILKDDQTVESYHIQDGHSVHLVKS   75 (77)
T ss_dssp             EEEEEEE-TT-EEEEEEECTTCBHHHHHHHHHHHH-----CCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEEC
T ss_pred             EEEEEEE-CC-EEEEEEECCCCcHHHHHHHHHHHh-----CCCHHHEEEEECCeEcCCCCCHHHcCCCCCCEEEEEEc
Confidence            8899998 77 899999999999999999999987     99999999999999999999999999999999999864

>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=99.68  E-value=1.2e-16  Score=121.70  Aligned_cols=77  Identities=16%  Similarity=0.267  Sum_probs=70.6

Q ss_pred             CEEEEEcCCCCEE-EEEEcCCCCHHHHHHHHH-----HHhCCCC--CcEEEEEcCEEcCCCCccccCCCCCC------CE
Q 044874            1 MDVIFEPQRGKAF-TIEVGFFDTVLEIKEKIE-----KYQGIPV--PKQTLVFNGQVLQDDRDVEHCEILQN------SR   66 (269)
Q Consensus         1 M~i~vk~~~g~~~-~l~v~~~~tV~~lK~~I~-----~~~gi~~--~~q~L~~~G~~L~d~~tL~~~~i~~~------~~   66 (269)
                      |+|+||+.+|+.+ ++++++++||.+||++|+     +++++|+  ++|||+|+|+.|+|+.+|++|+|+.+      ++
T Consensus        17 ~~i~~kt~~G~~i~~l~v~psdTV~~lK~kI~~~~p~dkegiP~~~~qQrLIy~GK~LeD~~TLsdy~I~~~~~~~~v~t   96 (126)
T 1se9_A           17 LEIKFRLTDGSDIGPKAFPDATTVSALKETVISEWPREKENGPKTVKEVKLISAGKVLENSKTVKDYRSPVSNLAGAVTT   96 (126)
T ss_dssp             EEEEEEETTSCEEEEEEECTTCBHHHHHHHHHHHSCTTCSSSCCSGGGEEEEETTEECCTTSBGGGGSCCTTSCTTCCEE
T ss_pred             EEEEEEECCCCEEEeeecCccCHHHHHHHHHHhhcccccccCCCChhhEEEEECCeECcCCCcHHHcCCCcCCccCCcEE
Confidence            7899999999988 799999999999999994     5668887  79999999999999999999999988      78


Q ss_pred             EEEEEecCCCC
Q 044874           67 IQLLVASDNKP   77 (269)
Q Consensus        67 i~l~~~~~~g~   77 (269)
                      +||++++++|.
T Consensus        97 mhlVlrl~g~~  107 (126)
T 1se9_A           97 MHVIIQAPVTE  107 (126)
T ss_dssp             EEEEECCCSSC
T ss_pred             EEEEeccCCcc
Confidence            99999998765

>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=99.68  E-value=1.3e-16  Score=119.62  Aligned_cols=73  Identities=14%  Similarity=0.220  Sum_probs=66.4

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCC-------CCEE
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQ-------GDTI  258 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~-------~~~i  258 (269)
                      |.+|++...+..++.+++++++||.+||++|++++     |+|+++|+|+|+|+.|+|++||++|||++       ++||
T Consensus         1 m~vFl~Ikr~ktTI~ldve~sdTV~~lK~kI~~~~-----giPp~qQrLI~~Gk~LeD~kTL~dy~I~~~ta~~q~~atl   75 (118)
T 4ajy_B            1 MDVFLMIRRHKTTIFTDAKESSTVFELKRIVEGIL-----KRPPDEQRLYKDDQLLDDGKTLGECGFTSQTARPQAPATV   75 (118)
T ss_dssp             CEEEEEEEEBTEEEEEEEETTSBHHHHHHHHHHHH-----CCCGGGEEEEETTEECCTTSBTTTTTCCGGGSBTTBCEEE
T ss_pred             CceEEEEecCCEEEEEEcCCCChHHHHHHHHHHHH-----CCCHHHeEEEeCCeECCCcCCHHHcCCCcCcccCCCCCEE
Confidence            45666666664689999999999999999999998     99999999999999999999999999999       9999


Q ss_pred             EEecC
Q 044874          259 EIFNG  263 (269)
Q Consensus       259 ~l~~~  263 (269)
                      +|+.+
T Consensus        76 ~Lvlr   80 (118)
T 4ajy_B           76 GLAFR   80 (118)
T ss_dssp             EEEEC
T ss_pred             EEEEe
Confidence            99864

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

Probab=99.67  E-value=2.4e-16  Score=116.29  Aligned_cols=73  Identities=18%  Similarity=0.125  Sum_probs=68.3

Q ss_pred             CEEEEEcCCC--CEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCC-CCCCEEEEEEec
Q 044874            1 MDVIFEPQRG--KAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEI-LQNSRIQLLVAS   73 (269)
Q Consensus         1 M~i~vk~~~g--~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i-~~~~~i~l~~~~   73 (269)
                      |+|+|+...+  .+++++|++++||++||++|++++|+|+++|||+|+|+.++|+.+|++||| ++|+++||.+..
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            6899998874  789999999999999999999999999999999999999999999999999 599999999754

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

Probab=99.67  E-value=1.8e-16  Score=119.40  Aligned_cols=79  Identities=23%  Similarity=0.432  Sum_probs=71.9

Q ss_pred             CcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEec
Q 044874          183 PRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       183 ~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      ...|+|+|+...| +.+.++|++++||.+||++|+++.     ++|+++|+|+|+|+.|+|+.+|++|||++|++|+|+.
T Consensus        33 ~~~m~I~Vk~~~g-~~~~l~v~~~~TV~~LK~~I~~~~-----gip~~~qrLi~~Gk~L~D~~tL~~~gI~~gs~I~l~~  106 (111)
T 2ojr_A           33 LLAMQIFVKTLTG-KTITLEVEPSDTIENVKAKIQDKE-----GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVL  106 (111)
T ss_dssp             SSCEEEEEECSSS-CEEEEEECTTCBHHHHHHHHHHHH-----CCCTTTEEEEETTEECCSSCBTTTTTCCTTCEEEEEE
T ss_pred             CCeEEEEEEcCCC-CEEEEEeCCCCCHHHHHHHHHHHH-----CcCcccEEEEECCEECCCCCcHHHcCCCCCCEEEEEE
Confidence            4569999999888 899999999999999999999986     9999999999999999999999999999999999986


Q ss_pred             CcccCC
Q 044874          263 GSVTGG  268 (269)
Q Consensus       263 ~~~~~~  268 (269)
                      + +.||
T Consensus       107 r-l~GG  111 (111)
T 2ojr_A          107 R-LRGG  111 (111)
T ss_dssp             C-CCC-
T ss_pred             e-CCCC
Confidence            3 4444

>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=99.67  E-value=2.5e-16  Score=117.62  Aligned_cols=77  Identities=12%  Similarity=0.232  Sum_probs=71.3

Q ss_pred             CCcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEe
Q 044874          182 GPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIF  261 (269)
Q Consensus       182 ~~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~  261 (269)
                      +...|+|+|+...| +++.++|++++||.+||++|+++.     |+|+++|+|+|+|+.|+|+++|++|||++|++|+|+
T Consensus        20 ~~~~m~I~Vk~~~g-~~~~l~v~~~~TV~~LK~~I~~~~-----gip~~~qrLi~~Gk~L~D~~tL~~ygI~~g~ti~lv   93 (106)
T 1ttn_A           20 SGYECQLRLRLSTG-KDLKLVVRSTDTVFHMKRRLHAAE-----GVEPGSQRWFFSGRPLTDKMKFEELKIPKDYVVQVI   93 (106)
T ss_dssp             -CCSEEEEEEETTT-EEEEEEECTTSHHHHHHHHHHHTT-----CCCSTTCEEEETTEECCTTSHHHHCCCSSSCEEEEE
T ss_pred             CCCeEEEEEEcCCC-CEEEEEeCCCCcHHHHHHHHHHHH-----CcCcccEEEEECCEECCCCCcHHHcCCCCCCEEEEE
Confidence            34569999999888 999999999999999999999986     999999999999999999999999999999999998


Q ss_pred             cCc
Q 044874          262 NGS  264 (269)
Q Consensus       262 ~~~  264 (269)
                      ...
T Consensus        94 ~~~   96 (106)
T 1ttn_A           94 VSQ   96 (106)
T ss_dssp             CCC
T ss_pred             EeC
Confidence            643

>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=99.67  E-value=3.8e-18  Score=131.84  Aligned_cols=77  Identities=31%  Similarity=0.516  Sum_probs=0.6

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKP   77 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~   77 (269)
                      |+|+|++.+|+++.++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++|+|.++++|+|+++..||.
T Consensus         1 M~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~~~I~~gsti~l~~rl~GG~   77 (128)
T 3u5e_m            1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGI   77 (128)
T ss_dssp             ----------------------------------------------------------------------------C
T ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCcChHHEEEEECCEECCCCCchhhhccCCCCEEEEEEEcCCCC
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999886

>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=99.67  E-value=2.3e-16  Score=115.62  Aligned_cols=78  Identities=18%  Similarity=0.289  Sum_probs=71.4

Q ss_pred             CCcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEe
Q 044874          182 GPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIF  261 (269)
Q Consensus       182 ~~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~  261 (269)
                      ++..|+|+|+.. | +.+.++|++++||.+||++|+++.     ++|+++|+|+|+|+.|+|+++|++|||++|++|+|+
T Consensus        14 ~~~~m~i~Vk~~-g-~~~~~~v~~~~TV~~LK~~I~~~~-----gip~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~i~l~   86 (96)
T 1wx8_A           14 SSRIIRVSVKTP-Q-DCHEFFLAENSNVRRFKKQISKYL-----HCNADRLVLIFTGKILRDQDILSQRGILDGSTVHVV   86 (96)
T ss_dssp             CSCEEEEEEECS-S-SEEEEEEETTCCHHHHHHHHHHHT-----CSCTTTBCCEETTEECCTTSCHHHHTCCTTEEEECC
T ss_pred             CCCcEEEEEEEC-C-eEEEEEECCCCCHHHHHHHHHHHh-----CCCHHHEEEEECCEECCCcCCHHHCCCCCCCEEEEE
Confidence            456799999987 6 899999999999999999999986     999999999999999999999999999999999998


Q ss_pred             cCccc
Q 044874          262 NGSVT  266 (269)
Q Consensus       262 ~~~~~  266 (269)
                      .....
T Consensus        87 ~~~~~   91 (96)
T 1wx8_A           87 VRSHS   91 (96)
T ss_dssp             BCCSS
T ss_pred             EeCCC
Confidence            64433

>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=99.66  E-value=3.7e-16  Score=113.88  Aligned_cols=77  Identities=13%  Similarity=0.181  Sum_probs=68.3

Q ss_pred             cceeEEEEecCCCe--EEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccc--cCCCCCEEE
Q 044874          184 RKLKLLVLTQCGNK--RIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWH--HVGQGDTIE  259 (269)
Q Consensus       184 ~~~~i~V~~~~g~~--~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~--~i~~~~~i~  259 (269)
                      ..|+|+|+..++ +  .+.+++++++||.+||++|++...   -++|+++|+|+|+|+.|+|+.+|++|  +|+++++||
T Consensus         6 ~~m~i~Vk~~~~-~~~~~~v~v~~~~TV~~lK~~I~~~~~---~~i~~~~QrLi~~Gk~L~D~~tL~~~~~~i~~~~~i~   81 (93)
T 1wgd_A            6 SGVTLLVKSPNQ-RHRDLELSGDRGWSVGHLKAHLSRVYP---ERPRPEDQRLIYSGKLLLDHQCLRDLLPKQEKRHVLH   81 (93)
T ss_dssp             CCCEEEEECSSS-SCCCEEEECCTTSCHHHHHHHHHHHST---TCCCTTTCEEEETTEECCSSSCHHHHSCSSSCSEEEE
T ss_pred             cEEEEEEEeCCC-CeEEEEEecCCCCcHHHHHHHHHHHhc---CCCChHHeEEEECCEECcCcCCHHHHhcCCCCCCEEE
Confidence            459999999887 6  677888899999999999999631   18999999999999999999999999  999999999


Q ss_pred             EecCc
Q 044874          260 IFNGS  264 (269)
Q Consensus       260 l~~~~  264 (269)
                      |+.+.
T Consensus        82 lv~~~   86 (93)
T 1wgd_A           82 LVCNV   86 (93)
T ss_dssp             EECCC
T ss_pred             EEeCC
Confidence            98643

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

Probab=99.66  E-value=1.6e-16  Score=121.46  Aligned_cols=77  Identities=10%  Similarity=0.130  Sum_probs=70.2

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHH------HhCC--CCCcEEEEEcCEEcCCCCccccCCCCCCC--EEEEE
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEK------YQGI--PVPKQTLVFNGQVLQDDRDVEHCEILQNS--RIQLL   70 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~------~~gi--~~~~q~L~~~G~~L~d~~tL~~~~i~~~~--~i~l~   70 (269)
                      |+|+||+.+|++++++|++++||++||++|++      ++++  ++++|||+|+|+.|+|+.+|++|+|..++  ++||+
T Consensus        18 m~I~vktl~G~~~~lev~~s~TV~~lK~~I~~~~p~dwke~ip~~~~~qrLIy~GK~LeD~~TL~~y~I~~~~~~tlhlv   97 (125)
T 2gow_A           18 INLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVTLGALKLPFGKTTVMHLV   97 (125)
T ss_dssp             EEEEEECTTSCEEEEEECTTSBHHHHHHHHHSSCCCSCCCCTTCCGGGEEEESSSSEEESSCBTGGGCCCTTSEEEEEEE
T ss_pred             EEEEEEeCCCCEEEEEeCCccHHHHHHHHHHHHCCcccccCCCCChHHEEEEECCcCCCCCCcHHHcCCCCCCceEEEEE
Confidence            68999999999999999999999999999999      7788  48999999999999999999999999766  78999


Q ss_pred             EecCCCC
Q 044874           71 VASDNKP   77 (269)
Q Consensus        71 ~~~~~g~   77 (269)
                      +++.++.
T Consensus        98 ~r~~~~~  104 (125)
T 2gow_A           98 ARETLPE  104 (125)
T ss_dssp             ECSCCSS
T ss_pred             ecCCCCc
Confidence            8887543

>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=99.66  E-value=8e-16  Score=115.96  Aligned_cols=79  Identities=11%  Similarity=0.153  Sum_probs=66.2

Q ss_pred             CcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhcc-CCC--CCCCceEEEecCeeecCCCccccccCCCC--CE
Q 044874          183 PRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRY-HFH--LPQDGYFFIYKQNVMDDDRSFRWHHVGQG--DT  257 (269)
Q Consensus       183 ~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~-~~~--~p~~~q~l~~~g~~L~d~~tL~~~~i~~~--~~  257 (269)
                      ...|+|+|++..| +++.++|++++||.+||++|++..... .-+  +|+++|+|||+|++|+|++||++|+|+.+  ++
T Consensus        14 ~~~m~I~vKtl~G-~t~~lev~~s~TV~~lK~kI~~~~p~dwke~~p~p~~qqrLIy~GK~LeD~~TL~~y~I~~~~~~t   92 (116)
T 1wgh_A           14 ADMINLRLILVSG-KTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVTLGALKLPFGKTTV   92 (116)
T ss_dssp             SSSEEEEEECSSS-CEEEEEECTTCBHHHHHHHHHHSSSCCSSCCCCCCTTTEEEEETTEEECSSCBTTTTTCCSSCEEE
T ss_pred             CCeEEEEEEeCCC-CEEEEEECCcCHHHHHHHHHHHhcccccccCCCCChHHEEEEECCcCCCCCCcHHHcCCCCCCceE
Confidence            3569999999998 999999999999999999999931100 015  46999999999999999999999999877  56


Q ss_pred             EEEec
Q 044874          258 IEIFN  262 (269)
Q Consensus       258 i~l~~  262 (269)
                      |||+.
T Consensus        93 lhLvl   97 (116)
T 1wgh_A           93 MHLVA   97 (116)
T ss_dssp             EEEEE
T ss_pred             EEEEc
Confidence            78774

>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=99.66  E-value=4.3e-16  Score=115.52  Aligned_cols=75  Identities=16%  Similarity=0.245  Sum_probs=68.6

Q ss_pred             cceeEEEEecCCC---eEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCC-CccccccCCCCCEEE
Q 044874          184 RKLKLLVLTQCGN---KRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDD-RSFRWHHVGQGDTIE  259 (269)
Q Consensus       184 ~~~~i~V~~~~g~---~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~-~tL~~~~i~~~~~i~  259 (269)
                      ..|+|+|+...+.   +.+.++|++++||++||++|+++.     ++|+++|+|+|+|+.|+|+ ++|++|||++|++|+
T Consensus         6 ~~m~I~Vk~~~~~~~~~~~~i~v~~~~TV~~LK~~I~~~~-----gip~~~qrL~~~gk~L~D~~~tL~~ygI~~g~~l~   80 (102)
T 1v5o_A            6 SGMLITVYCVRRDLTEVTFSLQVNPDFELSNFRVLCELES-----GVPAEEAQIVYMEQLLTDDHCSLGSYGLKDGDMVV   80 (102)
T ss_dssp             CCEEEEEEECCCCCCCCEEEEEECTTCBHHHHHHHHHHHT-----CCCGGGBCEEETTEEECCSSSBHHHHTCCTTEEEE
T ss_pred             CeEEEEEEECCCCcCceEEEEEcCCCCCHHHHHHHHHHHH-----CcChHHeEEEECCEECCCCcccHHHCCCCCCCEEE
Confidence            4599999987653   689999999999999999999986     9999999999999999988 699999999999999


Q ss_pred             EecC
Q 044874          260 IFNG  263 (269)
Q Consensus       260 l~~~  263 (269)
                      |+..
T Consensus        81 l~~~   84 (102)
T 1v5o_A           81 LLQK   84 (102)
T ss_dssp             ECBC
T ss_pred             EEEC
Confidence            9853

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

Probab=99.66  E-value=6.3e-16  Score=113.73  Aligned_cols=73  Identities=22%  Similarity=0.413  Sum_probs=68.7

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCc
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGS  264 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~  264 (269)
                      |+|+|+..+| +++.++|++++||.+||++|++..     ++|++.|+|+|+|+.|+|+.+|++|||++|++|+++.+.
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 MQIFVKTLTG-KTITLEVEPSDTIENVKAKIQDKE-----GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRL   73 (98)
T ss_dssp             CEEEEEETTS-CEEEEECCTTCBHHHHHHHHHHHT-----CCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEECC
T ss_pred             CEEEEEeCCC-CEEEEEECCCCcHHHHHHHHHHHH-----CcChhhEEEEECCEECCCCCCHHHcCCCCCCEEEEEEeC
Confidence            6899999888 899999999999999999999986     999999999999999999999999999999999998643

>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=99.65  E-value=8.2e-18  Score=133.16  Aligned_cols=77  Identities=31%  Similarity=0.521  Sum_probs=0.0

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKP   77 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~   77 (269)
                      |+|+|++++|+++.++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++|+|.++++|+|++++.||.
T Consensus         1 MqI~VK~l~G~~~~l~V~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~dygI~~gstL~Lvlrl~GGg   77 (152)
T 3u5c_f            1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGG   77 (152)
T ss_dssp             -----------------------------------------------------------------------------
T ss_pred             CEEEEEeCCCCEEEEEECCCCCHHHHHHHHHHHhCCCHHHEEEEECCEEccccCcHHHcCCCCCCEEEEEeeccCCC
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999875

>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=99.65  E-value=8.4e-16  Score=113.48  Aligned_cols=75  Identities=20%  Similarity=0.298  Sum_probs=69.4

Q ss_pred             CCcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEe
Q 044874          182 GPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIF  261 (269)
Q Consensus       182 ~~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~  261 (269)
                      .+..|+|+|+...| + +.++|++++||.+||++|+++.     ++|+++|+|+|+|+.|+|+++|++|||++|++|+|+
T Consensus        19 ~~~~m~I~Vk~~~g-~-~~l~v~~~~TV~~LK~~I~~~~-----gip~~~QrLi~~Gk~L~D~~tL~~ygI~~gstI~l~   91 (100)
T 1yqb_A           19 SPHLIKVTVKTPKD-K-EDFSVTDTCTIQQLKEEISQRF-----KAHPDQLVLIFAGKILKDPDSLAQCGVRDGLTVHLV   91 (100)
T ss_dssp             CTTEEEEEEECSSC-E-EEEEEETTCBHHHHHHHHHHHH-----TCCGGGEEEEETTEECCTTSBHHHHTCCTTCEEEEE
T ss_pred             CCCeEEEEEEcCCC-c-EEEEECCCCcHHHHHHHHHHHH-----CcChhhEEEEECCEECCCcCcHHHCCCCCCCEEEEE
Confidence            34679999999887 5 7899999999999999999987     999999999999999999999999999999999998


Q ss_pred             cC
Q 044874          262 NG  263 (269)
Q Consensus       262 ~~  263 (269)
                      .+
T Consensus        92 ~r   93 (100)
T 1yqb_A           92 IK   93 (100)
T ss_dssp             EC
T ss_pred             Ec
Confidence            53

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

Probab=99.65  E-value=1.1e-15  Score=113.15  Aligned_cols=74  Identities=18%  Similarity=0.336  Sum_probs=69.2

Q ss_pred             cceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecC
Q 044874          184 RKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNG  263 (269)
Q Consensus       184 ~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~  263 (269)
                      ..|+|+|+.. | +.+.++|++++||.+||++|++..     |+|++.|+|+|+|+.|+|+.+|++|||++|++|+|+..
T Consensus        24 ~~m~I~Vk~~-g-~~~~l~v~~~~TV~~LK~~I~~~~-----gip~~~qrLi~~Gk~L~D~~tL~~~gI~~g~~I~l~~~   96 (101)
T 2klc_A           24 KIMKVTVKTP-K-EKEEFAVPENSSVQQFKEEISKRF-----KSHTDQLVLIFAGKILKDQDTLSQHGIHDGLTVHLVIK   96 (101)
T ss_dssp             CCEEEEEECS-S-CEEEEEECSCCCHHHHHHHHHHHH-----TCCGGGEEEEETTEEECTTCCTGGGTCCTTCEEEEEEC
T ss_pred             CeEEEEEEeC-C-cEEEEEECCCCCHHHHHHHHHHHH-----CcChhhEEEEECCEECCCcCcHHHcCCCCCCEEEEEEc
Confidence            4699999987 6 789999999999999999999987     99999999999999999999999999999999999864


Q ss_pred             c
Q 044874          264 S  264 (269)
Q Consensus       264 ~  264 (269)
                      .
T Consensus        97 ~   97 (101)
T 2klc_A           97 T   97 (101)
T ss_dssp             C
T ss_pred             C
Confidence            3

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

Probab=99.65  E-value=7.5e-16  Score=124.35  Aligned_cols=76  Identities=24%  Similarity=0.478  Sum_probs=70.2

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCcc
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSV  265 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~  265 (269)
                      |+|+|++.+| +++.++|++++||.+||++|+++.     |+|+++|+|+|+|+.|+|+++|++|||++|++|+++.+ +
T Consensus         1 MqI~Vk~~~G-k~~~l~v~~~~TV~~LK~~I~~~~-----gip~~~QrLi~~Gk~L~D~~tL~~y~I~~gstI~Lvlr-l   73 (169)
T 3l0w_B            1 MQIFVKTLTG-KTITLEVESSDTIDNVKSKIQDKE-----GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR-L   73 (169)
T ss_dssp             CEEEEEETTS-CEEEEECCTTCBHHHHHHHHHHHH-----CCCTTTEEEEETTEECCTTSBGGGGTCCTTCEEEEEEC-C
T ss_pred             CEEEEEeCCC-CEEEEEeCCCCCHHHHHHHHHHHH-----CcCHHHEEEEECCccccCcCcHHHcCCCCCCEEEEEEE-e
Confidence            7899999998 999999999999999999999987     99999999999999999999999999999999999863 4


Q ss_pred             cCC
Q 044874          266 TGG  268 (269)
Q Consensus       266 ~~~  268 (269)
                      .||
T Consensus        74 ~GG   76 (169)
T 3l0w_B           74 RGG   76 (169)
T ss_dssp             CC-
T ss_pred             ccc
Confidence            343

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

Probab=99.64  E-value=3.1e-16  Score=115.33  Aligned_cols=73  Identities=11%  Similarity=0.189  Sum_probs=64.7

Q ss_pred             cceeEEEEecCCCe--EEEEEecCCCcHHHHHHHHHHhhhccCCCCC-CCceEEEecCeeecCCCccccc--cCCCCCEE
Q 044874          184 RKLKLLVLTQCGNK--RIPVEVNASDNVSELRKELQKLHQRYHFHLP-QDGYFFIYKQNVMDDDRSFRWH--HVGQGDTI  258 (269)
Q Consensus       184 ~~~~i~V~~~~g~~--~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p-~~~q~l~~~g~~L~d~~tL~~~--~i~~~~~i  258 (269)
                      ..|+|+|+.+++ +  ++.++|++++||.+||++|+++..    |.| +++|+|+|+|+.|+|+++|++|  +|+++++|
T Consensus        22 ~~m~I~VK~~~g-~~~~i~l~v~~~~TV~~LK~~I~~~~~----g~pp~~~QrLIy~Gk~L~D~~tL~~y~~~I~~~~ti   96 (99)
T 2kdb_A           22 HPVTLIIKAPNQ-KYSDQTISCFLNWTVGKLKTHLSNVYP----SKPLTKDQRLVYSGRLLPDHLQLKDILRKQDEYHMV   96 (99)
T ss_dssp             -CEEEEEECTTS-SSCCEEEEECTTSBHHHHHHHHHHHST----TCCCTTTCCEEETTEEECTTSBTHHHHTTTCSEEEE
T ss_pred             CeEEEEEEcCCC-CEEEEEEEcCCCCHHHHHHHHHHHHhc----CCCChhhEEEEECCEECCCCCCHHHHhcCCCCCCEE
Confidence            459999999888 5  679999999999999999998521    555 5999999999999999999999  99999999


Q ss_pred             EEe
Q 044874          259 EIF  261 (269)
Q Consensus       259 ~l~  261 (269)
                      +|+
T Consensus        97 hLv   99 (99)
T 2kdb_A           97 HLV   99 (99)
T ss_dssp             EEC
T ss_pred             EeC
Confidence            985

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

Probab=99.64  E-value=1.3e-15  Score=116.84  Aligned_cols=76  Identities=17%  Similarity=0.319  Sum_probs=69.4

Q ss_pred             CcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEec
Q 044874          183 PRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       183 ~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      ...|+|+|+.. | +.+.++|++++||.+||++|+++.     ++|+++|+|+|+|+.|+|+++|.+|||++|++|+|+.
T Consensus        30 ~~~m~I~Vk~~-g-~~~~l~v~~~~TV~~LK~~I~~~~-----gip~~~QrLi~~Gk~L~D~~tL~dygI~~gstI~lv~  102 (125)
T 1j8c_A           30 PKIIKVTVKTP-K-EKEEFAVPENSSVQQFKEAISKRF-----KSQTDQLVLIFAGKILKDQDTLIQHGIHDGLTVHLVI  102 (125)
T ss_dssp             CCCEEEEEECS-S-CEEEEEECTTCCHHHHHHHHHHHH-----CSCSSSEEEEETTEEESTTSCGGGTTCSSSEEEEEEE
T ss_pred             CCcEEEEEEeC-C-eEEEEEECCCCcHHHHHHHHHHHH-----CcCcceEEEEECCEEcCCCCCHHHcCCCCCCEEEEEe
Confidence            35699999988 7 899999999999999999999987     9999999999999999999999999999999999986


Q ss_pred             Ccc
Q 044874          263 GSV  265 (269)
Q Consensus       263 ~~~  265 (269)
                      ...
T Consensus       103 ~~~  105 (125)
T 1j8c_A          103 KRD  105 (125)
T ss_dssp             C--
T ss_pred             ccC
Confidence            443

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

Probab=99.64  E-value=1.5e-15  Score=111.95  Aligned_cols=75  Identities=17%  Similarity=0.136  Sum_probs=68.8

Q ss_pred             CcceeEEEEecCC-CeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccC-CCCCEEEE
Q 044874          183 PRKLKLLVLTQCG-NKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHV-GQGDTIEI  260 (269)
Q Consensus       183 ~~~~~i~V~~~~g-~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i-~~~~~i~l  260 (269)
                      .=+|+++|+...+ ..+++++|++++||.+||++|++++     |+|+++|||+|+|+.++|++||.+||| ++|+++||
T Consensus        22 ~i~l~v~v~d~~s~~~~i~l~V~ps~TV~~LK~~I~~k~-----Gipp~~QRli~ggkll~D~~TL~~ygI~~~G~t~hL   96 (105)
T 4dbg_A           22 DIRLWVSVEDAQMHTVTIWLTVRPDMTVASLKDMVFLDY-----GFPPVLQQWVIGQRLARDQETLHSHGVRQNGDSAYL   96 (105)
T ss_dssp             CEEEEEEEEESSSCCEEEEEEECTTCBHHHHHHHHHHHH-----CCCGGGEEEEETTEEECTTCBTGGGTCCSTTCEEEE
T ss_pred             cEEEEEEEEccCCCCceEEEEECCcChHHHHHHHHHHHh-----CCCHHHEEEeccCeEccCcCcHHHcCCCCCCCEEEE
Confidence            3468999999874 3789999999999999999999997     999999999999999999999999999 59999999


Q ss_pred             ec
Q 044874          261 FN  262 (269)
Q Consensus       261 ~~  262 (269)
                      +-
T Consensus        97 ~l   98 (105)
T 4dbg_A           97 YL   98 (105)
T ss_dssp             EE
T ss_pred             EE
Confidence            84

>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=99.64  E-value=1.6e-15  Score=113.17  Aligned_cols=73  Identities=21%  Similarity=0.309  Sum_probs=68.5

Q ss_pred             CcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEec
Q 044874          183 PRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       183 ~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      ...|+|+|+...| + +.++|++++||.+||++|+++.     ++|+++|+|+|+|+.|+|+++|.+|+|++|++|+|+.
T Consensus        15 ~~~m~I~Vk~~~g-~-~~l~v~~~~TV~~LK~~I~~~~-----gip~~~qrLi~~Gk~L~D~~tL~~~gi~~g~~i~l~~   87 (106)
T 1wx7_A           15 PHLIKVTVKTPKD-K-EDFSVTDTCTIQQLKEEISQRF-----KAHPDQLVLIFAGKILKDPDSLAQCGVRDGLTVHLVI   87 (106)
T ss_dssp             SSEEEEEEECSSC-E-EEEEEETTCCHHHHHHHHHHHH-----TCCTTTEEEEETTEECCTTSCHHHHTCCTTEEEEEEE
T ss_pred             CceEEEEEEeCCC-c-EEEEECCCCcHHHHHHHHHHHH-----CcChhhEEEEECCEECCCcCcHHHcCCCCCCEEEEEE
Confidence            4669999999877 5 7899999999999999999987     9999999999999999999999999999999999985

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

Probab=99.64  E-value=2.7e-16  Score=115.63  Aligned_cols=70  Identities=21%  Similarity=0.294  Sum_probs=64.4

Q ss_pred             CEEEEEcCCCC--EEEEEEcCCCCHHHHHHHHHHH-hCCC-CCcEEEEEcCEEcCCCCccccC--CCCCCCEEEEE
Q 044874            1 MDVIFEPQRGK--AFTIEVGFFDTVLEIKEKIEKY-QGIP-VPKQTLVFNGQVLQDDRDVEHC--EILQNSRIQLL   70 (269)
Q Consensus         1 M~i~vk~~~g~--~~~l~v~~~~tV~~lK~~I~~~-~gi~-~~~q~L~~~G~~L~d~~tL~~~--~i~~~~~i~l~   70 (269)
                      |+|+||+.+|+  ++++++++++||.+||++|+++ .|+| +++|||+|+|+.|+|+.+|++|  +|+++++|+|+
T Consensus        24 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           24 VTLIIKAPNQKYSDQTISCFLNWTVGKLKTHLSNVYPSKPLTKDQRLVYSGRLLPDHLQLKDILRKQDEYHMVHLV   99 (99)
T ss_dssp             EEEEEECTTSSSCCEEEEECTTSBHHHHHHHHHHHSTTCCCTTTCCEEETTEEECTTSBTHHHHTTTCSEEEEEEC
T ss_pred             EEEEEEcCCCCEEEEEEEcCCCCHHHHHHHHHHHHhcCCCChhhEEEEECCEECCCCCCHHHHhcCCCCCCEEEeC
Confidence            78999999988  6799999999999999999997 5665 5999999999999999999999  99999999974

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

Probab=99.64  E-value=1.4e-16  Score=117.89  Aligned_cols=72  Identities=31%  Similarity=0.565  Sum_probs=67.8

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEec
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVAS   73 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~   73 (269)
                      |+|+|+. +|+++.++|++++||.+||++|++++|+|+++|||+|+|+.|+|+.+|++|||++|++|+|+.+.
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            4688887 89999999999999999999999999999999999999999999999999999999999998653

>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=99.64  E-value=7.7e-16  Score=116.62  Aligned_cols=77  Identities=22%  Similarity=0.405  Sum_probs=71.5

Q ss_pred             CEEEEEcC----------CCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEE
Q 044874            1 MDVIFEPQ----------RGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLL   70 (269)
Q Consensus         1 M~i~vk~~----------~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~   70 (269)
                      ++|+|+..          +|+++.++|++++||.+||++|+..+|+|+++|+|+|+|+.|+|+.+|++|+|.++++|+|+
T Consensus        26 i~l~V~~p~~~~~~~~~L~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrL~~~Gk~L~D~~tL~~y~i~~g~~i~lv  105 (115)
T 1we7_A           26 VSIKVQVPNMQDKTEWKLNGQGLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDSNSLAYYNMASGAVIHLA  105 (115)
T ss_dssp             EEEEEEECCCSSSCSSCCSSEEEEEEECSCSBTHHHHHHHHHHSSCCTTTEEEEETTEEECTTSBHHHHTCCSSCEEEEE
T ss_pred             EEEEEEcCCCccccccccCCeEEEEEECCCCCHHHHHHHHHHHHCCChHHEEEEECCEECCCCCCHHHCCCCCCCEEEEE
Confidence            35677764          47899999999999999999999999999999999999999999999999999999999999


Q ss_pred             EecCCCC
Q 044874           71 VASDNKP   77 (269)
Q Consensus        71 ~~~~~g~   77 (269)
                      ++.+||.
T Consensus       106 ~rl~GGk  112 (115)
T 1we7_A          106 LKERSGP  112 (115)
T ss_dssp             ECCCSCC
T ss_pred             EEcCCCC
Confidence            9999875

>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=99.63  E-value=8.8e-16  Score=112.30  Aligned_cols=74  Identities=22%  Similarity=0.187  Sum_probs=69.7

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCC-CccccCCCCCCCEEEEEEecCCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDD-RDVEHCEILQNSRIQLLVASDNKP   77 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~-~tL~~~~i~~~~~i~l~~~~~~g~   77 (269)
                      |+|+|+..+|+.+.++|++++||.+||++|+...   +++|||+|+|+.|+|+ .+|++|+|.++++|||+++.+...
T Consensus         8 m~i~Vk~~~g~~~~~~v~~~~TV~~LK~~i~~~~---~~~qrLi~~Gk~L~D~~~tL~~y~i~~g~~i~l~~~~~~~~   82 (95)
T 1wia_A            8 INVRLKFLNDTEELAVARPEDTVGTLKSKYFPGQ---ESQMKLIYQGRLLQDPARTLSSLNITNNCVIHCHRSPPGAA   82 (95)
T ss_dssp             EEEEEEETTTEEEEEEECSSSBHHHHHHHHSSST---TTTCEEEETTEECCCSSCBTTTTTCCTTEEEEEECCCCCCC
T ss_pred             EEEEEEeCCCCEEEEEECCCCcHHHHHHHHHhhC---cCcEEEEECCEEccCCcCCHHHcCCCCCCEEEEEECCCCCC
Confidence            7899999999999999999999999999999987   8899999999999999 999999999999999999877544

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

Probab=99.63  E-value=5.4e-16  Score=112.30  Aligned_cols=74  Identities=19%  Similarity=0.402  Sum_probs=69.7

Q ss_pred             CEEEEEcCCCCEEEE-EEcCCCCHHHHHHHHHHHhCCCCCcEEEE---EcCEEcCCCCccccCCCCCCCEEEEEEecCC
Q 044874            1 MDVIFEPQRGKAFTI-EVGFFDTVLEIKEKIEKYQGIPVPKQTLV---FNGQVLQDDRDVEHCEILQNSRIQLLVASDN   75 (269)
Q Consensus         1 M~i~vk~~~g~~~~l-~v~~~~tV~~lK~~I~~~~gi~~~~q~L~---~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~   75 (269)
                      |+|+|+. +|+++.+ ++++++||.+||++|++++|+|+++|||+   |+|+.|+|+.+|++|+|.++++|+|+.....
T Consensus         8 m~i~Vk~-~g~~~~i~~v~~~~TV~~lK~~I~~~~gip~~~QkLi~~k~~Gk~L~D~~~L~~~~i~~g~~l~l~~~~~~   85 (90)
T 1v5t_A            8 LPIIVKW-GGQEYSVTTLSEDDTVLDLKQFLKTLTGVLPERQKLLGLKVKGKPAENDVKLGALKLKPNTKIMMMGTRES   85 (90)
T ss_dssp             CCEEEEE-TTEEEEECSCCSSSBHHHHHHHHHHHTCCCTTTCEEESCEETTEECCTTSBHHHHTCCTTEEEEEECCCSS
T ss_pred             EEEEEEE-CCEEEEEEEeCCCCCHHHHHHHHHHHHCcCHHHeEEEeeccCCcCcCCCCCHHHcCCCCCCEEEEEecCcc
Confidence            7899996 7899999 99999999999999999999999999999   9999999999999999999999999877653

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

Probab=99.63  E-value=9.7e-16  Score=110.96  Aligned_cols=74  Identities=16%  Similarity=0.229  Sum_probs=68.6

Q ss_pred             CcceeEEEEecCCCeEEEE-EecCCCcHHHHHHHHHHhhhccCCCCCCCceEEE---ecCeeecCCCccccccCCCCCEE
Q 044874          183 PRKLKLLVLTQCGNKRIPV-EVNASDNVSELRKELQKLHQRYHFHLPQDGYFFI---YKQNVMDDDRSFRWHHVGQGDTI  258 (269)
Q Consensus       183 ~~~~~i~V~~~~g~~~~~l-~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~---~~g~~L~d~~tL~~~~i~~~~~i  258 (269)
                      ...|+|+|+. .| +++.+ ++++++||.+||++|+++.     |+|+++|+|+   |+|+.|+|+.+|++|+|++|++|
T Consensus         5 ~~~m~i~Vk~-~g-~~~~i~~v~~~~TV~~lK~~I~~~~-----gip~~~QkLi~~k~~Gk~L~D~~~L~~~~i~~g~~l   77 (90)
T 1v5t_A            5 SSGLPIIVKW-GG-QEYSVTTLSEDDTVLDLKQFLKTLT-----GVLPERQKLLGLKVKGKPAENDVKLGALKLKPNTKI   77 (90)
T ss_dssp             CCSCCEEEEE-TT-EEEEECSCCSSSBHHHHHHHHHHHT-----CCCTTTCEEESCEETTEECCTTSBHHHHTCCTTEEE
T ss_pred             CceEEEEEEE-CC-EEEEEEEeCCCCCHHHHHHHHHHHH-----CcCHHHeEEEeeccCCcCcCCCCCHHHcCCCCCCEE
Confidence            3469999996 66 89999 9999999999999999987     9999999999   99999999999999999999999


Q ss_pred             EEecC
Q 044874          259 EIFNG  263 (269)
Q Consensus       259 ~l~~~  263 (269)
                      +|+..
T Consensus        78 ~l~~~   82 (90)
T 1v5t_A           78 MMMGT   82 (90)
T ss_dssp             EEECC
T ss_pred             EEEec
Confidence            99853

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

Probab=99.63  E-value=1.2e-15  Score=116.48  Aligned_cols=73  Identities=12%  Similarity=0.213  Sum_probs=66.1

Q ss_pred             cceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHH------hhhccCCCC--CCCceEEEecCeeecCCCccccccCCCC
Q 044874          184 RKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQK------LHQRYHFHL--PQDGYFFIYKQNVMDDDRSFRWHHVGQG  255 (269)
Q Consensus       184 ~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~------~~~~~~~~~--p~~~q~l~~~g~~L~d~~tL~~~~i~~~  255 (269)
                      ..|+|+|++..| +++.++|++++||.+||++|++      ++     ++  |+++|+|||+|++|+|++||++|+|+++
T Consensus        16 ~~m~I~vktl~G-~~~~lev~~s~TV~~lK~~I~~~~p~dwke-----~ip~~~~~qrLIy~GK~LeD~~TL~~y~I~~~   89 (125)
T 2gow_A           16 DMINLRLILVSG-KTKEFLFSPNDSASDIAKHVYDNWPMDWEE-----EQVSSPNILRLIYQGRFLHGNVTLGALKLPFG   89 (125)
T ss_dssp             TCEEEEEECTTS-CEEEEEECTTSBHHHHHHHHHSSCCCSCCC-----CTTCCGGGEEEESSSSEEESSCBTGGGCCCTT
T ss_pred             CeEEEEEEeCCC-CEEEEEeCCccHHHHHHHHHHHHCCccccc-----CCCCChHHEEEEECCcCCCCCCcHHHcCCCCC
Confidence            459999999998 9999999999999999999998      54     67  4889999999999999999999999988


Q ss_pred             C--EEEEec
Q 044874          256 D--TIEIFN  262 (269)
Q Consensus       256 ~--~i~l~~  262 (269)
                      +  +|+|+.
T Consensus        90 ~~~tlhlv~   98 (125)
T 2gow_A           90 KTTVMHLVA   98 (125)
T ss_dssp             SEEEEEEEE
T ss_pred             CceEEEEEe
Confidence            7  677775

>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=99.63  E-value=1.2e-15  Score=116.08  Aligned_cols=78  Identities=15%  Similarity=0.192  Sum_probs=65.9

Q ss_pred             ceeEEEEecCCCeEE-EEEecCCCcHHHHHHHHHHhhhccCCCCCC--CceEEEecCeeecCCCccccccCCCC------
Q 044874          185 KLKLLVLTQCGNKRI-PVEVNASDNVSELRKELQKLHQRYHFHLPQ--DGYFFIYKQNVMDDDRSFRWHHVGQG------  255 (269)
Q Consensus       185 ~~~i~V~~~~g~~~~-~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~--~~q~l~~~g~~L~d~~tL~~~~i~~~------  255 (269)
                      .|+|++++.+| +.+ .+++++++||.+||++|.+..+....++|+  ++|+|||+|++|+|++||++|+|++|      
T Consensus        16 ~~~i~~kt~~G-~~i~~l~v~psdTV~~lK~kI~~~~p~dkegiP~~~~qQrLIy~GK~LeD~~TLsdy~I~~~~~~~~v   94 (126)
T 1se9_A           16 QLEIKFRLTDG-SDIGPKAFPDATTVSALKETVISEWPREKENGPKTVKEVKLISAGKVLENSKTVKDYRSPVSNLAGAV   94 (126)
T ss_dssp             CEEEEEEETTS-CEEEEEEECTTCBHHHHHHHHHHHSCTTCSSSCCSGGGEEEEETTEECCTTSBGGGGSCCTTSCTTCC
T ss_pred             cEEEEEEECCC-CEEEeeecCccCHHHHHHHHHHhhcccccccCCCChhhEEEEECCeECcCCCcHHHcCCCcCCccCCc
Confidence            49999999999 777 799999999999999995432111127886  79999999999999999999999999      


Q ss_pred             CEEEEecC
Q 044874          256 DTIEIFNG  263 (269)
Q Consensus       256 ~~i~l~~~  263 (269)
                      +|++|+.+
T Consensus        95 ~tmhlVlr  102 (126)
T 1se9_A           95 TTMHVIIQ  102 (126)
T ss_dssp             EEEEEEEC
T ss_pred             EEEEEEec
Confidence            67888864

>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=99.63  E-value=7.3e-16  Score=112.93  Aligned_cols=73  Identities=16%  Similarity=0.292  Sum_probs=68.2

Q ss_pred             CEEEEEcCCCCEE-EEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCC
Q 044874            1 MDVIFEPQRGKAF-TIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDN   75 (269)
Q Consensus         1 M~i~vk~~~g~~~-~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~   75 (269)
                      |+|+||. .|+++ .+++++++||.+||++|++++|+|+++|||+|+|+.|+|+ +|++|+|+++++|+|+.....
T Consensus         8 m~i~Vk~-~g~~~~~l~v~~~~TV~~lK~~I~~~tgip~~~QkLi~~Gk~L~D~-tL~~~~I~~g~~i~l~~~~~~   81 (96)
T 1wgg_A            8 YSVTVKW-GKEKFEGVELNTDEPPMVFKAQLFALTGVQPARQKVMVKGGTLKDD-DWGNIKMKNGMTVLMMGSADA   81 (96)
T ss_dssp             EEEEEEE-TTEEEEEEEEESSSCHHHHHHHHHHHTCCCTTTSCCEETTEECCSS-CCCSCCCCSSCEEECCCCCCC
T ss_pred             EEEEEEE-CCEEEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCcCCCCC-CHHHCCCCCCCEEEEEecchh
Confidence            7899995 68999 6999999999999999999999999999999999999999 999999999999999887653

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

Probab=99.63  E-value=1.2e-15  Score=124.59  Aligned_cols=78  Identities=23%  Similarity=0.416  Sum_probs=72.5

Q ss_pred             cceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecC
Q 044874          184 RKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNG  263 (269)
Q Consensus       184 ~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~  263 (269)
                      .+|+|+|++.+| +++.++|++++||.+||++|+++.     ++|+++|+|+|+|+.|+|+.+|++|+|++|++|+|+..
T Consensus       104 ~eMqI~VKtl~G-kt~~l~V~~s~TV~~LK~kI~~~~-----gIp~~~QrLi~~Gk~L~D~~tL~dygI~~gstI~Lvlr  177 (189)
T 3q3f_A          104 YGGQIFVKTLTG-KTITLEVEPSDTIENVKAKIQDKE-----GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR  177 (189)
T ss_dssp             CCEEEEEECTTS-CEEEEEECTTCBHHHHHHHHHHHH-----CCCGGGCCEEETTEECCTTCBGGGGTCCTTCEEEECCC
T ss_pred             cceeeeeecCCC-CEEEEEeCCCCcHHHHHHHHHhcc-----CCCHHHEEEEECCEECCCCCCHHHCCCCCCCEEEEEEE
Confidence            469999999998 999999999999999999999987     99999999999999999999999999999999999864


Q ss_pred             cccCC
Q 044874          264 SVTGG  268 (269)
Q Consensus       264 ~~~~~  268 (269)
                       +.||
T Consensus       178 -lrGG  181 (189)
T 3q3f_A          178 -LRGG  181 (189)
T ss_dssp             -CCCC
T ss_pred             -cCCC
Confidence             4444

>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=1.1e-15  Score=114.94  Aligned_cols=77  Identities=19%  Similarity=0.308  Sum_probs=69.9

Q ss_pred             ceeEEEEec---CCCeEEEEEecC-CCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEE
Q 044874          185 KLKLLVLTQ---CGNKRIPVEVNA-SDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEI  260 (269)
Q Consensus       185 ~~~i~V~~~---~g~~~~~l~v~~-~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l  260 (269)
                      .|+|+|+..   .| +.+.++|++ ++||.+||++|++..     |+|+++|+|+|+|+.|+|+++|++|||++|++|+|
T Consensus        27 ~i~i~Vk~~~~~~g-~~~~l~v~~l~~TV~~LK~~I~~~~-----gip~~~QrL~~~Gk~L~D~~tL~~y~I~~g~~l~l  100 (111)
T 1we6_A           27 PATIRVSKPNENDG-QFMEITVQSLSENVGSLKEKIAGEI-----QIPANKQKLSGKAGFLKDNMSLAHYNVGAGEILTL  100 (111)
T ss_dssp             CEEEEECCTTCSSS-CCEEEEESCSSSBHHHHHHHHHHHT-----TCCTTTSEEECSSSBCCTTSBTTTTTCSSSCEEEE
T ss_pred             cEEEEEEecccCCC-cEEEEEecCCCCcHHHHHHHHHHHH-----CCCHHHeEEEECCEECCCCCcHHHCCCCCCCEEEE
Confidence            489999987   66 889999998 999999999999986     99999999999999999999999999999999999


Q ss_pred             ecCcccCC
Q 044874          261 FNGSVTGG  268 (269)
Q Consensus       261 ~~~~~~~~  268 (269)
                      +. ++.||
T Consensus       101 ~~-r~~GG  107 (111)
T 1we6_A          101 SL-RERSG  107 (111)
T ss_dssp             EC-SSCCS
T ss_pred             EE-EcCCC
Confidence            85 33443

>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=99.63  E-value=1.2e-15  Score=111.81  Aligned_cols=71  Identities=15%  Similarity=0.185  Sum_probs=66.3

Q ss_pred             cceeEEEEecCCCeEE-EEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEec
Q 044874          184 RKLKLLVLTQCGNKRI-PVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       184 ~~~~i~V~~~~g~~~~-~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      ..|+|+|+. .| +.+ .+++++++||.+||++|+++.     |+|+++|+|+|+|+.|+|+ +|++|||++|++|+|+.
T Consensus         6 ~~m~i~Vk~-~g-~~~~~l~v~~~~TV~~lK~~I~~~t-----gip~~~QkLi~~Gk~L~D~-tL~~~~I~~g~~i~l~~   77 (96)
T 1wgg_A            6 SGYSVTVKW-GK-EKFEGVELNTDEPPMVFKAQLFALT-----GVQPARQKVMVKGGTLKDD-DWGNIKMKNGMTVLMMG   77 (96)
T ss_dssp             CEEEEEEEE-TT-EEEEEEEEESSSCHHHHHHHHHHHT-----CCCTTTSCCEETTEECCSS-CCCSCCCCSSCEEECCC
T ss_pred             cEEEEEEEE-CC-EEEEEEEECCCCcHHHHHHHHHHHH-----CcCHHHeEEEECCcCCCCC-CHHHCCCCCCCEEEEEe
Confidence            469999995 66 899 699999999999999999987     9999999999999999999 99999999999999984

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

Probab=99.62  E-value=1.9e-15  Score=114.24  Aligned_cols=73  Identities=21%  Similarity=0.412  Sum_probs=69.8

Q ss_pred             ceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecC
Q 044874          185 KLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNG  263 (269)
Q Consensus       185 ~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~  263 (269)
                      +.+|+|+...| +++.++|++++||.+||++|+++.     ++|+++|+|+|+|+.|+|+.+|++|||++|++|+|+..
T Consensus         9 ~~~i~vk~l~G-~~~~l~v~~~~TV~~LK~~I~~~~-----gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~~   81 (114)
T 2kdi_A            9 EFQIFAKTLTG-KTITLEVESSDTIDNVKSKIQDKE-----GIPPDQQRLIWAGKQLEDGRTLSDYNIQRESTLHLVLR   81 (114)
T ss_dssp             CCEEEEEETTC-CEEEEECCTTCBHHHHHHHHHHHH-----CCCGGGEEEEETTEECCTTCBTTTTTCCSSCEEEEEEC
T ss_pred             cEEEEEEeCCC-cEEEEEECCCCcHHHHHHHHHHHH-----CcChHHEEEEECCEECCCCCcHHHCCCCCCCEEEEEEE
Confidence            58999999998 999999999999999999999987     99999999999999999999999999999999999863

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

Probab=99.62  E-value=1.5e-15  Score=108.84  Aligned_cols=71  Identities=18%  Similarity=0.326  Sum_probs=66.2

Q ss_pred             EEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEec
Q 044874            3 VIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVAS   73 (269)
Q Consensus         3 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~   73 (269)
                      ++++..+|+.+.+++++++||.+||++|++.+|+|+++|+|+|+|+.|+|+.+|++|+|.++++|+|+.++
T Consensus        14 ~~~~~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~l~l~~s~   84 (85)
T 2kd0_A           14 KLTVKFGGKSIPLSVSPDCTVKDLKSQLQPITNVLPRGQKLIFKGKVLVETSTLKQSDVGSGAKLMLMASQ   84 (85)
T ss_dssp             EEEEEETTEEEEEEECTTSBHHHHHHHHHHHHCCCTTTCEEEETTEECCTTCBTTTTTCCTTEEEEEECCC
T ss_pred             EEEEEECCEEEEEEECCCCcHHHHHHHHHHHHCcChHHEEEEECCeECCCcCCHHHCCCCCCCEEEEEEeC
Confidence            45667789999999999999999999999999999999999999999999999999999999999988653

>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=99.61  E-value=1.7e-15  Score=113.23  Aligned_cols=75  Identities=17%  Similarity=0.230  Sum_probs=69.4

Q ss_pred             CEEEEEcCCC---CEEEEEEcC---------CCCHHHHHHHHHHHh--CCCCCc-EEEEEcCEEcCCCCccccCCCCCCC
Q 044874            1 MDVIFEPQRG---KAFTIEVGF---------FDTVLEIKEKIEKYQ--GIPVPK-QTLVFNGQVLQDDRDVEHCEILQNS   65 (269)
Q Consensus         1 M~i~vk~~~g---~~~~l~v~~---------~~tV~~lK~~I~~~~--gi~~~~-q~L~~~G~~L~d~~tL~~~~i~~~~   65 (269)
                      |+|+||..++   +++.+++++         ++||.+||++|+..+  |+|+++ |||+|+|+.|+|+.+|++|+|++++
T Consensus        13 ~~i~Vk~~~~~~~~~~~l~v~~~~~~~v~~~~~TV~~LK~~i~~~~~~gip~~~~qrLi~~Gk~L~D~~tL~~y~i~~g~   92 (107)
T 1x1m_A           13 WHLAVKLADQPLAPKSILQLPETELGEYSLGGYSISFLKQLIAGKLQESVPDPELIDLIYCGRKLKDDQTLDFYGIQPGS   92 (107)
T ss_dssp             CCEEEEETTCTTSCCEEECCCCCSSCSSCCCCCBHHHHHHHHHHHCTTTCCCSSSEEEEETTEECCTTCBHHHHTCCTTC
T ss_pred             eEEEEEeCCCCCccEEEEEecCccccccCcccCCHHHHHHHHHHHhccCCChhhcEEEEECCeECCCCCcHHHcCCCCCC
Confidence            7899999998   889999554         599999999999999  999999 9999999999999999999999999


Q ss_pred             EEEEEEecCC
Q 044874           66 RIQLLVASDN   75 (269)
Q Consensus        66 ~i~l~~~~~~   75 (269)
                      +|+|+++...
T Consensus        93 ~i~lv~~~~~  102 (107)
T 1x1m_A           93 TVHVLRKSWS  102 (107)
T ss_dssp             EEEEEESSCC
T ss_pred             EEEEEeCCCC
Confidence            9999988763

>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=5.3e-17  Score=113.74  Aligned_cols=71  Identities=17%  Similarity=0.309  Sum_probs=67.5

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEec
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      |+|+|+..+| +++.+++++++||++||++|++..     |+|++.|+|+|+|+.|+|+.+|++|||++|++|+++.
T Consensus         1 M~i~Vk~~~g-~~~~~~v~~~~tV~~lK~~i~~~~-----gi~~~~qrL~~~gk~L~d~~tL~~~~i~~g~~i~l~~   71 (76)
T 3b1l_X            1 MIVFVRFNSS-YGFPVEVDSDTSILQLKEVVAKQQ-----GVPADQLRVIFAGKELPNHLTVQNCDLEQQSIVHIVQ   71 (76)
Confidence            6899999888 899999999999999999999986     9999999999999999999999999999999999985

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

Probab=99.60  E-value=4.7e-15  Score=110.49  Aligned_cols=75  Identities=16%  Similarity=0.263  Sum_probs=69.2

Q ss_pred             EEEEE-cCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCC
Q 044874            2 DVIFE-PQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNK   76 (269)
Q Consensus         2 ~i~vk-~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g   76 (269)
                      .|+|+ ..+++.++++++++.||.+||++++.+.++|+++|+|+|+|+.|+|+.||++|||+++.+|||+++....
T Consensus        17 tvkv~l~~~~~k~tv~v~~d~TV~dLKe~ls~~~~iP~e~qrLIy~GKiLKD~eTL~~~gIk~g~TIhLvi~s~~p   92 (118)
T 2daf_A           17 TVKVVLIPVGQEIVIPFKVDTILKYLKDHFSHLLGIPHSVLQIRYSGKILKNNETLVQHGVKPQEIVQVEIFSTNP   92 (118)
T ss_dssp             EEEEEETTTCCEEEEEECSSSCSHHHHHHHHHHHTCCTTTEEEEETTEEECSSCCHHHHSCCSSCEEEEEEEESCT
T ss_pred             EEEEEEcCCCcEEEEEeCCCCcHHHHHHHHHhhhCCChHHEEEEECCeEcCCcchHHHcCCCCCCEEEEEEecCCC
Confidence            45555 6678899999999999999999999999999999999999999999999999999999999999987643

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

Probab=99.60  E-value=4.9e-15  Score=106.05  Aligned_cols=70  Identities=24%  Similarity=0.443  Sum_probs=64.1

Q ss_pred             eEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEec
Q 044874          187 KLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       187 ~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      ..+++...| +.+.+++++++||.+||++|++..     ++|+++|+|+|+|+.|+|+.+|++|||++|++|+|+.
T Consensus        13 ~~~~~~~~g-~~~~l~v~~~~TV~~LK~~I~~~~-----gip~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~l~l~~   82 (85)
T 2kd0_A           13 IKLTVKFGG-KSIPLSVSPDCTVKDLKSQLQPIT-----NVLPRGQKLIFKGKVLVETSTLKQSDVGSGAKLMLMA   82 (85)
T ss_dssp             EEEEEEETT-EEEEEEECTTSBHHHHHHHHHHHH-----CCCTTTCEEEETTEECCTTCBTTTTTCCTTEEEEEEC
T ss_pred             EEEEEEECC-EEEEEEECCCCcHHHHHHHHHHHH-----CcChHHEEEEECCeECCCcCCHHHCCCCCCCEEEEEE
Confidence            344555677 999999999999999999999987     9999999999999999999999999999999999974

>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=99.59  E-value=3.6e-15  Score=108.36  Aligned_cols=74  Identities=19%  Similarity=0.362  Sum_probs=67.9

Q ss_pred             CEEEEEcCCCCEEEEEEcCC-----CCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCC-CCccccCCCCCCCEEEEEEecC
Q 044874            1 MDVIFEPQRGKAFTIEVGFF-----DTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQD-DRDVEHCEILQNSRIQLLVASD   74 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~-----~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d-~~tL~~~~i~~~~~i~l~~~~~   74 (269)
                      |+|+|+. .|+.+.++++++     +||.+||++|++.+|+|+++|||+|+|+.|+| +.+|++|+|.++++|+|+.+..
T Consensus         8 ~~v~Vk~-~~~~~~i~v~~~~~~~~~TV~~LK~~i~~~~gip~~~qrL~~~Gk~L~D~~~~L~~~~i~~g~~i~l~~~~~   86 (92)
T 1wxv_A            8 LTVTVTH-SNEKHDLHVTSQQGSSEPVVQDLAQVVEEVIGVPQSFQKLIFKGKSLKEMETPLSALGIQDGCRVMLIGKKN   86 (92)
T ss_dssp             EEEEEEC-SSSEEEEEECCCSSSSSCBHHHHHHHHHHHTCCCTTTCEEEETTEEECCSSSBHHHHTCCSSEEEEEESCCS
T ss_pred             EEEEEEE-CCEEEEEEECCCcCcccCcHHHHHHHHHHHHCcCHHHEEEEECCeecCCCcccHHHCCCCCCCEEEEEecCC
Confidence            6899998 588999999995     99999999999999999999999999999998 6689999999999999987665


Q ss_pred             C
Q 044874           75 N   75 (269)
Q Consensus        75 ~   75 (269)
                      .
T Consensus        87 ~   87 (92)
T 1wxv_A           87 S   87 (92)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.59  E-value=6.6e-15  Score=107.59  Aligned_cols=72  Identities=11%  Similarity=0.146  Sum_probs=66.0

Q ss_pred             CcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCC-CccccccCCCCCEEEEe
Q 044874          183 PRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDD-RSFRWHHVGQGDTIEIF  261 (269)
Q Consensus       183 ~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~-~tL~~~~i~~~~~i~l~  261 (269)
                      ...|+|+|+...| +.+.++|++++||.+||++|+++      -  +++|+|+|+|+.|+|+ ++|++|||++|++|||+
T Consensus         5 ~~~m~i~Vk~~~g-~~~~~~v~~~~TV~~LK~~i~~~------~--~~~qrLi~~Gk~L~D~~~tL~~y~i~~g~~i~l~   75 (95)
T 1wia_A            5 SSGINVRLKFLND-TEELAVARPEDTVGTLKSKYFPG------Q--ESQMKLIYQGRLLQDPARTLSSLNITNNCVIHCH   75 (95)
T ss_dssp             CCSEEEEEEETTT-EEEEEEECSSSBHHHHHHHHSSS------T--TTTCEEEETTEECCCSSCBTTTTTCCTTEEEEEE
T ss_pred             CCeEEEEEEeCCC-CEEEEEECCCCcHHHHHHHHHhh------C--cCcEEEEECCEEccCCcCCHHHcCCCCCCEEEEE
Confidence            3569999999888 89999999999999999999884      2  7899999999999999 99999999999999998


Q ss_pred             cC
Q 044874          262 NG  263 (269)
Q Consensus       262 ~~  263 (269)
                      ..
T Consensus        76 ~~   77 (95)
T 1wia_A           76 RS   77 (95)
T ss_dssp             CC
T ss_pred             EC
Confidence            53

>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=99.59  E-value=3.5e-15  Score=109.08  Aligned_cols=76  Identities=22%  Similarity=0.335  Sum_probs=67.7

Q ss_pred             CCCcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEE
Q 044874          181 MGPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEI  260 (269)
Q Consensus       181 ~~~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l  260 (269)
                      .+...|+|+|+. .+ +++.+++++++||.+||++|+++.     ++|+++|+|+|+|+.|+ +.+|.+|+|++|++|+|
T Consensus        13 ~~~~~~~i~Vk~-~g-~~~~i~v~~~~TV~~LK~~I~~~t-----gip~~~QrL~~~Gk~Ld-d~tL~~~~i~~g~~i~l   84 (95)
T 1v86_A           13 VGKELVDLKIIW-NK-TKHDVKVPLDSTGSELKQKIHSIT-----GLPPAMQKVMYKGLVPE-DKTLREIKVTSGAKIMV   84 (95)
T ss_dssp             CCCCCEEEEEEE-TT-EEEEEEECTTSBHHHHHHHHHHHH-----CSCSTTCCCBSSSBCCS-SSBHHHHCCCTTEEEEE
T ss_pred             CCCceEEEEEEE-CC-EEEEEEECCCCcHHHHHHHHHHHH-----CcCHHHeEEEECCeeCC-cCcHHHCCCCCCCEEEE
Confidence            344568999984 56 899999999999999999999987     99999999999999995 55999999999999999


Q ss_pred             ecCc
Q 044874          261 FNGS  264 (269)
Q Consensus       261 ~~~~  264 (269)
                      +...
T Consensus        85 v~~~   88 (95)
T 1v86_A           85 VGST   88 (95)
T ss_dssp             CCSS
T ss_pred             Eecc
Confidence            8654

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

Probab=99.58  E-value=3.8e-15  Score=107.22  Aligned_cols=70  Identities=11%  Similarity=0.153  Sum_probs=63.7

Q ss_pred             ceeEEEEecCCCeEE--EE-EecCCCcHHHHHHHHHHh-hhccCCCCCCCceEEEec--CeeecCCCccccccCCCCCEE
Q 044874          185 KLKLLVLTQCGNKRI--PV-EVNASDNVSELRKELQKL-HQRYHFHLPQDGYFFIYK--QNVMDDDRSFRWHHVGQGDTI  258 (269)
Q Consensus       185 ~~~i~V~~~~g~~~~--~l-~v~~~~tV~~lK~~i~~~-~~~~~~~~p~~~q~l~~~--g~~L~d~~tL~~~~i~~~~~i  258 (269)
                      .|+|+|++..| +.+  .+ +|++++||.+||++|++. +     ++|+++|+|+|.  |++|+|++||++|+|++|++|
T Consensus        10 ~M~I~Vk~~~g-~~~~~~l~~v~~~~TV~~lK~~I~~~~~-----~i~~~~QrL~~~~~Gk~L~D~~tL~~y~i~~~stl   83 (88)
T 2dzj_A           10 HYEVEILDAKT-REKLCFLDKVEPHATIAEIKNLFTKTHP-----QWYPARQSLRLDPKGKSLKDEDVLQKLPVGTTATL   83 (88)
T ss_dssp             CEEEEEEESSS-CCCCEEEEEECSSCBHHHHHHHHHHHCS-----SSCTTTCCEESSTTSCCCCTTCBTTTSSCCSEEEE
T ss_pred             EEEEEEECCCC-CEEeeEEeEcCCCCcHHHHHHHHHHHhc-----CCChHHeEEEecCCCcCcCCCCCHHHcCCCCCCEE
Confidence            49999999987 443  58 999999999999999994 5     899999999976  999999999999999999998


Q ss_pred             EE
Q 044874          259 EI  260 (269)
Q Consensus       259 ~l  260 (269)
                      |+
T Consensus        84 ~~   85 (88)
T 2dzj_A           84 YF   85 (88)
T ss_dssp             EE
T ss_pred             EE
Confidence            87

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

Probab=99.58  E-value=2e-15  Score=110.89  Aligned_cols=75  Identities=23%  Similarity=0.188  Sum_probs=68.7

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEE--cCEEcCCCCccccCCCCCCCEEEEEEecCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVF--NGQVLQDDRDVEHCEILQNSRIQLLVASDNK   76 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~--~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g   76 (269)
                      |.++++.++|+++++++++++||++||++|++++||||++|+|+|  .|+ |+|+.+|++|+|++|+++||++....+
T Consensus         9 m~~~~vk~~Gk~~~v~v~~~~TV~~LK~~I~~~tgIpp~~QkLi~~~~gk-L~D~~tLs~~~I~~gstL~lvl~~~~~   85 (100)
T 2dzm_A            9 MLDFRVEYRDRNVDVVLEDTCTVGEIKQILENELQIPVSKMLLKGWKTGD-VEDSTVLKSLHLPKNNSLYVLTPDLPP   85 (100)
T ss_dssp             EEEEEEECSSCEEEEEEETTSBHHHHHHHHHHHHCCCTTTCCEECCSSSC-CCTTSBHHHHCCCSEEEEEECCSSSCC
T ss_pred             eEEEEEEeCCeEEEEEECCCCcHHHHHHHHHHHHCCChhHeEEEccCCCC-CCCcCCHHHcCCCCCCEEEEEecCCCC
Confidence            677888889999999999999999999999999999999999986  566 999999999999999999998876643

>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=99.58  E-value=1e-15  Score=111.91  Aligned_cols=74  Identities=19%  Similarity=0.331  Sum_probs=67.3

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNK   76 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g   76 (269)
                      |+|+|+ .+++++.+++++++||.+||++|+..+|+|+++|||+|.|+.| |+.+|++|+|+++++|+|+.+....
T Consensus        18 ~~i~Vk-~~g~~~~i~v~~~~TV~~LK~~I~~~tgip~~~QrL~~~Gk~L-dd~tL~~~~i~~g~~i~lv~~~~~~   91 (95)
T 1v86_A           18 VDLKII-WNKTKHDVKVPLDSTGSELKQKIHSITGLPPAMQKVMYKGLVP-EDKTLREIKVTSGAKIMVVGSTISG   91 (95)
T ss_dssp             EEEEEE-ETTEEEEEEECTTSBHHHHHHHHHHHHCSCSTTCCCBSSSBCC-SSSBHHHHCCCTTEEEEECCSSCCC
T ss_pred             EEEEEE-ECCEEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCeeC-CcCcHHHCCCCCCCEEEEEeccccC
Confidence            678898 4689999999999999999999999999999999999999999 5559999999999999998776543

>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=99.57  E-value=1.5e-14  Score=105.02  Aligned_cols=74  Identities=14%  Similarity=0.241  Sum_probs=66.6

Q ss_pred             cceeEEEEecCCCeEEEEEecCC-----CcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecC-CCccccccCCCCCE
Q 044874          184 RKLKLLVLTQCGNKRIPVEVNAS-----DNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDD-DRSFRWHHVGQGDT  257 (269)
Q Consensus       184 ~~~~i~V~~~~g~~~~~l~v~~~-----~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d-~~tL~~~~i~~~~~  257 (269)
                      ..|+|+|+. .+ +.+.+++++.     +||.+||++|+++.     |+|+++|+|+|+|+.|+| +.+|++|||++|++
T Consensus         6 ~~~~v~Vk~-~~-~~~~i~v~~~~~~~~~TV~~LK~~i~~~~-----gip~~~qrL~~~Gk~L~D~~~~L~~~~i~~g~~   78 (92)
T 1wxv_A            6 SGLTVTVTH-SN-EKHDLHVTSQQGSSEPVVQDLAQVVEEVI-----GVPQSFQKLIFKGKSLKEMETPLSALGIQDGCR   78 (92)
T ss_dssp             SSEEEEEEC-SS-SEEEEEECCCSSSSSCBHHHHHHHHHHHT-----CCCTTTCEEEETTEEECCSSSBHHHHTCCSSEE
T ss_pred             CeEEEEEEE-CC-EEEEEEECCCcCcccCcHHHHHHHHHHHH-----CcCHHHEEEEECCeecCCCcccHHHCCCCCCCE
Confidence            459999997 45 7889999995     99999999999986     999999999999999999 56899999999999


Q ss_pred             EEEecCc
Q 044874          258 IEIFNGS  264 (269)
Q Consensus       258 i~l~~~~  264 (269)
                      |+|+...
T Consensus        79 i~l~~~~   85 (92)
T 1wxv_A           79 VMLIGKK   85 (92)
T ss_dssp             EEEESCC
T ss_pred             EEEEecC
Confidence            9998643

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

Probab=99.57  E-value=7.7e-15  Score=107.80  Aligned_cols=76  Identities=9%  Similarity=0.229  Sum_probs=68.8

Q ss_pred             ceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEe--cCeeecCCCccccccCCCCCEEEEec
Q 044874          185 KLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIY--KQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       185 ~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~--~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      +|.++++.+.| +++.++|++++||++||++|++++     |+|+++|+|+|  .|+ |+|+.+|++|+|++|++|+|+.
T Consensus         8 ~m~~~~vk~~G-k~~~v~v~~~~TV~~LK~~I~~~t-----gIpp~~QkLi~~~~gk-L~D~~tLs~~~I~~gstL~lvl   80 (100)
T 2dzm_A            8 RMLDFRVEYRD-RNVDVVLEDTCTVGEIKQILENEL-----QIPVSKMLLKGWKTGD-VEDSTVLKSLHLPKNNSLYVLT   80 (100)
T ss_dssp             CEEEEEEECSS-CEEEEEEETTSBHHHHHHHHHHHH-----CCCTTTCCEECCSSSC-CCTTSBHHHHCCCSEEEEEECC
T ss_pred             ceEEEEEEeCC-eEEEEEECCCCcHHHHHHHHHHHH-----CCChhHeEEEccCCCC-CCCcCCHHHcCCCCCCEEEEEe
Confidence            58888888888 999999999999999999999998     99999999997  566 9999999999999999999986


Q ss_pred             CcccC
Q 044874          263 GSVTG  267 (269)
Q Consensus       263 ~~~~~  267 (269)
                      ..+++
T Consensus        81 ~~~~~   85 (100)
T 2dzm_A           81 PDLPP   85 (100)
T ss_dssp             SSSCC
T ss_pred             cCCCC
Confidence            66553

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

Probab=99.57  E-value=5.2e-15  Score=106.00  Aligned_cols=66  Identities=6%  Similarity=0.093  Sum_probs=60.1

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEe-------cCeeecCCCccccccCCCCCEEEEecCcc
Q 044874          195 GNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIY-------KQNVMDDDRSFRWHHVGQGDTIEIFNGSV  265 (269)
Q Consensus       195 g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~-------~g~~L~d~~tL~~~~i~~~~~i~l~~~~~  265 (269)
                      +.+.+.+.+++++||++||++|+.++     |+|+++|+|+|       .|+.|+|+++|++|||++|++|||+....
T Consensus        13 ~~~~~E~r~~~s~TI~~lK~ki~~~~-----Gip~~~QrLi~~~~~~~~~g~~l~d~~tL~~Y~i~~g~~ihlvd~~P   85 (86)
T 4b6w_A           13 RMRVPEKRYGLAQTIESIKENVFTHF-----ATPPEYMQLQLIDDRGITIEKNMANDKQLGYYQCRDEFVIHVVDLQP   85 (86)
T ss_dssp             SCCEEEEEEETTSBHHHHHHHHHTTS-----CCCGGGEEEEEECTTSCEEESSCCTTSBGGGGTCCTTCEEEEEECCC
T ss_pred             CCeEEEEEcCccCcHHHHHHHHHHHH-----CCCHHHEEEEEecCCCCceeeEcCCCCCHHHCCCCCCCEEEEEeCCC
Confidence            34677899999999999999999987     99999999996       58999999999999999999999997543

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

Probab=99.56  E-value=2.5e-15  Score=108.24  Aligned_cols=69  Identities=17%  Similarity=0.222  Sum_probs=63.7

Q ss_pred             CEEEEEcCCCCEE--EE-EEcCCCCHHHHHHHHHHH-hCCCCCcEEEEEc--CEEcCCCCccccCCCCCCCEEEE
Q 044874            1 MDVIFEPQRGKAF--TI-EVGFFDTVLEIKEKIEKY-QGIPVPKQTLVFN--GQVLQDDRDVEHCEILQNSRIQL   69 (269)
Q Consensus         1 M~i~vk~~~g~~~--~l-~v~~~~tV~~lK~~I~~~-~gi~~~~q~L~~~--G~~L~d~~tL~~~~i~~~~~i~l   69 (269)
                      |+|+|+++.|+.+  .+ +|++++||.+||++|++. .++||++|||+|.  |+.|+|+.+|++|+|.++++|++
T Consensus        11 M~I~Vk~~~g~~~~~~l~~v~~~~TV~~lK~~I~~~~~~i~~~~QrL~~~~~Gk~L~D~~tL~~y~i~~~stl~~   85 (88)
T 2dzj_A           11 YEVEILDAKTREKLCFLDKVEPHATIAEIKNLFTKTHPQWYPARQSLRLDPKGKSLKDEDVLQKLPVGTTATLYF   85 (88)
T ss_dssp             EEEEEEESSSCCCCEEEEEECSSCBHHHHHHHHHHHCSSSCTTTCCEESSTTSCCCCTTCBTTTSSCCSEEEEEE
T ss_pred             EEEEEECCCCCEEeeEEeEcCCCCcHHHHHHHHHHHhcCCChHHeEEEecCCCcCcCCCCCHHHcCCCCCCEEEE
Confidence            8999999988765  58 999999999999999995 8999999999987  99999999999999999999875

>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=99.56  E-value=2.2e-14  Score=107.09  Aligned_cols=84  Identities=19%  Similarity=0.248  Sum_probs=69.2

Q ss_pred             CCCCCcceeEEEEecCC--CeEEEEEe--------cCC-CcHHHHHHHHHHhhhccCCCCCCCc-eEEEecCeeecCCCc
Q 044874          179 SGMGPRKLKLLVLTQCG--NKRIPVEV--------NAS-DNVSELRKELQKLHQRYHFHLPQDG-YFFIYKQNVMDDDRS  246 (269)
Q Consensus       179 ~~~~~~~~~i~V~~~~g--~~~~~l~v--------~~~-~tV~~lK~~i~~~~~~~~~~~p~~~-q~l~~~g~~L~d~~t  246 (269)
                      .+.+...|+|+|+..++  .+.+.+++        +++ +||.+||++|+++..   -++|+++ |+|+|+|+.|+|+++
T Consensus         6 ~~~~~~~~~i~Vk~~~~~~~~~~~l~v~~~~~~~v~~~~~TV~~LK~~i~~~~~---~gip~~~~qrLi~~Gk~L~D~~t   82 (107)
T 1x1m_A            6 SGMSLSDWHLAVKLADQPLAPKSILQLPETELGEYSLGGYSISFLKQLIAGKLQ---ESVPDPELIDLIYCGRKLKDDQT   82 (107)
T ss_dssp             CCCCCCSCCEEEEETTCTTSCCEEECCCCCSSCSSCCCCCBHHHHHHHHHHHCT---TTCCCSSSEEEEETTEECCTTCB
T ss_pred             CCccCCceEEEEEeCCCCCccEEEEEecCccccccCcccCCHHHHHHHHHHHhc---cCCChhhcEEEEECCeECCCCCc
Confidence            34555679999998764  15778884        444 999999999999631   1899999 999999999999999


Q ss_pred             cccccCCCCCEEEEecCcc
Q 044874          247 FRWHHVGQGDTIEIFNGSV  265 (269)
Q Consensus       247 L~~~~i~~~~~i~l~~~~~  265 (269)
                      |++|||++|++|+|+.+..
T Consensus        83 L~~y~i~~g~~i~lv~~~~  101 (107)
T 1x1m_A           83 LDFYGIQPGSTVHVLRKSW  101 (107)
T ss_dssp             HHHHTCCTTCEEEEEESSC
T ss_pred             HHHcCCCCCCEEEEEeCCC
Confidence            9999999999999986443

>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=99.56  E-value=2.6e-16  Score=124.54  Aligned_cols=75  Identities=21%  Similarity=0.395  Sum_probs=0.0

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCcc
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSV  265 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~  265 (269)
                      |+|+|+..+| +++.++|++++||.+||++|++..     ++|+++|+|+|+|+.|+|+.+|++|||++|++|+|+.+..
T Consensus         1 MqI~VK~l~G-~~~~l~V~~~~TV~~LK~~I~~~~-----gip~~~QrLi~~Gk~L~D~~tL~dygI~~gstL~Lvlrl~   74 (152)
T 3u5c_f            1 MQIFVKTLTG-KTITLEVESSDTIDNVKSKIQDKE-----GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLR   74 (152)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CEEEEEeCCC-CEEEEEECCCCCHHHHHHHHHHHh-----CCCHHHEEEEECCEEccccCcHHHcCCCCCCEEEEEeecc
Confidence            6889999888 899999999999999999999986     9999999999999999999999999999999999986433


Q ss_pred             c
Q 044874          266 T  266 (269)
Q Consensus       266 ~  266 (269)
                      .
T Consensus        75 G   75 (152)
T 3u5c_f           75 G   75 (152)
T ss_dssp             -
T ss_pred             C
Confidence            3

>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=99.56  E-value=1.9e-14  Score=108.85  Aligned_cols=68  Identities=16%  Similarity=0.310  Sum_probs=62.2

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCcccCC
Q 044874          194 CGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSVTGG  268 (269)
Q Consensus       194 ~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~~~~  268 (269)
                      .| +++.++|++++||.+||++|++..     |+|+++|+|+|+|+.|+|+.+|++|+|++|++|+|+.. +.||
T Consensus        44 ~G-~~~~l~v~~~~TV~~LK~~I~~~~-----gip~~~QrL~~~Gk~L~D~~tL~~y~i~~g~~i~lv~r-l~GG  111 (115)
T 1we7_A           44 NG-QGLVFTLPLTDQVSVIKVKIHEAT-----GMPAGKQKLQYEGIFIKDSNSLAYYNMASGAVIHLALK-ERSG  111 (115)
T ss_dssp             SS-EEEEEEECSCSBTHHHHHHHHHHS-----SCCTTTEEEEETTEEECTTSBHHHHTCCSSCEEEEEEC-CCSC
T ss_pred             CC-eEEEEEECCCCCHHHHHHHHHHHH-----CCChHHEEEEECCEECCCCCCHHHCCCCCCCEEEEEEE-cCCC
Confidence            45 899999999999999999999986     99999999999999999999999999999999999863 3444

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

Probab=99.56  E-value=2.9e-14  Score=106.17  Aligned_cols=73  Identities=11%  Similarity=0.169  Sum_probs=65.0

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecC
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNG  263 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~  263 (269)
                      +.+.|+...++..+.++++++.||.+||+++.+..     ++|+++|+|+|+|++|+|+.||++|||++|.||||+..
T Consensus        16 itvkv~l~~~~~k~tv~v~~d~TV~dLKe~ls~~~-----~iP~e~qrLIy~GKiLKD~eTL~~~gIk~g~TIhLvi~   88 (118)
T 2daf_A           16 ATVKVVLIPVGQEIVIPFKVDTILKYLKDHFSHLL-----GIPHSVLQIRYSGKILKNNETLVQHGVKPQEIVQVEIF   88 (118)
T ss_dssp             EEEEEEETTTCCEEEEEECSSSCSHHHHHHHHHHH-----TCCTTTEEEEETTEEECSSCCHHHHSCCSSCEEEEEEE
T ss_pred             EEEEEEEcCCCcEEEEEeCCCCcHHHHHHHHHhhh-----CCChHHEEEEECCeEcCCcchHHHcCCCCCCEEEEEEe
Confidence            56666533333889999999999999999999975     99999999999999999999999999999999999854

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

Probab=99.56  E-value=2.1e-14  Score=104.70  Aligned_cols=75  Identities=13%  Similarity=0.142  Sum_probs=64.8

Q ss_pred             CcceeEEEEecCC-CeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEec--Ce---ee-cCCCccccccCCCC
Q 044874          183 PRKLKLLVLTQCG-NKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYK--QN---VM-DDDRSFRWHHVGQG  255 (269)
Q Consensus       183 ~~~~~i~V~~~~g-~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~--g~---~L-~d~~tL~~~~i~~~  255 (269)
                      +.-++|+|+...+ ...+.+++++++||++||++|++++     |+|+++|+|+|.  |+   .| +|+++|++|||++|
T Consensus        13 ~~~v~l~It~s~~~~~~~~~~v~~~~TV~~LK~kI~~~~-----GiP~~~QrL~~~~~g~~~~~L~~D~~tL~~Y~i~~g   87 (95)
T 2kjr_A           13 SDFIKVNVSNSHNDAVAFEVKLAKDLTVAQLKTKLEILT-----GGCAGTMKVQVFKGDTCVSTMDNNDAQLGYYANSDG   87 (95)
T ss_dssp             CCEEEEEEEESSCSCEEEEEEEETTCBHHHHHHHHHHHH-----CSCTTTEEEEEEETTEEEEECCCTTSBHHHHCCSSS
T ss_pred             CCeEEEEEEECCCCceEEEEEeCccCHHHHHHHHHHHHH-----CcCHHHeEEEEecCCcccceeCCCCCCHhHCCcCCC
Confidence            3457888876554 2478999999999999999999997     999999999998  45   44 89999999999999


Q ss_pred             CEEEEec
Q 044874          256 DTIEIFN  262 (269)
Q Consensus       256 ~~i~l~~  262 (269)
                      ++|+|++
T Consensus        88 stihlvD   94 (95)
T 2kjr_A           88 LRLHVVD   94 (95)
T ss_dssp             CEEEEEE
T ss_pred             CEEEEEC
Confidence            9999985

>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=99.55  E-value=3e-16  Score=121.11  Aligned_cols=72  Identities=22%  Similarity=0.436  Sum_probs=0.0

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecC
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNG  263 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~  263 (269)
                      |+|+|++.+| +++.++|++++||.+||++|++..     |+|+++|+|+|+|+.|+|+.+|++|||++|++|+|+..
T Consensus         1 M~I~Vk~~~G-~~~~l~v~~~~TV~~LK~~I~~~~-----gip~~~QrLi~~Gk~L~D~~tL~~~~I~~gsti~l~~r   72 (128)
T 3u5e_m            1 MQIFVKTLTG-KTITLEVESSDTIDNVKSKIQDKE-----GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR   72 (128)
T ss_dssp             ------------------------------------------------------------------------------
T ss_pred             CEEEEEeCCC-CEEEEEeCCCCCHHHHHHHHHHHh-----CcChHHEEEEECCEECCCCCchhhhccCCCCEEEEEEE
Confidence            6889999888 899999999999999999999986     99999999999999999999999999999999999863

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

Probab=99.55  E-value=3.5e-16  Score=127.12  Aligned_cols=72  Identities=21%  Similarity=0.213  Sum_probs=0.7

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKP   77 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~   77 (269)
                      |+|+|++++|++++++|++++||.+||++|+..+|+|+++|+|+|+|++|+|+.+|+     ++++|+|+++++||.
T Consensus         1 MqI~VKtL~GktitLeV~~sdTV~~LK~kI~~keGIP~~qQRLIf~GK~LeD~~TLs-----~~STLhLvlRLrGG~   72 (189)
T 2xzm_9            1 MQVQVKTLEGETKIYTLEQGTSVLDLKSQISQDMGFEIDMMTLVNNGFIAPNTELVT-----DDVTYYLSLKLLGGK   72 (189)
T ss_dssp             ----------------------------------------------------------------------------C
T ss_pred             CEEEEEcCCCCEEEEEECCcChHHHHHHHHHHHhCcChhHEEEEecCeECCCCCccc-----CCCEEEEEEecCCCc
Confidence            899999999999999999999999999999999999999999999999999999998     899999999999886

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

Probab=99.53  E-value=3.9e-14  Score=103.59  Aligned_cols=76  Identities=12%  Similarity=0.098  Sum_probs=64.8

Q ss_pred             cceeEEEEecCC-CeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCe---e----ecCCCccccccCCCC
Q 044874          184 RKLKLLVLTQCG-NKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQN---V----MDDDRSFRWHHVGQG  255 (269)
Q Consensus       184 ~~~~i~V~~~~g-~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~---~----L~d~~tL~~~~i~~~  255 (269)
                      .-+.++|..... ...+.+++++++||++||++|++++     |+|+++|+|+|.|+   .    ++|+++|.+|+|++|
T Consensus        13 ~~v~l~It~s~~~~~~~e~~v~~~~TV~~LK~kIe~~~-----Gip~~~QrLi~~g~~g~~~~~L~~D~~tL~~Y~I~~g   87 (97)
T 2kj6_A           13 DSVHLHITHANLKSFSADARFSPQMSVEAVKEKLWKKC-----GTSVNSMALELYDDSGSKVAVLSDDSRPLGFFSPFDG   87 (97)
T ss_dssp             CCEEEEEEETTSSCCCEEEEECTTCCHHHHHHHHHHHH-----CCCTTSEEEEEECSSSCBCCCSSGGGSCHHHHCCCSC
T ss_pred             ceEEEEEEECCCCceEEEEEeCCCChHHHHHHHHHHHH-----CcCHHHeEEEEecCCCcccceecCCcCCHHHCCCCCC
Confidence            347777765433 2478999999999999999999998     99999999999983   3    599999999999999


Q ss_pred             CEEEEecCc
Q 044874          256 DTIEIFNGS  264 (269)
Q Consensus       256 ~~i~l~~~~  264 (269)
                      ++|+|+..+
T Consensus        88 ~~Ihlvd~~   96 (97)
T 2kj6_A           88 FRLHIIDLD   96 (97)
T ss_dssp             CEEEEEECC
T ss_pred             CEEEEEeCC
Confidence            999998754

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

Probab=99.53  E-value=4.2e-14  Score=103.11  Aligned_cols=69  Identities=16%  Similarity=0.175  Sum_probs=61.9

Q ss_pred             EEEEEcCCCC--EEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEc--CE---Ec-CCCCccccCCCCCCCEEEEE
Q 044874            2 DVIFEPQRGK--AFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFN--GQ---VL-QDDRDVEHCEILQNSRIQLL   70 (269)
Q Consensus         2 ~i~vk~~~g~--~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~--G~---~L-~d~~tL~~~~i~~~~~i~l~   70 (269)
                      +|+|+..+++  .+++++++++||++||++|+..+|+|+++|||+|.  |+   .| +|+.+|++|+|++|++|+|+
T Consensus        17 ~l~It~s~~~~~~~~~~v~~~~TV~~LK~kI~~~~GiP~~~QrL~~~~~g~~~~~L~~D~~tL~~Y~i~~gstihlv   93 (95)
T 2kjr_A           17 KVNVSNSHNDAVAFEVKLAKDLTVAQLKTKLEILTGGCAGTMKVQVFKGDTCVSTMDNNDAQLGYYANSDGLRLHVV   93 (95)
T ss_dssp             EEEEEESSCSCEEEEEEEETTCBHHHHHHHHHHHHCSCTTTEEEEEEETTEEEEECCCTTSBHHHHCCSSSCEEEEE
T ss_pred             EEEEEECCCCceEEEEEeCccCHHHHHHHHHHHHHCcCHHHeEEEEecCCcccceeCCCCCCHhHCCcCCCCEEEEE
Confidence            5778876654  89999999999999999999999999999999997  55   45 89999999999999999986

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

Probab=99.52  E-value=2.7e-14  Score=124.78  Aligned_cols=73  Identities=33%  Similarity=0.561  Sum_probs=69.6

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEec
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVAS   73 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~   73 (269)
                      |+|+||.++|+++.++|++++||.+||++|++++|+|+++|||+|+|+.|+|+.+|++|+|+++++|+|++++
T Consensus       234 MqI~VKtl~Gk~~~leV~~s~TV~dLK~kI~~~~GIp~~~QRLi~~Gk~L~D~~TLsdygI~~gstL~LvlRL  306 (307)
T 3ai5_A          234 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRL  306 (307)
T ss_dssp             EEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTSBTGGGTCCTTCEEEEEC--
T ss_pred             EEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcChHHEEEEeCCeecCCCCCHHHcCCCCCCEEEEEEeC
Confidence            7899999999999999999999999999999999999999999999999999999999999999999999875

>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=99.51  E-value=6.6e-14  Score=101.86  Aligned_cols=77  Identities=12%  Similarity=0.241  Sum_probs=74.6

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKP   77 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~   77 (269)
                      |+|+|++.+|+.+.+.|.+++++..|+++++++.|++++++||+|+|+.|.++.|+++|+++++++|+++++..||.
T Consensus         8 i~ikVk~~~g~~i~~~v~~~t~l~kl~~~y~~~~gi~~~~~rf~FdG~~l~~~~Tp~dl~medgD~Idv~~~~~GG~   84 (94)
T 2io1_B            8 INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQQQTGGV   84 (94)
T ss_dssp             EEEEEECTTSCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCTTTTTCCTTCEEEEEECCEESC
T ss_pred             EEEEEECCCCCEEEEEECCCCHHHHHHHHHHHHhCCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEEEEeccCCC
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999885

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

Probab=99.51  E-value=3.3e-14  Score=101.81  Aligned_cols=67  Identities=15%  Similarity=0.137  Sum_probs=60.8

Q ss_pred             CCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEE-------cCEEcCCCCccccCCCCCCCEEEEEEecC
Q 044874            8 QRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVF-------NGQVLQDDRDVEHCEILQNSRIQLLVASD   74 (269)
Q Consensus         8 ~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~-------~G~~L~d~~tL~~~~i~~~~~i~l~~~~~   74 (269)
                      .+.+.+...+++++||++||++|+.++|+|+++|||+|       .|+.|+|+.+|++|+|++|++|||+-..+
T Consensus        12 ~~~~~~E~r~~~s~TI~~lK~ki~~~~Gip~~~QrLi~~~~~~~~~g~~l~d~~tL~~Y~i~~g~~ihlvd~~P   85 (86)
T 4b6w_A           12 SRMRVPEKRYGLAQTIESIKENVFTHFATPPEYMQLQLIDDRGITIEKNMANDKQLGYYQCRDEFVIHVVDLQP   85 (86)
T ss_dssp             CSCCEEEEEEETTSBHHHHHHHHHTTSCCCGGGEEEEEECTTSCEEESSCCTTSBGGGGTCCTTCEEEEEECCC
T ss_pred             CCCeEEEEEcCccCcHHHHHHHHHHHHCCCHHHEEEEEecCCCCceeeEcCCCCCHHHCCCCCCCEEEEEeCCC
Confidence            45667889999999999999999999999999999997       47889999999999999999999986543

>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=99.49  E-value=1.5e-13  Score=99.92  Aligned_cols=80  Identities=18%  Similarity=0.238  Sum_probs=72.8

Q ss_pred             CCcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEe
Q 044874          182 GPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIF  261 (269)
Q Consensus       182 ~~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~  261 (269)
                      .+..|+|.|+...| +.+.++|++++++..|++.+++++     |+|+++++|+|.|+.|+++.|+++|++++||+|+++
T Consensus         4 ~~~~i~ikVk~~~g-~~i~~~v~~~t~l~kl~~~y~~~~-----gi~~~~~rf~FdG~~l~~~~Tp~dl~medgD~Idv~   77 (94)
T 2io1_B            4 MNDHINLKVAGQDG-SVVQFKIKRHTPLSKLMKAYCERQ-----GLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVF   77 (94)
T ss_dssp             --CEEEEEEECTTS-CEEEEEEETTSCTHHHHHHHHHHH-----TCCGGGEEEEETTEECCTTCCTTTTTCCTTCEEEEE
T ss_pred             CCCeEEEEEECCCC-CEEEEEECCCCHHHHHHHHHHHHh-----CCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEEE
Confidence            44679999999888 899999999999999999999997     999999999999999999999999999999999999


Q ss_pred             cCcccC
Q 044874          262 NGSVTG  267 (269)
Q Consensus       262 ~~~~~~  267 (269)
                      .....|
T Consensus        78 ~~~~GG   83 (94)
T 2io1_B           78 QQQTGG   83 (94)
T ss_dssp             ECCEES
T ss_pred             EeccCC
Confidence            755544

>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=99.49  E-value=5.3e-14  Score=126.23  Aligned_cols=79  Identities=13%  Similarity=0.246  Sum_probs=68.5

Q ss_pred             cceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecC
Q 044874          184 RKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNG  263 (269)
Q Consensus       184 ~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~  263 (269)
                      ..|+|+|++..| +++.++|++++||.+||++|++..  +..++|+++|+|+|+|++|+|+++|.+|+|++|++|+++-.
T Consensus         6 ~~M~I~VKtl~G-k~~~leV~~~~TV~~LK~~I~~~~--~~~gip~~~QrLiy~GK~L~D~~tL~dygI~~gstIv~lv~   82 (368)
T 1oqy_A            6 SAVTITLKTLQQ-QTFKIRMEPDETVKVLKEKIEAEK--GRDAFPVAGQKLIYAGKILSDDVPIRDYRIDEKNFVVVMVT   82 (368)
T ss_dssp             CCCCEEEEETTT-EEEEECCCTTCBHHHHHHHHHHHT--CSSSCCSTEEEEESSSSEECSSSBTTTTCCCTTSCEEEEEE
T ss_pred             ceEEEEEEeCCC-CEEEEEeCCCChHHHHHHHHHHHh--CcCCCChhheEEEECCeecCCcCCHHHcCCCCCCEEEEEEe
Confidence            469999999988 999999999999999999999931  01279999999999999999999999999999999944433


Q ss_pred             cc
Q 044874          264 SV  265 (269)
Q Consensus       264 ~~  265 (269)
                      +.
T Consensus        83 k~   84 (368)
T 1oqy_A           83 KT   84 (368)
T ss_dssp             CC
T ss_pred             cC
Confidence            33

>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=99.48  E-value=2.5e-13  Score=99.20  Aligned_cols=75  Identities=13%  Similarity=0.122  Sum_probs=64.1

Q ss_pred             ceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecC---ee----ecCCCccccccCCCCCE
Q 044874          185 KLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQ---NV----MDDDRSFRWHHVGQGDT  257 (269)
Q Consensus       185 ~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g---~~----L~d~~tL~~~~i~~~~~  257 (269)
                      .+.|.|+.......+.+++++++||++||++|++++     |+|+++|+|+|.|   +.    ++|+++|.+|||++|++
T Consensus         7 ~v~l~I~~~~~~~~~~~~v~~~~TV~~lK~ki~~~~-----gip~~~qrL~~~~~~g~~~~~l~~D~~tL~~y~i~~g~~   81 (95)
T 1v6e_A            7 GVMVFISSSLNSFRSEKRYSRSLTIAEFKCKLELVV-----GSPASCMELELYGADDKFYSKLDQEDALLGSYPVDDGCR   81 (95)
T ss_dssp             CEEEEEEETTSSSCEEEEECTTSBHHHHHHHHHHHT-----CSCTTTCBCEEECSSSCEEEECCCSSSBTTSSSCCTTCE
T ss_pred             EEEEEEEECCCCeeEEEEcCccCHHHHHHHHHHHHH-----CCCHHHeEEEEeCCCCccccccCCCcCCHhHCCCCCCCE
Confidence            377888765432268899999999999999999997     9999999999987   43    58999999999999999


Q ss_pred             EEEecCc
Q 044874          258 IEIFNGS  264 (269)
Q Consensus       258 i~l~~~~  264 (269)
                      |||+...
T Consensus        82 l~v~d~~   88 (95)
T 1v6e_A           82 IHVIDHS   88 (95)
T ss_dssp             EEEBCCS
T ss_pred             EEEEECC
Confidence            9998643

>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=99.48  E-value=4.1e-14  Score=126.97  Aligned_cols=77  Identities=23%  Similarity=0.412  Sum_probs=71.0

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHH---HhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEE-EEEEecCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEK---YQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRI-QLLVASDNK   76 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~---~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i-~l~~~~~~g   76 (269)
                      |+|+||+++|+++.|+|++++||.+||++|+.   ++|+|+++|||+|+|+.|+|+.+|++|+|+++++| +|+.+.+++
T Consensus         8 M~I~VKtl~Gk~~~leV~~~~TV~~LK~~I~~~~~~~gip~~~QrLiy~GK~L~D~~tL~dygI~~gstIv~lv~k~~~~   87 (368)
T 1oqy_A            8 VTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIRDYRIDEKNFVVVMVTKTKAG   87 (368)
T ss_dssp             CCEEEEETTTEEEEECCCTTCBHHHHHHHHHHHTCSSSCCSTEEEEESSSSEECSSSBTTTTCCCTTSCEEEEEECCCSS
T ss_pred             EEEEEEeCCCCEEEEEeCCCChHHHHHHHHHHHhCcCCCChhheEEEECCeecCCcCCHHHcCCCCCCEEEEEEecCCCC
Confidence            89999999999999999999999999999999   57799999999999999999999999999999998 666666654


Q ss_pred             C
Q 044874           77 P   77 (269)
Q Consensus        77 ~   77 (269)
                      .
T Consensus        88 ~   88 (368)
T 1oqy_A           88 Q   88 (368)
T ss_dssp             S
T ss_pred             C
Confidence            4

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

Probab=99.47  E-value=9.6e-14  Score=103.63  Aligned_cols=72  Identities=18%  Similarity=0.201  Sum_probs=65.3

Q ss_pred             cceeEEEEecCCCeEEEEEec-CCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCe-----------e----ecCCCcc
Q 044874          184 RKLKLLVLTQCGNKRIPVEVN-ASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQN-----------V----MDDDRSF  247 (269)
Q Consensus       184 ~~~~i~V~~~~g~~~~~l~v~-~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~-----------~----L~d~~tL  247 (269)
                      ..|.|.|+..+| +. .++|+ +++||.+||++|+++.     ++|+++|+|+|.|+           .    ++|+++|
T Consensus         6 ~~M~irvrs~~G-~~-~v~v~~~~~Tv~~LK~kI~~~~-----gip~~~QrL~~~~~~~~~k~~~~~~~l~~~l~d~~tL   78 (107)
T 1wf9_A            6 SGTMLRVRSRDG-LE-RVSVDGPHITVSQLKTLIQDQL-----QIPIHNQTLSTNRNLLLAKSPSDFLAFTDMADPNLRI   78 (107)
T ss_dssp             CCEEEEEECSSC-EE-EEEECCTTSBHHHHHHHHHHHS-----CCCTTTCCCBSSGGGGTCCSHHHHTTCCSSCCTTCBG
T ss_pred             CeEEEEEECCCC-CE-EEEECCCCCcHHHHHHHHHHHh-----CcCcccCEEEECCccccccCccccccccccCCCCCCH
Confidence            459999999998 44 78999 9999999999999986     99999999999988           4    5899999


Q ss_pred             ccccCCCCCEEEEec
Q 044874          248 RWHHVGQGDTIEIFN  262 (269)
Q Consensus       248 ~~~~i~~~~~i~l~~  262 (269)
                      .+|||++|++|||..
T Consensus        79 ~~~gi~~G~~L~l~~   93 (107)
T 1wf9_A           79 SSLNLAHGSMVYLAY   93 (107)
T ss_dssp             GGTCCCTTCEEECCC
T ss_pred             HHCCCCCCCEEEEEe
Confidence            999999999999984

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

Probab=99.47  E-value=1.1e-13  Score=101.15  Aligned_cols=70  Identities=16%  Similarity=0.105  Sum_probs=61.5

Q ss_pred             EEEEEcCCC--CEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcC---EE----cCCCCccccCCCCCCCEEEEEE
Q 044874            2 DVIFEPQRG--KAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNG---QV----LQDDRDVEHCEILQNSRIQLLV   71 (269)
Q Consensus         2 ~i~vk~~~g--~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G---~~----L~d~~tL~~~~i~~~~~i~l~~   71 (269)
                      .|+|+..+.  ..+++++++++||++||++|+.++|+|+++|||+|.|   +.    ++|+.+|++|+|++|++|+|+-
T Consensus        16 ~l~It~s~~~~~~~e~~v~~~~TV~~LK~kIe~~~Gip~~~QrLi~~g~~g~~~~~L~~D~~tL~~Y~I~~g~~Ihlvd   94 (97)
T 2kj6_A           16 HLHITHANLKSFSADARFSPQMSVEAVKEKLWKKCGTSVNSMALELYDDSGSKVAVLSDDSRPLGFFSPFDGFRLHIID   94 (97)
T ss_dssp             EEEEEETTSSCCCEEEEECTTCCHHHHHHHHHHHHCCCTTSEEEEEECSSSCBCCCSSGGGSCHHHHCCCSCCEEEEEE
T ss_pred             EEEEEECCCCceEEEEEeCCCChHHHHHHHHHHHHCcCHHHeEEEEecCCCcccceecCCcCCHHHCCCCCCCEEEEEe
Confidence            567775444  4799999999999999999999999999999999988   33    4899999999999999999874

>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=99.45  E-value=5.2e-13  Score=96.42  Aligned_cols=77  Identities=12%  Similarity=0.241  Sum_probs=74.3

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKP   77 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~   77 (269)
                      |+|+|++.+|+.+.+.|.+++++..|+++++++.|++++.+||+|+|+.|.++.|.++|+++++++|++++...||.
T Consensus         6 i~ikVk~~~g~~v~~~vk~~t~l~kl~~~y~~~~gi~~~~~rf~FdG~~l~~~~Tp~dl~medgD~Idv~~~q~gg~   82 (91)
T 2io0_B            6 INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQQQTGGV   82 (91)
T ss_dssp             EEEEEECTTSCEEEEEEETTSCTHHHHHHHHHHTTCCSTTEEEEETTEECCTTCCTTTTTCCTTEEEEEEECCCCCC
T ss_pred             EEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEEEEeccCCc
Confidence            57899999999999999999999999999999999999999999999999999999999999999999999999876

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

Probab=99.45  E-value=2.9e-13  Score=118.26  Aligned_cols=73  Identities=22%  Similarity=0.423  Sum_probs=69.7

Q ss_pred             cceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEec
Q 044874          184 RKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       184 ~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      ..|+|+|+...| +++.++|++++||.+||++|+++.     ++|+++|+|+|+|+.|+|+++|++|+|++|++|+|+.
T Consensus       232 ~~MqI~VKtl~G-k~~~leV~~s~TV~dLK~kI~~~~-----GIp~~~QRLi~~Gk~L~D~~TLsdygI~~gstL~Lvl  304 (307)
T 3ai5_A          232 GSMQIFVKTLTG-KTITLEVEPSDTIENVKAKIQDKE-----GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVL  304 (307)
T ss_dssp             CCEEEEEECTTS-CEEEEEECTTCBHHHHHHHHHHHH-----CCCGGGCEEEETTEECCTTSBTGGGTCCTTCEEEEEC
T ss_pred             CeEEEEEEeCCC-CEEEEEECCCCcHHHHHHHHHHHH-----CcChHHEEEEeCCeecCCCCCHHHcCCCCCCEEEEEE
Confidence            469999999888 899999999999999999999987     9999999999999999999999999999999999985

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

Probab=99.43  E-value=9e-14  Score=103.79  Aligned_cols=73  Identities=19%  Similarity=0.219  Sum_probs=66.8

Q ss_pred             CEEEEEcCCCCEEEEEEc-CCCCHHHHHHHHHHHhCCCCCcEEEEEcCE-----------E----cCCCCccccCCCCCC
Q 044874            1 MDVIFEPQRGKAFTIEVG-FFDTVLEIKEKIEKYQGIPVPKQTLVFNGQ-----------V----LQDDRDVEHCEILQN   64 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~-~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~-----------~----L~d~~tL~~~~i~~~   64 (269)
                      |+|+||+.+|+. .++|+ +++||.+||++|+.++++|+++|+|+|.|+           .    ++|+.+|++|||++|
T Consensus         8 M~irvrs~~G~~-~v~v~~~~~Tv~~LK~kI~~~~gip~~~QrL~~~~~~~~~k~~~~~~~l~~~l~d~~tL~~~gi~~G   86 (107)
T 1wf9_A            8 TMLRVRSRDGLE-RVSVDGPHITVSQLKTLIQDQLQIPIHNQTLSTNRNLLLAKSPSDFLAFTDMADPNLRISSLNLAHG   86 (107)
T ss_dssp             EEEEEECSSCEE-EEEECCTTSBHHHHHHHHHHHSCCCTTTCCCBSSGGGGTCCSHHHHTTCCSSCCTTCBGGGTCCCTT
T ss_pred             EEEEEECCCCCE-EEEECCCCCcHHHHHHHHHHHhCcCcccCEEEECCccccccCccccccccccCCCCCCHHHCCCCCC
Confidence            789999999975 79999 999999999999999999999999999888           4    588999999999999


Q ss_pred             CEEEEEEecC
Q 044874           65 SRIQLLVASD   74 (269)
Q Consensus        65 ~~i~l~~~~~   74 (269)
                      ++|||.....
T Consensus        87 ~~L~l~~~~~   96 (107)
T 1wf9_A           87 SMVYLAYEGE   96 (107)
T ss_dssp             CEEECCCSSC
T ss_pred             CEEEEEeCCC
Confidence            9999887644

>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=99.42  E-value=3.4e-13  Score=98.46  Aligned_cols=70  Identities=20%  Similarity=0.159  Sum_probs=61.6

Q ss_pred             EEEEEcCCCC-EEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcC---EE----cCCCCccccCCCCCCCEEEEEE
Q 044874            2 DVIFEPQRGK-AFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNG---QV----LQDDRDVEHCEILQNSRIQLLV   71 (269)
Q Consensus         2 ~i~vk~~~g~-~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G---~~----L~d~~tL~~~~i~~~~~i~l~~   71 (269)
                      .|+|+..+.. .+.+++++++||++||++|+.++|+|+++|||+|.|   +.    ++|+.+|++|+|+++++|||+-
T Consensus         9 ~l~I~~~~~~~~~~~~v~~~~TV~~lK~ki~~~~gip~~~qrL~~~~~~g~~~~~l~~D~~tL~~y~i~~g~~l~v~d   86 (95)
T 1v6e_A            9 MVFISSSLNSFRSEKRYSRSLTIAEFKCKLELVVGSPASCMELELYGADDKFYSKLDQEDALLGSYPVDDGCRIHVID   86 (95)
T ss_dssp             EEEEEETTSSSCEEEEECTTSBHHHHHHHHHHHTCSCTTTCBCEEECSSSCEEEECCCSSSBTTSSSCCTTCEEEEBC
T ss_pred             EEEEEECCCCeeEEEEcCccCHHHHHHHHHHHHHCCCHHHeEEEEeCCCCccccccCCCcCCHhHCCCCCCCEEEEEE
Confidence            5777765443 689999999999999999999999999999999986   43    5899999999999999999875

>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=99.41  E-value=1.4e-12  Score=94.63  Aligned_cols=76  Identities=12%  Similarity=0.252  Sum_probs=70.7

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNK   76 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g   76 (269)
                      |+|+|+..+|+.+.+.|.+++++..|+++++++.|++++.+||+|+|+.|.++.|.++|++.++++|++++...||
T Consensus        18 i~ikV~~~~g~~i~~~v~~~t~l~kl~~~y~~~~gi~~~~~rf~fdG~~l~~~~Tp~dl~medgD~Idv~~~q~GG   93 (93)
T 2d07_B           18 INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQQQTGG   93 (93)
T ss_dssp             EEEEEECTTSCEEEEEEETTSCHHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCTTTTTCCTTEEEEEEECC---
T ss_pred             EEEEEECCCCCEEEEEEccCCHHHHHHHHHHHHhCCCccceEEEECCEEcCCCCCHHHcCCCCCCEEEEEeeccCC
Confidence            5789999999999999999999999999999999999999999999999999999999999999999999998875

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

Probab=99.40  E-value=2.2e-14  Score=116.58  Aligned_cols=71  Identities=13%  Similarity=0.130  Sum_probs=0.0

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCcc
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSV  265 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~  265 (269)
                      |+|+|+++.| +++.++|++++||.+||++|++.+     |+|+++|+|+|+|++|+|++||+     ++|||+|+.+ +
T Consensus         1 MqI~VKtL~G-ktitLeV~~sdTV~~LK~kI~~ke-----GIP~~qQRLIf~GK~LeD~~TLs-----~~STLhLvlR-L   68 (189)
T 2xzm_9            1 MQVQVKTLEG-ETKIYTLEQGTSVLDLKSQISQDM-----GFEIDMMTLVNNGFIAPNTELVT-----DDVTYYLSLK-L   68 (189)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CEEEEEcCCC-CEEEEEECCcChHHHHHHHHHHHh-----CcChhHEEEEecCeECCCCCccc-----CCCEEEEEEe-c
Confidence            6899999998 999999999999999999999987     99999999999999999999999     9999999863 4


Q ss_pred             cCC
Q 044874          266 TGG  268 (269)
Q Consensus       266 ~~~  268 (269)
                      .||
T Consensus        69 rGG   71 (189)
T 2xzm_9           69 LGG   71 (189)
T ss_dssp             ---
T ss_pred             CCC
Confidence            444

>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=99.39  E-value=2.2e-12  Score=93.08  Aligned_cols=80  Identities=18%  Similarity=0.239  Sum_probs=72.9

Q ss_pred             CcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEec
Q 044874          183 PRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       183 ~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      +..|+|.|+...| +.+.++|.+++++..|++..+++.     |+|+++++|+|.|+.|.++.|.++|++++||+|+++.
T Consensus         3 ~~~i~ikVk~~~g-~~v~~~vk~~t~l~kl~~~y~~~~-----gi~~~~~rf~FdG~~l~~~~Tp~dl~medgD~Idv~~   76 (91)
T 2io0_B            3 NDHINLKVAGQDG-SVVQFKIKRHTPLSKLMKAYCERQ-----GLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQ   76 (91)
T ss_dssp             -CEEEEEEECTTS-CEEEEEEETTSCTHHHHHHHHHHT-----TCCSTTEEEEETTEECCTTCCTTTTTCCTTEEEEEEE
T ss_pred             CCeEEEEEECCCC-CEEEEEECCCChHHHHHHHHHHHh-----CCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEEEE
Confidence            3569999999888 899999999999999999999987     9999999999999999999999999999999999997


Q ss_pred             CcccCC
Q 044874          263 GSVTGG  268 (269)
Q Consensus       263 ~~~~~~  268 (269)
                      ....|+
T Consensus        77 ~q~gg~   82 (91)
T 2io0_B           77 QQTGGV   82 (91)
T ss_dssp             CCCCCC
T ss_pred             eccCCc
Confidence            655443

>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=99.38  E-value=2.1e-12  Score=89.29  Aligned_cols=70  Identities=13%  Similarity=0.283  Sum_probs=67.9

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEE
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLL   70 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~   70 (269)
                      |+|+|++.+|+.+.+.+.+++++..|+++++++.|++++.+||+|+|+.|.++.|.++|++++|++|++.
T Consensus         2 i~lkV~~~~g~~v~~~v~~~t~l~kl~~~y~~~~gi~~~~~rf~fdG~~l~~~~Tp~~l~medgD~Idv~   71 (72)
T 1wm3_A            2 INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVF   71 (72)
T ss_dssp             EEEEEECTTSCEEEEEECTTSCTHHHHHHHHHHHTCCTTTCEEEETTEECCTTCCTTTTTCCTTEEEEEE
T ss_pred             EEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCCCcceEEEEECCEEcCCCCCHHHcCCCCCCEEEEE
Confidence            6899999999999999999999999999999999999999999999999999999999999999999986

>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=99.38  E-value=1.9e-12  Score=98.79  Aligned_cols=73  Identities=12%  Similarity=0.134  Sum_probs=63.3

Q ss_pred             CEEEEEcCCCC-EEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcC---E---E-cCCCCccccCCCCCCCEEEEEEe
Q 044874            1 MDVIFEPQRGK-AFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNG---Q---V-LQDDRDVEHCEILQNSRIQLLVA   72 (269)
Q Consensus         1 M~i~vk~~~g~-~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G---~---~-L~d~~tL~~~~i~~~~~i~l~~~   72 (269)
                      |.|+|+..++. .+.+++++++||++||++|+..+|+|+++|||+|.|   +   . ++|+.+|++|||++|++|||+..
T Consensus         7 v~l~V~~~~~~~~~e~~v~~~~TV~~lK~ki~~~~Gip~~~qrL~~~g~~~~~~~~l~~D~~tL~~y~i~~g~~ihvvd~   86 (122)
T 1t0y_A            7 YDLEITTNATDFPMEKKYPAGMSLNDLKKKLELVVGTTVDSMRIQLFDGDDQLKGELTDGAKSLKDLGVRDGYRIHAVDV   86 (122)
T ss_dssp             EEEEEEESSCCSCEEEEEETTSBHHHHHHHHHHHHCCCTTTEEEEEECSSSSEEEECCCCSSBTTTTTCCSSEEEEEEEC
T ss_pred             EEEEEEECCCCccEEEEeCCCCcHHHHHHHHHHHhCCCHHHeEEEEecCCCccccccCCCcCCHHHCCCCCCCEEEEEeC
Confidence            35777766543 688999999999999999999999999999999987   3   3 48999999999999999999874


Q ss_pred             c
Q 044874           73 S   73 (269)
Q Consensus        73 ~   73 (269)
                      .
T Consensus        87 ~   87 (122)
T 1t0y_A           87 T   87 (122)
T ss_dssp             T
T ss_pred             C
Confidence            3

>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=99.37  E-value=2.4e-12  Score=98.28  Aligned_cols=76  Identities=16%  Similarity=0.142  Sum_probs=64.4

Q ss_pred             ceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecC---ee----ecCCCccccccCCCCCE
Q 044874          185 KLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQ---NV----MDDDRSFRWHHVGQGDT  257 (269)
Q Consensus       185 ~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g---~~----L~d~~tL~~~~i~~~~~  257 (269)
                      .+.|.|+...+...+.+++++++||++||++|+.+.     |+|+++|+|+|.|   +.    ++|+++|.+|||++|++
T Consensus         6 ~v~l~V~~~~~~~~~e~~v~~~~TV~~lK~ki~~~~-----Gip~~~qrL~~~g~~~~~~~~l~~D~~tL~~y~i~~g~~   80 (122)
T 1t0y_A            6 VYDLEITTNATDFPMEKKYPAGMSLNDLKKKLELVV-----GTTVDSMRIQLFDGDDQLKGELTDGAKSLKDLGVRDGYR   80 (122)
T ss_dssp             EEEEEEEESSCCSCEEEEEETTSBHHHHHHHHHHHH-----CCCTTTEEEEEECSSSSEEEECCCCSSBTTTTTCCSSEE
T ss_pred             EEEEEEEECCCCccEEEEeCCCCcHHHHHHHHHHHh-----CCCHHHeEEEEecCCCccccccCCCcCCHHHCCCCCCCE
Confidence            477888765431268889999999999999999997     9999999999987   43    48999999999999999


Q ss_pred             EEEecCcc
Q 044874          258 IEIFNGSV  265 (269)
Q Consensus       258 i~l~~~~~  265 (269)
                      |||+....
T Consensus        81 ihvvd~~p   88 (122)
T 1t0y_A           81 IHAVDVTG   88 (122)
T ss_dssp             EEEEECTT
T ss_pred             EEEEeCCC
Confidence            99997443

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

Probab=99.37  E-value=6e-13  Score=95.33  Aligned_cols=72  Identities=14%  Similarity=0.180  Sum_probs=64.3

Q ss_pred             CEEEEEcCCCCEEEEE-EcCCCCHHHHHHHHHHHhCCCCCcEEEEEc--CEEcC---CCCccccCCCCCCCEEEEEEec
Q 044874            1 MDVIFEPQRGKAFTIE-VGFFDTVLEIKEKIEKYQGIPVPKQTLVFN--GQVLQ---DDRDVEHCEILQNSRIQLLVAS   73 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~-v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~--G~~L~---d~~tL~~~~i~~~~~i~l~~~~   73 (269)
                      |+|+||+.+|+. .++ +++++||.+||++|++++|+|+++|+|+|+  ++.|.   |+.+|++|||.+|++|++....
T Consensus         1 m~i~vr~~~G~~-~v~~l~~~~Tv~~Lk~~I~~~~gi~~~~qrL~~~~p~k~l~l~~~~~tL~~~gl~~g~~l~v~~~~   78 (86)
T 2kzr_A            1 WRVRCKAKGGTH-LLQGLSSRTRLRELQGQIAAITGIAPGSQRILVGYPPECLDLSDRDITLGDLPIQSGDMLIVEEDQ   78 (86)
T ss_dssp             CCEEEEETTEEE-EECSCCTTCBHHHHHHHHHHHTCCCTTTCCCEESSCCCCCCCCCSSCBTTTSSCCTTCEEECCCCS
T ss_pred             CEEEEEcCCCCE-EeeecCCCCCHHHHHHHHHHHhCCCccceEEEeCCCCcccccCCCCCCHHHcCCCCCCEEEEEeCC
Confidence            899999999964 577 999999999999999999999999999997  47774   6889999999999999987543

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

Probab=99.35  E-value=6.5e-12  Score=88.37  Aligned_cols=75  Identities=15%  Similarity=0.241  Sum_probs=69.2

Q ss_pred             CCcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEe
Q 044874          182 GPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIF  261 (269)
Q Consensus       182 ~~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~  261 (269)
                      ++..|+|.|+...|.+.+.++|.+++++..|++..+++.     |+++++++|+|.|+.|.++.|.++|++++||+|+++
T Consensus         4 ~~~~i~ikV~~~~g~~~i~~~i~~~t~l~kl~~~y~~~~-----gi~~~~~rf~fdG~~l~~~~Tp~~l~medgD~Idv~   78 (79)
T 3a4r_A            4 GSQELRLRVQGKEKHQMLEISLSPDSPLKVLMSHYEEAM-----GLSGHKLSFFFDGTKLSGKELPADLGLESGDLIEVW   78 (79)
T ss_dssp             CCCCEEEEEECSSTTCEEEEEECTTSCHHHHHHHHHHHH-----TCTTCCCEEEETTEECCSCCCHHHHTCCTTCEEEEE
T ss_pred             CCCEEEEEEEeCCCCEEEEEEECCCChHHHHHHHHHHHh-----CCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEEe
Confidence            345699999998883389999999999999999999987     999999999999999999999999999999999986

>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=99.34  E-value=4.4e-12  Score=93.87  Aligned_cols=75  Identities=13%  Similarity=0.186  Sum_probs=69.9

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNK   76 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g   76 (269)
                      |+|+|+. +|+.+.+.|.+++++..|+++++++.|++++.+||+|+|+.|.++.|.++|+++++++|++++.+.||
T Consensus        32 I~IkV~~-~g~~i~fkIk~tt~l~kL~~ay~ek~gi~~~~~rF~FdG~rl~~~~Tp~dl~medgD~Idv~~~q~GG  106 (106)
T 2eke_C           32 INLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHREQIGG  106 (106)
T ss_dssp             EEEEEEC-SSCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCTTTTTCCTTEEEEEEECC---
T ss_pred             EEEEEec-CCcEEEEEeCCCCHHHHHHHHHHHHhCCCcccEEEEECCeEcCCCCCHHHcCCCCCCEEEEEeecccC
Confidence            5789999 99999999999999999999999999999999999999999999999999999999999999998775

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

Probab=99.34  E-value=1.9e-12  Score=95.67  Aligned_cols=77  Identities=13%  Similarity=0.283  Sum_probs=74.2

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKP   77 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~   77 (269)
                      |+|+|+..+|+.+.+.|.+++++..|+++++++.|++++.+||+|+|+.|.++.|.++|+++++++|++++...||.
T Consensus        25 I~IkVk~~~g~~i~~kVk~~t~l~kL~~~y~ek~gi~~~~~rf~FdG~~l~~~~Tp~dl~medgD~Idv~~~q~GG~  101 (104)
T 1wz0_A           25 INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQQQTSGP  101 (104)
T ss_dssp             EEEEEECSSSCEEEEEECTTSCHHHHHHHHHHHHTCCTTTSCEESSSSBCCTTSCTTTTTCCTTEEEEECCCCCCCS
T ss_pred             EEEEEECCCCCEEEEEEcCCChHHHHHHHHHHHhCCCcceEEEEECCEEcCCCCCHHHcCCCCCCEEEEEEeccCCC
Confidence            57899999999999999999999999999999999999999999999999999999999999999999999999886

>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=99.32  E-value=9.8e-12  Score=85.88  Aligned_cols=70  Identities=19%  Similarity=0.266  Sum_probs=66.8

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEe
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIF  261 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~  261 (269)
                      |+|.|+...| +.+.++|.+++++..|++..+++.     |+|+++++|+|.|+.|.++.|.++|++++||+|+++
T Consensus         2 i~lkV~~~~g-~~v~~~v~~~t~l~kl~~~y~~~~-----gi~~~~~rf~fdG~~l~~~~Tp~~l~medgD~Idv~   71 (72)
T 1wm3_A            2 INLKVAGQDG-SVVQFKIKRHTPLSKLMKAYCERQ-----GLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVF   71 (72)
T ss_dssp             EEEEEECTTS-CEEEEEECTTSCTHHHHHHHHHHH-----TCCTTTCEEEETTEECCTTCCTTTTTCCTTEEEEEE
T ss_pred             EEEEEECCCC-CEEEEEECCCChHHHHHHHHHHHh-----CCCcceEEEEECCEEcCCCCCHHHcCCCCCCEEEEE
Confidence            7889998888 899999999999999999999987     999999999999999999999999999999999986

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

Probab=99.31  E-value=1.1e-11  Score=87.13  Aligned_cols=70  Identities=11%  Similarity=0.155  Sum_probs=67.1

Q ss_pred             CEEEEEcCCCC-EEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEE
Q 044874            1 MDVIFEPQRGK-AFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLL   70 (269)
Q Consensus         1 M~i~vk~~~g~-~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~   70 (269)
                      |+|+|+..+|+ .+.+.|.+++++..|+++++++.|++++++||+|+|+.|.++.|.++|+++++++|++.
T Consensus         8 i~ikV~~~~g~~~i~~~i~~~t~l~kl~~~y~~~~gi~~~~~rf~fdG~~l~~~~Tp~~l~medgD~Idv~   78 (79)
T 3a4r_A            8 LRLRVQGKEKHQMLEISLSPDSPLKVLMSHYEEAMGLSGHKLSFFFDGTKLSGKELPADLGLESGDLIEVW   78 (79)
T ss_dssp             EEEEEECSSTTCEEEEEECTTSCHHHHHHHHHHHHTCTTCCCEEEETTEECCSCCCHHHHTCCTTCEEEEE
T ss_pred             EEEEEEeCCCCEEEEEEECCCChHHHHHHHHHHHhCCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEEe
Confidence            67999999996 89999999999999999999999999999999999999999999999999999999985

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

Probab=99.30  E-value=1.8e-12  Score=114.48  Aligned_cols=74  Identities=19%  Similarity=0.341  Sum_probs=66.8

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEE---EcCEEcCCCCccccCCCCCCCEEEEEEecCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLV---FNGQVLQDDRDVEHCEILQNSRIQLLVASDN   75 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~---~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~   75 (269)
                      |+|+||. +|+++++++++++||++||++|++++|+||++|||+   |+|+.|+|+.+|++|+|++|++|+|+.+...
T Consensus         6 i~i~Vk~-~g~~~~v~v~~~~Tv~~lK~~I~~~tgVpp~~QkLi~~k~~Gk~l~D~~~L~~~~ik~g~~l~L~gs~~~   82 (320)
T 3shq_A            6 VVVIVKW-SGKEYPVDLTDQDTVEVLRHEIFRKTQVRPERQKLLNLKYKGKTAADNVKISALELKPNFKLMMVGSTEA   82 (320)
T ss_dssp             EEEEEEE-TTEEEEEEEETTSBHHHHHHHHHHHHCCCGGGCEETTCBSSSSBCCTTSBTTSSCCC--CEEEEECCCC-
T ss_pred             EEEEEEE-CCEEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEeecccCCcccCccccHHHcCCCCCCEEEEEccchh
Confidence            4688884 799999999999999999999999999999999999   8999999999999999999999999987664

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

Probab=99.30  E-value=1.3e-11  Score=91.15  Aligned_cols=79  Identities=18%  Similarity=0.267  Sum_probs=72.6

Q ss_pred             CcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEec
Q 044874          183 PRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       183 ~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      +..|+|.|+...| +.+.++|.+++++..|++..+++.     ++++++++|+|.|+.|.++.|..+|++++||+|+++.
T Consensus        22 ~~~I~IkVk~~~g-~~i~~kVk~~t~l~kL~~~y~ek~-----gi~~~~~rf~FdG~~l~~~~Tp~dl~medgD~Idv~~   95 (104)
T 1wz0_A           22 NDHINLKVAGQDG-SVVQFKIKRHTPLSKLMKAYCERQ-----GLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQ   95 (104)
T ss_dssp             SCCEEEEEECSSS-CEEEEEECTTSCHHHHHHHHHHHH-----TCCTTTSCEESSSSBCCTTSCTTTTTCCTTEEEEECC
T ss_pred             CCeEEEEEECCCC-CEEEEEEcCCChHHHHHHHHHHHh-----CCCcceEEEEECCEEcCCCCCHHHcCCCCCCEEEEEE
Confidence            4579999999888 889999999999999999999987     9999999999999999999999999999999999997


Q ss_pred             CcccC
Q 044874          263 GSVTG  267 (269)
Q Consensus       263 ~~~~~  267 (269)
                      ....|
T Consensus        96 ~q~GG  100 (104)
T 1wz0_A           96 QQTSG  100 (104)
T ss_dssp             CCCCC
T ss_pred             eccCC
Confidence            55444

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

Probab=99.29  E-value=5.5e-12  Score=90.24  Aligned_cols=71  Identities=10%  Similarity=0.235  Sum_probs=62.2

Q ss_pred             eeEEEEecCCCeEEEEE-ecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEec--Ceeec---CCCccccccCCCCCEEE
Q 044874          186 LKLLVLTQCGNKRIPVE-VNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYK--QNVMD---DDRSFRWHHVGQGDTIE  259 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~-v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~--g~~L~---d~~tL~~~~i~~~~~i~  259 (269)
                      |+|.|+..+| +.. ++ +++++||.+||+.|+++.     |+|+++|+|+|.  ++.|+   |+.+|++|||.+|++|+
T Consensus         1 m~i~vr~~~G-~~~-v~~l~~~~Tv~~Lk~~I~~~~-----gi~~~~qrL~~~~p~k~l~l~~~~~tL~~~gl~~g~~l~   73 (86)
T 2kzr_A            1 WRVRCKAKGG-THL-LQGLSSRTRLRELQGQIAAIT-----GIAPGSQRILVGYPPECLDLSDRDITLGDLPIQSGDMLI   73 (86)
T ss_dssp             CCEEEEETTE-EEE-ECSCCTTCBHHHHHHHHHHHT-----CCCTTTCCCEESSCCCCCCCCCSSCBTTTSSCCTTCEEE
T ss_pred             CEEEEEcCCC-CEE-eeecCCCCCHHHHHHHHHHHh-----CCCccceEEEeCCCCcccccCCCCCCHHHcCCCCCCEEE
Confidence            6789999988 544 77 999999999999999986     999999999986  48874   68899999999999999


Q ss_pred             EecC
Q 044874          260 IFNG  263 (269)
Q Consensus       260 l~~~  263 (269)
                      |...
T Consensus        74 v~~~   77 (86)
T 2kzr_A           74 VEED   77 (86)
T ss_dssp             CCCC
T ss_pred             EEeC
Confidence            9754

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

Probab=99.29  E-value=3e-12  Score=95.45  Aligned_cols=77  Identities=14%  Similarity=0.215  Sum_probs=73.7

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKP   77 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~   77 (269)
                      |+|+|++.+|+.+.+.|.+++++..|+++++++.|++++++||+|+|+.|.++.|.++|+++++++|++++...||.
T Consensus        27 I~IkVk~~~g~~i~fkVk~~t~l~kL~~ay~ek~gi~~~~~rfiFdG~~L~~~~Tp~dl~mEDgD~Idv~~~q~Gg~  103 (110)
T 2k8h_A           27 VAVKVVNADGAEMFFRIKSRTALKKLIDTYCKKQGISRNSVRFLFDGTPIDETKTPEELGMEDDDVIDAMVEQTGGL  103 (110)
T ss_dssp             EEEEEEETTSCCEEEEECTTSSHHHHHHHHHHHHTCCSSSCEEESSSCBCCSSSHHHHHHCSSEEEEEEECCCCCC-
T ss_pred             EEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEEEEcccCcc
Confidence            67999999999999999999999999999999999999999999999999999999999999999999999999886

>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=99.27  E-value=2.8e-11  Score=87.78  Aligned_cols=76  Identities=17%  Similarity=0.242  Sum_probs=70.8

Q ss_pred             CcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEec
Q 044874          183 PRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       183 ~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      +..|+|.|+...| +.+.++|.+++++..|++..+++.     |+++++++|+|.|+.|.++.|.++|++++||+|+++.
T Consensus        15 ~~~i~ikV~~~~g-~~i~~~v~~~t~l~kl~~~y~~~~-----gi~~~~~rf~fdG~~l~~~~Tp~dl~medgD~Idv~~   88 (93)
T 2d07_B           15 NDHINLKVAGQDG-SVVQFKIKRHTPLSKLMKAYCERQ-----GLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQ   88 (93)
T ss_dssp             CCEEEEEEECTTS-CEEEEEEETTSCHHHHHHHHHHHH-----TCCGGGEEEEETTEECCTTCCTTTTTCCTTEEEEEEE
T ss_pred             CCeEEEEEECCCC-CEEEEEEccCCHHHHHHHHHHHHh-----CCCccceEEEECCEEcCCCCCHHHcCCCCCCEEEEEe
Confidence            4579999998888 889999999999999999999987     9999999999999999999999999999999999986


Q ss_pred             Cc
Q 044874          263 GS  264 (269)
Q Consensus       263 ~~  264 (269)
                      ..
T Consensus        89 ~q   90 (93)
T 2d07_B           89 QQ   90 (93)
T ss_dssp             CC
T ss_pred             ec
Confidence            43

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

Probab=99.27  E-value=7.8e-12  Score=110.47  Aligned_cols=73  Identities=18%  Similarity=0.307  Sum_probs=65.6

Q ss_pred             cceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEE---ecCeeecCCCccccccCCCCCEEEE
Q 044874          184 RKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFI---YKQNVMDDDRSFRWHHVGQGDTIEI  260 (269)
Q Consensus       184 ~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~---~~g~~L~d~~tL~~~~i~~~~~i~l  260 (269)
                      ..++|.|+. .| +++.+++++++||.+||++|+++.     |+|+++|+|+   |+|+.|+|+.+|++|||++|++|+|
T Consensus         4 ~~i~i~Vk~-~g-~~~~v~v~~~~Tv~~lK~~I~~~t-----gVpp~~QkLi~~k~~Gk~l~D~~~L~~~~ik~g~~l~L   76 (320)
T 3shq_A            4 KEVVVIVKW-SG-KEYPVDLTDQDTVEVLRHEIFRKT-----QVRPERQKLLNLKYKGKTAADNVKISALELKPNFKLMM   76 (320)
T ss_dssp             CEEEEEEEE-TT-EEEEEEEETTSBHHHHHHHHHHHH-----CCCGGGCEETTCBSSSSBCCTTSBTTSSCCC--CEEEE
T ss_pred             ceEEEEEEE-CC-EEEEEEECCCCcHHHHHHHHHHHH-----CcCHHHeEEeecccCCcccCccccHHHcCCCCCCEEEE
Confidence            358889985 66 899999999999999999999987     9999999999   9999999999999999999999999


Q ss_pred             ecC
Q 044874          261 FNG  263 (269)
Q Consensus       261 ~~~  263 (269)
                      +-+
T Consensus        77 ~gs   79 (320)
T 3shq_A           77 VGS   79 (320)
T ss_dssp             ECC
T ss_pred             Ecc
Confidence            843

>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=99.26  E-value=4.7e-11  Score=88.29  Aligned_cols=77  Identities=16%  Similarity=0.176  Sum_probs=71.2

Q ss_pred             CCCcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEE
Q 044874          181 MGPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEI  260 (269)
Q Consensus       181 ~~~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l  260 (269)
                      ..+..|+|.|+. .| +.+.++|..++++..|++..+++.     |+++++++|+|.|+.|.++.|.++|++++||+|++
T Consensus        27 ~~~~~I~IkV~~-~g-~~i~fkIk~tt~l~kL~~ay~ek~-----gi~~~~~rF~FdG~rl~~~~Tp~dl~medgD~Idv   99 (106)
T 2eke_C           27 KPETHINLKVSD-GS-SEIFFKIKKTTPLRRLMEAFAKRQ-----GKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEA   99 (106)
T ss_dssp             CCCSEEEEEEEC-SS-CEEEEEEETTSCTHHHHHHHHHHH-----TCCGGGEEEEETTEECCTTCCTTTTTCCTTEEEEE
T ss_pred             CCCCeEEEEEec-CC-cEEEEEeCCCCHHHHHHHHHHHHh-----CCCcccEEEEECCeEcCCCCCHHHcCCCCCCEEEE
Confidence            345679999998 87 899999999999999999999997     99999999999999999999999999999999999


Q ss_pred             ecCc
Q 044874          261 FNGS  264 (269)
Q Consensus       261 ~~~~  264 (269)
                      +...
T Consensus       100 ~~~q  103 (106)
T 2eke_C          100 HREQ  103 (106)
T ss_dssp             EECC
T ss_pred             Eeec
Confidence            8643

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

Probab=99.25  E-value=2.6e-11  Score=90.33  Aligned_cols=78  Identities=10%  Similarity=0.191  Sum_probs=72.0

Q ss_pred             CCcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEe
Q 044874          182 GPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIF  261 (269)
Q Consensus       182 ~~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~  261 (269)
                      .+..|+|.|+...| +.+.++|.+++++..|++..+++.     |+++++++|+|.|+.|.++.|.++|++++||+|+++
T Consensus        23 ~~~~I~IkVk~~~g-~~i~fkVk~~t~l~kL~~ay~ek~-----gi~~~~~rfiFdG~~L~~~~Tp~dl~mEDgD~Idv~   96 (110)
T 2k8h_A           23 ETALVAVKVVNADG-AEMFFRIKSRTALKKLIDTYCKKQ-----GISRNSVRFLFDGTPIDETKTPEELGMEDDDVIDAM   96 (110)
T ss_dssp             CCCCEEEEEEETTS-CCEEEEECTTSSHHHHHHHHHHHH-----TCCSSSCEEESSSCBCCSSSHHHHHHCSSEEEEEEE
T ss_pred             CCCeEEEEEECCCC-CEEEEEECCCChHHHHHHHHHHHh-----CCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEEE
Confidence            34579999999888 889999999999999999999997     999999999999999999999999999999999999


Q ss_pred             cCcc
Q 044874          262 NGSV  265 (269)
Q Consensus       262 ~~~~  265 (269)
                      ....
T Consensus        97 ~~q~  100 (110)
T 2k8h_A           97 VEQT  100 (110)
T ss_dssp             CCCC
T ss_pred             Eccc
Confidence            7543

>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=2.7e-10  Score=83.23  Aligned_cols=79  Identities=16%  Similarity=0.283  Sum_probs=64.5

Q ss_pred             cceeEEEEe---cCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecC-------eee-cCCCccccccC
Q 044874          184 RKLKLLVLT---QCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQ-------NVM-DDDRSFRWHHV  252 (269)
Q Consensus       184 ~~~~i~V~~---~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g-------~~L-~d~~tL~~~~i  252 (269)
                      .-++|.|..   .++ ..+.+.+..++||.+||.+|+..     +|+|+..|+|.|.+       ..| +|+++|.+|||
T Consensus         8 ~~v~l~I~~~~~~~~-~~~e~~l~~~~TV~~LK~~i~~~-----~gip~~~q~L~~~~~~~~~~~~~L~~d~~~L~~y~i   81 (97)
T 1wjn_A            8 QLLTLKIKCSNQPER-QILEKQLPDSMTVQKVKGLLSRL-----LKVPVSELLLSYESSKMPGREIELENDLQPLQFYSV   81 (97)
T ss_dssp             CEEEEEEEESSCSSS-CCEEEEEETTSBHHHHHHHHHTT-----TTCCTTTCEEEEECTTSCSCEEECCCSSSBSGGGTC
T ss_pred             ccEEEEEEecCCCCC-cEEEEECCCCCCHHHHHHHHHHH-----HCCChhHeEEEEEcCCCCceeeccCCCcccHhhcCC
Confidence            347777764   344 78899999999999999999997     49999999999873       224 66789999999


Q ss_pred             CCCCEEEEecCcccCC
Q 044874          253 GQGDTIEIFNGSVTGG  268 (269)
Q Consensus       253 ~~~~~i~l~~~~~~~~  268 (269)
                      ++|++|+|.....+.|
T Consensus        82 ~~G~~I~V~d~~p~s~   97 (97)
T 1wjn_A           82 ENGDCLLVRWSGPSSG   97 (97)
T ss_dssp             CTTCEEEEECCSSCCC
T ss_pred             CCCCEEEEEecCCCCC
Confidence            9999999987665544

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

Probab=99.06  E-value=4.6e-10  Score=81.99  Aligned_cols=72  Identities=11%  Similarity=0.153  Sum_probs=61.7

Q ss_pred             EEEEEc---CCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcC------E-Ec-CCCCccccCCCCCCCEEEEE
Q 044874            2 DVIFEP---QRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNG------Q-VL-QDDRDVEHCEILQNSRIQLL   70 (269)
Q Consensus         2 ~i~vk~---~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G------~-~L-~d~~tL~~~~i~~~~~i~l~   70 (269)
                      +|+|+.   .+|+.+...+++++||++||.+|+..+|+|+..|+|+|.+      . .| +|..+|++|++.+|++|++.
T Consensus        11 ~l~I~~~~~~~~~~~e~~l~~~~TV~~LK~~i~~~~gip~~~q~L~~~~~~~~~~~~~L~~d~~~L~~y~i~~G~~I~V~   90 (97)
T 1wjn_A           11 TLKIKCSNQPERQILEKQLPDSMTVQKVKGLLSRLLKVPVSELLLSYESSKMPGREIELENDLQPLQFYSVENGDCLLVR   90 (97)
T ss_dssp             EEEEEESSCSSSCCEEEEEETTSBHHHHHHHHHTTTTCCTTTCEEEEECTTSCSCEEECCCSSSBSGGGTCCTTCEEEEE
T ss_pred             EEEEEecCCCCCcEEEEECCCCCCHHHHHHHHHHHHCCChhHeEEEEEcCCCCceeeccCCCcccHhhcCCCCCCEEEEE
Confidence            456664   4678899999999999999999999999999999999973      2 25 67889999999999999988


Q ss_pred             Eec
Q 044874           71 VAS   73 (269)
Q Consensus        71 ~~~   73 (269)
                      ...
T Consensus        91 d~~   93 (97)
T 1wjn_A           91 WSG   93 (97)
T ss_dssp             CCS
T ss_pred             ecC
Confidence            643

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

Probab=99.03  E-value=2e-09  Score=80.31  Aligned_cols=74  Identities=16%  Similarity=0.280  Sum_probs=69.8

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASD   74 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~   74 (269)
                      ++|+|+..+|+.+.+.|.+++++..|+...+++.|+++..+||+|+|+.|.++.|.++++++++++|.+++...
T Consensus        41 I~LKV~~qdg~ev~fkIk~tt~L~KLm~aY~er~Gl~~~~irFlFDG~rI~~~~TP~dL~MEDgD~IdV~~~Q~  114 (115)
T 3kyd_D           41 IKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQEQC  114 (115)
T ss_dssp             EEEEEECTTSCEEEEEEETTSCTHHHHHHHHHHHTCCTTSEEEEETTEECCTTCCTTTTTCCTTCEEEEEECCC
T ss_pred             EEEEEEcCCCCEEEEEEccCChHHHHHHHHHHHhCCChhhEEEEECCeECCCCCCHHHcCCCCCCEEEEEeecc
Confidence            46888888999999999999999999999999999999999999999999999999999999999999998754

>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=98.89  E-value=1.3e-08  Score=75.93  Aligned_cols=75  Identities=17%  Similarity=0.333  Sum_probs=69.4

Q ss_pred             CcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEec
Q 044874          183 PRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       183 ~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      +..++|.|+...| ..+.++|..++++..|+...+++.     |++.++++|+|.|+.|.++.|.+++++++||+|.++.
T Consensus        38 ~~~I~LKV~~qdg-~ev~fkIk~tt~L~KLm~aY~er~-----Gl~~~~irFlFDG~rI~~~~TP~dL~MEDgD~IdV~~  111 (115)
T 3kyd_D           38 GEYIKLKVIGQDS-SEIHFKVKMTTHLKKLKESYCQRQ-----GVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQ  111 (115)
T ss_dssp             -CEEEEEEECTTS-CEEEEEEETTSCTHHHHHHHHHHH-----TCCTTSEEEEETTEECCTTCCTTTTTCCTTCEEEEEE
T ss_pred             CCeEEEEEEcCCC-CEEEEEEccCChHHHHHHHHHHHh-----CCChhhEEEEECCeECCCCCCHHHcCCCCCCEEEEEe
Confidence            4678999998888 778999999999999999999987     9999999999999999999999999999999999985


Q ss_pred             C
Q 044874          263 G  263 (269)
Q Consensus       263 ~  263 (269)
                      .
T Consensus       112 ~  112 (115)
T 3kyd_D          112 E  112 (115)
T ss_dssp             C
T ss_pred             e
Confidence            4

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

Probab=98.87  E-value=1e-08  Score=83.91  Aligned_cols=76  Identities=13%  Similarity=0.184  Sum_probs=71.7

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKP   77 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~   77 (269)
                      ++|+|+ .+|+...+.|.+++++..|+++.+++.|+++.++|++|+|+.|.++.|.+++++.+|++|++++...||-
T Consensus        30 I~LkV~-~~g~~v~fkIk~~t~l~kL~~ay~er~Gi~~~~~RF~FdG~rI~~~~TP~dL~MEdgD~Idv~~~q~gg~  105 (200)
T 3pge_A           30 INLKVS-DGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHREQIGGG  105 (200)
T ss_dssp             EEEEEE-CSSCEEEEEECTTSCTHHHHHHHHHHHSSCGGGEEEEETTEECCTTCCTTTTTCCTTEEEEEEECCSCCC
T ss_pred             EEEEEe-cCCCEEEEEEecCCHHHHHHHHHHHHhCCChhhEEEEECCEEcCCCCCHHHcCCCCCCEEEEEeccCcCc
Confidence            367887 4899999999999999999999999999999999999999999999999999999999999999998875

>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=98.80  E-value=9.8e-09  Score=82.55  Aligned_cols=76  Identities=14%  Similarity=0.193  Sum_probs=71.8

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKP   77 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~   77 (269)
                      ++|+|+ .+|+.+.+.|.+++++..|++..+++.|+++..+|++|+|+.|.++.|.++++++++++|++++...||.
T Consensus        58 InLKVk-~dG~eV~FKIKrtTpL~KLmeAYcERqGL~~~sIRFLFDGqRI~~ddTPeDLdMEDGDtIDV~leQ~GG~  133 (207)
T 3tix_A           58 INLKVS-DGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLTFLYDGIEIQADQTPEDLDMEDNDIIEAHREQIGGL  133 (207)
T ss_dssp             EEEEEE-CSSCEEEEEEETTSCTHHHHHHHHHHTTCCGGGSCEEETTEECCSSCCTTTTTCCTTEEEEECCCCCTTG
T ss_pred             EEEEEe-cCCCEEEEEEccCChHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCHHHcCCCCCCEEEEEEeccCCC
Confidence            357776 4899999999999999999999999999999999999999999999999999999999999999999886

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

Probab=98.79  E-value=3e-08  Score=81.19  Aligned_cols=79  Identities=18%  Similarity=0.248  Sum_probs=71.5

Q ss_pred             CcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEec
Q 044874          183 PRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       183 ~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      +..++|.|+. .| ..+.++|.+++++..|++..+++.     |++.++++|+|.|+.|.++.|.+++++++||+|+++.
T Consensus        27 ~~~I~LkV~~-~g-~~v~fkIk~~t~l~kL~~ay~er~-----Gi~~~~~RF~FdG~rI~~~~TP~dL~MEdgD~Idv~~   99 (200)
T 3pge_A           27 ETHINLKVSD-GS-SEIFFKIKKTTPLRRLMEAFAKRQ-----GKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHR   99 (200)
T ss_dssp             CCCEEEEEEC-SS-CEEEEEECTTSCTHHHHHHHHHHH-----SSCGGGEEEEETTEECCTTCCTTTTTCCTTEEEEEEE
T ss_pred             CCeEEEEEec-CC-CEEEEEEecCCHHHHHHHHHHHHh-----CCChhhEEEEECCEEcCCCCCHHHcCCCCCCEEEEEe
Confidence            4568999974 66 889999999999999999999997     9999999999999999999999999999999999997


Q ss_pred             CcccCC
Q 044874          263 GSVTGG  268 (269)
Q Consensus       263 ~~~~~~  268 (269)
                      .-+.|+
T Consensus       100 ~q~gg~  105 (200)
T 3pge_A          100 EQIGGG  105 (200)
T ss_dssp             CCSCCC
T ss_pred             ccCcCc
Confidence            655544

>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=98.72  E-value=3.8e-08  Score=79.12  Aligned_cols=78  Identities=17%  Similarity=0.228  Sum_probs=70.2

Q ss_pred             CcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEec
Q 044874          183 PRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       183 ~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      +..++|.|+. +| ..+.++|..++++..|++..+++.     |+++.+++|+|.|+.|.++.|.+++++++||+|.++.
T Consensus        55 ~e~InLKVk~-dG-~eV~FKIKrtTpL~KLmeAYcERq-----GL~~~sIRFLFDGqRI~~ddTPeDLdMEDGDtIDV~l  127 (207)
T 3tix_A           55 ETHINLKVSD-GS-SEIFFKIKKTTPLRRLMEAFAKRQ-----GKEMDSLTFLYDGIEIQADQTPEDLDMEDNDIIEAHR  127 (207)
T ss_dssp             CCEEEEEEEC-SS-CEEEEEEETTSCTHHHHHHHHHHT-----TCCGGGSCEEETTEECCSSCCTTTTTCCTTEEEEECC
T ss_pred             CCcEEEEEec-CC-CEEEEEEccCChHHHHHHHHHHHh-----CCCcccEEEEECCeecCCCCCHHHcCCCCCCEEEEEE
Confidence            4568888874 66 889999999999999999999987     9999999999999999999999999999999999997


Q ss_pred             CcccC
Q 044874          263 GSVTG  267 (269)
Q Consensus       263 ~~~~~  267 (269)
                      .-+.|
T Consensus       128 eQ~GG  132 (207)
T 3tix_A          128 EQIGG  132 (207)
T ss_dssp             CCCTT
T ss_pred             eccCC
Confidence            55544

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

Probab=98.61  E-value=4.9e-09  Score=85.40  Aligned_cols=76  Identities=13%  Similarity=0.181  Sum_probs=1.5

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKP   77 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~   77 (269)
                      |+|+| ..+|+...+.|.+++++..|+++.+++.|+++..+|++|+|+.+.++.|.+++++++|++|+++....||.
T Consensus        22 InLKV-~qdGseV~FKIKrtTpL~KLM~AYcERqGLs~~siRFLFDGqRI~dddTPadL~MEDGDtIDV~leQ~GG~   97 (227)
T 3v7o_A           22 INLKV-SDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHREQIGGL   97 (227)
T ss_dssp             ---------------------------------------------------------------------------CC
T ss_pred             EEEEE-eCCCCEEEEEEccCChHHHHHHHHHHHhCCCccceEEEECCEecCCCCCHHHcCCCCCCEEEEEecccCCc
Confidence            56788 67899999999999999999999999999999999999999999999999999999999999999999886

>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=98.59  E-value=4.3e-07  Score=61.96  Aligned_cols=69  Identities=13%  Similarity=0.284  Sum_probs=63.5

Q ss_pred             EEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCC-cEEEEEcCEEcCCCCccccCCCCCCCEEEEEE
Q 044874            3 VIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVP-KQTLVFNGQVLQDDRDVEHCEILQNSRIQLLV   71 (269)
Q Consensus         3 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~-~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~   71 (269)
                      +.+++.....+.+.+.++.+|.+|-...+.+.+|+++ ..+|.|.|..|..+.++.+|++.+++.|.+++
T Consensus        12 ~~~~~~~~~dl~f~I~~~t~v~kLi~ayc~~~~I~~~~~IrllFDGdRLdp~~tp~DlemeD~D~IDvmL   81 (82)
T 3goe_A           12 LLLRSSKSEDLRLSIPVDFTVKDLIKRYCTEVKISFHERIRLEFEGEWLDPNDQVQSTELEDEDQVSVVL   81 (82)
T ss_dssp             EEEEESSSCCEEEEEETTSBHHHHHHHHHHHHTCCCCTTCEEEETTEECCTTSBGGGSSCCTTCEEEEEC
T ss_pred             HhhhccCCCCeEEEecCCCCHHHHHHHHHHHcCCCcCceEEEEEcCcccCccCChhhhCCcCCceeeeee
Confidence            4566666677999999999999999999999999999 89999999999999999999999999999875

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

Probab=98.54  E-value=3.6e-08  Score=69.19  Aligned_cols=69  Identities=13%  Similarity=0.127  Sum_probs=59.1

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEE-----cCCCCccccCCCCCCCEEEEE
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQV-----LQDDRDVEHCEILQNSRIQLL   70 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~-----L~d~~tL~~~~i~~~~~i~l~   70 (269)
                      |.|.|++.+| ++.+++++++|+.+|+++|++.++++++.|.+.++-..     +.++.+|+++||.+|+.+++.
T Consensus         5 m~lRvrs~~G-~~Ri~v~~~~t~~~L~~~I~~~~~i~~~~~~l~~~~~p~~~l~~~~~~~l~~lgl~hGd~l~l~   78 (80)
T 2pjh_A            5 IIIRVQSPDG-VKRITATKRETAATFLKKVAKEFGFQNNGFSVYINRNKTGEITASSSKSLHLLKIKHGDLLFLF   78 (80)
T ss_dssp             CCCEEECSSE-EEECCCCSSCCHHHHHHHHHHHTCCCTTTCCCCCSCCGGGGSSSCCCCTTTTTCCCTTCCEEC-
T ss_pred             EEEEEECCCC-CEEEEcCCcChHHHHHHHHHHHcCCCCCcceEEecCCCCCcccCCCCCCHHHcCCCCCCEEEEe
Confidence            6788998877 67899999999999999999999999999888776543     347889999999999999864

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

Probab=98.49  E-value=1.8e-08  Score=82.08  Aligned_cols=79  Identities=16%  Similarity=0.221  Sum_probs=0.9

Q ss_pred             CcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEec
Q 044874          183 PRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       183 ~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      +..|+|.| ..+| ..+.++|..++.+..|++..+++.     |+++++++|+|.|+.+.++.|.+++++++||+|.++.
T Consensus        19 ~e~InLKV-~qdG-seV~FKIKrtTpL~KLM~AYcERq-----GLs~~siRFLFDGqRI~dddTPadL~MEDGDtIDV~l   91 (227)
T 3v7o_A           19 ETHINLKV-SDGS-SEIFFKIKKTTPLRRLMEAFAKRQ-----GKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHR   91 (227)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CCeEEEEE-eCCC-CEEEEEEccCChHHHHHHHHHHHh-----CCCccceEEEECCEecCCCCCHHHcCCCCCCEEEEEe
Confidence            45788999 6677 889999999999999999999987     9999999999999999999999999999999999997


Q ss_pred             CcccCC
Q 044874          263 GSVTGG  268 (269)
Q Consensus       263 ~~~~~~  268 (269)
                      .-+.|+
T Consensus        92 eQ~GG~   97 (227)
T 3v7o_A           92 EQIGGL   97 (227)
T ss_dssp             ----CC
T ss_pred             cccCCc
Confidence            555543

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

Probab=98.40  E-value=2.5e-06  Score=61.73  Aligned_cols=75  Identities=15%  Similarity=0.208  Sum_probs=67.1

Q ss_pred             CCcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEe
Q 044874          182 GPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIF  261 (269)
Q Consensus       182 ~~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~  261 (269)
                      .+..++|.|+...|.+.+.+.|..+.+...|...-+++.     ++++...+|.|.|..|.++.|-++.++++||+|.++
T Consensus        22 ~~~~I~LkV~~~dg~~~v~fkIk~~t~l~kLm~aY~~~~-----g~~~~~vrF~FDG~rI~~~~TP~dLdMEDgD~IDv~   96 (97)
T 2jxx_A           22 TSQQLQLRVQGKEKHQTLEVSLSRDSPLKTLMSHYEEAM-----GLSGRKLSFFFDGTKLSGRELPADLGMESGDLIEVW   96 (97)
T ss_dssp             SCSEEEEEEEESSSSCEEEEEEETTSCHHHHHHHHHHHT-----TCSSSCCEEEETTEECCSCSCHHHHTCCTTEEEEEE
T ss_pred             CCCeEEEEEEcCCCCEEEEEEECCCChHHHHHHHHHHHH-----CCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEEe
Confidence            346688888887773478899999999999999998875     899999999999999999999999999999999886

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

Probab=98.39  E-value=1.8e-06  Score=62.44  Aligned_cols=69  Identities=10%  Similarity=0.159  Sum_probs=64.1

Q ss_pred             EEEEEcCCCC-EEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEE
Q 044874            2 DVIFEPQRGK-AFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLL   70 (269)
Q Consensus         2 ~i~vk~~~g~-~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~   70 (269)
                      .|.|+..+|+ .+.+.+..++++..|....+++.|+++...+++|+|..|.++.|.++++++++++|.+.
T Consensus        27 ~LkV~~~dg~~~v~fkIk~~t~l~kLm~aY~~~~g~~~~~vrF~FDG~rI~~~~TP~dLdMEDgD~IDv~   96 (97)
T 2jxx_A           27 QLRVQGKEKHQTLEVSLSRDSPLKTLMSHYEEAMGLSGRKLSFFFDGTKLSGRELPADLGMESGDLIEVW   96 (97)
T ss_dssp             EEEEEESSSSCEEEEEEETTSCHHHHHHHHHHHTTCSSSCCEEEETTEECCSCSCHHHHTCCTTEEEEEE
T ss_pred             EEEEEcCCCCEEEEEEECCCChHHHHHHHHHHHHCCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEEe
Confidence            5777777884 88999999999999999999999999999999999999999999999999999999875

>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=98.33  E-value=7.1e-06  Score=55.97  Aligned_cols=71  Identities=10%  Similarity=0.165  Sum_probs=62.7

Q ss_pred             ceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCC-ceEEEecCeeecCCCccccccCCCCCEEEEe
Q 044874          185 KLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQD-GYFFIYKQNVMDDDRSFRWHHVGQGDTIEIF  261 (269)
Q Consensus       185 ~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~-~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~  261 (269)
                      -+.+..+.... ..+.++|.++.+|..|-+.-+.+.     ++|++ ..+|.|.|..|+.+.++.+|++.+||.|.++
T Consensus         9 ~~~~~~~~~~~-~dl~f~I~~~t~v~kLi~ayc~~~-----~I~~~~~IrllFDGdRLdp~~tp~DlemeD~D~IDvm   80 (82)
T 3goe_A            9 LITLLLRSSKS-EDLRLSIPVDFTVKDLIKRYCTEV-----KISFHERIRLEFEGEWLDPNDQVQSTELEDEDQVSVV   80 (82)
T ss_dssp             EEEEEEEESSS-CCEEEEEETTSBHHHHHHHHHHHH-----TCCCCTTCEEEETTEECCTTSBGGGSSCCTTCEEEEE
T ss_pred             HHHHhhhccCC-CCeEEEecCCCCHHHHHHHHHHHc-----CCCcCceEEEEEcCcccCccCChhhhCCcCCceeeee
Confidence            35556665554 688899999999999999999986     99999 7999999999999999999999999999876

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

Probab=98.33  E-value=4.1e-07  Score=63.73  Aligned_cols=71  Identities=14%  Similarity=0.278  Sum_probs=56.2

Q ss_pred             ceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCee-----ecCCCccccccCCCCCEEE
Q 044874          185 KLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNV-----MDDDRSFRWHHVGQGDTIE  259 (269)
Q Consensus       185 ~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~-----L~d~~tL~~~~i~~~~~i~  259 (269)
                      .|.|-++..+|  ++.+++++++||.+|+++|.+.-     +++.+.|.+.+....     +.++.+|++.||+.||+|+
T Consensus         4 ~m~lRvrs~~G--~~Ri~v~~~~t~~~L~~~I~~~~-----~i~~~~~~l~~~~~p~~~l~~~~~~~l~~lgl~hGd~l~   76 (80)
T 2pjh_A            4 SIIIRVQSPDG--VKRITATKRETAATFLKKVAKEF-----GFQNNGFSVYINRNKTGEITASSSKSLHLLKIKHGDLLF   76 (80)
T ss_dssp             CCCCEEECSSE--EEECCCCSSCCHHHHHHHHHHHT-----CCCTTTCCCCCSCCGGGGSSSCCCCTTTTTCCCTTCCEE
T ss_pred             cEEEEEECCCC--CEEEEcCCcChHHHHHHHHHHHc-----CCCCCcceEEecCCCCCcccCCCCCCHHHcCCCCCCEEE
Confidence            37788888887  77788999999999999999974     888777665543332     3477899999999999999


Q ss_pred             Eec
Q 044874          260 IFN  262 (269)
Q Consensus       260 l~~  262 (269)
                      |.+
T Consensus        77 l~~   79 (80)
T 2pjh_A           77 LFP   79 (80)
T ss_dssp             C--
T ss_pred             Eec
Confidence            864

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

Probab=98.22  E-value=5.5e-06  Score=59.34  Aligned_cols=56  Identities=23%  Similarity=0.259  Sum_probs=47.1

Q ss_pred             cCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEc--CCCCccccCCCC
Q 044874            7 PQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVL--QDDRDVEHCEIL   62 (269)
Q Consensus         7 ~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L--~d~~tL~~~~i~   62 (269)
                      ...+..+.+.+.+++|+..||++|++++|||+++|+|+|.|+.|  +.+.....|--.
T Consensus        20 ~~~a~~h~v~I~~~etv~~~ke~V~eqTgIp~~~Q~LL~eg~~l~l~p~~~a~~~p~T   77 (94)
T 4efo_A           20 LQQMTAHKIYIHSYNTATIFHELVYKQTKIISSNQELIYEGRRLVLEPGRLAQHFPKT   77 (94)
T ss_dssp             TTTTEEEEEEEETTCBHHHHHHHHHHHHCCCGGGEEEEETTEEECCCTTCBGGGSCCC
T ss_pred             cccceEEEEEeccchHHHHHHHHHHHHhCCCHHHHHHHhCCCccccCCCCccccCCCC
Confidence            34577899999999999999999999999999999999999875  555556666443

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

Probab=98.19  E-value=5.4e-06  Score=68.69  Aligned_cols=75  Identities=13%  Similarity=0.177  Sum_probs=70.4

Q ss_pred             EEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCC
Q 044874            2 DVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKP   77 (269)
Q Consensus         2 ~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~   77 (269)
                      .|+|+. +++...+.+..++++..|+++.+++.|++++++|++|.|+.+.++.+..+..+.++++|.+.....+|.
T Consensus        23 ~ikv~~-~~~~v~~~i~~~~~l~kl~~~y~~~~g~~~~~~~f~fdG~~i~~~~Tpk~L~~ed~d~I~~~~eq~Gg~   97 (209)
T 3uf8_A           23 NLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHREQIGGS   97 (209)
T ss_dssp             EEEEEC-SSCEEEEEEETTSCTHHHHHHHHHHHTCCGGGCEEEETTEECCTTCCTTTTTCCTTEEEEEECSCTTCC
T ss_pred             EEEEEc-CCCEEEEEEeeCCHHHHHHHHHHHhhCCChheEEEEECCEeccCCCChHHhhhcccccchhhccccccc
Confidence            567776 778889999999999999999999999999999999999999999999999999999999999998876

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

Probab=98.09  E-value=2.2e-05  Score=55.99  Aligned_cols=72  Identities=10%  Similarity=0.164  Sum_probs=66.5

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEec
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVAS   73 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~   73 (269)
                      +.|.|+. +|....+.+..++....|.+..+++.|++++..|+.|.|..+.++.|-.+.+++++++|.+++..
T Consensus        22 IniKV~~-~g~ev~FkIK~tt~l~KL~~aYc~r~gv~~~sirFlfDG~rI~~~~TP~~L~meD~DiID~~~~~   93 (95)
T 2l76_A           22 FPLKIRC-RADLVRLPLRMSEPLQSVVDHMATHLGVSPSRILLLFGETELSPTATPRTLKLGVADIIDCVVLT   93 (95)
T ss_dssp             EEEEEEC-SSSEEEEEECSSSCTHHHHHHHHHHHTSCGGGEEEEETTEECCTTSCHHHHTCCSSCEEEEEECC
T ss_pred             EEEEEEc-CCcEEEEEEecCChHHHHHHHHHhhcCCChhhEEEEECCcCCCCCCCHhHcCCCCCCEEEEEEec
Confidence            3577874 78899999999999999999999999999999999999999999999999999999999988754

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

Probab=98.09  E-value=4.4e-07  Score=80.44  Aligned_cols=77  Identities=13%  Similarity=0.166  Sum_probs=1.7

Q ss_pred             EEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCCCC
Q 044874            2 DVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKPQV   79 (269)
Q Consensus         2 ~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~~~   79 (269)
                      +|+|+. +|+...+.|..++++..|+++.+++.|++++.+|+.|+|+.|.++.|.+++++++|++|.+.....||+.+
T Consensus        23 ~LKV~~-~g~~v~FkIk~~t~l~kLm~aY~~r~G~~~~~~rFlFdG~rI~~~~TP~~L~MEDgD~Idv~~~Q~g~~~~   99 (360)
T 3ix6_A           23 NLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHREQIGGMRT   99 (360)
T ss_dssp             ---------------------------------------------------------------------------CHH
T ss_pred             EEEEec-CCcEEEEEEecCChHHHHHHHHHHHhCCCcceEEEEECCeECCCCCChHHcCCCccchhhhhhccCchHHH
Confidence            567776 67888999999999999999999999999999999999999999999999999999999999999999753

>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=97.98  E-value=3.6e-05  Score=63.68  Aligned_cols=77  Identities=16%  Similarity=0.198  Sum_probs=68.9

Q ss_pred             CcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEec
Q 044874          183 PRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       183 ~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      +..++|.|.. .+ ..+.+++..++....|++..+++.     |++.++++|+|.|+.+.++.|-.+..++++|+|.++.
T Consensus        19 ~~~i~ikv~~-~~-~~v~~~i~~~~~l~kl~~~y~~~~-----g~~~~~~~f~fdG~~i~~~~Tpk~L~~ed~d~I~~~~   91 (209)
T 3uf8_A           19 ETHINLKVSD-GS-SEIFFKIKKTTPLRRLMEAFAKRQ-----GKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHR   91 (209)
T ss_dssp             CSEEEEEEEC-SS-CEEEEEEETTSCTHHHHHHHHHHH-----TCCGGGCEEEETTEECCTTCCTTTTTCCTTEEEEEEC
T ss_pred             CCcEEEEEEc-CC-CEEEEEEeeCCHHHHHHHHHHHhh-----CCChheEEEEECCEeccCCCChHHhhhcccccchhhc
Confidence            3568888876 55 788899999999999999999997     9999999999999999999999999999999999986


Q ss_pred             Cccc
Q 044874          263 GSVT  266 (269)
Q Consensus       263 ~~~~  266 (269)
                      ....
T Consensus        92 eq~G   95 (209)
T 3uf8_A           92 EQIG   95 (209)
T ss_dssp             SCTT
T ss_pred             cccc
Confidence            4443

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

Probab=97.92  E-value=4.1e-05  Score=54.06  Aligned_cols=74  Identities=18%  Similarity=0.224  Sum_probs=69.3

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASD   74 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~   74 (269)
                      |.|+|-..+++..++.|.|+.++.++-+...+++|+++++-.|.|+++.|+-+..+.-.|+.+++.+.|+....
T Consensus        10 m~v~Vl~~n~rr~~VKvtp~t~L~~VL~eaC~K~gl~~~~~~Lkh~~k~lDLSlpfRlsgLpnnAkLELv~~s~   83 (90)
T 2al3_A           10 SAVSVLAPNGRRHTVKVTPSTVLLQVLEDTCRRQDFNPSEYDLKFQRTVLDLSLQWRFANLPNNAKLEMVPVSR   83 (90)
T ss_dssp             CCEEEECTTSCEEEECCCTTSBHHHHHHHHHHHTTCCGGGCEEEETTEEESSSCBHHHHCCCSSCEEEEECSSS
T ss_pred             cEEEEEcCCCcEEEEEECCCCCHHHHHHHHHHHhCCChhhCeEEeCCEeccccceeEecCCCCCCEEEEEEccC
Confidence            67889999999999999999999999999999999999999999999999999999999999999999986554

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

Probab=97.92  E-value=0.00011  Score=52.29  Aligned_cols=73  Identities=11%  Similarity=0.213  Sum_probs=66.6

Q ss_pred             CcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEec
Q 044874          183 PRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       183 ~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      ++.++|.|+. .| ..+.+.+..++....|.+..+++.     |++++..+|.|.|..+.++.|-++.++++||+|.++.
T Consensus        19 ~~~IniKV~~-~g-~ev~FkIK~tt~l~KL~~aYc~r~-----gv~~~sirFlfDG~rI~~~~TP~~L~meD~DiID~~~   91 (95)
T 2l76_A           19 PRLFPLKIRC-RA-DLVRLPLRMSEPLQSVVDHMATHL-----GVSPSRILLLFGETELSPTATPRTLKLGVADIIDCVV   91 (95)
T ss_dssp             CCCEEEEEEC-SS-SEEEEEECSSSCTHHHHHHHHHHH-----TSCGGGEEEEETTEECCTTSCHHHHTCCSSCEEEEEE
T ss_pred             CCeEEEEEEc-CC-cEEEEEEecCChHHHHHHHHHhhc-----CCChhhEEEEECCcCCCCCCCHhHcCCCCCCEEEEEE
Confidence            4558888884 55 788899999999999999999987     9999999999999999999999999999999999884

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

Probab=97.91  E-value=7.6e-05  Score=53.37  Aligned_cols=70  Identities=9%  Similarity=0.108  Sum_probs=50.7

Q ss_pred             eEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeee--cCCCcccccc-CCCCCEEEEe
Q 044874          187 KLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVM--DDDRSFRWHH-VGQGDTIEIF  261 (269)
Q Consensus       187 ~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L--~d~~tL~~~~-i~~~~~i~l~  261 (269)
                      -|.|=....+..+.+.+++.+||..+|+.|++++     |+|+++|+|+|.|+.|  +.++.-..|- -.+.+=|.||
T Consensus        14 vvHVf~~~~a~~h~v~I~~~etv~~~ke~V~eqT-----gIp~~~Q~LL~eg~~l~l~p~~~a~~~p~Tt~~~Pl~L~   86 (94)
T 4efo_A           14 VIHVFSLQQMTAHKIYIHSYNTATIFHELVYKQT-----KIISSNQELIYEGRRLVLEPGRLAQHFPKTTEENPIFVV   86 (94)
T ss_dssp             EEEEEETTTTEEEEEEEETTCBHHHHHHHHHHHH-----CCCGGGEEEEETTEEECCCTTCBGGGSCCCBTTBCEEEE
T ss_pred             eEEEEEcccceEEEEEeccchHHHHHHHHHHHHh-----CCCHHHHHHHhCCCccccCCCCccccCCCCCCCCCEEEE
Confidence            3444344444889999999999999999999987     9999999999999765  4444444443 2233334444

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

Probab=97.83  E-value=0.00012  Score=51.73  Aligned_cols=74  Identities=18%  Similarity=0.287  Sum_probs=67.6

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCcc
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSV  265 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~  265 (269)
                      |.+.|...++ +...++|.++.++.++-++-+++.     |+.++++.|.|+++.|+-...++-.|+.+|..++|+...-
T Consensus        10 m~v~Vl~~n~-rr~~VKvtp~t~L~~VL~eaC~K~-----gl~~~~~~Lkh~~k~lDLSlpfRlsgLpnnAkLELv~~s~   83 (90)
T 2al3_A           10 SAVSVLAPNG-RRHTVKVTPSTVLLQVLEDTCRRQ-----DFNPSEYDLKFQRTVLDLSLQWRFANLPNNAKLEMVPVSR   83 (90)
T ss_dssp             CCEEEECTTS-CEEEECCCTTSBHHHHHHHHHHHT-----TCCGGGCEEEETTEEESSSCBHHHHCCCSSCEEEEECSSS
T ss_pred             cEEEEEcCCC-cEEEEEECCCCCHHHHHHHHHHHh-----CCChhhCeEEeCCEeccccceeEecCCCCCCEEEEEEccC
Confidence            7899988888 999999999999999988888875     9999999999999999999999999999999999996543

>2kc2_A Talin-1, F1; FERM, adhesion, cell membrane, cell projection, cytoplasm, cytoskeleton, membrane, phosphoprotein, structural protein; NMR {Mus musculus}

Probab=97.79  E-value=3.5e-05  Score=58.32  Aligned_cols=70  Identities=21%  Similarity=0.123  Sum_probs=59.0

Q ss_pred             EEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCC-------------------------------------cEEEEE
Q 044874            3 VIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVP-------------------------------------KQTLVF   45 (269)
Q Consensus         3 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~-------------------------------------~q~L~~   45 (269)
                      +.|+.++|...++.|+.+.+|.+++..|+.+.||+..                                     .|+|-.
T Consensus        14 LkV~llDg~~ktl~VD~S~~V~~lv~~Ic~kigI~n~~ey~L~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~k~kL~~   93 (128)
T 2kc2_A           14 LKIRMLDGTVKTIMVDDSKTVTDMLMTICARIGITNHDEYSLVRELMEEKKDEGTGTLRKDKTLLRDEKKMEKLKQKLHT   93 (128)
T ss_dssp             EEEECTTSCEEEEEEEECSSHHHHHHHHHHHHTCCCCSSEEEEEECCCCCCCCCSSCCSSSSSCSCCSCCSCSSCCSCCC
T ss_pred             EEEEcCCCCEEEEEeCCCcCHHHHHHHHHHHhCCCCcccccccccccccccccCchhhccccccccchhHHHHHHHHhcc
Confidence            7899999999999999999999999999999999855                                     333322


Q ss_pred             --cCEEcCCCCccccCCCCCCCEEEEEEe
Q 044874           46 --NGQVLQDDRDVEHCEILQNSRIQLLVA   72 (269)
Q Consensus        46 --~G~~L~d~~tL~~~~i~~~~~i~l~~~   72 (269)
                        .+..|+++.+|.++||.+++++.|.-+
T Consensus        94 dd~~~WLD~srtL~EQGI~e~~tllLRrK  122 (128)
T 2kc2_A           94 DDELNWLDHGRTLREQGVEEHETLLLRRK  122 (128)
T ss_dssp             SSSEEEECSSSCHHHHTCCTTSEEEEEES
T ss_pred             cCCCCcccCCCcHHHcCCCCCCEEEEEEE
Confidence              125678899999999999999887654

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

Probab=97.79  E-value=3.1e-06  Score=75.05  Aligned_cols=76  Identities=16%  Similarity=0.205  Sum_probs=0.0

Q ss_pred             CcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEec
Q 044874          183 PRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       183 ~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      +..++|.|+. .| ..+.++|..+++...|++..+++.     |++.++++|.|.|+.+.++.|.+++++++||+|.++.
T Consensus        19 ~~~I~LKV~~-~g-~~v~FkIk~~t~l~kLm~aY~~r~-----G~~~~~~rFlFdG~rI~~~~TP~~L~MEDgD~Idv~~   91 (360)
T 3ix6_A           19 ETHINLKVSD-GS-SEIFFKIKKTTPLRRLMEAFAKRQ-----GKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHR   91 (360)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CCeEEEEEec-CC-cEEEEEEecCChHHHHHHHHHHHh-----CCCcceEEEEECCeECCCCCChHHcCCCccchhhhhh
Confidence            3568888876 55 788899999999999999999987     9999999999999999999999999999999999986


Q ss_pred             Ccc
Q 044874          263 GSV  265 (269)
Q Consensus       263 ~~~  265 (269)
                      .-+
T Consensus        92 ~Q~   94 (360)
T 3ix6_A           92 EQI   94 (360)
T ss_dssp             ---
T ss_pred             ccC
Confidence            433

>2kc2_A Talin-1, F1; FERM, adhesion, cell membrane, cell projection, cytoplasm, cytoskeleton, membrane, phosphoprotein, structural protein; NMR {Mus musculus}

Probab=97.71  E-value=0.00011  Score=55.57  Aligned_cols=71  Identities=17%  Similarity=0.216  Sum_probs=57.7

Q ss_pred             eEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCC-ceEEEe-----------------------------
Q 044874          187 KLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQD-GYFFIY-----------------------------  236 (269)
Q Consensus       187 ~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~-~q~l~~-----------------------------  236 (269)
                      .+.|+.++| ...++.|+++.+|.+++..|+.+-     |++.. .+-|+.                             
T Consensus        13 ~LkV~llDg-~~ktl~VD~S~~V~~lv~~Ic~ki-----gI~n~~ey~L~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~   86 (128)
T 2kc2_A           13 PLKIRMLDG-TVKTIMVDDSKTVTDMLMTICARI-----GITNHDEYSLVRELMEEKKDEGTGTLRKDKTLLRDEKKMEK   86 (128)
T ss_dssp             EEEEECTTS-CEEEEEEEECSSHHHHHHHHHHHH-----TCCCCSSEEEEEECCCCCCCCCSSCCSSSSSCSCCSCCSCS
T ss_pred             cEEEEcCCC-CEEEEEeCCCcCHHHHHHHHHHHh-----CCCCcccccccccccccccccCchhhccccccccchhHHHH
Confidence            688999998 999999999999999999999985     77744 233332                             


Q ss_pred             ---------cCeeecCCCccccccCCCCCEEEEecC
Q 044874          237 ---------KQNVMDDDRSFRWHHVGQGDTIEIFNG  263 (269)
Q Consensus       237 ---------~g~~L~d~~tL~~~~i~~~~~i~l~~~  263 (269)
                               .+.-|++++||.++||.++++|.|-+.
T Consensus        87 ~k~kL~~dd~~~WLD~srtL~EQGI~e~~tllLRrK  122 (128)
T 2kc2_A           87 LKQKLHTDDELNWLDHGRTLREQGVEEHETLLLRRK  122 (128)
T ss_dssp             SCCSCCCSSSEEEECSSSCHHHHTCCTTSEEEEEES
T ss_pred             HHHHhcccCCCCcccCCCcHHHcCCCCCCEEEEEEE
Confidence                     136788899999999999999877543

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

Probab=97.68  E-value=5.6e-06  Score=74.99  Aligned_cols=76  Identities=13%  Similarity=0.172  Sum_probs=0.0

Q ss_pred             EEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCCC
Q 044874            2 DVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKPQ   78 (269)
Q Consensus         2 ~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~~   78 (269)
                      .|+|+. ++....+.+..++++..|++..+++.|+++.+++++|+|+.|.++.|.++++++++++|.+.....||..
T Consensus        32 ~lkv~~-~~~~~~~~i~~~~~~~~l~~~y~~~~g~~~~~~~f~f~G~~i~~~~Tp~~l~med~d~i~~~~~q~gg~n  107 (389)
T 4da1_A           32 NLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQAPEDLDMEDNDIIEAHREQIGGEN  107 (389)
T ss_dssp             -----------------------------------------------------------------------------
T ss_pred             EEEEec-CCcEEEEEECCCChHHHHHHHHHHHhCCCcceEEEEECCEEcCCCCCHHHcCCCCCCEeeeeeccccccc
Confidence            456665 6778889999999999999999999999999999999999999999999999999999999999998764

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

Probab=97.64  E-value=0.00021  Score=49.72  Aligned_cols=70  Identities=11%  Similarity=0.136  Sum_probs=57.3

Q ss_pred             ceeEEEEe--cCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCC-----CceEEEecCeeecCCCccccccCCCCCE
Q 044874          185 KLKLLVLT--QCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQ-----DGYFFIYKQNVMDDDRSFRWHHVGQGDT  257 (269)
Q Consensus       185 ~~~i~V~~--~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~-----~~q~l~~~g~~L~d~~tL~~~~i~~~~~  257 (269)
                      .++|++..  ..+ +.+-+.++...||..|.+.+.+..     +++.     .+.+..-++..|.++++|++|+|.+||.
T Consensus         4 yI~ITidl~~y~~-~~~DLRIP~~~tvK~Li~~l~ea~-----~l~~~~~~~~~irv~NK~~~L~~~~~L~d~~ItnGD~   77 (81)
T 2bps_A            4 YIDITIDLKHYNG-SVFDLRLSDYHPVKKVIDIAWQAQ-----SVSMPPREGHWIRVVNKDKVFSGECKLSDCGITNGDR   77 (81)
T ss_dssp             EEEEEEECTTTTC-CEEEEEEETTSBTTHHHHHHHHHS-----CCCSCCCTTCEEEEGGGTEEEETTSBTGGGTCCTTCE
T ss_pred             EEEEEEEeeccCC-ceEEEECCCchhHHHHHHHHHHHh-----CCCcCCCCCCEEEEecCCEEEcCCCEEeeCCcCCCCE
Confidence            45666653  455 899999999999999999998864     4332     2467778899999999999999999999


Q ss_pred             EEE
Q 044874          258 IEI  260 (269)
Q Consensus       258 i~l  260 (269)
                      |.+
T Consensus        78 Lei   80 (81)
T 2bps_A           78 LEI   80 (81)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            986

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

Probab=97.54  E-value=0.00022  Score=49.57  Aligned_cols=68  Identities=15%  Similarity=0.334  Sum_probs=57.8

Q ss_pred             EEEEEc--CCCCEEEEEEcCCCCHHHHHHHHHHHhCCCC-----CcEEEEEcCEEcCCCCccccCCCCCCCEEEE
Q 044874            2 DVIFEP--QRGKAFTIEVGFFDTVLEIKEKIEKYQGIPV-----PKQTLVFNGQVLQDDRDVEHCEILQNSRIQL   69 (269)
Q Consensus         2 ~i~vk~--~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~-----~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l   69 (269)
                      .|++..  -.++.+.+.++...|+.+|++.+.+.++++.     .+.|+.-.+..|.++..|++|+|.+|+.+.+
T Consensus         6 ~ITidl~~y~~~~~DLRIP~~~tvK~Li~~l~ea~~l~~~~~~~~~irv~NK~~~L~~~~~L~d~~ItnGD~Lei   80 (81)
T 2bps_A            6 DITIDLKHYNGSVFDLRLSDYHPVKKVIDIAWQAQSVSMPPREGHWIRVVNKDKVFSGECKLSDCGITNGDRLEI   80 (81)
T ss_dssp             EEEEECTTTTCCEEEEEEETTSBTTHHHHHHHHHSCCCSCCCTTCEEEEGGGTEEEETTSBTGGGTCCTTCEEEE
T ss_pred             EEEEEeeccCCceEEEECCCchhHHHHHHHHHHHhCCCcCCCCCCEEEEecCCEEEcCCCEEeeCCcCCCCEEEE
Confidence            566764  4789999999999999999999999998665     2346666788999999999999999998875

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

Probab=97.49  E-value=1.5e-05  Score=72.16  Aligned_cols=77  Identities=16%  Similarity=0.196  Sum_probs=0.0

Q ss_pred             CcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEec
Q 044874          183 PRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       183 ~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      ...+.|.|+. .+ ..+.++|..+++...|++..+++.     |++..+++|.|.|+.+.++.|-++.++++||+|.++.
T Consensus        28 ~~~i~lkv~~-~~-~~~~~~i~~~~~~~~l~~~y~~~~-----g~~~~~~~f~f~G~~i~~~~Tp~~l~med~d~i~~~~  100 (389)
T 4da1_A           28 ETHINLKVSD-GS-SEIFFKIKKTTPLRRLMEAFAKRQ-----GKEMDSLRFLYDGIRIQADQAPEDLDMEDNDIIEAHR  100 (389)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CCcEEEEEec-CC-cEEEEEECCCChHHHHHHHHHHHh-----CCCcceEEEEECCEEcCCCCCHHHcCCCCCCEeeeee
Confidence            3567888876 55 788899999999999999999987     9999999999999999999999999999999999986


Q ss_pred             Cccc
Q 044874          263 GSVT  266 (269)
Q Consensus       263 ~~~~  266 (269)
                      .-..
T Consensus       101 ~q~g  104 (389)
T 4da1_A          101 EQIG  104 (389)
T ss_dssp             ----
T ss_pred             cccc
Confidence            4443

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

Probab=97.39  E-value=0.0084  Score=53.54  Aligned_cols=144  Identities=13%  Similarity=0.080  Sum_probs=104.9

Q ss_pred             EEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhC----CCCCcEEEEE------cCEEcCCCCccccCCCCCCCEEEEEEe
Q 044874            3 VIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQG----IPVPKQTLVF------NGQVLQDDRDVEHCEILQNSRIQLLVA   72 (269)
Q Consensus         3 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~g----i~~~~q~L~~------~G~~L~d~~tL~~~~i~~~~~i~l~~~   72 (269)
                      +.|... +.+-++.++++.||.+.-..|.++..    .++++--|+.      .|.-|++.++|+.|++++++.+...-+
T Consensus         6 ~~~~~~-~~~~~~~f~~~~~v~~~~~~i~e~~~~~~~~~~~~y~l~~~~~~~~~~~Wl~~~~~l~~y~~~~~~~l~~~~~   84 (371)
T 3ivf_A            6 LKISIG-NVVKTMQFEPSTMVYDACRMIRERIPEALAGPPNDFGLFLSDDDPKKGIWLEAGKALDYYMLRNGDTMEYRKK   84 (371)
T ss_dssp             EEEEET-TEEEEEEECTTCBHHHHHHHHHTTCGGGGSSCGGGEEEEECCSSGGGCEECCTTSBGGGGTCCTTCEEEEEEC
T ss_pred             EEEEec-ceeEEEEECCCCCHHHHHHHHHHhcccccCCCHHHCeEeccCCCCCcCEeccCCCCHHHhCCCCCceeeccCc
Confidence            444444 77889999999999999999988864    3566777877      366799999999999999998887653


Q ss_pred             cCCCCCCcccCCCCCceEEEEEecCCCCCCccccccceeecCCcchHHHHHHhhhhhcCCCC-cceEEEeCC--------
Q 044874           73 SDNKPQVKTEQSSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPV-NRLLVQSSG--------  143 (269)
Q Consensus        73 ~~~g~~~~~~~~~~~~~i~i~Vk~~~~~~~~~~~~~~~~~v~~~~TV~~lK~~I~~~~gip~-~~q~L~~~g--------  143 (269)
                      .                +.+.|.......       .........|+.++-+.|+++.|+.. +..-|.+..        
T Consensus        85 ~----------------~~~~V~l~dg~~-------~~~~vd~~tt~~el~~~v~~~l~L~e~~~FgL~~~~~~~~~~~~  141 (371)
T 3ivf_A           85 Q----------------RPLKIRMLDGTV-------KTIMVDDSKTVTDMLMTICARIGITNHDEYSLVRELMEEKKDDE  141 (371)
T ss_dssp             E----------------EEEEEECTTSCE-------EEEEEETTSBHHHHHHHHHHHTTCSCGGGEEEECCC--------
T ss_pred             e----------------eEEEEECcCCCE-------EEEEECCCCCHHHHHHHHHHHcCCCCccccEEEEEecccccchH
Confidence            3                356666555543       44555678999999999999999874 456676532        


Q ss_pred             -eeeccCCcccccCCCCCCEEEEEEccC
Q 044874          144 -AELQDHRSLRDCELMDNAEIDVHVRPS  170 (269)
Q Consensus       144 -~~L~d~~~L~~y~i~~~~~i~l~~~~~  170 (269)
                       .-|+..+++.+.+.....++++.++.-
T Consensus       142 ~~wL~~~k~l~~q~~~~~~~l~frvKf~  169 (371)
T 3ivf_A          142 LNWLDHGRTLREQGVEEHETLLLRRKFF  169 (371)
T ss_dssp             --CCCTTSBTGGGTCCTTCEEEEEECCC
T ss_pred             HHHHhcCchhHhhCCCCCceEEEEEEEe
Confidence             224456777777666666777766644

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

Probab=97.32  E-value=0.012  Score=52.56  Aligned_cols=131  Identities=16%  Similarity=0.178  Sum_probs=100.6

Q ss_pred             ceeecCCcchHHHHHHhhhhhcC----CCCcceEEEe------CCeeeccCCcccccCCCCCCEEEEEEccCCCCCCCCC
Q 044874          109 LPLDMDVNDTVLRLKEKIHEMES----IPVNRLLVQS------SGAELQDHRSLRDCELMDNAEIDVHVRPSPTATSTTS  178 (269)
Q Consensus       109 ~~~~v~~~~TV~~lK~~I~~~~g----ip~~~q~L~~------~g~~L~d~~~L~~y~i~~~~~i~l~~~~~~~~~~~~~  178 (269)
                      .........||.++...|.++..    .++++.-|..      .|+=|++.++|..|++++++.++..-+.         
T Consensus        15 ~~~~f~~~~~v~~~~~~i~e~~~~~~~~~~~~y~l~~~~~~~~~~~Wl~~~~~l~~y~~~~~~~l~~~~~~---------   85 (371)
T 3ivf_A           15 KTMQFEPSTMVYDACRMIRERIPEALAGPPNDFGLFLSDDDPKKGIWLEAGKALDYYMLRNGDTMEYRKKQ---------   85 (371)
T ss_dssp             EEEEECTTCBHHHHHHHHHTTCGGGGSSCGGGEEEEECCSSGGGCEECCTTSBGGGGTCCTTCEEEEEECE---------
T ss_pred             EEEEECCCCCHHHHHHHHHHhcccccCCCHHHCeEeccCCCCCcCEeccCCCCHHHhCCCCCceeeccCce---------
Confidence            45556678999999999988773    4678888876      2344888999999999999998886443         


Q ss_pred             CCCCCcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCc-eEEEecC---------eeecCCCccc
Q 044874          179 SGMGPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDG-YFFIYKQ---------NVMDDDRSFR  248 (269)
Q Consensus       179 ~~~~~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~-q~l~~~g---------~~L~d~~tL~  248 (269)
                             +.+.|..++| ....++++++.|+.++=++|+++-     |+.... .-|.+..         .-|+.++++.
T Consensus        86 -------~~~~V~l~dg-~~~~~~vd~~tt~~el~~~v~~~l-----~L~e~~~FgL~~~~~~~~~~~~~~wL~~~k~l~  152 (371)
T 3ivf_A           86 -------RPLKIRMLDG-TVKTIMVDDSKTVTDMLMTICARI-----GITNHDEYSLVRELMEEKKDDELNWLDHGRTLR  152 (371)
T ss_dssp             -------EEEEEECTTS-CEEEEEEETTSBHHHHHHHHHHHT-----TCSCGGGEEEECCC----------CCCTTSBTG
T ss_pred             -------eEEEEECcCC-CEEEEEECCCCCHHHHHHHHHHHc-----CCCCccccEEEEEecccccchHHHHHhcCchhH
Confidence                   6888988998 889999999999999999999974     666433 4455432         3456677888


Q ss_pred             cccCCCCCEEEEe
Q 044874          249 WHHVGQGDTIEIF  261 (269)
Q Consensus       249 ~~~i~~~~~i~l~  261 (269)
                      +.++.+..++++.
T Consensus       153 ~q~~~~~~~l~fr  165 (371)
T 3ivf_A          153 EQGVEEHETLLLR  165 (371)
T ss_dssp             GGTCCTTCEEEEE
T ss_pred             hhCCCCCceEEEE
Confidence            8887777776653

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

Probab=97.29  E-value=0.0015  Score=45.73  Aligned_cols=71  Identities=17%  Similarity=0.166  Sum_probs=58.9

Q ss_pred             cceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEE--ecCeee---cCCCccccccCCCCCEE
Q 044874          184 RKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFI--YKQNVM---DDDRSFRWHHVGQGDTI  258 (269)
Q Consensus       184 ~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~--~~g~~L---~d~~tL~~~~i~~~~~i  258 (269)
                      ....|.++.++| ..+.-....++||.+|+.-|...      +.+...+.|+  |-.+.+   +.+.||.+.|+.+.++|
T Consensus         6 ~~~~i~iRlpdG-~r~~~~F~~~~tl~~v~~fv~~~------~~~~~~f~L~t~fPrk~l~~~d~~~TL~e~gL~p~a~L   78 (84)
T 3qx1_A            6 PVSKLRIRTPSG-EFLERRFLASNKLQIVFDFVASK------GFPWDEYKLLSTFPRRDVTQLDPNKSLLEVKLFPQETL   78 (84)
T ss_dssp             CEEEEEEECTTS-CEEEEEEETTSBHHHHHHHHHHT------TCCTTTEEEECSSSCCBGGGSCTTSBTTTTTCCSEEEE
T ss_pred             CeEEEEEECCCC-CEEEEEeCCCCCHHHHHHHHHHc------CCCCCCeEEEeCCCCCCCcCCCCCCCHHHCCCCCCCEE
Confidence            346788888898 77778889999999999999883      5666778888  678888   45689999999999998


Q ss_pred             EEe
Q 044874          259 EIF  261 (269)
Q Consensus       259 ~l~  261 (269)
                      +|=
T Consensus        79 ~ve   81 (84)
T 3qx1_A           79 FLE   81 (84)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            874

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

Probab=97.19  E-value=0.0024  Score=44.58  Aligned_cols=69  Identities=7%  Similarity=0.131  Sum_probs=58.9

Q ss_pred             EEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEE--cCEEc---CCCCccccCCCCCCCEEEEEE
Q 044874            2 DVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVF--NGQVL---QDDRDVEHCEILQNSRIQLLV   71 (269)
Q Consensus         2 ~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~--~G~~L---~d~~tL~~~~i~~~~~i~l~~   71 (269)
                      +|-||..+|+.+.-.++.++||.+|..-|.. .+.++..+.|+.  ..+.|   +.+.+|.+.|+.+.+++.+-.
T Consensus         9 ~i~iRlpdG~r~~~~F~~~~tl~~v~~fv~~-~~~~~~~f~L~t~fPrk~l~~~d~~~TL~e~gL~p~a~L~ve~   82 (84)
T 3qx1_A            9 KLRIRTPSGEFLERRFLASNKLQIVFDFVAS-KGFPWDEYKLLSTFPRRDVTQLDPNKSLLEVKLFPQETLFLEA   82 (84)
T ss_dssp             EEEEECTTSCEEEEEEETTSBHHHHHHHHHH-TTCCTTTEEEECSSSCCBGGGSCTTSBTTTTTCCSEEEEEEEE
T ss_pred             EEEEECCCCCEEEEEeCCCCCHHHHHHHHHH-cCCCCCCeEEEeCCCCCCCcCCCCCCCHHHCCCCCCCEEEEEe
Confidence            5788999999988899999999999999998 677778888884  47777   457899999999999888753

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

Probab=97.01  E-value=0.0063  Score=57.09  Aligned_cols=216  Identities=11%  Similarity=0.059  Sum_probs=137.5

Q ss_pred             EEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEc-----C--EE-cC-----CCCccccCCC-CCCCEEEEEEecCC--C
Q 044874           13 FTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFN-----G--QV-LQ-----DDRDVEHCEI-LQNSRIQLLVASDN--K   76 (269)
Q Consensus        13 ~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~-----G--~~-L~-----d~~tL~~~~i-~~~~~i~l~~~~~~--g   76 (269)
                      ..+.|...+|+.+||++|++..|+|+++|||...     +  +. +.     .+.++.++.- .+.-.++|-+...+  +
T Consensus        38 ~~~rv~k~~~~~~l~~~va~~lg~~~~~~RlW~~~~RqN~T~Rp~~~~~~~~~~~~~~~~~~~~~~~~lflE~~~~~~~~  117 (530)
T 2ylm_A           38 TVFKVLKNSSLAEFVQSLSQTMGFPQDQIRLWPMQARSNGTKRPAMLDNEADGNKTMIELSDNENPWTIFLETVDPELAA  117 (530)
T ss_dssp             EEEEEETTSBHHHHHHHHHHHHTSCGGGEEEEEEEECTTSCEEECCCCHHHHTTSBHHHHHTSCSSEEEEEEECCHHHHT
T ss_pred             ceEEEcCcCCHHHHHHHHHHHhCcCcccEEEEEEEcCCCCccCCccCCccccHHHHHHHHhccCCceEEEEEecccccCC
Confidence            3678899999999999999999999999999753     1  11 11     1223444322 22334444333211  1


Q ss_pred             CCCcccCCCCCceEEEEEecCCCCCCccccccceeecCCcchHHHHHHhhhhhcCCCCcceEEEeC------Ceeec-cC
Q 044874           77 PQVKTEQSSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSS------GAELQ-DH  149 (269)
Q Consensus        77 ~~~~~~~~~~~~~i~i~Vk~~~~~~~~~~~~~~~~~v~~~~TV~~lK~~I~~~~gip~~~q~L~~~------g~~L~-d~  149 (269)
                      ......+......+-||+|....... ..............+|.+|-..|.+..|+|++.-...|.      ...|. ..
T Consensus       118 ~~~~l~~~~~~~~iLlFlK~yDp~~q-~L~~~G~~~v~~~~kv~~l~~~i~~~~g~p~dt~l~lyEEi~~~~ie~l~~~~  196 (530)
T 2ylm_A          118 SGATLPKFDKDHDVMLFLKMYDPKTR-SLNYCGHIYTPISCKIRDLLPVMCDRAGFIQDTSLILYEEVKPNLTERIQDYD  196 (530)
T ss_dssp             TTCCCCCCCTTTEEEEEEEEEETTTT-EEEEEEEEEEETTCBGGGTHHHHHHHHTCCTTCCEEEEEEEETTEEEECCCSS
T ss_pred             ccccCCCCCCCCcEEEEEEeeCCCCC-EEEEEEEEEECCCCCHHHHHHHHHHHcCCCCCCceEEEEecCCCceeEccccc
Confidence            00000112234568999998866541 112223344556789999999999999999987666663      23466 58


Q ss_pred             Cccccc--CCCCCCEEEEEEccCCCCCCCCCCCC------CCcceeEEEEecC--CCeEEEEEecCCCcHHHHHHHHHHh
Q 044874          150 RSLRDC--ELMDNAEIDVHVRPSPTATSTTSSGM------GPRKLKLLVLTQC--GNKRIPVEVNASDNVSELRKELQKL  219 (269)
Q Consensus       150 ~~L~~y--~i~~~~~i~l~~~~~~~~~~~~~~~~------~~~~~~i~V~~~~--g~~~~~l~v~~~~tV~~lK~~i~~~  219 (269)
                      .|+.+.  .+.+|++|-.-..........- +..      -..++.|.+.+.+  ....|.++++...|-.++-+.+.++
T Consensus       197 ~t~~~~~~eL~~GdII~fQ~~~~~~~~~~y-~~v~~yy~~l~nrv~V~f~~~~~~~~~~F~l~Ls~~~~Y~~la~~va~~  275 (530)
T 2ylm_A          197 VSLDKALDELMDGDIIVFQKDDPENDNSEL-PTAKEYFRDLYHRVDVIFCDKTIPNDPGFVVTLSNRMNYFQVAKTVAQR  275 (530)
T ss_dssp             SBHHHHSTTCCTTEEEEEEECCGGGGGSSS-CSHHHHHHHHHHEEEEEEEETTSTTCCCEEEEEETTCCHHHHHHHHHHH
T ss_pred             ccHHHHHhcccCCCEEEEEecCCccccccC-CCHHHHHHHHhcceEEEEeecCCCCCCCeEEEECCCCCHHHHHHHHHHH
Confidence            899999  9999999877655431100000 000      0013455555532  1267999999999999999999997


Q ss_pred             hhccCCCCCCCceEEE
Q 044874          220 HQRYHFHLPQDGYFFI  235 (269)
Q Consensus       220 ~~~~~~~~p~~~q~l~  235 (269)
                      -     ++.++..+|.
T Consensus       276 l-----~~dP~~lRf~  286 (530)
T 2ylm_A          276 L-----NTDPMLLQFF  286 (530)
T ss_dssp             H-----TSCGGGEEEE
T ss_pred             h-----CCCchhEEEE
Confidence            4     8888877764

>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=96.97  E-value=0.0077  Score=44.24  Aligned_cols=74  Identities=5%  Similarity=0.058  Sum_probs=61.1

Q ss_pred             CcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEE--ecCeeec---CCCccccccCCCCCE
Q 044874          183 PRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFI--YKQNVMD---DDRSFRWHHVGQGDT  257 (269)
Q Consensus       183 ~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~--~~g~~L~---d~~tL~~~~i~~~~~  257 (269)
                      .....|.|+.++| ..+.-....++||.+|++-|....     +.+...+.|+  |-.+++.   .++||.+.|+.+..+
T Consensus        11 ~~~t~IqIRlpdG-~rl~~rF~~~~tl~~v~~fV~~~~-----~~~~~~f~L~t~fPrk~l~~~d~~~TL~elgL~psa~   84 (109)
T 2dzk_A           11 STIARIQFRLPDG-SSFTNQFPSDAPLEEARQFAAQTV-----GNTYGNFSLATMFPRREFTREDYKRRLLDLELAPSAS   84 (109)
T ss_dssp             SCCEEEEEECSSS-CEEEEEECTTSBHHHHHHHHHHHH-----TTSSCSCEEECSSSCCBCCTTTTTSBTGGGTCSSEEE
T ss_pred             CCcEEEEEECCCC-CEEEEEeCCCCCHHHHHHHHHhcc-----CCCCCceEEEcCCCCcCCcccccCCCHHHCCCCCceE
Confidence            3457899999999 888889999999999999998864     5555567776  7788886   367999999999988


Q ss_pred             EEEec
Q 044874          258 IEIFN  262 (269)
Q Consensus       258 i~l~~  262 (269)
                      |++..
T Consensus        85 L~v~~   89 (109)
T 2dzk_A           85 VVLLP   89 (109)
T ss_dssp             EEEEC
T ss_pred             EEEEE
Confidence            88864

>1ryj_A Unknown; beta/alpha protein, structural genomics, protein structure initiative, OCSP, NESG, PSI; NMR {Methanothermococcusthermolithotrophicus} SCOP: d.15.3.2

Probab=96.69  E-value=0.02  Score=38.41  Aligned_cols=67  Identities=24%  Similarity=0.429  Sum_probs=51.3

Q ss_pred             ceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCc
Q 044874          185 KLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGS  264 (269)
Q Consensus       185 ~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~  264 (269)
                      .|+|.|+-..+  ...+++....||.+|.+++         +++.....+..+|.....+.     -+++||.|.+++ .
T Consensus         4 ~m~i~vNg~~~--~~~~~~~~~~tv~~Ll~~l---------~~~~~~v~vavN~~~v~~~~-----~L~~gD~V~ii~-~   66 (70)
T 1ryj_A            4 GMKFTVITDDG--KKILESGAPRRIKDVLGEL---------EIPIETVVVKKNGQIVIDEE-----EIFDGDIIEVIR-V   66 (70)
T ss_dssp             CEEEEEEETTE--EEEEEESSCCBHHHHHHHT---------TCCTTTEEEEETTEECCTTS-----BCCTTCEEEEEE-C
T ss_pred             eEEEEEeCccC--ceeEECCCCCcHHHHHHHh---------CCCCCCEEEEECCEECCCcc-----cCCCCCEEEEEe-c
Confidence            38888886543  5566788889999998765         56666677889999987664     789999999986 4


Q ss_pred             ccCC
Q 044874          265 VTGG  268 (269)
Q Consensus       265 ~~~~  268 (269)
                      |+||
T Consensus        67 V~GG   70 (70)
T 1ryj_A           67 IYGG   70 (70)
T ss_dssp             TTCC
T ss_pred             cccC
Confidence            5555

>4e71_A Plexin-B2, MM1; transmembrane, signaling, RBD, structural genomics consortium, SGC, signaling protein; 2.26A {Homo sapiens}

Probab=96.59  E-value=0.019  Score=42.03  Aligned_cols=63  Identities=21%  Similarity=0.391  Sum_probs=45.7

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhhhccCCCCCC------CceEEEec----CeeecC--------C-----CccccccCC
Q 044874          197 KRIPVEVNASDNVSELRKELQKLHQRYHFHLPQ------DGYFFIYK----QNVMDD--------D-----RSFRWHHVG  253 (269)
Q Consensus       197 ~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~------~~q~l~~~----g~~L~d--------~-----~tL~~~~i~  253 (269)
                      ..+.++|-.+|||..+|++|-+.-.+   |.|.      +.+.|.++    |++|.|        +     +||.+|+|.
T Consensus        24 ~~i~vkVLdCDTItQvKeKiLd~vyk---~~pyS~rP~~~~~dLEwr~g~~~~iL~D~D~ts~~~~~wkrLNTL~HY~V~  100 (111)
T 4e71_A           24 DAIPVKVLNCDTISQVKEKIIDQVYR---GQPCSCWPRPDSVVLEWRPGSTAQILSDLDLTSQREGRWKRVNTLMHYNVR  100 (111)
T ss_dssp             CCEEEEEETTCBHHHHHHHHHHHHTC------------CCSEEEEEC--CCCEECCSSCTTSCC---CCCCCBHHHHTCC
T ss_pred             CceeeeeeccCcHHHHHHHHHHHHHc---CCccccCCCCCceeeEEecCCCCccccccCccceecCcceEecchhhcCCC
Confidence            56888899999999999998875433   5553      34667653    456655        1     489999999


Q ss_pred             CCCEEEEec
Q 044874          254 QGDTIEIFN  262 (269)
Q Consensus       254 ~~~~i~l~~  262 (269)
                      +|++|.+++
T Consensus       101 dgatl~l~~  109 (111)
T 4e71_A          101 DGATLILSK  109 (111)
T ss_dssp             TTCEEEEEE
T ss_pred             CCCEEEEEe
Confidence            999999875

>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=96.47  E-value=0.015  Score=42.66  Aligned_cols=73  Identities=16%  Similarity=0.150  Sum_probs=60.9

Q ss_pred             EEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEE--cCEEcC---CCCccccCCCCCCCEEEEEEecC
Q 044874            2 DVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVF--NGQVLQ---DDRDVEHCEILQNSRIQLLVASD   74 (269)
Q Consensus         2 ~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~--~G~~L~---d~~tL~~~~i~~~~~i~l~~~~~   74 (269)
                      +|-||..+|..+.-.++.++||.++.+-|....+.+.....|+.  ..+.+.   .+.+|.+.|+.+.+++++.....
T Consensus        15 ~IqIRlpdG~rl~~rF~~~~tl~~v~~fV~~~~~~~~~~f~L~t~fPrk~l~~~d~~~TL~elgL~psa~L~v~~~~~   92 (109)
T 2dzk_A           15 RIQFRLPDGSSFTNQFPSDAPLEEARQFAAQTVGNTYGNFSLATMFPRREFTREDYKRRLLDLELAPSASVVLLPAGR   92 (109)
T ss_dssp             EEEEECSSSCEEEEEECTTSBHHHHHHHHHHHHTTSSCSCEEECSSSCCBCCTTTTTSBTGGGTCSSEEEEEEECCSS
T ss_pred             EEEEECCCCCEEEEEeCCCCCHHHHHHHHHhccCCCCCceEEEcCCCCcCCcccccCCCHHHCCCCCceEEEEEECcC
Confidence            57889999999999999999999999999999887767777774  577775   36899999999988887765443

>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=96.42  E-value=0.034  Score=41.76  Aligned_cols=76  Identities=14%  Similarity=0.215  Sum_probs=61.4

Q ss_pred             cceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEE--ecCeee--c-CCCccccccCCCCCEE
Q 044874          184 RKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFI--YKQNVM--D-DDRSFRWHHVGQGDTI  258 (269)
Q Consensus       184 ~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~--~~g~~L--~-d~~tL~~~~i~~~~~i  258 (269)
                      ....|.|+.++| ..+.-....++||.+|+.-|...      +.+...+.|+  |-.+.|  + .+.||.+.|+.+..+|
T Consensus        42 ~~t~IqIRlPdG-~rl~~rF~~~~tl~~V~~fV~~~------~~~~~~F~L~t~fPrk~l~~~d~~~TL~e~gL~psa~L  114 (124)
T 1wj4_A           42 PKAQLMLRYPDG-KREQITLPEQAKLLALVKHVQSK------GYPNERFELLTNFPRRKLSHLDYDITLQEAGLCPQETV  114 (124)
T ss_dssp             CEEEEEEECTTS-CEEEEEEETTSCHHHHHHHHHHH------HCCTTTEEEECSSSCCEETSSCSSSCTTTTTCCSSBCC
T ss_pred             CcEEEEEECCCC-CEEEEEeCCCCCHHHHHHHHHhc------CCCCCCeEEecCCCCcCCccCCCCCCHHHCCCCCceEE
Confidence            457888998998 78888999999999999999874      4565667777  779999  3 3689999999998888


Q ss_pred             EEecCccc
Q 044874          259 EIFNGSVT  266 (269)
Q Consensus       259 ~l~~~~~~  266 (269)
                      +|-+.--+
T Consensus       115 iv~~~d~~  122 (124)
T 1wj4_A          115 FVQESGPS  122 (124)
T ss_dssp             EEEECCST
T ss_pred             EEEEccCC
Confidence            88754333

>2r2o_A Plexin-B1; effector domain, structural genomics, structural GEN consortium, SGC, glycoprotein, membrane, phosphorylation, R secreted, transmembrane; 2.00A {Homo sapiens} PDB: 2rex_A* 2jph_A

Probab=96.35  E-value=0.024  Score=43.01  Aligned_cols=65  Identities=15%  Similarity=0.292  Sum_probs=48.9

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCC------ceEEEe----cCe-eecCC-------------CccccccC
Q 044874          197 KRIPVEVNASDNVSELRKELQKLHQRYHFHLPQD------GYFFIY----KQN-VMDDD-------------RSFRWHHV  252 (269)
Q Consensus       197 ~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~------~q~l~~----~g~-~L~d~-------------~tL~~~~i  252 (269)
                      ..+.++|-.+|||..+|++|-+.-.   .|+|.+      ..-|.+    .|+ +|.|.             .||..|+|
T Consensus        41 ~~i~VkVLdCDTItQvKeKiLDavY---k~~PySqRP~~~d~dLEwr~g~~g~liL~D~D~tS~~~~~wkrLNTL~HY~V  117 (138)
T 2r2o_A           41 QGVPVKVLDCDTISQAKEKMLDQLY---KGVPLTQRPDPRTLDVEWRSGVAGHLILSDEDVTSEVQGLWRRLNTLQHYKV  117 (138)
T ss_dssp             CCEEEEEETTCBHHHHHHHHHHHHT---TTSCGGGCCCGGGEEEEEECSSSCEEEECSSSTTCCEETTEEECCBHHHHTC
T ss_pred             CceeEEEeccccHHHHHHHHHHHHH---cCCccccCCCccceeEEEecCCcCceEeeccCCcccccCCceeecchhccCC
Confidence            5788999999999999999988543   366643      355655    243 46663             49999999


Q ss_pred             CCCCEEEEecCc
Q 044874          253 GQGDTIEIFNGS  264 (269)
Q Consensus       253 ~~~~~i~l~~~~  264 (269)
                      .+|.+|.+++..
T Consensus       118 ~Dga~l~l~~~~  129 (138)
T 2r2o_A          118 PDGATVALVPCL  129 (138)
T ss_dssp             CTTCEEEEEEC-
T ss_pred             CCCCEEEEEECC
Confidence            999999998643

>2l32_A Small archaeal modifier protein 2; protein BIN; NMR {Haloferax volcanii}

Probab=96.35  E-value=0.013  Score=39.78  Aligned_cols=66  Identities=15%  Similarity=0.312  Sum_probs=49.9

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCcc
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSV  265 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~  265 (269)
                      |++.|+.. |...-.++++...||++|=+++         ++|++......+|+....+.      +.+||.|.++. .+
T Consensus         1 M~v~Vkl~-g~~~~~~ev~~g~Tv~dLL~~L---------gl~~~~VvV~vNG~~v~~d~------~l~GD~VeIv~-~V   63 (74)
T 2l32_A            1 MNVTVEVV-GEETSEVAVDDDGTYADLVRAV---------DLSPHEVTVLVDGRPVPEDQ------SVEVDRVKVLR-LI   63 (74)
T ss_dssp             CEEEEECS-SSSEEEEECSTTCSHHHHHHTT---------CCCSSCCCEECCCCCCCTTS------SSCCCCEEECS-SC
T ss_pred             CEEEEEEe-CccceeEEcCCCCcHHHHHHHc---------CCCcceEEEEECCEECCHHH------CCCCCEEEEEE-ee
Confidence            56777766 4355568999999999987544         99999888889999887776      34599999984 34


Q ss_pred             cCC
Q 044874          266 TGG  268 (269)
Q Consensus       266 ~~~  268 (269)
                      +||
T Consensus        64 ~G~   66 (74)
T 2l32_A           64 KGG   66 (74)
T ss_dssp             SCC
T ss_pred             ccc
Confidence            443

>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=96.28  E-value=0.015  Score=43.74  Aligned_cols=70  Identities=13%  Similarity=0.181  Sum_probs=59.1

Q ss_pred             EEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEE--cCEEc--C-CCCccccCCCCCCCEEEEEEe
Q 044874            2 DVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVF--NGQVL--Q-DDRDVEHCEILQNSRIQLLVA   72 (269)
Q Consensus         2 ~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~--~G~~L--~-d~~tL~~~~i~~~~~i~l~~~   72 (269)
                      +|-||..+|..+.-.+..++||.+|..-|... +.++....|+.  ..+.|  . .+.+|.+.|+.+.+++++...
T Consensus        45 ~IqIRlPdG~rl~~rF~~~~tl~~V~~fV~~~-~~~~~~F~L~t~fPrk~l~~~d~~~TL~e~gL~psa~Liv~~~  119 (124)
T 1wj4_A           45 QLMLRYPDGKREQITLPEQAKLLALVKHVQSK-GYPNERFELLTNFPRRKLSHLDYDITLQEAGLCPQETVFVQES  119 (124)
T ss_dssp             EEEEECTTSCEEEEEEETTSCHHHHHHHHHHH-HCCTTTEEEECSSSCCEETSSCSSSCTTTTTCCSSBCCEEEEC
T ss_pred             EEEEECCCCCEEEEEeCCCCCHHHHHHHHHhc-CCCCCCeEEecCCCCcCCccCCCCCCHHHCCCCCceEEEEEEc
Confidence            57889999999999999999999999999887 77777888874  57888  3 479999999999888877643

>1tyg_B YJBS; alpha beta barrel, protein-protein complex, THis, BIOS protein; 3.15A {Bacillus subtilis} SCOP: d.15.3.2

Probab=96.24  E-value=0.018  Score=40.41  Aligned_cols=73  Identities=19%  Similarity=0.281  Sum_probs=47.2

Q ss_pred             CCCCCcceeEEEEecCCCeEEEEEecCC-CcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCE
Q 044874          179 SGMGPRKLKLLVLTQCGNKRIPVEVNAS-DNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDT  257 (269)
Q Consensus       179 ~~~~~~~~~i~V~~~~g~~~~~l~v~~~-~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~  257 (269)
                      .|.....|+|.|   +| +.+  ++... .||.+|.+.+         +++.....+..+|..+..+ ...+.-+++||.
T Consensus        14 ~~~~~~~M~I~v---NG-e~~--el~~~~~Tv~dLL~~L---------~~~~~~vaVavNg~iV~~~-~~~~~~L~dGD~   77 (87)
T 1tyg_B           14 SGHIGGRHMLQL---NG-KDV--KWKKDTGTIQDLLASY---------QLENKIVIVERNKEIIGKE-RYHEVELCDRDV   77 (87)
T ss_dssp             --------CEEE---TT-EEE--CCSSSCCBHHHHHHHT---------TCTTSCCEEEETTEEECGG-GTTTSBCCSSSE
T ss_pred             CCCCCcceEEEE---CC-EEE--ECCCCCCcHHHHHHHh---------CCCCCCEEEEECCEECChh-hcCCcCCCCCCE
Confidence            344556687777   45 544  56666 8999998765         5666667777899988644 455678999999


Q ss_pred             EEEecCcccCC
Q 044874          258 IEIFNGSVTGG  268 (269)
Q Consensus       258 i~l~~~~~~~~  268 (269)
                      |.++. .|+||
T Consensus        78 Vei~~-~V~GG   87 (87)
T 1tyg_B           78 IEIVH-FVGGG   87 (87)
T ss_dssp             EEEEE-ECCC-
T ss_pred             EEEEc-ccccC
Confidence            99996 56655

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

Probab=96.22  E-value=0.028  Score=41.13  Aligned_cols=72  Identities=10%  Similarity=0.076  Sum_probs=59.1

Q ss_pred             CcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEE--ecCeeec--CCCccccccCCCCCEE
Q 044874          183 PRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFI--YKQNVMD--DDRSFRWHHVGQGDTI  258 (269)
Q Consensus       183 ~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~--~~g~~L~--d~~tL~~~~i~~~~~i  258 (269)
                      ....+|.|+.++| ..+.-....++||.+|..-|...      +.....+.|+  |-.+.|.  .+.||.+.|+.+..+|
T Consensus        21 ~~~~~IqiRlpdG-~r~~rrF~~~~tl~~v~~fv~~~------~~~~~~f~L~t~fPrk~l~~d~~~TL~e~gL~p~a~L   93 (109)
T 2cr5_A           21 EEVVTVALRCPNG-RVLRRRFFKSWNSQVLLDWMMKV------GYHKSLYRLSTSFPRRALEVEGGSSLEDIGITVDTVL   93 (109)
T ss_dssp             SSEEEEEEECTTS-CEEEEEEESSSBTHHHHHHHHHH------TCCTTTEEEECSSSCCBCCCCSSCBHHHHTCSSCEEE
T ss_pred             CCcEEEEEECCCC-CEEEEEeCCCCCHHHHHHHHHhc------CCCCCCeEEEeCCCCcCCCCCCCCCHHHcCCCCCeEE
Confidence            3468889999999 77878889999999999999875      4555567776  7788886  4689999999999998


Q ss_pred             EEe
Q 044874          259 EIF  261 (269)
Q Consensus       259 ~l~  261 (269)
                      +|-
T Consensus        94 ~Ve   96 (109)
T 2cr5_A           94 NVE   96 (109)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            875

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

Probab=95.88  E-value=0.053  Score=37.44  Aligned_cols=70  Identities=10%  Similarity=0.135  Sum_probs=58.4

Q ss_pred             cceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEE---ecCeeecCCCccccccCCCCCEEEE
Q 044874          184 RKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFI---YKQNVMDDDRSFRWHHVGQGDTIEI  260 (269)
Q Consensus       184 ~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~---~~g~~L~d~~tL~~~~i~~~~~i~l  260 (269)
                      +...+.|+-... ...-+.|++.-+..+|-..|+++.     .+.++...|.   -.+.+|+=+++|.+|||++   +|.
T Consensus         9 ~TvRLvVNy~~t-QKtVvRVSP~vpL~ellp~IC~Kc-----efdp~~~~Ll~d~~~~e~LdLskSLndlgirE---Lya   79 (91)
T 2daj_A            9 KTVRVVINFKKT-QKTIVRVSPHASLQELAPIICSKC-----EFDPLHTLLLKDYQSQEPLDLTKSLNDLGLRE---LYA   79 (91)
T ss_dssp             SCEEEEEEETTT-EEEEEEECSSSCTTTHHHHHHHHT-----TCCTTSEEEESCSSCCCBCCTTSCHHHHTCSE---EEE
T ss_pred             cEEEEEEeecCc-ceeEEEeCCCCcHHHHHHHHhhcc-----cCChhhEEEecCCCCCcccchhcchhhhhhhh---hhe
Confidence            457888887765 777789999999999999999987     7888877776   3467889899999999997   777


Q ss_pred             ec
Q 044874          261 FN  262 (269)
Q Consensus       261 ~~  262 (269)
                      +.
T Consensus        80 ~d   81 (91)
T 2daj_A           80 MD   81 (91)
T ss_dssp             EE
T ss_pred             ec
Confidence            64

>4e74_A Plexin-A4; RBD, structural genomics, structural genomics consor SGC, signaling protein; 1.58A {Homo sapiens} PDB: 3q3j_A*

Probab=95.59  E-value=0.071  Score=39.38  Aligned_cols=65  Identities=12%  Similarity=0.381  Sum_probs=48.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCC------ceEEEe-cCe----eecC---------C----CccccccC
Q 044874          197 KRIPVEVNASDNVSELRKELQKLHQRYHFHLPQD------GYFFIY-KQN----VMDD---------D----RSFRWHHV  252 (269)
Q Consensus       197 ~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~------~q~l~~-~g~----~L~d---------~----~tL~~~~i  252 (269)
                      ..+.++|-.+|||..+|++|-+.-.+   +.|.+      .+.|.+ .|.    +|.|         +    +||.+|+|
T Consensus        27 ~~i~VkVLdCDTItQvKeKiLd~vyk---~~p~S~rP~~~~~dLEwr~g~~~~~iL~D~D~ts~~~~~wkrLNTL~HY~V  103 (117)
T 4e74_A           27 PEVPVKILNCDTITQVKEKILDAIFK---NVPCSHRPKAADMDLEWRQGSGARMILQDEDITTKIENDWKRLNTLAHYQV  103 (117)
T ss_dssp             CCEEEEEETTSBHHHHHHHHHHHHTT---TSCGGGSCCGGGEEEEEECTTSCEEEECSSSTTCCC---CCCCCBHHHHTC
T ss_pred             CceEeeeecCCchHHHHHHHHHHHhc---CCCcccCCCCCceeEEEecCCCCceEeecCCCccEecCcceEeccccccCC
Confidence            45888899999999999998875433   55533      466665 332    3554         1    48999999


Q ss_pred             CCCCEEEEecCc
Q 044874          253 GQGDTIEIFNGS  264 (269)
Q Consensus       253 ~~~~~i~l~~~~  264 (269)
                      .+|.++.+++.-
T Consensus       104 ~dgatl~l~~~~  115 (117)
T 4e74_A          104 PDGSVVALVSKQ  115 (117)
T ss_dssp             CTTCEEEEEECC
T ss_pred             CCCCEEEEEeCC
Confidence            999999998754

>3h6n_A Plexin-D1; structural genomics consortium, SGC, membrane, transmembrane, receptor, alternative splicing, cell membrane, glycoprotein, polymorphism; 2.00A {Homo sapiens}

Probab=95.32  E-value=0.15  Score=38.07  Aligned_cols=64  Identities=8%  Similarity=0.259  Sum_probs=48.1

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhhhccCCCCCC------CceEEEec-C---e-eecC---------C----CccccccC
Q 044874          197 KRIPVEVNASDNVSELRKELQKLHQRYHFHLPQ------DGYFFIYK-Q---N-VMDD---------D----RSFRWHHV  252 (269)
Q Consensus       197 ~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~------~~q~l~~~-g---~-~L~d---------~----~tL~~~~i  252 (269)
                      ..+.++|-.+|||..+|++|-+.-.+   +.|.      +.+.|.++ |   + +|.|         +    +||.+|+|
T Consensus        17 ~~i~VkVLdCDTItQvKeKiLd~vyk---~~p~S~rP~~~~~dLEwr~g~~~~~iL~D~D~ts~~~~~~krLNTL~HY~V   93 (127)
T 3h6n_A           17 DSLSVRAMDTDTLTQVKEKILEAFCK---NVPYSQWPRAEDVDLEWFASSTQSYILRDLDDTSVVEDGRKKLNTLAHYKI   93 (127)
T ss_dssp             CCEEEEEETTSBHHHHHHHHHHHHST---TSCGGGSCCGGGEEEEEECSSSCEEECCSSSTTSCEETTEECCCBTTTTTC
T ss_pred             CceeeeeeccCchhhhhHHHHHHHhc---cCCcccCCCCcccceEEecCCCCceEeecCCCcceecCceeEeccccccCC
Confidence            56888999999999999998875432   5553      45677762 3   3 3655         1    59999999


Q ss_pred             CCCCEEEEecC
Q 044874          253 GQGDTIEIFNG  263 (269)
Q Consensus       253 ~~~~~i~l~~~  263 (269)
                      .+|.+|.+++.
T Consensus        94 ~dgatv~l~~~  104 (127)
T 3h6n_A           94 PEGASLAMSLI  104 (127)
T ss_dssp             CTTCEEEEEEC
T ss_pred             CCCCEEEEEEc
Confidence            99999999853

>4e71_A Plexin-B2, MM1; transmembrane, signaling, RBD, structural genomics consortium, SGC, signaling protein; 2.26A {Homo sapiens}

Probab=95.30  E-value=0.12  Score=37.67  Aligned_cols=62  Identities=26%  Similarity=0.323  Sum_probs=44.7

Q ss_pred             CCEEEEEEcCCCCHHHHHHHHHHHh--CCCC------CcEEEEEc----CEEcCCC-------------CccccCCCCCC
Q 044874           10 GKAFTIEVGFFDTVLEIKEKIEKYQ--GIPV------PKQTLVFN----GQVLQDD-------------RDVEHCEILQN   64 (269)
Q Consensus        10 g~~~~l~v~~~~tV~~lK~~I~~~~--gi~~------~~q~L~~~----G~~L~d~-------------~tL~~~~i~~~   64 (269)
                      +..+.+.|-.-|||.++|++|.+..  |.|.      +...|-+.    |+.|.|.             .||+.|+|.+|
T Consensus        23 ~~~i~vkVLdCDTItQvKeKiLd~vyk~~pyS~rP~~~~~dLEwr~g~~~~iL~D~D~ts~~~~~wkrLNTL~HY~V~dg  102 (111)
T 4e71_A           23 VDAIPVKVLNCDTISQVKEKIIDQVYRGQPCSCWPRPDSVVLEWRPGSTAQILSDLDLTSQREGRWKRVNTLMHYNVRDG  102 (111)
T ss_dssp             CCCEEEEEETTCBHHHHHHHHHHHHTC---------CCSEEEEEC--CCCEECCSSCTTSCC---CCCCCBHHHHTCCTT
T ss_pred             CCceeeeeeccCcHHHHHHHHHHHHHcCCccccCCCCCceeeEEecCCCCccccccCccceecCcceEecchhhcCCCCC
Confidence            4568888889999999999998873  4443      34456552    5566552             58999999999


Q ss_pred             CEEEEEE
Q 044874           65 SRIQLLV   71 (269)
Q Consensus        65 ~~i~l~~   71 (269)
                      +++-|.-
T Consensus       103 atl~l~~  109 (111)
T 4e71_A          103 ATLILSK  109 (111)
T ss_dssp             CEEEEEE
T ss_pred             CEEEEEe
Confidence            9998764

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

Probab=95.27  E-value=0.069  Score=39.03  Aligned_cols=70  Identities=11%  Similarity=0.033  Sum_probs=57.8

Q ss_pred             EEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEE--cCEEcC--CCCccccCCCCCCCEEEEEEe
Q 044874            2 DVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVF--NGQVLQ--DDRDVEHCEILQNSRIQLLVA   72 (269)
Q Consensus         2 ~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~--~G~~L~--d~~tL~~~~i~~~~~i~l~~~   72 (269)
                      +|-||..+|+.+.-.+..++||.+|..-|... +..+....|+.  -.+.|.  .+.+|.+.|+.+.++++|...
T Consensus        25 ~IqiRlpdG~r~~rrF~~~~tl~~v~~fv~~~-~~~~~~f~L~t~fPrk~l~~d~~~TL~e~gL~p~a~L~Ve~~   98 (109)
T 2cr5_A           25 TVALRCPNGRVLRRRFFKSWNSQVLLDWMMKV-GYHKSLYRLSTSFPRRALEVEGGSSLEDIGITVDTVLNVEEK   98 (109)
T ss_dssp             EEEEECTTSCEEEEEEESSSBTHHHHHHHHHH-TCCTTTEEEECSSSCCBCCCCSSCBHHHHTCSSCEEEEEEEC
T ss_pred             EEEEECCCCCEEEEEeCCCCCHHHHHHHHHhc-CCCCCCeEEEeCCCCcCCCCCCCCCHHHcCCCCCeEEEEEeC
Confidence            57889999999888999999999999999965 55666777764  477775  479999999999988877654

>2l32_A Small archaeal modifier protein 2; protein BIN; NMR {Haloferax volcanii}

Probab=95.17  E-value=0.046  Score=37.06  Aligned_cols=67  Identities=15%  Similarity=0.200  Sum_probs=51.0

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKP   77 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~   77 (269)
                      |+|+|+..+.....++++...|+++|-+.    .|+++..--+..||+.+..+.      +.+|+.+.++---.||.
T Consensus         1 M~v~Vkl~g~~~~~~ev~~g~Tv~dLL~~----Lgl~~~~VvV~vNG~~v~~d~------~l~GD~VeIv~~V~G~~   67 (74)
T 2l32_A            1 MNVTVEVVGEETSEVAVDDDGTYADLVRA----VDLSPHEVTVLVDGRPVPEDQ------SVEVDRVKVLRLIKGGL   67 (74)
T ss_dssp             CEEEEECSSSSEEEEECSTTCSHHHHHHT----TCCCSSCCCEECCCCCCCTTS------SSCCCCEEECSSCSCC-
T ss_pred             CEEEEEEeCccceeEEcCCCCcHHHHHHH----cCCCcceEEEEECCEECCHHH------CCCCCEEEEEEeecccc
Confidence            89999987666677899999999988765    899999887778998876555      23488888765555543

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

Probab=95.04  E-value=0.076  Score=49.74  Aligned_cols=143  Identities=13%  Similarity=0.134  Sum_probs=91.0

Q ss_pred             cCCcchHHHHHHhhhhhcCCCCcceEEEe----CCee----e-----ccCCcccccCC-CCCCEEEEEEccCCCCCC--C
Q 044874          113 MDVNDTVLRLKEKIHEMESIPVNRLLVQS----SGAE----L-----QDHRSLRDCEL-MDNAEIDVHVRPSPTATS--T  176 (269)
Q Consensus       113 v~~~~TV~~lK~~I~~~~gip~~~q~L~~----~g~~----L-----~d~~~L~~y~i-~~~~~i~l~~~~~~~~~~--~  176 (269)
                      .....|+.+|+++|++..|+|+++|||-.    .++-    +     ....++.++.- .+.-+|.|.+.......+  .
T Consensus        42 v~k~~~~~~l~~~va~~lg~~~~~~RlW~~~~RqN~T~Rp~~~~~~~~~~~~~~~~~~~~~~~~lflE~~~~~~~~~~~~  121 (530)
T 2ylm_A           42 VLKNSSLAEFVQSLSQTMGFPQDQIRLWPMQARSNGTKRPAMLDNEADGNKTMIELSDNENPWTIFLETVDPELAASGAT  121 (530)
T ss_dssp             EETTSBHHHHHHHHHHHHTSCGGGEEEEEEEECTTSCEEECCCCHHHHTTSBHHHHHTSCSSEEEEEEECCHHHHTTTCC
T ss_pred             EcCcCCHHHHHHHHHHHhCcCcccEEEEEEEcCCCCccCCccCCccccHHHHHHHHhccCCceEEEEEecccccCCcccc
Confidence            34588999999999999999999999963    1211    1     11223333321 223445554321100000  0


Q ss_pred             CCCCCCCcceeEEEEecCC-CeEEE----EEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEec------Ceeec-CC
Q 044874          177 TSSGMGPRKLKLLVLTQCG-NKRIP----VEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYK------QNVMD-DD  244 (269)
Q Consensus       177 ~~~~~~~~~~~i~V~~~~g-~~~~~----l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~------g~~L~-d~  244 (269)
                      .++-.....+-||+|-.+- .+++.    +-|+..++|.+|-..|.++-     |+|++.-...|.      -..|+ .+
T Consensus       122 l~~~~~~~~iLlFlK~yDp~~q~L~~~G~~~v~~~~kv~~l~~~i~~~~-----g~p~dt~l~lyEEi~~~~ie~l~~~~  196 (530)
T 2ylm_A          122 LPKFDKDHDVMLFLKMYDPKTRSLNYCGHIYTPISCKIRDLLPVMCDRA-----GFIQDTSLILYEEVKPNLTERIQDYD  196 (530)
T ss_dssp             CCCCCTTTEEEEEEEEEETTTTEEEEEEEEEEETTCBGGGTHHHHHHHH-----TCCTTCCEEEEEEEETTEEEECCCSS
T ss_pred             CCCCCCCCcEEEEEEeeCCCCCEEEEEEEEEECCCCCHHHHHHHHHHHc-----CCCCCCceEEEEecCCCceeEccccc
Confidence            0111223458888887653 13443    58899999999999999985     999997666665      23456 57


Q ss_pred             Cccccc--cCCCCCEEEE
Q 044874          245 RSFRWH--HVGQGDTIEI  260 (269)
Q Consensus       245 ~tL~~~--~i~~~~~i~l  260 (269)
                      .|+.++  .+.+||+|.+
T Consensus       197 ~t~~~~~~eL~~GdII~f  214 (530)
T 2ylm_A          197 VSLDKALDELMDGDIIVF  214 (530)
T ss_dssp             SBHHHHSTTCCTTEEEEE
T ss_pred             ccHHHHHhcccCCCEEEE
Confidence            799999  9999998654

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

Probab=95.00  E-value=0.042  Score=37.91  Aligned_cols=62  Identities=10%  Similarity=0.088  Sum_probs=53.9

Q ss_pred             EEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEc---CEEcCCCCccccCCCCC
Q 044874            2 DVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFN---GQVLQDDRDVEHCEILQ   63 (269)
Q Consensus         2 ~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~---G~~L~d~~tL~~~~i~~   63 (269)
                      ++.|.....+...+.|+|..++.+|--.|.++..+.|+.--|.-.   +..|+-+++|.+|||++
T Consensus        12 RLvVNy~~tQKtVvRVSP~vpL~ellp~IC~Kcefdp~~~~Ll~d~~~~e~LdLskSLndlgirE   76 (91)
T 2daj_A           12 RVVINFKKTQKTIVRVSPHASLQELAPIICSKCEFDPLHTLLLKDYQSQEPLDLTKSLNDLGLRE   76 (91)
T ss_dssp             EEEEEETTTEEEEEEECSSSCTTTHHHHHHHHTTCCTTSEEEESCSSCCCBCCTTSCHHHHTCSE
T ss_pred             EEEEeecCcceeEEEeCCCCcHHHHHHHHhhcccCChhhEEEecCCCCCcccchhcchhhhhhhh
Confidence            456666667788899999999999999999999999998888754   56789999999999986

>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=94.97  E-value=0.14  Score=42.48  Aligned_cols=65  Identities=15%  Similarity=0.239  Sum_probs=55.1

Q ss_pred             EEEEEcCCCCHHHHHHHHHHHhCCCCC-cEEEEE-c----CEEcCC-CCccccCCCCCCCEEEEEEecCCCC
Q 044874           13 FTIEVGFFDTVLEIKEKIEKYQGIPVP-KQTLVF-N----GQVLQD-DRDVEHCEILQNSRIQLLVASDNKP   77 (269)
Q Consensus        13 ~~l~v~~~~tV~~lK~~I~~~~gi~~~-~q~L~~-~----G~~L~d-~~tL~~~~i~~~~~i~l~~~~~~g~   77 (269)
                      +++.++..+||.+|++++...++++++ ..||.. .    ...|.| +.+|.++++.++..|.+-++..+|-
T Consensus       154 ~~~~~Sk~~ti~~l~~~~~~~~~i~~~~~~RLW~~~~~~~~~~L~~~~~tl~d~~L~~~Q~illE~r~~dg~  225 (231)
T 3jyu_A          154 LSCHFSKADTIATIEKEMRKLFNIPAERETRLWNKYMSNTYEQLSKLDNTIQDAGLYQGQVLVIEPQNEDGT  225 (231)
T ss_dssp             EEEEECTTCBHHHHHHHHHHHTTCCTTSCEEEEECSSSSSCEECCCTTSBTTTTTCCTTEEEEEEECCTTSC
T ss_pred             EEEEecccCcHHHHHHHHHHHhCCCCCCeEEEEEecCCCCHhhhcCCCCCHHHhCCCCCCEEEEEEecCCCC
Confidence            556779999999999999999999997 588875 2    335665 6899999999999999999988773

>1s3s_G P47 protein; AAA ATPase, protein-protein complex, UBX domain, protein binding; HET: ADP; 2.90A {Rattus norvegicus} SCOP: d.15.1.2 PDB: 1i42_A 1jru_A

Probab=94.96  E-value=0.11  Score=39.13  Aligned_cols=67  Identities=12%  Similarity=0.212  Sum_probs=54.6

Q ss_pred             EEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHh-CCCCCcEEEEE--cCEEcCC-CCccccCCCCCCCEEE
Q 044874            2 DVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQ-GIPVPKQTLVF--NGQVLQD-DRDVEHCEILQNSRIQ   68 (269)
Q Consensus         2 ~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~-gi~~~~q~L~~--~G~~L~d-~~tL~~~~i~~~~~i~   68 (269)
                      +|-||..+|..+.-.++.++||.+|.+-|.... +.+.....|+.  -.+.|.| +.+|.+.|+.+.+++.
T Consensus        54 ~IqIRlpdG~rl~~rF~~~~tl~~v~~fV~~~~~~~~~~~f~L~t~fPrk~l~d~~~TL~eagL~psavl~  124 (127)
T 1s3s_G           54 NIQIRLADGGRLVQKFNHSHRISDIRLFIVDARPAMAATSFVLMTTFPNKELADENQTLKEANLLNAVIVQ  124 (127)
T ss_dssp             CEEEEETTTTEEEEECCSSCBHHHHHHHHHHHCSGGGTSCEEEEETTTTEECCSTTCBHHHHTCSSCEEEE
T ss_pred             EEEEECCCCCEEEEEeCCCCCHHHHHHHHHHhCcCCCCCCeEEecCCCCCCCCCCCCcHHHCCCcCceEEE
Confidence            578899999999999999999999999999874 35556678875  4788865 6999999999855443

>2k5p_A THis protein, thiamine-biosynthesis protein; NESG, GMR137, structural genomics, PSI-2, protein structure initiative; NMR {Geobacter metallireducens gs-15} PDB: 3cwi_A

Probab=94.87  E-value=0.063  Score=36.77  Aligned_cols=62  Identities=27%  Similarity=0.391  Sum_probs=46.1

Q ss_pred             CCCeEEEEEec--CCCcHHHHHHHHHHhhhccCCCCC-CCceEEEecCeeecCCCccccccCCCCCEEEEecCcccCCC
Q 044874          194 CGNKRIPVEVN--ASDNVSELRKELQKLHQRYHFHLP-QDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSVTGGS  269 (269)
Q Consensus       194 ~g~~~~~l~v~--~~~tV~~lK~~i~~~~~~~~~~~p-~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~~~~~  269 (269)
                      +| +..  ++.  ...||.+|-+++         +++ +....+..+|.++.-+ ...++-+++||.|.|+. .|.||+
T Consensus         6 NG-e~~--e~~~~~~~Tl~~LL~~l---------~~~~~~~vAVavNg~iVpr~-~~~~~~L~dGD~IEIv~-~VgGG~   70 (78)
T 2k5p_A            6 NG-KPS--TVDGAESLNVTELLSAL---------KVAQAEYVTVELNGEVLERE-AFDATTVKDGDAVEFLY-FMGGGK   70 (78)
T ss_dssp             TT-EEE--ECSSCSCEEHHHHHHHH---------TCSCTTTCCEEETTEECCTT-HHHHCEECSSBCEEECC-CCCCSC
T ss_pred             CC-EEE--EcCCCCCCcHHHHHHHc---------CCCCCCcEEEEECCEECChH-HcCcccCCCCCEEEEEe-eecCCC
Confidence            45 544  455  668999987654         677 7677788999998654 66778899999999985 566664

>3rpf_C Molybdopterin converting factor, subunit 1 (MOAD); MCSG, PSI-biology, structural genomics, midwest center for S genomics, transferase; 1.90A {Helicobacter pylori}

Probab=94.79  E-value=0.17  Score=33.93  Aligned_cols=57  Identities=23%  Similarity=0.376  Sum_probs=39.1

Q ss_pred             EEecCCCcHHHHHHHHHHhhhccCCCCCC--CceEEEecCeeecCCCccccccCCCCCEEEEecCcccCC
Q 044874          201 VEVNASDNVSELRKELQKLHQRYHFHLPQ--DGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSVTGG  268 (269)
Q Consensus       201 l~v~~~~tV~~lK~~i~~~~~~~~~~~p~--~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~~~~  268 (269)
                      +++ ...||.+|.+.+..+.     ++..  ....+.-||+...+    .++-+++||.|.+++ .++||
T Consensus        16 ~e~-~~~tv~~ll~~L~~~~-----~l~~~l~~~~vavN~~~v~~----~~~~l~~gDeV~i~P-pvsGG   74 (74)
T 3rpf_C           16 FFI-KANDLKELRAILQEKE-----GLKEWLGVCAIALNDHLIDN----LNTPLKDGDVISLLP-PVCGG   74 (74)
T ss_dssp             EEE-ECSSHHHHHHHHHTCT-----TTTTTTTTCEEEESSSEECC----TTCCCCTTCEEEEEC-CBCCC
T ss_pred             Eee-CCCcHHHHHHHHHHCc-----CHHHHhhccEEEECCEEcCC----CCcCCCCCCEEEEEC-CCCCC
Confidence            556 5689999999998642     2321  33455567776543    356799999999987 56665

>4a3p_A Ubiquitin carboxyl-terminal hydrolase 15; 1.40A {Homo sapiens} PDB: 4a3o_A 3pv1_A 3ppa_A* 3t9l_A 3lmn_A

Probab=94.74  E-value=0.11  Score=42.79  Aligned_cols=65  Identities=18%  Similarity=0.236  Sum_probs=53.8

Q ss_pred             EEEEEEcCCCCHHHHHHHHHHHhCCCCC-cEEEEE---cC--EEcCC-CCccccCCCCCCCEEEEEEecCCC
Q 044874           12 AFTIEVGFFDTVLEIKEKIEKYQGIPVP-KQTLVF---NG--QVLQD-DRDVEHCEILQNSRIQLLVASDNK   76 (269)
Q Consensus        12 ~~~l~v~~~~tV~~lK~~I~~~~gi~~~-~q~L~~---~G--~~L~d-~~tL~~~~i~~~~~i~l~~~~~~g   76 (269)
                      .+++.++..+||.+|++++...++++++ ..||..   .+  ..|.+ +.+|.++++.++..|.+-++..+|
T Consensus       141 ~~~~~~Sk~~ti~~l~~~~~~~~~i~~~~~~RlW~~~~~~~~~~L~~~~~tl~~~~l~~~Q~illE~r~~dg  212 (217)
T 4a3p_A          141 VVTRRFSKADTIDTIEKEIRKIFSIPDEKETRLWNKYMSNTFEPLNKPDSTIQDAGLYQGQVLVIEQKNEDG  212 (217)
T ss_dssp             EEEEEECTTSBHHHHHHHHHHHTTCCTTSCEEEEEEEETTEEEECCCTTSBHHHHTCCTTCEEEEEECCCC-
T ss_pred             ceEEEEcccchHHHHHHHHHHHhCCCCCCceEEEEecCCCCeeecCCCCCCHHHhCCCCCCEEEEEEecCCC
Confidence            3667889999999999999999999987 578753   23  34655 579999999999999999998776

>3kuz_A Plexin-C1; structural genomics, structural genomics consortium, SGC; 2.30A {Homo sapiens}

Probab=94.73  E-value=0.51  Score=35.07  Aligned_cols=65  Identities=15%  Similarity=0.301  Sum_probs=45.1

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhhhccCCCCCC----CceEEEec-C---eee----------cCC----CccccccCCC
Q 044874          197 KRIPVEVNASDNVSELRKELQKLHQRYHFHLPQ----DGYFFIYK-Q---NVM----------DDD----RSFRWHHVGQ  254 (269)
Q Consensus       197 ~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~----~~q~l~~~-g---~~L----------~d~----~tL~~~~i~~  254 (269)
                      ..+.++|-.+|||..+|++|-+.-.+ ..++|.    +.+.|.++ |   .+|          +++    .||+.|+|.+
T Consensus        39 ~~v~VkVLdCDTItQVKEKILdavYk-~k~~pys~r~~d~dLEwr~g~~~~~L~D~D~tS~~~e~~wkrLNTL~HY~V~D  117 (126)
T 3kuz_A           39 RNISVNVLDCDTIGQAKEKIFQAFLS-KNGSPYGLQLNEIGLELQMGTRQKELLDIDSSSVILEDGITKLNTIGHYEISN  117 (126)
T ss_dssp             CEEEEEEETTCBHHHHHHHHHHHHHH-HHSSCCSSCGGGEEEEEEETTEEEEECSSCTTCCBCTTSCBCCCBTGGGTCCT
T ss_pred             CceEeeeecCCcHHHHHHHHHHHHhc-cCCCcCCCCccccceEEecCCCcceeeccCCcceEecCCeeEeccccccCCCC
Confidence            56888899999999999998774321 025554    34555542 2   233          232    4889999999


Q ss_pred             CCEEEEec
Q 044874          255 GDTIEIFN  262 (269)
Q Consensus       255 ~~~i~l~~  262 (269)
                      |++|.+++
T Consensus       118 gatlal~k  125 (126)
T 3kuz_A          118 GSTIKVFK  125 (126)
T ss_dssp             TCEEEEEE
T ss_pred             CCEEEEee
Confidence            99999875

>1s3s_G P47 protein; AAA ATPase, protein-protein complex, UBX domain, protein binding; HET: ADP; 2.90A {Rattus norvegicus} SCOP: d.15.1.2 PDB: 1i42_A 1jru_A

Probab=94.54  E-value=0.11  Score=39.07  Aligned_cols=69  Identities=10%  Similarity=0.236  Sum_probs=54.5

Q ss_pred             ceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEE--ecCeeecC-CCccccccCCCCCEE
Q 044874          185 KLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFI--YKQNVMDD-DRSFRWHHVGQGDTI  258 (269)
Q Consensus       185 ~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~--~~g~~L~d-~~tL~~~~i~~~~~i  258 (269)
                      ...|.|+..+| ..+.-..+.++||.+|++-|....    -+.....+.|+  |-.+.++| +.||.+.|+.+..+|
T Consensus        52 ~t~IqIRlpdG-~rl~~rF~~~~tl~~v~~fV~~~~----~~~~~~~f~L~t~fPrk~l~d~~~TL~eagL~psavl  123 (127)
T 1s3s_G           52 TTNIQIRLADG-GRLVQKFNHSHRISDIRLFIVDAR----PAMAATSFVLMTTFPNKELADENQTLKEANLLNAVIV  123 (127)
T ss_dssp             CCCEEEEETTT-TEEEEECCSSCBHHHHHHHHHHHC----SGGGTSCEEEEETTTTEECCSTTCBHHHHTCSSCEEE
T ss_pred             cEEEEEECCCC-CEEEEEeCCCCCHHHHHHHHHHhC----cCCCCCCeEEecCCCCCCCCCCCCcHHHCCCcCceEE
Confidence            46888888998 778889999999999999998852    13444567776  77899976 589999999985544

>3h6n_A Plexin-D1; structural genomics consortium, SGC, membrane, transmembrane, receptor, alternative splicing, cell membrane, glycoprotein, polymorphism; 2.00A {Homo sapiens}

Probab=94.11  E-value=0.52  Score=35.15  Aligned_cols=66  Identities=18%  Similarity=0.260  Sum_probs=48.7

Q ss_pred             CCCEEEEEEcCCCCHHHHHHHHHHHh--CCCC------CcEEEEE-c---CEE-cCCC-------------CccccCCCC
Q 044874            9 RGKAFTIEVGFFDTVLEIKEKIEKYQ--GIPV------PKQTLVF-N---GQV-LQDD-------------RDVEHCEIL   62 (269)
Q Consensus         9 ~g~~~~l~v~~~~tV~~lK~~I~~~~--gi~~------~~q~L~~-~---G~~-L~d~-------------~tL~~~~i~   62 (269)
                      ++..+.+.|-.-|||.++|++|.+..  +.|.      +...|-+ .   |.. |.|.             .||+.|+|.
T Consensus        15 ~~~~i~VkVLdCDTItQvKeKiLd~vyk~~p~S~rP~~~~~dLEwr~g~~~~~iL~D~D~ts~~~~~~krLNTL~HY~V~   94 (127)
T 3h6n_A           15 GMDSLSVRAMDTDTLTQVKEKILEAFCKNVPYSQWPRAEDVDLEWFASSTQSYILRDLDDTSVVEDGRKKLNTLAHYKIP   94 (127)
T ss_dssp             CCCCEEEEEETTSBHHHHHHHHHHHHSTTSCGGGSCCGGGEEEEEECSSSCEEECCSSSTTSCEETTEECCCBTTTTTCC
T ss_pred             CCCceeeeeeccCchhhhhHHHHHHHhccCCcccCCCCcccceEEecCCCCceEeecCCCcceecCceeEeccccccCCC
Confidence            45568888889999999999998873  4443      4566666 2   443 6542             689999999


Q ss_pred             CCCEEEEEEecC
Q 044874           63 QNSRIQLLVASD   74 (269)
Q Consensus        63 ~~~~i~l~~~~~   74 (269)
                      +|+++.|..+..
T Consensus        95 dgatv~l~~~~~  106 (127)
T 3h6n_A           95 EGASLAMSLIDK  106 (127)
T ss_dssp             TTCEEEEEECC-
T ss_pred             CCCEEEEEEccc
Confidence            999999886543

>1ryj_A Unknown; beta/alpha protein, structural genomics, protein structure initiative, OCSP, NESG, PSI; NMR {Methanothermococcusthermolithotrophicus} SCOP: d.15.3.2

Probab=94.07  E-value=0.48  Score=31.38  Aligned_cols=66  Identities=18%  Similarity=0.280  Sum_probs=48.3

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNK   76 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g   76 (269)
                      |+|+|.... ....+++....|+.+|.+.+    ++++....+..+|..+..+.     -+++|+.|.++-...||
T Consensus         5 m~i~vNg~~-~~~~~~~~~~~tv~~Ll~~l----~~~~~~v~vavN~~~v~~~~-----~L~~gD~V~ii~~V~GG   70 (70)
T 1ryj_A            5 MKFTVITDD-GKKILESGAPRRIKDVLGEL----EIPIETVVVKKNGQIVIDEE-----EIFDGDIIEVIRVIYGG   70 (70)
T ss_dssp             EEEEEEETT-EEEEEEESSCCBHHHHHHHT----TCCTTTEEEEETTEECCTTS-----BCCTTCEEEEEECTTCC
T ss_pred             EEEEEeCcc-CceeEECCCCCcHHHHHHHh----CCCCCCEEEEECCEECCCcc-----cCCCCCEEEEEeccccC
Confidence            677776543 23456777889999998875    67777778889999887654     57789999887655443

>1vjk_A Molybdopterin converting factor, subunit 1; structural genomics, PSI, protein structure INI southeast collaboratory for structural genomics; 1.51A {Pyrococcus furiosus} SCOP: d.15.3.1

Probab=94.01  E-value=0.45  Score=33.73  Aligned_cols=77  Identities=19%  Similarity=0.320  Sum_probs=48.2

Q ss_pred             eeEEEEecC------CCeEEEEEecCCCcHHHHHHHHHHhhhccCCCC------CCCceEEEecCeeecCCCccccccCC
Q 044874          186 LKLLVLTQC------GNKRIPVEVNASDNVSELRKELQKLHQRYHFHL------PQDGYFFIYKQNVMDDDRSFRWHHVG  253 (269)
Q Consensus       186 ~~i~V~~~~------g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~------p~~~q~l~~~g~~L~d~~tL~~~~i~  253 (269)
                      |+|.|+-..      |.....+++....||.+|.+.+........--+      ......+.-||+....     ++-++
T Consensus        10 ~~v~V~~FA~lre~~g~~~~~~e~~~~~Tv~~Ll~~L~~~~p~l~~~l~~~~g~~~~~v~v~VNg~~v~~-----~~~L~   84 (98)
T 1vjk_A           10 VKVKVKYFARFRQLAGVDEEEIELPEGARVRDLIEEIKKRHEKFKEEVFGEGYDEDADVNIAVNGRYVSW-----DEELK   84 (98)
T ss_dssp             EEEEEEECTHHHHHHSSSEEEEEECTTCBHHHHHHHHHHHCGGGGGSCBCSSSCTTSSBEEEETTBCCCT-----TCBCC
T ss_pred             EEEEEEEhHHHHHHhCCCeEEEECCCCCCHHHHHHHHHhHChhHHHHhhccccccCCcEEEEECCEECCC-----CCCCC
Confidence            666665543      334567788788999999999988632110001      0133456677776652     67799


Q ss_pred             CCCEEEEecCcccCC
Q 044874          254 QGDTIEIFNGSVTGG  268 (269)
Q Consensus       254 ~~~~i~l~~~~~~~~  268 (269)
                      +||.|.+++ .++||
T Consensus        85 dGDeV~i~p-pv~GG   98 (98)
T 1vjk_A           85 DGDVVGVFP-PVSGG   98 (98)
T ss_dssp             TTCEEEEES-CC---
T ss_pred             CCCEEEEEC-CCCCC
Confidence            999999987 56665

>2juo_A GA-binding protein alpha chain; OST, ubiquitin, transcription factor, ensemble, DNA-binding, nucleus, transcription regulation; NMR {Mus musculus}

Probab=93.80  E-value=0.21  Score=34.28  Aligned_cols=57  Identities=18%  Similarity=0.233  Sum_probs=50.7

Q ss_pred             CCcchHHHHHHhhhhhcCCCCcceEEEeCCeeeccCCcccccCCCCCCEEEEEEccC
Q 044874          114 DVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVRPS  170 (269)
Q Consensus       114 ~~~~TV~~lK~~I~~~~gip~~~q~L~~~g~~L~d~~~L~~y~i~~~~~i~l~~~~~  170 (269)
                      ....++..||..++++.|++.+...+...+..|+++++|.+-+++-...+.+.+...
T Consensus        10 DI~epL~~Lk~LLe~Rl~i~L~~y~f~LQd~~L~~~k~LvdQcVqgeGlVQinvqik   66 (89)
T 2juo_A           10 DINEPIGNLKKLLEPRLQCSLDAHEICLQDIQLDPDRSLFDQGVKTDGTVQLSVQVI   66 (89)
T ss_dssp             ESSSBGGGHHHHSHHHHCSCCSSCEEEETTEECCTTSBTTTSSCCCCSEEEEEEEEE
T ss_pred             cccCcHHHHHHHHHHHhcCCcccCeEEeeccccCCCccHHHhhcccccEEEEEEEEE
Confidence            346678899999999999999999998888889999999999999999999887654

>2cu3_A Unknown function protein; thermus thermophilus HB8, structural genomics, riken structu genomics/proteomics initiative, RSGI, NPPSFA; 1.70A {Thermus thermophilus} SCOP: d.15.3.2 PDB: 2htm_E

Probab=93.55  E-value=0.25  Score=32.11  Aligned_cols=60  Identities=15%  Similarity=0.275  Sum_probs=42.8

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCcccCC
Q 044874          194 CGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSVTGG  268 (269)
Q Consensus       194 ~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~~~~  268 (269)
                      +| +.+  ++ ...||.+|.+.+         +++.....+..+|.....+ ...++-+++||.|.+++ .|+||
T Consensus         5 Ng-~~~--~~-~~~tv~~ll~~l---------~~~~~~v~vavN~~~v~~~-~~~~~~L~dgD~v~i~~-~V~GG   64 (64)
T 2cu3_A            5 NG-EPR--PL-EGKTLKEVLEEM---------GVELKGVAVLLNEEAFLGL-EVPDRPLRDGDVVEVVA-LMQGG   64 (64)
T ss_dssp             TT-EEE--CC-TTCCHHHHHHHH---------TBCGGGEEEEETTEEEEGG-GCCCCCCCTTCEEEEEE-CCCC-
T ss_pred             CC-EEE--Ec-CCCcHHHHHHHc---------CCCCCcEEEEECCEECCcc-ccCCcCCCCCCEEEEEe-ecccC
Confidence            55 555  45 568999998766         4556666777888887643 45566899999999997 56665

>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=93.21  E-value=0.2  Score=34.63  Aligned_cols=44  Identities=5%  Similarity=0.053  Sum_probs=38.3

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEc
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFN   46 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~   46 (269)
                      |.|+|...  -++.+.|.++.+..+|.++|.++.+++++...|.|.
T Consensus         6 ~~VKV~~~--~tvairvp~~~~y~~L~~~l~~kL~l~~~~~~LsYk   49 (83)
T 1oey_A            6 YTLKVHYK--YTVVMKTQPGLPYSQVRDMVSKKLELRLEHTKLSYR   49 (83)
T ss_dssp             EEEEEESS--SEEEEEECTTCCHHHHHHHHHHHTTCCGGGCCEEEC
T ss_pred             EEEEEEEE--EEEEEECCCCCCHHHHHHHHHHHhCCCcceeEEEee
Confidence            35566554  689999999999999999999999999999999996

>3po0_A Small archaeal modifier protein 1; ubiquitin-like protein, protein binding; 1.55A {Haloferax volcanii} PDB: 2l83_A

Probab=93.18  E-value=0.49  Score=32.75  Aligned_cols=66  Identities=18%  Similarity=0.277  Sum_probs=44.3

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhhhccCC-CCC-----CCceEEEecCeeecCCCccccccCCCCCEEEEecCcccCC
Q 044874          197 KRIPVEVNASDNVSELRKELQKLHQRYHF-HLP-----QDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSVTGG  268 (269)
Q Consensus       197 ~~~~l~v~~~~tV~~lK~~i~~~~~~~~~-~~p-----~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~~~~  268 (269)
                      ....+++....||.+|.+.+..+...... -+.     .+...+.-||+....     ++-+++||.|.+++ .|+||
T Consensus        18 ~~~~~~~~~~~Tv~~ll~~L~~~~p~~~~~~l~~~g~l~~~~~v~VN~~~v~~-----~~~l~~gDeV~i~P-pv~GG   89 (89)
T 3po0_A           18 RTVRVDVDGDATVGDALDALVGAHPALESRVFGDDGELYDHINVLRNGEAAAL-----GEATAAGDELALFP-PVSGG   89 (89)
T ss_dssp             SEEEEECCTTCBHHHHHHHHHHHCGGGHHHHBCTTSCBCTTSEEEETTEECCT-----TSBCCTTCEEEEEC-CCSCC
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHCcHHHHHHhccCCcccccEEEEECCEECCC-----CcccCCCCEEEEEC-CCCCC
Confidence            46678888788999999999886421000 011     112455567777654     56799999999987 66665

>4e74_A Plexin-A4; RBD, structural genomics, structural genomics consor SGC, signaling protein; 1.58A {Homo sapiens} PDB: 3q3j_A*

Probab=93.05  E-value=0.52  Score=34.71  Aligned_cols=63  Identities=22%  Similarity=0.402  Sum_probs=46.0

Q ss_pred             CEEEEEEcCCCCHHHHHHHHHHHh--CCCCC------cEEEEE-c---CE-EcCCC-------------CccccCCCCCC
Q 044874           11 KAFTIEVGFFDTVLEIKEKIEKYQ--GIPVP------KQTLVF-N---GQ-VLQDD-------------RDVEHCEILQN   64 (269)
Q Consensus        11 ~~~~l~v~~~~tV~~lK~~I~~~~--gi~~~------~q~L~~-~---G~-~L~d~-------------~tL~~~~i~~~   64 (269)
                      ..+.+.|-.-|||.++|++|.+..  +.|.+      ...|-+ .   |+ .|.|.             .||++|+|.+|
T Consensus        27 ~~i~VkVLdCDTItQvKeKiLd~vyk~~p~S~rP~~~~~dLEwr~g~~~~~iL~D~D~ts~~~~~wkrLNTL~HY~V~dg  106 (117)
T 4e74_A           27 PEVPVKILNCDTITQVKEKILDAIFKNVPCSHRPKAADMDLEWRQGSGARMILQDEDITTKIENDWKRLNTLAHYQVPDG  106 (117)
T ss_dssp             CCEEEEEETTSBHHHHHHHHHHHHTTTSCGGGSCCGGGEEEEEECTTSCEEEECSSSTTCCC---CCCCCBHHHHTCCTT
T ss_pred             CceEeeeecCCchHHHHHHHHHHHhcCCCcccCCCCCceeEEEecCCCCceEeecCCCccEecCcceEeccccccCCCCC
Confidence            347788889999999999998773  45443      455655 2   33 25441             68999999999


Q ss_pred             CEEEEEEec
Q 044874           65 SRIQLLVAS   73 (269)
Q Consensus        65 ~~i~l~~~~   73 (269)
                      +++-++.+.
T Consensus       107 atl~l~~~~  115 (117)
T 4e74_A          107 SVVALVSKQ  115 (117)
T ss_dssp             CEEEEEECC
T ss_pred             CEEEEEeCC
Confidence            999987654

>1f0z_A THis protein; ubiquitin fold, transport protein; NMR {Escherichia coli} SCOP: d.15.3.2 PDB: 1zud_2

Probab=92.80  E-value=0.19  Score=32.88  Aligned_cols=56  Identities=29%  Similarity=0.484  Sum_probs=41.3

Q ss_pred             EecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCcccCC
Q 044874          202 EVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSVTGG  268 (269)
Q Consensus       202 ~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~~~~  268 (269)
                      ++....||.+|.+.+         +++.....+..+|.....+ ...++-+++||.|.+++ .|+||
T Consensus        11 ~~~~~~tv~~ll~~l---------~~~~~~v~vavN~~~v~~~-~~~~~~L~~gD~v~i~~-~V~GG   66 (66)
T 1f0z_A           11 QCAAGQTVHELLEQL---------DQRQAGAALAINQQIVPRE-QWAQHIVQDGDQILLFQ-VIAGG   66 (66)
T ss_dssp             CCCTTCCHHHHHHHH---------TCCCSSEEEEETTEEECHH-HHTTCCCCTTEEECEEE-SCCCC
T ss_pred             EcCCCCcHHHHHHHc---------CCCCCCEEEEECCEECCch-hcCCcCCCCCCEEEEEe-ecccC
Confidence            566778999998876         4566666777888887532 34456799999999996 56665

>1fm0_D Molybdopterin convertin factor, subunit 1; molybdenum cofactor biosynthesis, transferase; 1.45A {Escherichia coli} SCOP: d.15.3.1 PDB: 1fma_D 1jw9_D 1jwa_D* 1jwb_D* 3bii_D 1nvi_D

Probab=92.69  E-value=0.23  Score=33.75  Aligned_cols=65  Identities=23%  Similarity=0.361  Sum_probs=42.4

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCcccCC
Q 044874          197 KRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSVTGG  268 (269)
Q Consensus       197 ~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~~~~  268 (269)
                      ....++ ....||.+|.+.+........--++.....+..+|+....     ++-+++||.|.+++ .++||
T Consensus        17 ~~~~~~-~~~~tv~~ll~~L~~~~p~~~~~l~~~~~~v~vN~~~v~~-----~~~l~~gD~V~i~P-pv~GG   81 (81)
T 1fm0_D           17 DATEVA-ADFPTVEALRQHMAAQSDRWALALEDGKLLAAVNQTLVSF-----DHPLTDGDEVAFFP-PVTGG   81 (81)
T ss_dssp             SEEEEC-SCCSBHHHHHHHHHTTCHHHHHHHCCTTCEEEETTEECCT-----TCBCCTTCEEEEEC-CCCCC
T ss_pred             CeEEEc-CCCCCHHHHHHHHHHHChhHHHHhcCCCEEEEECCEECCC-----CCCCCCCCEEEEeC-CCCCC
Confidence            345555 5677999999999864310000133334566778887642     56799999999987 56665

>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=92.67  E-value=0.6  Score=35.30  Aligned_cols=64  Identities=20%  Similarity=0.403  Sum_probs=46.7

Q ss_pred             CEEEEEEcCCCCHHHHHHHHHHHh--CCCCC------cEEEEE----cCEE-cCCC-------------CccccCCCCCC
Q 044874           11 KAFTIEVGFFDTVLEIKEKIEKYQ--GIPVP------KQTLVF----NGQV-LQDD-------------RDVEHCEILQN   64 (269)
Q Consensus        11 ~~~~l~v~~~~tV~~lK~~I~~~~--gi~~~------~q~L~~----~G~~-L~d~-------------~tL~~~~i~~~   64 (269)
                      ..+.+.|-.-|||.++|++|.+..  |+|.+      ..-|-+    .|+. |.|.             .||+.|+|.+|
T Consensus        41 ~~i~VkVLdCDTItQvKeKiLDavYk~~PySqRP~~~d~dLEwr~g~~g~liL~D~D~tS~~~~~wkrLNTL~HY~V~Dg  120 (138)
T 2r2o_A           41 QGVPVKVLDCDTISQAKEKMLDQLYKGVPLTQRPDPRTLDVEWRSGVAGHLILSDEDVTSEVQGLWRRLNTLQHYKVPDG  120 (138)
T ss_dssp             CCEEEEEETTCBHHHHHHHHHHHHTTTSCGGGCCCGGGEEEEEECSSSCEEEECSSSTTCCEETTEEECCBHHHHTCCTT
T ss_pred             CceeEEEeccccHHHHHHHHHHHHHcCCccccCCCccceeEEEecCCcCceEeeccCCcccccCCceeecchhccCCCCC
Confidence            468889999999999999999884  45432      334544    2443 6553             48999999999


Q ss_pred             CEEEEEEecC
Q 044874           65 SRIQLLVASD   74 (269)
Q Consensus        65 ~~i~l~~~~~   74 (269)
                      +++.++-+..
T Consensus       121 a~l~l~~~~~  130 (138)
T 2r2o_A          121 ATVALVPCLT  130 (138)
T ss_dssp             CEEEEEEC--
T ss_pred             CEEEEEECCC
Confidence            9999887654

>2juo_A GA-binding protein alpha chain; OST, ubiquitin, transcription factor, ensemble, DNA-binding, nucleus, transcription regulation; NMR {Mus musculus}

Probab=92.35  E-value=0.59  Score=32.08  Aligned_cols=62  Identities=13%  Similarity=0.172  Sum_probs=54.4

Q ss_pred             EEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecC
Q 044874           13 FTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASD   74 (269)
Q Consensus        13 ~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~   74 (269)
                      +.-.++-..++..||..++.+.+++-+.-.++..+..|+++++|.+.+++-...+.+.+...
T Consensus         5 i~qhmDI~epL~~Lk~LLe~Rl~i~L~~y~f~LQd~~L~~~k~LvdQcVqgeGlVQinvqik   66 (89)
T 2juo_A            5 VSQAIDINEPIGNLKKLLEPRLQCSLDAHEICLQDIQLDPDRSLFDQGVKTDGTVQLSVQVI   66 (89)
T ss_dssp             EEEEEESSSBGGGHHHHSHHHHCSCCSSCEEEETTEECCTTSBTTTSSCCCCSEEEEEEEEE
T ss_pred             hhhhccccCcHHHHHHHHHHHhcCCcccCeEEeeccccCCCccHHHhhcccccEEEEEEEEE
Confidence            34456677899999999999999999999999999999999999999999988888887653

>2q5w_D Molybdopterin converting factor, subunit 1; MOCO, MPT synthase, MOAD, MOAE, transferase, molybdenum cofactor biosynthesis; 2.00A {Staphylococcus aureus} PDB: 2qie_B*

Probab=91.79  E-value=0.35  Score=32.44  Aligned_cols=60  Identities=12%  Similarity=0.224  Sum_probs=42.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCce--EEEecCeeecCCCccccccCCCCCEEEEecCcccCC
Q 044874          197 KRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGY--FFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSVTGG  268 (269)
Q Consensus       197 ~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q--~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~~~~  268 (269)
                      ....+++....||.+|.+.+.....    .+  ...  .+..+|+....     +.-+++||.|.+++ .++||
T Consensus        16 ~~~~~~~~~~~tv~~ll~~l~~~~p----~~--~~v~~~v~vNg~~v~~-----~~~L~~gD~V~i~p-pv~GG   77 (77)
T 2q5w_D           16 AQEDIVLEQALTVQQFEDLLFERYP----QI--NNKKFQVAVNEEFVQK-----SDFIQPNDTVALIP-PVSGG   77 (77)
T ss_dssp             SEEECCCSSCEEHHHHHHHHHHHCG----GG--TTCCCEEEETTEEECT-----TSEECTTCEEEEEC-SCCCC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHCc----ch--hcceEEEEECCEECCC-----CCCcCCCCEEEEEC-CCCCC
Confidence            3456677777899999999887531    01  223  56778888765     36799999999986 56665

>3hm6_X Plexin-B1; structural genomics consortium, SGC, membrane, transmembrane receptor, cell membrane, glycoprotein, phosphoprotein; 2.40A {Homo sapiens} PDB: 3sua_D* 3su8_X*

Probab=91.33  E-value=1.1  Score=42.30  Aligned_cols=66  Identities=15%  Similarity=0.332  Sum_probs=47.3

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhhhccCCCCCC------CceEEEec----Ce-eecCC-------------CccccccC
Q 044874          197 KRIPVEVNASDNVSELRKELQKLHQRYHFHLPQ------DGYFFIYK----QN-VMDDD-------------RSFRWHHV  252 (269)
Q Consensus       197 ~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~------~~q~l~~~----g~-~L~d~-------------~tL~~~~i  252 (269)
                      ..+.++|-.+|||..+|++|-+.-.+   |.|.      +.+-|.++    |+ +|.|.             +||.+|+|
T Consensus       274 ~~i~VkVLdCDTItQVKeKiLDavYk---~~pyS~rP~~~~~dLEwr~g~~g~~iL~D~D~ts~~~~~wkrLNTL~HY~V  350 (644)
T 3hm6_X          274 QGVPVKVLDCDTISQAKEKMLDQLYK---GVPLTQRPDPRTLDVEWRSGVAGHLILSDEDVTSEVQGLWRRLNTLQHYKV  350 (644)
T ss_dssp             CCEEEEEETTSBHHHHHHHHHHHHTT---TSCGGGSCCGGGEEEEEECSSSCEEEECSSSTTCCEETTEEECCBTTTTTC
T ss_pred             CceeeEeeccCcHHHHHHHHHHHHHc---CCCcccCCCCCCcceEEeeCCCCceeecccCccceecCcceeecchhhcCC
Confidence            45888898999999999999864322   5553      34556652    33 45551             49999999


Q ss_pred             CCCCEEEEecCcc
Q 044874          253 GQGDTIEIFNGSV  265 (269)
Q Consensus       253 ~~~~~i~l~~~~~  265 (269)
                      .+|++|.+++...
T Consensus       351 ~dga~v~L~p~~~  363 (644)
T 3hm6_X          351 PDGATVALVPCLT  363 (644)
T ss_dssp             CTTCEEEEEEC--
T ss_pred             CCCcEEEEEeccc
Confidence            9999999987543

>1rws_A Hypothetical protein PF1061; residual dipolar couplings, structural genomics, unknown FUN; NMR {Pyrococcus furiosus} SCOP: d.15.3.2 PDB: 1sf0_A

Probab=91.27  E-value=0.11  Score=35.38  Aligned_cols=53  Identities=21%  Similarity=0.371  Sum_probs=39.7

Q ss_pred             EEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCcccCC
Q 044874          201 VEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSVTGG  268 (269)
Q Consensus       201 l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~~~~  268 (269)
                      +++....||.+|.+.+         +++.....+..+|+....+     +-+++||.|.+++ .|+||
T Consensus        25 ~~~~~~~Tv~dLl~~L---------~~~~~~v~VavNg~~v~~~-----~~L~dGD~V~i~p-pv~GG   77 (77)
T 1rws_A           25 IEWREGMKVRDILRAV---------GFNTESAIAKVNGKVVLED-----DEVKDGDFVEVIP-VVSGG   77 (77)
T ss_dssp             CCCCSSCCHHHHHHTT---------TCSSCSSCEEETTEEECSS-----SCCCSSCCCBCSC-CCCCC
T ss_pred             EECCCCCcHHHHHHHh---------CCCCcCEEEEECCEECCCC-----CCcCCCCEEEEEc-ccccC
Confidence            4566678999997654         5666666677889988754     6799999999986 56655

>3rpf_C Molybdopterin converting factor, subunit 1 (MOAD); MCSG, PSI-biology, structural genomics, midwest center for S genomics, transferase; 1.90A {Helicobacter pylori}

Probab=90.67  E-value=1  Score=30.04  Aligned_cols=71  Identities=11%  Similarity=0.096  Sum_probs=46.4

Q ss_pred             CEEEEEcCCCC-EEEEEEcCCCCHHHHHHHHHHHhCCCC--CcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCC
Q 044874            1 MDVIFEPQRGK-AFTIEVGFFDTVLEIKEKIEKYQGIPV--PKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNK   76 (269)
Q Consensus         1 M~i~vk~~~g~-~~~l~v~~~~tV~~lK~~I~~~~gi~~--~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g   76 (269)
                      |+|+|+....- .-.+++ ...||.+|.+.+....++..  ....+..||....+    .+.-+++|+.|.+.-...||
T Consensus         1 M~v~V~~fa~l~~~~~e~-~~~tv~~ll~~L~~~~~l~~~l~~~~vavN~~~v~~----~~~~l~~gDeV~i~PpvsGG   74 (74)
T 3rpf_C            1 MMVEVRFFGPIKEENFFI-KANDLKELRAILQEKEGLKEWLGVCAIALNDHLIDN----LNTPLKDGDVISLLPPVCGG   74 (74)
T ss_dssp             CEEEEEECTTCCCCCEEE-ECSSHHHHHHHHHTCTTTTTTTTTCEEEESSSEECC----TTCCCCTTCEEEEECCBCCC
T ss_pred             CEEEEEEEeecceeEEee-CCCcHHHHHHHHHHCcCHHHHhhccEEEECCEEcCC----CCcCCCCCCEEEEECCCCCC
Confidence            88889865311 134566 56899999999986543322  34566778876442    34567889999887554443

>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=90.62  E-value=0.9  Score=37.60  Aligned_cols=58  Identities=19%  Similarity=0.358  Sum_probs=46.1

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhhhccCCCCCCC-ceEEEe-c----CeeecC-CCccccccCCCCCEEEE
Q 044874          198 RIPVEVNASDNVSELRKELQKLHQRYHFHLPQD-GYFFIY-K----QNVMDD-DRSFRWHHVGQGDTIEI  260 (269)
Q Consensus       198 ~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~-~q~l~~-~----g~~L~d-~~tL~~~~i~~~~~i~l  260 (269)
                      .++..++..+||.+|++.++..     ++++.+ ..||-. .    ...|+| +.||.++++.++..|.|
T Consensus       153 ~~~~~~Sk~~ti~~l~~~~~~~-----~~i~~~~~~RLW~~~~~~~~~~L~~~~~tl~d~~L~~~Q~ill  217 (231)
T 3jyu_A          153 VLSCHFSKADTIATIEKEMRKL-----FNIPAERETRLWNKYMSNTYEQLSKLDNTIQDAGLYQGQVLVI  217 (231)
T ss_dssp             EEEEEECTTCBHHHHHHHHHHH-----TTCCTTSCEEEEECSSSSSCEECCCTTSBTTTTTCCTTEEEEE
T ss_pred             eEEEEecccCcHHHHHHHHHHH-----hCCCCCCeEEEEEecCCCCHhhhcCCCCCHHHhCCCCCCEEEE
Confidence            3556779999999999999996     599987 577663 2    346665 58999999999998766

>4a3p_A Ubiquitin carboxyl-terminal hydrolase 15; 1.40A {Homo sapiens} PDB: 4a3o_A 3pv1_A 3ppa_A* 3t9l_A 3lmn_A

Probab=90.59  E-value=0.7  Score=37.89  Aligned_cols=59  Identities=19%  Similarity=0.362  Sum_probs=46.2

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhhhccCCCCCCC-ceEEE--ec---CeeecC-CCccccccCCCCCEEEEe
Q 044874          198 RIPVEVNASDNVSELRKELQKLHQRYHFHLPQD-GYFFI--YK---QNVMDD-DRSFRWHHVGQGDTIEIF  261 (269)
Q Consensus       198 ~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~-~q~l~--~~---g~~L~d-~~tL~~~~i~~~~~i~l~  261 (269)
                      .+++.++..+||.+|++.++..     +++|.+ ..||-  |.   ...|+| +.||.++++.++..|.|=
T Consensus       141 ~~~~~~Sk~~ti~~l~~~~~~~-----~~i~~~~~~RlW~~~~~~~~~~L~~~~~tl~~~~l~~~Q~illE  206 (217)
T 4a3p_A          141 VVTRRFSKADTIDTIEKEIRKI-----FSIPDEKETRLWNKYMSNTFEPLNKPDSTIQDAGLYQGQVLVIE  206 (217)
T ss_dssp             EEEEEECTTSBHHHHHHHHHHH-----TTCCTTSCEEEEEEEETTEEEECCCTTSBHHHHTCCTTCEEEEE
T ss_pred             ceEEEEcccchHHHHHHHHHHH-----hCCCCCCceEEEEecCCCCeeecCCCCCCHHHhCCCCCCEEEEE
Confidence            3567789999999999999997     599987 56655  32   235566 579999999999998763

>1vjk_A Molybdopterin converting factor, subunit 1; structural genomics, PSI, protein structure INI southeast collaboratory for structural genomics; 1.51A {Pyrococcus furiosus} SCOP: d.15.3.1

Probab=90.52  E-value=1.9  Score=30.42  Aligned_cols=67  Identities=16%  Similarity=0.151  Sum_probs=47.2

Q ss_pred             CEEEEEcCC------C-CEEEEEEcCCCCHHHHHHHHHHHhC-C----------CCCcEEEEEcCEEcCCCCccccCCCC
Q 044874            1 MDVIFEPQR------G-KAFTIEVGFFDTVLEIKEKIEKYQG-I----------PVPKQTLVFNGQVLQDDRDVEHCEIL   62 (269)
Q Consensus         1 M~i~vk~~~------g-~~~~l~v~~~~tV~~lK~~I~~~~g-i----------~~~~q~L~~~G~~L~d~~tL~~~~i~   62 (269)
                      |+|+|+...      | ....+++....||.+|.+.+..... +          ......+..||+....     ++-++
T Consensus        10 ~~v~V~~FA~lre~~g~~~~~~e~~~~~Tv~~Ll~~L~~~~p~l~~~l~~~~g~~~~~v~v~VNg~~v~~-----~~~L~   84 (98)
T 1vjk_A           10 VKVKVKYFARFRQLAGVDEEEIELPEGARVRDLIEEIKKRHEKFKEEVFGEGYDEDADVNIAVNGRYVSW-----DEELK   84 (98)
T ss_dssp             EEEEEEECTHHHHHHSSSEEEEEECTTCBHHHHHHHHHHHCGGGGGSCBCSSSCTTSSBEEEETTBCCCT-----TCBCC
T ss_pred             EEEEEEEhHHHHHHhCCCeEEEECCCCCCHHHHHHHHHhHChhHHHHhhccccccCCcEEEEECCEECCC-----CCCCC
Confidence            678887552      3 4677888888999999999988742 1          1234567778887653     55678


Q ss_pred             CCCEEEEEEe
Q 044874           63 QNSRIQLLVA   72 (269)
Q Consensus        63 ~~~~i~l~~~   72 (269)
                      +|+.|.++-.
T Consensus        85 dGDeV~i~pp   94 (98)
T 1vjk_A           85 DGDVVGVFPP   94 (98)
T ss_dssp             TTCEEEEESC
T ss_pred             CCCEEEEECC
Confidence            8999887643

>3ig3_A Plxna3 protein; plexin intracellular GAP RBD inactive, membrane, transmembra membrane protein, signaling protein; 1.99A {Mus musculus} PDB: 3ryt_A*

Probab=90.41  E-value=1.7  Score=40.93  Aligned_cols=66  Identities=18%  Similarity=0.397  Sum_probs=47.3

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhhhccCCCCC------CCceEEEe-cC---e-eecC---------C----CccccccC
Q 044874          197 KRIPVEVNASDNVSELRKELQKLHQRYHFHLP------QDGYFFIY-KQ---N-VMDD---------D----RSFRWHHV  252 (269)
Q Consensus       197 ~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p------~~~q~l~~-~g---~-~L~d---------~----~tL~~~~i  252 (269)
                      ..+.++|-.+|||..+|++|-+.-.+   |.|      ++.+-|.+ .|   + +|.|         +    .||.+|+|
T Consensus       247 ~~i~vkVLdCDTItQVKeKiLdavYk---~~pyS~rP~~~~~dLEwr~g~~g~~iL~D~D~ts~~~~~wkrLNTL~HY~V  323 (627)
T 3ig3_A          247 AQVPVKVLNCDSITQAKDKLLDTVYK---GIPYSQRPKAEDMDLEWRQGRMARIILQDEDITTKIECDWKRVNSLAHYQV  323 (627)
T ss_dssp             CEEEEEEETTCBHHHHHHHHHHHHTT---TSCGGGSCCGGGEEEEEESCSSCEEEECSSSTTCCEETTEEECCBTTTTTC
T ss_pred             CceeeEeeccCcHHHHHHHHHHHHHc---CCCcccCCCCCccceeEeeCCCCceeeccCCccccccCceeEecchhhcCC
Confidence            56888899999999999998875432   555      34466665 22   2 4544         1    48999999


Q ss_pred             CCCCEEEEecCcc
Q 044874          253 GQGDTIEIFNGSV  265 (269)
Q Consensus       253 ~~~~~i~l~~~~~  265 (269)
                      .+|.++.+++...
T Consensus       324 ~Dga~v~L~p~~~  336 (627)
T 3ig3_A          324 TDGSLVALVPKQV  336 (627)
T ss_dssp             CTTCEEEEEEC--
T ss_pred             CCCceEEEEeccc
Confidence            9999999987543

>3kuz_A Plexin-C1; structural genomics, structural genomics consortium, SGC; 2.30A {Homo sapiens}

Probab=89.54  E-value=2.6  Score=31.22  Aligned_cols=60  Identities=28%  Similarity=0.355  Sum_probs=42.1

Q ss_pred             CEEEEEEcCCCCHHHHHHHHHHH----hCCCCC----cEEEEE--c--CEEcCC----------C----CccccCCCCCC
Q 044874           11 KAFTIEVGFFDTVLEIKEKIEKY----QGIPVP----KQTLVF--N--GQVLQD----------D----RDVEHCEILQN   64 (269)
Q Consensus        11 ~~~~l~v~~~~tV~~lK~~I~~~----~gi~~~----~q~L~~--~--G~~L~d----------~----~tL~~~~i~~~   64 (269)
                      ..+.+.|-.-|||.++|++|.+.    .+.|.+    .+.|-+  +  +..|.|          .    .||+.|+|.+|
T Consensus        39 ~~v~VkVLdCDTItQVKEKILdavYk~k~~pys~r~~d~dLEwr~g~~~~~L~D~D~tS~~~e~~wkrLNTL~HY~V~Dg  118 (126)
T 3kuz_A           39 RNISVNVLDCDTIGQAKEKIFQAFLSKNGSPYGLQLNEIGLELQMGTRQKELLDIDSSSVILEDGITKLNTIGHYEISNG  118 (126)
T ss_dssp             CEEEEEEETTCBHHHHHHHHHHHHHHHHSSCCSSCGGGEEEEEEETTEEEEECSSCTTCCBCTTSCBCCCBTGGGTCCTT
T ss_pred             CceEeeeecCCcHHHHHHHHHHHHhccCCCcCCCCccccceEEecCCCcceeeccCCcceEecCCeeEeccccccCCCCC
Confidence            46888898999999999998765    266543    344444  1  223322          1    56888999999


Q ss_pred             CEEEEE
Q 044874           65 SRIQLL   70 (269)
Q Consensus        65 ~~i~l~   70 (269)
                      +++-++
T Consensus       119 atlal~  124 (126)
T 3kuz_A          119 STIKVF  124 (126)
T ss_dssp             CEEEEE
T ss_pred             CEEEEe
Confidence            999775

>1tyg_B YJBS; alpha beta barrel, protein-protein complex, THis, BIOS protein; 3.15A {Bacillus subtilis} SCOP: d.15.3.2

Probab=88.61  E-value=1.2  Score=30.98  Aligned_cols=61  Identities=10%  Similarity=0.107  Sum_probs=42.9

Q ss_pred             CCCEEEEEEcCC-CCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCC
Q 044874            9 RGKAFTIEVGFF-DTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNK   76 (269)
Q Consensus         9 ~g~~~~l~v~~~-~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g   76 (269)
                      +|+.  ++++.. .||.+|.+.+    ++++....+..||..+.. ....+.-+++|+.|.++-...||
T Consensus        26 NGe~--~el~~~~~Tv~dLL~~L----~~~~~~vaVavNg~iV~~-~~~~~~~L~dGD~Vei~~~V~GG   87 (87)
T 1tyg_B           26 NGKD--VKWKKDTGTIQDLLASY----QLENKIVIVERNKEIIGK-ERYHEVELCDRDVIEIVHFVGGG   87 (87)
T ss_dssp             TTEE--ECCSSSCCBHHHHHHHT----TCTTSCCEEEETTEEECG-GGTTTSBCCSSSEEEEEEECCC-
T ss_pred             CCEE--EECCCCCCcHHHHHHHh----CCCCCCEEEEECCEECCh-hhcCCcCCCCCCEEEEEcccccC
Confidence            4554  445665 8999998875    677777788889988753 23455668899999988655443

>1wgk_A Riken cDNA 2900073H19 protein; THis domain, ubiqutin-like fold, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.15.3.3 PDB: 1xo3_A

Probab=88.37  E-value=1.5  Score=32.03  Aligned_cols=77  Identities=18%  Similarity=0.153  Sum_probs=44.9

Q ss_pred             ceeEEEEecCC------C-eEEEEEecC---CCcHHHHHHHHHHhhhccCCCCCCCceEEE-ecC------eeecCCCc-
Q 044874          185 KLKLLVLTQCG------N-KRIPVEVNA---SDNVSELRKELQKLHQRYHFHLPQDGYFFI-YKQ------NVMDDDRS-  246 (269)
Q Consensus       185 ~~~i~V~~~~g------~-~~~~l~v~~---~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~-~~g------~~L~d~~t-  246 (269)
                      .|++.|+-+.+      . +.+.++++.   ..||.+|-+.+.++.       |...-+|+ -+|      .+|-|+.- 
T Consensus        11 ~M~v~V~~~~~Lr~~~g~~~~~~vel~~~~~~~TV~~Ll~~L~~~~-------~~~~~~lf~~~g~lr~~i~VlVN~~di   83 (114)
T 1wgk_A           11 PLCVKVEFGGGAELLFDGVKKHQVALPGQEEPWDIRNLLVWIKKNL-------LKERPELFIQGDSVRPGILVLINDADW   83 (114)
T ss_dssp             CEEEEEEECTTTGGGTTTCSEEEEEECCCSSCCBHHHHHHHHTTTT-------CCSCHHHHCCSSSCCSSEEEEESSSBH
T ss_pred             CcEEEEEEchHHHHHhCCceEEEEEeCCCCCCCCHHHHHHHHHHHc-------cchhHhhCccCCcccCCeEEEECCeee
Confidence            36777765443      2 356677773   369999999998853       22221111 011      12333331 


Q ss_pred             -c---ccccCCCCCEEEEecCcccCCC
Q 044874          247 -F---RWHHVGQGDTIEIFNGSVTGGS  269 (269)
Q Consensus       247 -L---~~~~i~~~~~i~l~~~~~~~~~  269 (269)
                       +   .+|-+++||.|.+++ .+.||+
T Consensus        84 ~~l~gldt~L~dGDeV~iip-~vaGG~  109 (114)
T 1wgk_A           84 ELLGELDYQLQDQDSILFIS-TLHGGS  109 (114)
T ss_dssp             HHHCTTTCBCCSSEEEEEEE-CSCCCC
T ss_pred             eccCCcCcCCCCCCEEEEeC-CCCCCC
Confidence             2   458899999998887 566663

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

Probab=88.09  E-value=0.52  Score=35.48  Aligned_cols=34  Identities=15%  Similarity=0.093  Sum_probs=31.0

Q ss_pred             EEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEc
Q 044874           13 FTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFN   46 (269)
Q Consensus        13 ~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~   46 (269)
                      .++.|..++|+.+|+..|++.+|+|+++|||..-
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            4678889999999999999999999999999874

>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=87.70  E-value=1.6  Score=30.03  Aligned_cols=46  Identities=11%  Similarity=0.133  Sum_probs=38.0

Q ss_pred             EEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCe
Q 044874          188 LLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQN  239 (269)
Q Consensus       188 i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~  239 (269)
                      +.|+.... -++.+.|.+.-+..+|+++|.++     +.+|++...|.|+-.
T Consensus         6 ~~VKV~~~-~tvairvp~~~~y~~L~~~l~~k-----L~l~~~~~~LsYk~~   51 (83)
T 1oey_A            6 YTLKVHYK-YTVVMKTQPGLPYSQVRDMVSKK-----LELRLEHTKLSYRPR   51 (83)
T ss_dssp             EEEEEESS-SEEEEEECTTCCHHHHHHHHHHH-----TTCCGGGCCEEECCT
T ss_pred             EEEEEEEE-EEEEEECCCCCCHHHHHHHHHHH-----hCCCcceeEEEeeCC
Confidence            34444454 69999999999999999999997     588888888998764

>2g1e_A Hypothetical protein TA0895; MOAD, molybdopterin, transferase; NMR {Thermoplasma acidophilum} PDB: 2k22_A

Probab=87.68  E-value=2.4  Score=29.04  Aligned_cols=64  Identities=19%  Similarity=0.191  Sum_probs=40.6

Q ss_pred             EecCCCcHHHHHHHHHHhhhcc-------CCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCcccCC
Q 044874          202 EVNASDNVSELRKELQKLHQRY-------HFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSVTGG  268 (269)
Q Consensus       202 ~v~~~~tV~~lK~~i~~~~~~~-------~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~~~~  268 (269)
                      +++...||.+|.+.+.......       .-| ......+..+|+..... .-.++-+++||.|.+++ .++||
T Consensus        20 ~~~~~~tv~~ll~~l~~~~p~~~~~~l~~~~g-~~~~v~v~vN~~~v~~~-~~~~~~l~~gD~V~i~p-pv~GG   90 (90)
T 2g1e_A           20 TFNGISKISELLERLKVEYGSEFTKQMYDGNN-LFKNVIILVNGNNITSM-KGLDTEIKDDDKIDLFP-PVAGG   90 (90)
T ss_dssp             EESSCCBHHHHHHHHHHHSCHHHHHHHCCSSC-STTTCEEEESSSBGGGT-CSSSCBCCTTCEEEEEC-CTTCC
T ss_pred             EcCCCCcHHHHHHHHHHHCcchhhhccccccC-cCcceEEEECCEEcccc-CCCCcCCCCCCEEEEeC-CCCCC
Confidence            4555689999999998753100       001 11345566788766522 22355799999999986 56665

>3dwg_C 9.5 kDa culture filtrate antigen CFP10A; sulfur carrier protein complex, beta-grAsp fold, amino-acid biosynthesis; HET: PLP; 1.53A {Mycobacterium tuberculosis} PDB: 3dwm_A

Probab=85.59  E-value=4.7  Score=27.86  Aligned_cols=65  Identities=14%  Similarity=0.143  Sum_probs=39.4

Q ss_pred             EEecCCCcHHHHHHHHHHhhhccC--------CCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCcccCC
Q 044874          201 VEVNASDNVSELRKELQKLHQRYH--------FHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSVTGG  268 (269)
Q Consensus       201 l~v~~~~tV~~lK~~i~~~~~~~~--------~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~~~~  268 (269)
                      +++ ...||.+|.+.+..+.....        .+-......+.-||+......- .++-+++||.|.+++ .|+||
T Consensus        21 ~~~-~~~Tv~~ll~~L~~~~p~l~~~l~~~~~~g~~~~~~~v~VN~~~v~~~~~-~~~~L~~gDeV~i~P-pv~GG   93 (93)
T 3dwg_C           21 VSA-SGDTLGAVISDLEANYSGISERLMDPSSPGKLHRFVNIYVNDEDVRFSGG-LATAIADGDSVTILP-AVAGG   93 (93)
T ss_dssp             EEE-CCSBHHHHHHHHHHHSTTHHHHHBCSSSTTSBCTTEEEEETTEEGGGTTG-GGCBCCTTCEEEEEE-CCTTC
T ss_pred             Eec-CCCCHHHHHHHHHHHChhHHHHHhccccCCcccCCEEEEECCEEccCcCC-CCcCCCCCCEEEEEC-CCCCC
Confidence            554 45799999999988641100        0000112445567766553222 356799999999987 56665

>3dwg_C 9.5 kDa culture filtrate antigen CFP10A; sulfur carrier protein complex, beta-grAsp fold, amino-acid biosynthesis; HET: PLP; 1.53A {Mycobacterium tuberculosis} PDB: 3dwm_A

Probab=85.46  E-value=4.9  Score=27.74  Aligned_cols=74  Identities=15%  Similarity=0.105  Sum_probs=47.2

Q ss_pred             CEEEEEcC------CCCEEEEEEcCCCCHHHHHHHHHHHhC-C-----C-------CCcEEEEEcCEEcCCCCccccCCC
Q 044874            1 MDVIFEPQ------RGKAFTIEVGFFDTVLEIKEKIEKYQG-I-----P-------VPKQTLVFNGQVLQDDRDVEHCEI   61 (269)
Q Consensus         1 M~i~vk~~------~g~~~~l~v~~~~tV~~lK~~I~~~~g-i-----~-------~~~q~L~~~G~~L~d~~tL~~~~i   61 (269)
                      |+|+|+..      .|....+++ ...||.+|.+.+..++. +     .       .....+..||....+..- .++-+
T Consensus         1 M~v~V~~fa~lr~~~g~~~~~~~-~~~Tv~~ll~~L~~~~p~l~~~l~~~~~~g~~~~~~~v~VN~~~v~~~~~-~~~~L   78 (93)
T 3dwg_C            1 MNVTVSIPTILRPHTGGQKSVSA-SGDTLGAVISDLEANYSGISERLMDPSSPGKLHRFVNIYVNDEDVRFSGG-LATAI   78 (93)
T ss_dssp             -CEEEECCGGGGGGTTTCSEEEE-CCSBHHHHHHHHHHHSTTHHHHHBCSSSTTSBCTTEEEEETTEEGGGTTG-GGCBC
T ss_pred             CEEEEEEeHHHHHHhCCCeEEec-CCCCHHHHHHHHHHHChhHHHHHhccccCCcccCCEEEEECCEEccCcCC-CCcCC
Confidence            78888754      233334664 46799999999998753 0     1       113567778887653221 34568


Q ss_pred             CCCCEEEEEEecCCC
Q 044874           62 LQNSRIQLLVASDNK   76 (269)
Q Consensus        62 ~~~~~i~l~~~~~~g   76 (269)
                      .+|+.|.++-...||
T Consensus        79 ~~gDeV~i~Ppv~GG   93 (93)
T 3dwg_C           79 ADGDSVTILPAVAGG   93 (93)
T ss_dssp             CTTCEEEEEECCTTC
T ss_pred             CCCCEEEEECCCCCC
Confidence            889999888665554

>2qjl_A URM1, ubiquitin-related modifier 1; ubiquitin-like protein, signaling protein; 1.44A {Saccharomyces cerevisiae} PDB: 2pko_A 2ax5_A

Probab=84.62  E-value=1.5  Score=30.96  Aligned_cols=67  Identities=15%  Similarity=0.215  Sum_probs=39.1

Q ss_pred             CeEEEEEec--CCCcHHHHHHHHHHhhhccCCCCCCCce-EEEecC------eeecCCC---cc--ccccCCCCCEEEEe
Q 044874          196 NKRIPVEVN--ASDNVSELRKELQKLHQRYHFHLPQDGY-FFIYKQ------NVMDDDR---SF--RWHHVGQGDTIEIF  261 (269)
Q Consensus       196 ~~~~~l~v~--~~~tV~~lK~~i~~~~~~~~~~~p~~~q-~l~~~g------~~L~d~~---tL--~~~~i~~~~~i~l~  261 (269)
                      .+...+++.  ...||.+|.+.+.++..    +. .... .|.-+|      .++-|+.   -+  .++-+++||.|.++
T Consensus        19 ~~~~~~~l~~~~~~Tv~~L~~~L~~~~~----~~-~~~l~~~~~~~~lr~~~~v~VN~~~~~~~~~~d~~L~dgDeVa~~   93 (99)
T 2qjl_A           19 QRVHKIKMDKEDPVTVGDLIDHIVSTMI----NN-PNDVSIFIEDDSIRPGIITLINDTDWELEGEKDYILEDGDIISFT   93 (99)
T ss_dssp             CCEEEEEECSCSCCBHHHHHHHHHHHTC----SS-GGGHHHHEETTEECTTEEEEETTEEGGGGTGGGCBCCTTCEEEEE
T ss_pred             CcEEEEecCCCCCCcHHHHHHHHHHHCc----hh-hHHHhhhccCCccccCeEEEECCEEccccCCCCcCcCCCCEEEEE
Confidence            355667766  67899999999988631    11 0000 000111      1222222   11  35679999999998


Q ss_pred             cCcccCC
Q 044874          262 NGSVTGG  268 (269)
Q Consensus       262 ~~~~~~~  268 (269)
                      + .|+||
T Consensus        94 P-pv~GG   99 (99)
T 2qjl_A           94 S-TLHGG   99 (99)
T ss_dssp             E-CTTCC
T ss_pred             C-CCCCC
Confidence            7 67776

>1f0z_A THis protein; ubiquitin fold, transport protein; NMR {Escherichia coli} SCOP: d.15.3.2 PDB: 1zud_2

Probab=84.33  E-value=1.7  Score=28.23  Aligned_cols=65  Identities=18%  Similarity=0.274  Sum_probs=44.9

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDN   75 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~   75 (269)
                      |+|+|   +|+.  +++....|+.+|.+.+    ++++....+..+|..+.. ....+.-+++|+.|.++-...|
T Consensus         1 m~i~v---Ng~~--~~~~~~~tv~~ll~~l----~~~~~~v~vavN~~~v~~-~~~~~~~L~~gD~v~i~~~V~G   65 (66)
T 1f0z_A            1 MQILF---NDQA--MQCAAGQTVHELLEQL----DQRQAGAALAINQQIVPR-EQWAQHIVQDGDQILLFQVIAG   65 (66)
T ss_dssp             CCEEE---SSCE--ECCCTTCCHHHHHHHH----TCCCSSEEEEETTEEECH-HHHTTCCCCTTEEECEEESCCC
T ss_pred             CEEEE---CCEE--EEcCCCCcHHHHHHHc----CCCCCCEEEEECCEECCc-hhcCCcCCCCCCEEEEEeeccc
Confidence            56655   4564  4556778999998875    677777788889987753 2233456788999988765444

>3po0_A Small archaeal modifier protein 1; ubiquitin-like protein, protein binding; 1.55A {Haloferax volcanii} PDB: 2l83_A

Probab=84.14  E-value=7.9  Score=26.36  Aligned_cols=61  Identities=10%  Similarity=0.056  Sum_probs=43.5

Q ss_pred             CEEEEEEcCCCCHHHHHHHHHHHhC-C-----C-----CCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCC
Q 044874           11 KAFTIEVGFFDTVLEIKEKIEKYQG-I-----P-----VPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNK   76 (269)
Q Consensus        11 ~~~~l~v~~~~tV~~lK~~I~~~~g-i-----~-----~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g   76 (269)
                      ....++++...||.+|.+.+..... +     .     .....+..||+....     ++-+.+|+.|.+.-...||
T Consensus        18 ~~~~~~~~~~~Tv~~ll~~L~~~~p~~~~~~l~~~g~l~~~~~v~VN~~~v~~-----~~~l~~gDeV~i~Ppv~GG   89 (89)
T 3po0_A           18 RTVRVDVDGDATVGDALDALVGAHPALESRVFGDDGELYDHINVLRNGEAAAL-----GEATAAGDELALFPPVSGG   89 (89)
T ss_dssp             SEEEEECCTTCBHHHHHHHHHHHCGGGHHHHBCTTSCBCTTSEEEETTEECCT-----TSBCCTTCEEEEECCCSCC
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHCcHHHHHHhccCCcccccEEEEECCEECCC-----CcccCCCCEEEEECCCCCC
Confidence            5678888878999999999988753 1     1     012567788887764     4557789999887554443

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

Probab=81.21  E-value=8.5  Score=32.46  Aligned_cols=71  Identities=13%  Similarity=0.128  Sum_probs=52.9

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCc-EEEEE---cCE--EcCCCCccccCCCCCCCEEEEEEe
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPK-QTLVF---NGQ--VLQDDRDVEHCEILQNSRIQLLVA   72 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~-q~L~~---~G~--~L~d~~tL~~~~i~~~~~i~l~~~   72 (269)
                      |.+.|..++| ++.+.+++..|+.++=+.|+...|+.... .-|.+   +|.  .|+.+..+.+.++..+....+..+
T Consensus         2 i~~~V~l~d~-~~~~~v~~~tt~~el~~~v~~~l~L~e~~~FgL~~~~~~~~~~wLd~~~~l~~q~~~~~~~~~l~fr   78 (294)
T 1ef1_A            2 ISVRVTTMDA-ELEFAIQPNTTGKQLFDQVVKTIGLREVWFFGLQYQDTKGFSTWLKLNKKVTAQDVRKESPLLFKFR   78 (294)
T ss_dssp             EEEEEEETTE-EEEEEECTTCBHHHHHHHHHHHHTCCCGGGEEEEEEBTTSCEEECCSSSBGGGSCBCCCSSEEEEEE
T ss_pred             EEEEEEECCc-eEEEEECCCCcHHHHHHHHHHHcCCCCcceeEEEEECCCCceeecccccCHHhhccCCCCCEEEEEE
Confidence            4678888888 68899999999999999999999986544 56666   233  477788888876655544444433

>2k5p_A THis protein, thiamine-biosynthesis protein; NESG, GMR137, structural genomics, PSI-2, protein structure initiative; NMR {Geobacter metallireducens gs-15} PDB: 3cwi_A

Probab=80.89  E-value=1.7  Score=29.48  Aligned_cols=67  Identities=18%  Similarity=0.227  Sum_probs=49.1

Q ss_pred             CEEEEEcCCCCEEEEEEc--CCCCHHHHHHHHHHHhCCC-CCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCC
Q 044874            1 MDVIFEPQRGKAFTIEVG--FFDTVLEIKEKIEKYQGIP-VPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKP   77 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~--~~~tV~~lK~~I~~~~gi~-~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~   77 (269)
                      |+|+|   +|+.+  +++  ...||.+|-+.    .+++ +...-+..||..+.. ....++-+++|+.|.++--..||.
T Consensus         1 M~I~v---NGe~~--e~~~~~~~Tl~~LL~~----l~~~~~~~vAVavNg~iVpr-~~~~~~~L~dGD~IEIv~~VgGG~   70 (78)
T 2k5p_A            1 MNLTV---NGKPS--TVDGAESLNVTELLSA----LKVAQAEYVTVELNGEVLER-EAFDATTVKDGDAVEFLYFMGGGK   70 (78)
T ss_dssp             CEEEE---TTEEE--ECSSCSCEEHHHHHHH----HTCSCTTTCCEEETTEECCT-THHHHCEECSSBCEEECCCCCCSC
T ss_pred             CEEEE---CCEEE--EcCCCCCCcHHHHHHH----cCCCCCCcEEEEECCEECCh-HHcCcccCCCCCEEEEEeeecCCC
Confidence            67766   46644  455  56899998775    5788 777788899998764 446677788899999886666654

>3ig3_A Plxna3 protein; plexin intracellular GAP RBD inactive, membrane, transmembra membrane protein, signaling protein; 1.99A {Mus musculus} PDB: 3ryt_A*

Probab=80.41  E-value=11  Score=35.43  Aligned_cols=65  Identities=22%  Similarity=0.360  Sum_probs=46.3

Q ss_pred             CCEEEEEEcCCCCHHHHHHHHHHHh--CCCC------CcEEEEE----cCE-EcCCC-------------CccccCCCCC
Q 044874           10 GKAFTIEVGFFDTVLEIKEKIEKYQ--GIPV------PKQTLVF----NGQ-VLQDD-------------RDVEHCEILQ   63 (269)
Q Consensus        10 g~~~~l~v~~~~tV~~lK~~I~~~~--gi~~------~~q~L~~----~G~-~L~d~-------------~tL~~~~i~~   63 (269)
                      ...+.+.|-.-|||.++|++|-+..  |.|.      +...|-+    .|+ .|.|.             .||++|+|.+
T Consensus       246 ~~~i~vkVLdCDTItQVKeKiLdavYk~~pyS~rP~~~~~dLEwr~g~~g~~iL~D~D~ts~~~~~wkrLNTL~HY~V~D  325 (627)
T 3ig3_A          246 SAQVPVKVLNCDSITQAKDKLLDTVYKGIPYSQRPKAEDMDLEWRQGRMARIILQDEDITTKIECDWKRVNSLAHYQVTD  325 (627)
T ss_dssp             -CEEEEEEETTCBHHHHHHHHHHHHTTTSCGGGSCCGGGEEEEEESCSSCEEEECSSSTTCCEETTEEECCBTTTTTCCT
T ss_pred             CCceeeEeeccCcHHHHHHHHHHHHHcCCCcccCCCCCccceeEeeCCCCceeeccCCccccccCceeEecchhhcCCCC
Confidence            3568888889999999999998873  4443      4455654    233 34442             5899999999


Q ss_pred             CCEEEEEEecC
Q 044874           64 NSRIQLLVASD   74 (269)
Q Consensus        64 ~~~i~l~~~~~   74 (269)
                      |+++-++-+..
T Consensus       326 ga~v~L~p~~~  336 (627)
T 3ig3_A          326 GSLVALVPKQV  336 (627)
T ss_dssp             TCEEEEEEC--
T ss_pred             CceEEEEeccc
Confidence            99999987664

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

Probab=80.20  E-value=10  Score=32.37  Aligned_cols=70  Identities=9%  Similarity=0.073  Sum_probs=52.7

Q ss_pred             EEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCc-EEEEE--cCE--EcCCCCccccCCCCCCCEEEEEEe
Q 044874            2 DVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPK-QTLVF--NGQ--VLQDDRDVEHCEILQNSRIQLLVA   72 (269)
Q Consensus         2 ~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~-q~L~~--~G~--~L~d~~tL~~~~i~~~~~i~l~~~   72 (269)
                      .+.|..++| ++.+.+++..|+.++=+.|+...|+...+ .-|.|  +|.  -|+.+..+.+.++..+....+..+
T Consensus        24 ~~~V~lldg-~~~~~v~~~t~~~el~~~v~~~l~L~e~~~FgL~~~~~~~~~wL~~~~~i~~q~~~~~~~~~l~fr   98 (314)
T 1h4r_A           24 TVRIVTMDA-EMEFNCEMKWKGKDLFDLVCRTLGLRETWFFGLQYTIKDTVAWLKMDKKVLDHDVSKEEPVTFHFL   98 (314)
T ss_dssp             EEEEECSSC-EEEEEEETTCBHHHHHHHHHHHHTCCCGGGEEEEEEETTEEEECCTTSBGGGSSCCCSSSEEEEEE
T ss_pred             EEEEEeCCc-eEEEEeCCCCcHHHHHHHHHHHhCCCCCccceEEEEeCCcCeeCCCccCHHHcCCCCCCCEEEEEE
Confidence            567888888 78899999999999999999999986533 56666  343  378888899887655554444433

---

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	269
d1ogwa_	76	d.15.1.1 (A:) Ubiquitin {Human (Homo sapiens) [Tax	2e-12
d1ogwa_	76	d.15.1.1 (A:) Ubiquitin {Human (Homo sapiens) [Tax	1e-06
d1oqya4	77	d.15.1.1 (A:1-77) Ubiquitin-like domain of Rad23 h	4e-12
d1oqya4	77	d.15.1.1 (A:1-77) Ubiquitin-like domain of Rad23 h	2e-06
d1oqya4	77	d.15.1.1 (A:1-77) Ubiquitin-like domain of Rad23 h	6e-04
d1uela_	95	d.15.1.1 (A:) Ubiquitin-like domain of Rad23 homol	6e-12
d1uela_	95	d.15.1.1 (A:) Ubiquitin-like domain of Rad23 homol	9e-06
d2zeqa1	78	d.15.1.1 (A:1-78) Ubiquitin-like domain of parkin	6e-12
d2zeqa1	78	d.15.1.1 (A:1-78) Ubiquitin-like domain of parkin	1e-07
d2zeqa1	78	d.15.1.1 (A:1-78) Ubiquitin-like domain of parkin	4e-04
d1zkha1	86	d.15.1.1 (A:1-86) Splicing factor 3 subunit 1, C-t	8e-12
d1zkha1	86	d.15.1.1 (A:1-86) Splicing factor 3 subunit 1, C-t	2e-08
d1zkha1	86	d.15.1.1 (A:1-86) Splicing factor 3 subunit 1, C-t	9e-04
d1bt0a_	73	d.15.1.1 (A:) Rub1 {Mouse-ear cress (Arabidopsis t	1e-11
d1bt0a_	73	d.15.1.1 (A:) Rub1 {Mouse-ear cress (Arabidopsis t	7e-06
d1bt0a_	73	d.15.1.1 (A:) Rub1 {Mouse-ear cress (Arabidopsis t	8e-04
d1wh3a_	87	d.15.1.1 (A:) 2'-5'-oligoadenylate synthetase-like	1e-11
d1wh3a_	87	d.15.1.1 (A:) 2'-5'-oligoadenylate synthetase-like	4e-07
d1wh3a_	87	d.15.1.1 (A:) 2'-5'-oligoadenylate synthetase-like	7e-06
d2bwfa1	73	d.15.1.1 (A:2-74) DSK2 {Baker's yeast (Saccharomyc	2e-11
d2bwfa1	73	d.15.1.1 (A:2-74) DSK2 {Baker's yeast (Saccharomyc	3e-09
d2bwfa1	73	d.15.1.1 (A:2-74) DSK2 {Baker's yeast (Saccharomyc	1e-04
d1z2ma2	76	d.15.1.1 (A:79-154) Interferon-induced 15 kDa prot	2e-11
d1z2ma2	76	d.15.1.1 (A:79-154) Interferon-induced 15 kDa prot	1e-07
d1z2ma2	76	d.15.1.1 (A:79-154) Interferon-induced 15 kDa prot	3e-04
d1wx9a1	73	d.15.1.1 (A:8-80) Large proline-rich protein BAT3	9e-11
d1wx9a1	73	d.15.1.1 (A:8-80) Large proline-rich protein BAT3	6e-07
d1wjua_	100	d.15.1.1 (A:) NEDD8 ultimate buster-1, NUB1 {Human	2e-10
d1wjua_	100	d.15.1.1 (A:) NEDD8 ultimate buster-1, NUB1 {Human	3e-05
d1wjua_	100	d.15.1.1 (A:) NEDD8 ultimate buster-1, NUB1 {Human	2e-04
d2c9wb1	103	d.15.1.1 (B:2-104) Elongin B {Human (Homo sapiens)	5e-10
d2c9wb1	103	d.15.1.1 (B:2-104) Elongin B {Human (Homo sapiens)	7e-08
d1wgda_	93	d.15.1.1 (A:) Homocysteine-responsive endoplasmic	1e-08
d1wgda_	93	d.15.1.1 (A:) Homocysteine-responsive endoplasmic	6e-08
d1uh6a_	100	d.15.1.1 (A:) Ubiquitin-like protein 5, ubl5 {Mous	1e-08
d1uh6a_	100	d.15.1.1 (A:) Ubiquitin-like protein 5, ubl5 {Mous	9e-04
d1uh6a_	100	d.15.1.1 (A:) Ubiquitin-like protein 5, ubl5 {Mous	0.003
d1m94a_	73	d.15.1.1 (A:) Ubiquitin-like modifier protein hub1	2e-08
d1m94a_	73	d.15.1.1 (A:) Ubiquitin-like modifier protein hub1	8e-04
d1wgha_	116	d.15.1.1 (A:) Ubiquitin-like protein 3, Ubl3 {Mous	2e-08
d1wgha_	116	d.15.1.1 (A:) Ubiquitin-like protein 3, Ubl3 {Mous	6e-08
d1j8ca_	103	d.15.1.1 (A:) Ubiquitin-like N-terminal domain of	2e-08
d1j8ca_	103	d.15.1.1 (A:) Ubiquitin-like N-terminal domain of	3e-08
d1v5oa_	102	d.15.1.1 (A:) 1700011n24rik protein {Mouse (Mus mu	3e-08
d1v5oa_	102	d.15.1.1 (A:) 1700011n24rik protein {Mouse (Mus mu	3e-05
d1ttna1	80	d.15.1.1 (A:21-100) Dendritic cell-derived ubiquit	3e-08
d1wiaa_	95	d.15.1.1 (A:) Ubiquitin-like protein bab25500 (201	4e-08
d1wiaa_	95	d.15.1.1 (A:) Ubiquitin-like protein bab25500 (201	2e-05
d1wy8a1	76	d.15.1.1 (A:8-83) Ubiquitin-like PHD and RING fing	4e-08
d1wy8a1	76	d.15.1.1 (A:8-83) Ubiquitin-like PHD and RING fing	9e-08
d1v86a_	95	d.15.1.1 (A:) hypothetical D7wsu128e protein {Mous	4e-08
d1v86a_	95	d.15.1.1 (A:) hypothetical D7wsu128e protein {Mous	6e-06
d1wgga_	96	d.15.1.1 (A:) Ubiquitin carboxyl-terminal hydrolas	6e-08
d1wgga_	96	d.15.1.1 (A:) Ubiquitin carboxyl-terminal hydrolas	2e-04
d1wx8a1	83	d.15.1.1 (A:8-90) 4931431F19Rik {Mouse (Mus muscul	7e-08
d1wx8a1	83	d.15.1.1 (A:8-90) 4931431F19Rik {Mouse (Mus muscul	2e-05
d1v5ta_	90	d.15.1.1 (A:) 8430435i17rik protein {Mouse (Mus mu	1e-07
d1v5ta_	90	d.15.1.1 (A:) 8430435i17rik protein {Mouse (Mus mu	9e-06
d2faza1	76	d.15.1.1 (A:1-76) Ubiquitin-like PHD and RING fing	2e-07
d2faza1	76	d.15.1.1 (A:1-76) Ubiquitin-like PHD and RING fing	7e-06
d1yqba1	84	d.15.1.1 (A:15-98) Ubiquilin-3 {Human (Homo sapien	3e-07
d1yqba1	84	d.15.1.1 (A:15-98) Ubiquilin-3 {Human (Homo sapien	6e-06
d1z2ma1	76	d.15.1.1 (A:3-78) Interferon-induced 15 kDa protei	3e-07
d1z2ma1	76	d.15.1.1 (A:3-78) Interferon-induced 15 kDa protei	4e-05
d1v2ya_	105	d.15.1.1 (A:) Ubiquitin-like protein 3300001g02rik	3e-07
d1wxva1	81	d.15.1.1 (A:7-87) Bag-family molecular chaperone r	4e-07
d1wxva1	81	d.15.1.1 (A:7-87) Bag-family molecular chaperone r	4e-06
d1x1ma1	94	d.15.1.1 (A:8-101) Ubiquitin-like protein 7 {Mouse	4e-06
d1wjna_	97	d.15.1.1 (A:) Tubulin-folding protein TbcE {Mouse	2e-05
d1wjna_	97	d.15.1.1 (A:) Tubulin-folding protein TbcE {Mouse	3e-05
d1euvb_	79	d.15.1.1 (B:) SUMO-1 (smt3 homologue) {Baker's yea	2e-05
d2uyzb1	77	d.15.1.1 (B:20-96) SUMO-1 (smt3 homologue) {Human	3e-05
d1v6ea_	95	d.15.1.1 (A:) Ubiquitin-like domain of tubulin fol	4e-05
d1v6ea_	95	d.15.1.1 (A:) Ubiquitin-like domain of tubulin fol	3e-04
d1t0ya_	90	d.15.1.1 (A:) Ubiquitin-like domain of tubulin fol	2e-04
d1t0ya_	90	d.15.1.1 (A:) Ubiquitin-like domain of tubulin fol	0.001
d1se9a_	101	d.15.1.1 (A:) Hypothetical protein At3g01050 {Thal	2e-04
d1se9a_	101	d.15.1.1 (A:) Hypothetical protein At3g01050 {Thal	0.002
d1we6a_	111	d.15.1.1 (A:) Splicing factor 3 subunit 1, C-termi	3e-04
d1we6a_	111	d.15.1.1 (A:) Splicing factor 3 subunit 1, C-termi	5e-04

>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 = 59.2 bits (143), Expect = 2e-12
 Identities = 24/71 (33%), Positives = 40/71 (56%)

Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK  T+EV   DT+  +K KI+  +GIP  +Q L+F G+ L+D R +    
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60

Query: 61 ILQNSRIQLLV 71
          I + S + L++
Sbjct: 61 IQKESTLHLVL 71

>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 = 1e-06
 Identities = 16/61 (26%), Positives = 36/61 (59%)

Query: 108 HLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHV 167
            + L+++ +DT+  +K KI + E IP ++  +  +G +L+D R+L D  +   + + + +
Sbjct: 12  TITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVL 71

Query: 168 R 168
           R
Sbjct: 72  R 72

>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 = 58.3 bits (141), Expect = 4e-12
 Identities = 20/74 (27%), Positives = 39/74 (52%), Gaps = 3/74 (4%)

Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQG---IPVPKQTLVFNGQVLQDDRDVE 57
          + +  +  + + F I +   +TV  +KEKIE  +G    PV  Q L++ G++L DD  + 
Sbjct: 3  VTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIR 62

Query: 58 HCEILQNSRIQLLV 71
             I + + + ++V
Sbjct: 63 DYRIDEKNFVVVMV 76

>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 = 42.5 bits (100), Expect = 2e-06
 Identities = 17/63 (26%), Positives = 29/63 (46%), Gaps = 3/63 (4%)

Query: 108 HLPLDMDVNDTVLRLKEKIHEM---ESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEID 164
              + M+ ++TV  LKEKI      ++ PV    +  +G  L D   +RD  + +   + 
Sbjct: 14  TFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIRDYRIDEKNFVV 73

Query: 165 VHV 167
           V V
Sbjct: 74  VMV 76

>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 = 35.6 bits (82), Expect = 6e-04
 Identities = 10/73 (13%), Positives = 29/73 (39%), Gaps = 3/73 (4%)

Query: 186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDR 245
           + + + T    +   + +   + V  L+++++          P  G   IY   ++ DD 
Sbjct: 3   VTITLKTLQQ-QTFKIRMEPDETVKVLKEKIEAEK--GRDAFPVAGQKLIYAGKILSDDV 59

Query: 246 SFRWHHVGQGDTI 258
             R + + + + +
Sbjct: 60  PIRDYRIDEKNFV 72

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

 Score = 58.5 bits (141), Expect = 6e-12
 Identities = 29/110 (26%), Positives = 52/110 (47%), Gaps = 18/110 (16%)

Query: 1   MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEK---YQGIPVPKQTLVFNGQVLQDDRDVE 57
           M V  +  + + F I++   +TV  +KEKIE        PV  Q L++ G++L DD  ++
Sbjct: 1   MQVTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALK 60

Query: 58  HCEILQNSRIQLLVASDNKPQVKTEQSSPSKKIHLKINIPSNSKTHHHHH 107
             +I + + + ++V            S+P+         P+  + HHHHH
Sbjct: 61  EYKIDEKNFVVVMVTKPKAV------STPA---------PATLEHHHHHH 95

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

 Score = 41.2 bits (96), Expect = 9e-06
 Identities = 17/75 (22%), Positives = 34/75 (45%), Gaps = 3/75 (4%)

Query: 108 HLPLDMDVNDTVLRLKEKIHEM---ESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEID 164
              +D+D  +TV  LKEKI      ++ PV    +  +G  L D  +L++ ++ +   + 
Sbjct: 12  TFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALKEYKIDEKNFVV 71

Query: 165 VHVRPSPTATSTTSS 179
           V V      ++   +
Sbjct: 72  VMVTKPKAVSTPAPA 86

>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 = 58.0 bits (140), Expect = 6e-12
 Identities = 19/71 (26%), Positives = 38/71 (53%)

Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M V         F +EV    ++L++KE + K QG+P  +  ++F G+ L +   V++C+
Sbjct: 3  MIVFVRFNSSYGFPVEVDSDTSILQLKEVVAKRQGVPADQLRVIFAGKELPNHLTVQNCD 62

Query: 61 ILQNSRIQLLV 71
          + Q S + ++ 
Sbjct: 63 LEQQSIVHIVQ 73

>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 = 46.0 bits (109), Expect = 1e-07
 Identities = 17/63 (26%), Positives = 41/63 (65%)

Query: 107 HHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVH 166
           +  P+++D + ++L+LKE + + + +P ++L V  +G EL +H ++++C+L   + + + 
Sbjct: 13  YGFPVEVDSDTSILQLKEVVAKRQGVPADQLRVIFAGKELPNHLTVQNCDLEQQSIVHIV 72

Query: 167 VRP 169
            RP
Sbjct: 73  QRP 75

>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 = 36.4 bits (84), Expect = 4e-04
 Identities = 11/72 (15%), Positives = 28/72 (38%), Gaps = 6/72 (8%)

Query: 187 KLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRS 246
            + V         PVEV++  ++ +L++ + K        +P D    I+    + +  +
Sbjct: 4   IVFVRFNSS-YGFPVEVDSDTSILQLKEVVAK-----RQGVPADQLRVIFAGKELPNHLT 57

Query: 247 FRWHHVGQGDTI 258
            +   + Q   +
Sbjct: 58  VQNCDLEQQSIV 69

>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 = 58.0 bits (140), Expect = 8e-12
 Identities = 16/62 (25%), Positives = 28/62 (45%)

Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
          G+     +   D V  IK KI +  G+P  KQ L + G  ++D   + +  +   + I L
Sbjct: 21 GQVLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDSNSLAYYNMANGAVIHL 80

Query: 70 LV 71
           +
Sbjct: 81 AL 82

>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 = 48.3 bits (115), Expect = 2e-08
 Identities = 16/61 (26%), Positives = 29/61 (47%)

Query: 108 HLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHV 167
            L   + + D V  +K KIHE   +P  +  +Q  G  ++D  SL    + + A I + +
Sbjct: 23  VLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDSNSLAYYNMANGAVIHLAL 82

Query: 168 R 168
           +
Sbjct: 83  K 83

>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 = 35.2 bits (81), Expect = 9e-04
 Identities = 9/62 (14%), Positives = 25/62 (40%), Gaps = 5/62 (8%)

Query: 197 KRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGD 256
           + +   +  +D VS ++ ++ +        +P       Y+   + D  S  ++++  G 
Sbjct: 22  QVLVFTLPLTDQVSVIKVKIHE-----ATGMPAGKQKLQYEGIFIKDSNSLAYYNMANGA 76

Query: 257 TI 258
            I
Sbjct: 77  VI 78

>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 = 57.2 bits (138), Expect = 1e-11
 Identities = 22/71 (30%), Positives = 40/71 (56%)

Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          M +  +   GK   I++   DT+  IKE++E+ +GIP  +Q L++ G+ L DD+  +   
Sbjct: 1  MLIKVKTLTGKEIEIDIEPTDTIDRIKERVEEKEGIPPVQQRLIYAGKQLADDKTAKDYN 60

Query: 61 ILQNSRIQLLV 71
          I   S + L++
Sbjct: 61 IEGGSVLHLVL 71

>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 = 41.0 bits (96), Expect = 7e-06
 Identities = 14/61 (22%), Positives = 34/61 (55%)

Query: 108 HLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHV 167
            + +D++  DT+ R+KE++ E E IP  +  +  +G +L D ++ +D  +   + + + +
Sbjct: 12  EIEIDIEPTDTIDRIKERVEEKEGIPPVQQRLIYAGKQLADDKTAKDYNIEGGSVLHLVL 71

Query: 168 R 168
            
Sbjct: 72  A 72

>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 = 35.2 bits (81), Expect = 8e-04
 Identities = 12/72 (16%), Positives = 33/72 (45%), Gaps = 6/72 (8%)

Query: 187 KLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRS 246
            + V T  G K I +++  +D +  +++ +++        +P      IY    + DD++
Sbjct: 2   LIKVKTLTG-KEIEIDIEPTDTIDRIKERVEE-----KEGIPPVQQRLIYAGKQLADDKT 55

Query: 247 FRWHHVGQGDTI 258
            + +++  G  +
Sbjct: 56  AKDYNIEGGSVL 67

>d1wh3a_ d.15.1.1 (A:) 2'-5'-oligoadenylate synthetase-like protein, OASL {Human (Homo sapiens) [TaxId: 9606]} Length = 87

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]

 Score = 57.2 bits (138), Expect = 1e-11
 Identities = 21/77 (27%), Positives = 36/77 (46%)

Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          + V  +   G ++   +     +L +K++IE  QG+P  +Q L F GQVLQD   +    
Sbjct: 8  IQVFVKNPDGGSYAYAINPNSFILGLKQQIEDQQGLPKKQQQLEFQGQVLQDWLGLGIYG 67

Query: 61 ILQNSRIQLLVASDNKP 77
          I  +  + L     + P
Sbjct: 68 IQDSDTLILSKKKGSGP 84

>d1wh3a_ d.15.1.1 (A:) 2'-5'-oligoadenylate synthetase-like protein, OASL {Human (Homo sapiens) [TaxId: 9606]} Length = 87

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]

 Score = 44.9 bits (106), Expect = 4e-07
 Identities = 18/92 (19%), Positives = 40/92 (43%), Gaps = 7/92 (7%)

Query: 84  SSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSG 143
           SS S  I + +  P +  ++         ++ N  +L LK++I + + +P  +  ++  G
Sbjct: 2   SSGSSGIQVFVKNP-DGGSY------AYAINPNSFILGLKQQIEDQQGLPKKQQQLEFQG 54

Query: 144 AELQDHRSLRDCELMDNAEIDVHVRPSPTATS 175
             LQD   L    + D+  + +  +     +S
Sbjct: 55  QVLQDWLGLGIYGIQDSDTLILSKKKGSGPSS 86

>d1wh3a_ d.15.1.1 (A:) 2'-5'-oligoadenylate synthetase-like protein, OASL {Human (Homo sapiens) [TaxId: 9606]} Length = 87

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]

 Score = 41.5 bits (97), Expect = 7e-06
 Identities = 14/84 (16%), Positives = 33/84 (39%), Gaps = 11/84 (13%)

Query: 175 STTSSGMGPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFF 234
           S+ SSG+     ++ V    G       +N +  +  L+++++         LP+     
Sbjct: 2   SSGSSGI-----QVFVKNPDG-GSYAYAINPNSFILGLKQQIED-----QQGLPKKQQQL 50

Query: 235 IYKQNVMDDDRSFRWHHVGQGDTI 258
            ++  V+ D      + +   DT+
Sbjct: 51  EFQGQVLQDWLGLGIYGIQDSDTL 74

>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 = 56.7 bits (137), Expect = 2e-11
 Identities = 22/60 (36%), Positives = 33/60 (55%)

Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
             + + V    TVL+ KE I K  GIPV  Q L+++G++L+DD+ VE   I     + L
Sbjct: 10 QDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESYHIQDGHSVHL 69

>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 = 50.5 bits (121), Expect = 3e-09
 Identities = 18/72 (25%), Positives = 32/72 (44%), Gaps = 6/72 (8%)

Query: 92  LKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRS 151
           L I+I S            +++    TVL+ KE I++   IPV    +  SG  L+D ++
Sbjct: 2   LNIHIKSGQDKW------EVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQT 55

Query: 152 LRDCELMDNAEI 163
           +    + D   +
Sbjct: 56  VESYHIQDGHSV 67

>d2bwfa1 d.15.1.1 (A:2-74) DSK2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 73

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

 Score = 37.4 bits (87), Expect = 1e-04
 Identities = 12/64 (18%), Positives = 26/64 (40%), Gaps = 5/64 (7%)

Query: 195 GNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQ 254
           G  +  V V     V + ++ + K        +P      IY   ++ DD++   +H+  
Sbjct: 9   GQDKWEVNVAPESTVLQFKEAINK-----ANGIPVANQRLIYSGKILKDDQTVESYHIQD 63

Query: 255 GDTI 258
           G ++
Sbjct: 64  GHSV 67

>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 = 56.8 bits (137), Expect = 2e-11
 Identities = 14/71 (19%), Positives = 33/71 (46%)

Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          + ++    +G++ T EV    TV  +K+++   +G+      L F G+ L+D   +    
Sbjct: 4  LSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYG 63

Query: 61 ILQNSRIQLLV 71
          +   S + + +
Sbjct: 64 LKPLSTVFMNL 74

>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 = 46.0 bits (109), Expect = 1e-07
 Identities = 11/60 (18%), Positives = 28/60 (46%)

Query: 109 LPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVR 168
              ++ +  TV  LK+++  +E +  +   +   G  L+D   L +  L   + + +++R
Sbjct: 16  STYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNLR 75

>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 = 36.8 bits (85), Expect = 3e-04
 Identities = 11/73 (15%), Positives = 29/73 (39%), Gaps = 6/73 (8%)

Query: 186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDR 245
           L +LV    G +    EV  +  V+ L++++          +  D ++  ++   ++D  
Sbjct: 4   LSILVRNNKG-RSSTYEVRLTQTVAHLKQQVSG-----LEGVQDDLFWLTFEGKPLEDQL 57

Query: 246 SFRWHHVGQGDTI 258
               + +    T+
Sbjct: 58  PLGEYGLKPLSTV 70

>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 = 54.5 bits (131), Expect = 9e-11
 Identities = 22/71 (30%), Positives = 35/71 (49%), Gaps = 1/71 (1%)

Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          ++V+ +    +  T  VG    V E KE I     IP  KQ L++ G+VLQDD+ ++   
Sbjct: 1  LEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEYN 60

Query: 61 ILQNSRIQLLV 71
          +     I L+ 
Sbjct: 61 V-GGKVIHLVE 70

>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 = 44.1 bits (104), Expect = 6e-07
 Identities = 12/53 (22%), Positives = 19/53 (35%)

Query: 108 HLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDN 160
                +     V   KE I    SIP  +  +   G  LQD + L++  +   
Sbjct: 12  TRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEYNVGGK 64

>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 = 54.6 bits (131), Expect = 2e-10
 Identities = 13/63 (20%), Positives = 27/63 (42%)

Query: 9  RGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQ 68
          + +   +E     T  E++ KI +  G+      +V N + LQ  + +E   +  N +  
Sbjct: 28 KDRKNLLETRLHITGRELRSKIAETFGLQENYIKIVINKKQLQLGKTLEEQGVAHNVKAM 87

Query: 69 LLV 71
          +L 
Sbjct: 88 VLE 90

>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 = 40.0 bits (93), Expect = 3e-05
 Identities = 13/70 (18%), Positives = 29/70 (41%)

Query: 107 HHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVH 166
               L+  ++ T   L+ KI E   +  N + +  +  +LQ  ++L +  +  N +  V 
Sbjct: 30  RKNLLETRLHITGRELRSKIAETFGLQENYIKIVINKKQLQLGKTLEEQGVAHNVKAMVL 89

Query: 167 VRPSPTATST 176
                +  S+
Sbjct: 90  ELKQSSGPSS 99

>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 = 37.6 bits (87), Expect = 2e-04
 Identities = 8/78 (10%), Positives = 26/78 (33%), Gaps = 6/78 (7%)

Query: 182 GPRKLKLLVLTQCGN-KRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNV 240
           G   +++ +  +    ++  +E        ELR ++ +      F L ++    +  +  
Sbjct: 14  GIATIEVFLPPRLKKDRKNLLETRLHITGRELRSKIAE-----TFGLQENYIKIVINKKQ 68

Query: 241 MDDDRSFRWHHVGQGDTI 258
           +   ++     V      
Sbjct: 69  LQLGKTLEEQGVAHNVKA 86

>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 = 53.3 bits (128), Expect = 5e-10
 Identities = 16/65 (24%), Positives = 26/65 (40%), Gaps = 1/65 (1%)

Query: 2  DVIFEPQRGK-AFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          DV    +R K     +     TV E+K  +E     P  +Q L  + Q+L D + +  C 
Sbjct: 1  DVFLMIRRHKTTIFTDAKESSTVFELKRIVEGILKRPPDEQRLYKDDQLLDDGKTLGECG 60

Query: 61 ILQNS 65
              +
Sbjct: 61 FTSQT 65

>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 = 47.5 bits (113), Expect = 7e-08
 Identities = 11/60 (18%), Positives = 20/60 (33%)

Query: 101 KTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDN 160
               H   +  D   + TV  LK  +  +   P +   +      L D ++L +C     
Sbjct: 5   MIRRHKTTIFTDAKESSTVFELKRIVEGILKRPPDEQRLYKDDQLLDDGKTLGECGFTSQ 64

>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 = 49.1 bits (117), Expect = 1e-08
 Identities = 23/96 (23%), Positives = 35/96 (36%), Gaps = 11/96 (11%)

Query: 84  SSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEM--ESIPVNRLLVQS 141
           SS S  + L +  P+          L L  D   +V  LK  +  +  E        +  
Sbjct: 2   SSGSSGVTLLVKSPNQRH-----RDLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIY 56

Query: 142 SGAELQDHRSLRDCELMDNAEIDVH----VRPSPTA 173
           SG  L DH+ LRD          +H    V+  P++
Sbjct: 57  SGKLLLDHQCLRDLLPKQEKRHVLHLVCNVKSGPSS 92

>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 = 47.2 bits (112), Expect = 6e-08
 Identities = 14/74 (18%), Positives = 28/74 (37%), Gaps = 3/74 (4%)

Query: 8  QRGKAFTIEVGFFDTVLEIKEKIEKYQG--IPVPKQTLVFNGQVLQDDRDVEHCEILQNS 65
          QR +   +      +V  +K  + +          Q L+++G++L D + +      Q  
Sbjct: 17 QRHRDLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLLDHQCLRDLLPKQEK 76

Query: 66 RIQL-LVASDNKPQ 78
          R  L LV +     
Sbjct: 77 RHVLHLVCNVKSGP 90

>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 = 49.2 bits (117), Expect = 1e-08
 Identities = 14/69 (20%), Positives = 29/69 (42%)

Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          ++V+   + GK   ++    DT+ ++K+ I    G    K  L     + +D   +   E
Sbjct: 29 IEVVCNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTRWNKIVLKKWYTIFKDHVSLGDYE 88

Query: 61 ILQNSRIQL 69
          I     ++L
Sbjct: 89 IHDGMNLEL 97

>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 = 35.7 bits (82), Expect = 9e-04
 Identities = 13/62 (20%), Positives = 31/62 (50%)

Query: 107 HHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVH 166
             + +  + +DT+  LK+ I        N+++++      +DH SL D E+ D   ++++
Sbjct: 39  KKVRVKCNTDDTIGDLKKLIAAQTGTRWNKIVLKKWYTIFKDHVSLGDYEIHDGMNLELY 98

Query: 167 VR 168
            +
Sbjct: 99  YQ 100

>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 = 34.2 bits (78), Expect = 0.003
 Identities = 15/99 (15%), Positives = 35/99 (35%), Gaps = 7/99 (7%)

Query: 164 DVHVRPSPTATSTTSSGMGP-RKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQR 222
             H   S  A+       G    ++++   + G K++ V+ N  D + +L+K +      
Sbjct: 6   HHHHHHSSGASLVPRGSEGAATMIEVVCNDRLG-KKVRVKCNTDDTIGDLKKLIAA---- 60

Query: 223 YHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIF 261
                  +         +  D  S   + +  G  +E++
Sbjct: 61  -QTGTRWNKIVLKKWYTIFKDHVSLGDYEIHDGMNLELY 98

>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 = 48.5 bits (115), Expect = 2e-08
 Identities = 16/69 (23%), Positives = 32/69 (46%)

Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          ++V+   + GK   ++    D+V + K+ +    G    K  L   G VL+D   +E  E
Sbjct: 2  IEVVVNDRLGKKVRVKCLAEDSVGDFKKVLSLQIGTQPNKIVLQKGGSVLKDHISLEDYE 61

Query: 61 ILQNSRIQL 69
          +   + ++L
Sbjct: 62 VHDQTNLEL 70

>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 = 35.0 bits (80), Expect = 8e-04
 Identities = 14/76 (18%), Positives = 32/76 (42%), Gaps = 6/76 (7%)

Query: 186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDR 245
           ++++V  + G K++ V+  A D+V + +K L          +           +V+ D  
Sbjct: 2   IEVVVNDRLG-KKVRVKCLAEDSVGDFKKVLSLQIGTQPNKI-----VLQKGGSVLKDHI 55

Query: 246 SFRWHHVGQGDTIEIF 261
           S   + V     +E++
Sbjct: 56  SLEDYEVHDQTNLELY 71

>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 = 49.6 bits (118), Expect = 2e-08
 Identities = 13/89 (14%), Positives = 30/89 (33%), Gaps = 9/89 (10%)

Query: 10  GKAFTIEVGFFDTVLEIKEKI--------EKYQGIPVPKQTLVFNGQVLQDDRDVEHCEI 61
           GK         D+  +I + +        E+ Q        L++ G+ L  +  +   ++
Sbjct: 26  GKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVTLGALKL 85

Query: 62  LQNSRIQL-LVASDNKPQVKTEQSSPSKK 89
                  + LVA +  P+  ++       
Sbjct: 86  PFGKTTVMHLVARETLPEPNSQGQRSGPS 114

>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 = 48.0 bits (114), Expect = 6e-08
 Identities = 19/107 (17%), Positives = 36/107 (33%), Gaps = 15/107 (14%)

Query: 82  EQSSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIH--------EMESIP 133
               P+  I+L++ + S  KT             ND+   + + ++        E +   
Sbjct: 9   SSHVPADMINLRLILVSG-KTK------EFLFSPNDSASDIAKHVYDNWPMDWEEEQVSS 61

Query: 134 VNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHVRPSPTATSTTSSG 180
            N L +   G  L  + +L   +L       +H+    T     S G
Sbjct: 62  PNILRLIYQGRFLHGNVTLGALKLPFGKTTVMHLVARETLPEPNSQG 108

>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 = 48.8 bits (116), Expect = 2e-08
 Identities = 15/92 (16%), Positives = 35/92 (38%), Gaps = 8/92 (8%)

Query: 77  PQVKTEQSSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVNR 136
            Q      +  K I + +  P   +           +  N +V + KE I +      ++
Sbjct: 20  AQGSAAAPAEPKIIKVTVKTPKEKEE--------FAVPENSSVQQFKEAISKRFKSQTDQ 71

Query: 137 LLVQSSGAELQDHRSLRDCELMDNAEIDVHVR 168
           L++  +G  L+D  +L    + D   + + ++
Sbjct: 72  LVLIFAGKILKDQDTLIQHGIHDGLTVHLVIK 103

>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 = 48.4 bits (115), Expect = 3e-08
 Identities = 13/62 (20%), Positives = 25/62 (40%)

Query: 10  GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
            +     V    +V + KE I K       +  L+F G++L+D   +    I     + L
Sbjct: 41  KEKEEFAVPENSSVQQFKEAISKRFKSQTDQLVLIFAGKILKDQDTLIQHGIHDGLTVHL 100

Query: 70  LV 71
           ++
Sbjct: 101 VI 102

>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 = 48.5 bits (115), Expect = 3e-08
 Identities = 12/78 (15%), Positives = 27/78 (34%), Gaps = 1/78 (1%)

Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQD-DRDVEHCEILQNSRIQ 68
             F+++V     +   +   E   G+P  +  +V+  Q+L D    +    +     + 
Sbjct: 21 EVTFSLQVNPDFELSNFRVLCELESGVPAEEAQIVYMEQLLTDDHCSLGSYGLKDGDMVV 80

Query: 69 LLVASDNKPQVKTEQSSP 86
          LL   +   +      S 
Sbjct: 81 LLQKDNVGLRTPGRTPSG 98

>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 = 40.0 bits (93), Expect = 3e-05
 Identities = 11/93 (11%), Positives = 27/93 (29%), Gaps = 2/93 (2%)

Query: 92  LKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDH-R 150
           + I +    +         L ++ +  +   +        +P     +      L D   
Sbjct: 8   MLITVYCVRRDLTEVTF-SLQVNPDFELSNFRVLCELESGVPAEEAQIVYMEQLLTDDHC 66

Query: 151 SLRDCELMDNAEIDVHVRPSPTATSTTSSGMGP 183
           SL    L D   + +  + +    +   +  GP
Sbjct: 67  SLGSYGLKDGDMVVLLQKDNVGLRTPGRTPSGP 99

>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 = 47.6 bits (113), Expect = 3e-08
 Identities = 17/63 (26%), Positives = 32/63 (50%)

Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
          GK   + V   DTV  +K ++   +G+    Q   F+G+ L D    E  +I ++  +Q+
Sbjct: 13 GKDLKLVVRSTDTVFHMKRRLHAAEGVEPGSQRWFFSGRPLTDKMKFEELKIPKDYVVQV 72

Query: 70 LVA 72
          +V+
Sbjct: 73 IVS 75

>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 = 48.0 bits (114), Expect = 4e-08
 Identities = 17/88 (19%), Positives = 28/88 (31%), Gaps = 7/88 (7%)

Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVL-QDDRDVEHC 59
          ++V  +              DTV  +K K    Q     +  L++ G++L    R +   
Sbjct: 8  INVRLKFLNDTEELAVARPEDTVGTLKSKYFPGQES---QMKLIYQGRLLQDPARTLSSL 64

Query: 60 EILQNSRIQLLVASDNKPQVKTEQSSPS 87
           I  N  I       + P       S S
Sbjct: 65 NITNNCVIHCHR---SPPGAAVSGPSAS 89

>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 = 40.3 bits (94), Expect = 2e-05
 Identities = 23/101 (22%), Positives = 34/101 (33%), Gaps = 9/101 (8%)

Query: 84  SSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSG 143
           SS S  I++++    N                 DTV  LK K    +   +   L+    
Sbjct: 2   SSGSSGINVRLKFL-NDTEEL------AVARPEDTVGTLKSKYFPGQESQMK--LIYQGR 52

Query: 144 AELQDHRSLRDCELMDNAEIDVHVRPSPTATSTTSSGMGPR 184
                 R+L    + +N  I  H  P   A S  S+  GP 
Sbjct: 53  LLQDPARTLSSLNITNNCVIHCHRSPPGAAVSGPSASSGPS 93

>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 = 47.2 bits (112), Expect = 4e-08
 Identities = 19/65 (29%), Positives = 32/65 (49%), Gaps = 1/65 (1%)

Query: 11 KAFTIE-VGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
          K  TIE V    T+ E++E++     +    Q L + G+ L++   +   ++  N  IQL
Sbjct: 12 KTCTIEDVSRKATIEELRERVWALFDVRPECQRLFYRGKQLENGYTLFDYDVGLNDIIQL 71

Query: 70 LVASD 74
          LV  D
Sbjct: 72 LVRPD 76

>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 = 46.4 bits (110), Expect = 9e-08
 Identities = 13/62 (20%), Positives = 28/62 (45%)

Query: 108 HLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVHV 167
               D+    T+  L+E++  +  +      +   G +L++  +L D ++  N  I + V
Sbjct: 14  CTIEDVSRKATIEELRERVWALFDVRPECQRLFYRGKQLENGYTLFDYDVGLNDIIQLLV 73

Query: 168 RP 169
           RP
Sbjct: 74  RP 75

>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 = 47.6 bits (113), Expect = 4e-08
 Identities = 12/68 (17%), Positives = 34/68 (50%), Gaps = 1/68 (1%)

Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
               ++V    T  E+K+KI    G+P   Q +++   ++ +D+ +   ++   ++I +
Sbjct: 26 KTKHDVKVPLDSTGSELKQKIHSITGLPPAMQKVMY-KGLVPEDKTLREIKVTSGAKIMV 84

Query: 70 LVASDNKP 77
          + ++ + P
Sbjct: 85 VGSTISGP 92

>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 = 41.9 bits (98), Expect = 6e-06
 Identities = 20/89 (22%), Positives = 38/89 (42%), Gaps = 11/89 (12%)

Query: 92  LKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRS 151
           + + I  N   H       + + ++ T   LK+KIH +  +P     V      + + ++
Sbjct: 18  VDLKIIWNKTKH------DVKVPLDSTGSELKQKIHSITGLPPAMQKVM-YKGLVPEDKT 70

Query: 152 LRDCELMDNAEIDVHVRPSPTATSTTSSG 180
           LR+ ++   A+I V      +  S  SSG
Sbjct: 71  LREIKVTSGAKIMV----VGSTISGPSSG 95

>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 = 47.3 bits (112), Expect = 6e-08
 Identities = 14/86 (16%), Positives = 39/86 (45%), Gaps = 1/86 (1%)

Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
            V  +  + K   +E+   +  +  K ++    G+   +Q ++  G  L+DD D  + +
Sbjct: 8  YSVTVKWGKEKFEGVELNTDEPPMVFKAQLFALTGVQPARQKVMVKGGTLKDD-DWGNIK 66

Query: 61 ILQNSRIQLLVASDNKPQVKTEQSSP 86
          +     + ++ ++D  P+  + ++S 
Sbjct: 67 MKNGMTVLMMGSADALPEEPSAKTSG 92

>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 = 37.7 bits (87), Expect = 2e-04
 Identities = 14/103 (13%), Positives = 35/103 (33%), Gaps = 14/103 (13%)

Query: 84  SSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSG 143
           SS S      + +    +         ++++ ++  +  K ++  +  +   R  V   G
Sbjct: 2   SSGSSGY--SVTVKWGKEKFE-----GVELNTDEPPMVFKAQLFALTGVQPARQKVMVKG 54

Query: 144 AELQDHRSLRDCELMDNAEIDVHVRPSP------TATSTTSSG 180
             L+D     + ++ +   + +              TS  SSG
Sbjct: 55  GTLKD-DDWGNIKMKNGMTVLMMGSADALPEEPSAKTSGPSSG 96

>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 = 46.9 bits (111), Expect = 7e-08
 Identities = 16/73 (21%), Positives = 31/73 (42%), Gaps = 1/73 (1%)

Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCE 60
          + V  +  +       +     V   K++I KY      +  L+F G++L+D   +    
Sbjct: 11 IRVSVKTPQDC-HEFFLAENSNVRRFKKQISKYLHCNADRLVLIFTGKILRDQDILSQRG 69

Query: 61 ILQNSRIQLLVAS 73
          IL  S + ++V S
Sbjct: 70 ILDGSTVHVVVRS 82

>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 = 40.4 bits (94), Expect = 2e-05
 Identities = 18/86 (20%), Positives = 36/86 (41%), Gaps = 8/86 (9%)

Query: 83  QSSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSS 142
           +   S+ I + +  P +             +  N  V R K++I +      +RL++  +
Sbjct: 4   REPSSRIIRVSVKTPQDCHE--------FFLAENSNVRRFKKQISKYLHCNADRLVLIFT 55

Query: 143 GAELQDHRSLRDCELMDNAEIDVHVR 168
           G  L+D   L    ++D + + V VR
Sbjct: 56  GKILRDQDILSQRGILDGSTVHVVVR 81

>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 = 46.1 bits (109), Expect = 1e-07
 Identities = 14/81 (17%), Positives = 38/81 (46%), Gaps = 3/81 (3%)

Query: 1  MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQ---TLVFNGQVLQDDRDVE 57
          + +I +    +     +   DTVL++K+ ++   G+   +Q    L   G+  ++D  + 
Sbjct: 8  LPIIVKWGGQEYSVTTLSEDDTVLDLKQFLKTLTGVLPERQKLLGLKVKGKPAENDVKLG 67

Query: 58 HCEILQNSRIQLLVASDNKPQ 78
            ++  N++I ++   ++ P 
Sbjct: 68 ALKLKPNTKIMMMGTRESGPS 88

>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 = 41.1 bits (96), Expect = 9e-06
 Identities = 18/95 (18%), Positives = 36/95 (37%), Gaps = 10/95 (10%)

Query: 84  SSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVNR---LLVQ 140
           SS S  +   I +    + +         +  +DTVL LK+ +  +  +   R   L ++
Sbjct: 2   SSGSSGL--PIIVKWGGQEYSV-----TTLSEDDTVLDLKQFLKTLTGVLPERQKLLGLK 54

Query: 141 SSGAELQDHRSLRDCELMDNAEIDVHVRPSPTATS 175
             G   ++   L   +L  N +I +        +S
Sbjct: 55  VKGKPAENDVKLGALKLKPNTKIMMMGTRESGPSS 89

>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 = 45.3 bits (107), Expect = 2e-07
 Identities = 16/60 (26%), Positives = 30/60 (50%), Gaps = 1/60 (1%)

Query: 13 FTIE-VGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLV 71
           T++ +     V E++ KI++   +    Q L + G+ ++D   +   E+  N  IQLLV
Sbjct: 14 HTVDSLSRLTKVEELRRKIQELFHVEPGLQRLFYRGKQMEDGHTLFDYEVRLNDTIQLLV 73

>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 = 41.0 bits (96), Expect = 7e-06
 Identities = 16/64 (25%), Positives = 27/64 (42%)

Query: 107 HHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRSLRDCELMDNAEIDVH 166
            H    +     V  L+ KI E+  +      +   G +++D  +L D E+  N  I + 
Sbjct: 13  THTVDSLSRLTKVEELRRKIQELFHVEPGLQRLFYRGKQMEDGHTLFDYEVRLNDTIQLL 72

Query: 167 VRPS 170
           VR S
Sbjct: 73  VRQS 76

>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 = 45.4 bits (107), Expect = 3e-07
 Identities = 12/67 (17%), Positives = 29/67 (43%)

Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQL 69
                 V    T+ ++KE+I +       +  L+F G++L+D   +  C +     + L
Sbjct: 16 KDKEDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQCGVRDGLTVHL 75

Query: 70 LVASDNK 76
          ++   ++
Sbjct: 76 VIKRQHR 82

>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 = 41.5 bits (97), Expect = 6e-06
 Identities = 15/82 (18%), Positives = 35/82 (42%), Gaps = 6/82 (7%)

Query: 92  LKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQDHRS 151
           +K+ + +              +    T+ +LKE+I +      ++L++  +G  L+D  S
Sbjct: 8   IKVTVKTPKDKE------DFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDS 61

Query: 152 LRDCELMDNAEIDVHVRPSPTA 173
           L  C + D   + + ++    A
Sbjct: 62  LAQCGVRDGLTVHLVIKRQHRA 83

>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 = 44.9 bits (106), Expect = 3e-07
 Identities = 16/64 (25%), Positives = 29/64 (45%), Gaps = 2/64 (3%)

Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFN--GQVLQDDRDVEHCEILQNSRI 67
          G  F + +    +V E+K +I +  G+   +Q L  +  G  LQD   +    +   S +
Sbjct: 10 GNEFQVSLSSSMSVSELKAQITQKIGVHAFQQRLAVHPSGVALQDRVPLASQGLGPGSTV 69

Query: 68 QLLV 71
           L+V
Sbjct: 70 LLVV 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 = 38.7 bits (90), Expect = 4e-05
 Identities = 16/65 (24%), Positives = 26/65 (40%), Gaps = 2/65 (3%)

Query: 108 HLPLDMDVNDTVLRLKEKIHEMESIPVN--RLLVQSSGAELQDHRSLRDCELMDNAEIDV 165
              + +  + +V  LK +I +   +     RL V  SG  LQD   L    L   + + +
Sbjct: 12  EFQVSLSSSMSVSELKAQITQKIGVHAFQQRLAVHPSGVALQDRVPLASQGLGPGSTVLL 71

Query: 166 HVRPS 170
            V  S
Sbjct: 72  VVDKS 76

>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 = 45.4 bits (107), Expect = 3e-07
 Identities = 17/93 (18%), Positives = 32/93 (34%), Gaps = 16/93 (17%)

Query: 1   MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQ---------------TLVF 45
           M V      G+   + V    TVL++K+ I++Y  +   ++                L  
Sbjct: 8   MTVRVCKMDGEVMPVVVVQNATVLDLKKAIQRYVQLKQEREGGVQHISWSYVWRTYHLTS 67

Query: 46  NGQVLQDDRD-VEHCEILQNSRIQLLVASDNKP 77
            G+ L +DR  +    I     +  +     K 
Sbjct: 68  AGEKLTEDRKKLRDYGIRNRDEVSFIKKLGQKS 100

>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 = 44.9 bits (106), Expect = 4e-07
 Identities = 12/56 (21%), Positives = 27/56 (48%), Gaps = 1/56 (1%)

Query: 21 DTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQ-DDRDVEHCEILQNSRIQLLVASDN 75
            V ++ + +E+  G+P   Q L+F G+ L+  +  +    I    R+ L+   ++
Sbjct: 26 PVVQDLAQVVEEVIGVPQSFQKLIFKGKSLKEMETPLSALGIQDGCRVMLIGKKNS 81

>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 = 41.8 bits (98), Expect = 4e-06
 Identities = 11/80 (13%), Positives = 28/80 (35%), Gaps = 2/80 (2%)

Query: 92  LKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAELQ-DHR 150
           L + +  +++ H  H            V  L + + E+  +P +   +   G  L+    
Sbjct: 2   LTVTVTHSNEKHDLHVT-SQQGSSEPVVQDLAQVVEEVIGVPQSFQKLIFKGKSLKEMET 60

Query: 151 SLRDCELMDNAEIDVHVRPS 170
            L    + D   + +  + +
Sbjct: 61  PLSALGIQDGCRVMLIGKKN 80

>d1x1ma1 d.15.1.1 (A:8-101) Ubiquitin-like protein 7 {Mouse (Mus musculus) [TaxId: 10090]} Length = 94

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein 7
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 42.2 bits (99), Expect = 4e-06
 Identities = 13/56 (23%), Positives = 29/56 (51%), Gaps = 3/56 (5%)

Query: 21 DTVLEIKEKIEK--YQGIPVPK-QTLVFNGQVLQDDRDVEHCEILQNSRIQLLVAS 73
           ++  +K+ I     + +P P+   L++ G+ L+DD+ ++   I   S + +L  S
Sbjct: 38 YSISFLKQLIAGKLQESVPDPELIDLIYCGRKLKDDQTLDFYGIQPGSTVHVLRKS 93

>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 = 40.7 bits (95), Expect = 2e-05
 Identities = 17/98 (17%), Positives = 38/98 (38%), Gaps = 13/98 (13%)

Query: 83  QSSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSS 142
             S  + + LKI   +  +       L   +  + TV ++K  +  +  +PV+ LL+   
Sbjct: 3   SGSSGQLLTLKIKCSNQPE----RQILEKQLPDSMTVQKVKGLLSRLLKVPVSELLLSYE 58

Query: 143 GAELQ--------DHRSLRDCELMDNAEIDVHV-RPSP 171
            +++         D + L+   + +   + V    PS 
Sbjct: 59  SSKMPGREIELENDLQPLQFYSVENGDCLLVRWSGPSS 96

>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 = 39.9 bits (93), Expect = 3e-05
 Identities = 8/77 (10%), Positives = 26/77 (33%), Gaps = 11/77 (14%)

Query: 10 GKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQ--------DDRDVEHCEI 61
           +    ++    TV ++K  + +   +PV +  L +    +         D + ++   +
Sbjct: 22 RQILEKQLPDSMTVQKVKGLLSRLLKVPVSELLLSYESSKMPGREIELENDLQPLQFYSV 81

Query: 62 LQNSRIQLLVASDNKPQ 78
               + +     + P 
Sbjct: 82 ENGDCLLVR---WSGPS 95

>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 = 39.4 bits (92), Expect = 2e-05
 Identities = 10/65 (15%), Positives = 23/65 (35%)

Query: 7  PQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSR 66
                   ++     +  + E   K QG  +     +++G  +Q D+  E  ++  N  
Sbjct: 10 SDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDI 69

Query: 67 IQLLV 71
          I+   
Sbjct: 70 IEAHR 74

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

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

 Score = 39.3 bits (92), Expect = 3e-05
 Identities = 12/64 (18%), Positives = 27/64 (42%)

Query: 8  QRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRI 67
          Q       +V     + ++KE   + QG+P+     +F GQ + D+   +   + +   I
Sbjct: 10 QDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVI 69

Query: 68 QLLV 71
          ++  
Sbjct: 70 EVYQ 73

>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 = 39.1 bits (91), Expect = 4e-05
 Identities = 16/88 (18%), Positives = 24/88 (27%), Gaps = 16/88 (18%)

Query: 7  PQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQ-------VLQDDRDVEHC 59
                         T+ E K K+E   G P     L   G        + Q+D  +   
Sbjct: 15 SLNSFRSEKRYSRSLTIAEFKCKLELVVGSPASCMELELYGADDKFYSKLDQEDALLGSY 74

Query: 60 EILQNSRIQLLVASDNKPQVKTEQSSPS 87
           +    RI +         +    S PS
Sbjct: 75 PVDDGCRIHV---------IDHSGSGPS 93

>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 = 36.8 bits (85), Expect = 3e-04
 Identities = 18/99 (18%), Positives = 33/99 (33%), Gaps = 13/99 (13%)

Query: 84  SSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSG 143
           SS S  + + I+   NS               + T+   K K+  +   P + + ++  G
Sbjct: 2   SSGSSGVMVFISSSLNSFRSE------KRYSRSLTIAEFKCKLELVVGSPASCMELELYG 55

Query: 144 AE-------LQDHRSLRDCELMDNAEIDVHVRPSPTATS 175
           A+        Q+   L    + D   I V        +S
Sbjct: 56  ADDKFYSKLDQEDALLGSYPVDDGCRIHVIDHSGSGPSS 94

>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 = 37.2 bits (86), Expect = 2e-04
 Identities = 9/69 (13%), Positives = 23/69 (33%), Gaps = 9/69 (13%)

Query: 10 GKAFTIEVGF--FDTVLEIKEKIEKYQGIPVPKQTLVFNGQ-------VLQDDRDVEHCE 60
             F +E  +    ++ ++K+K+E   G  V    +            +    + ++   
Sbjct: 13 ATDFPMEKKYPAGMSLNDLKKKLELVVGTTVDSMRIQLFDGDDQLKGELTDGAKSLKDLG 72

Query: 61 ILQNSRIQL 69
          +    RI  
Sbjct: 73 VRDGYRIHA 81

>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 = 34.8 bits (80), Expect = 0.001
 Identities = 14/82 (17%), Positives = 29/82 (35%), Gaps = 11/82 (13%)

Query: 92  LKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQSSGAE------ 145
             + I +N+         P  M    ++  LK+K+  +    V+ + +Q    +      
Sbjct: 5   YDLEITTNATDFPMEKKYPAGM----SLNDLKKKLELVVGTTVDSMRIQLFDGDDQLKGE 60

Query: 146 -LQDHRSLRDCELMDNAEIDVH 166
                +SL+D  + D   I   
Sbjct: 61  LTDGAKSLKDLGVRDGYRIHAV 82

>d1se9a_ d.15.1.1 (A:) Hypothetical protein At3g01050 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 101

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Hypothetical protein At3g01050
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 37.6 bits (87), Expect = 2e-04
 Identities = 13/76 (17%), Positives = 28/76 (36%), Gaps = 8/76 (10%)

Query: 1  MDVIFEPQRGKAFT-IEVGFFDTVLEIKEKIEK-----YQGIP--VPKQTLVFNGQVLQD 52
          +++ F    G            TV  +KE +        +  P  V +  L+  G+VL++
Sbjct: 8  LEIKFRLTDGSDIGPKAFPDATTVSALKETVISEWPREKENGPKTVKEVKLISAGKVLEN 67

Query: 53 DRDVEHCEILQNSRIQ 68
           + V+      ++   
Sbjct: 68 SKTVKDYRSPVSNLAG 83

>d1se9a_ d.15.1.1 (A:) Hypothetical protein At3g01050 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 101

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Hypothetical protein At3g01050
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 34.5 bits (79), Expect = 0.002
 Identities = 17/108 (15%), Positives = 38/108 (35%), Gaps = 23/108 (21%)

Query: 83  QSSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEM-----ESIPVN-- 135
           ++    ++ +K  +   S         P       TV  LKE +        E+ P    
Sbjct: 1   EAEVHNQLEIKFRLTDGSDIG------PKAFPDATTVSALKETVISEWPREKENGPKTVK 54

Query: 136 --RLLVQSSGAELQDHRSLRDCELMDNAEID----VH--VRPSPTATS 175
             +L+  S+G  L++ ++++D     +        +H  ++   T   
Sbjct: 55  EVKLI--SAGKVLENSKTVKDYRSPVSNLAGAVTTMHVIIQAPVTEKE 100

>d1we6a_ d.15.1.1 (A:) Splicing factor 3 subunit 1, C-terminal domain {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 111

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]

 Score = 37.3 bits (86), Expect = 3e-04
 Identities = 16/88 (18%), Positives = 31/88 (35%), Gaps = 5/88 (5%)

Query: 82  EQSSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQS 141
            Q      I +     ++ +             +++ V  LKEKI     IP N+  +  
Sbjct: 22  AQHPGPATIRVSKPNENDGQFMEIT-----VQSLSENVGSLKEKIAGEIQIPANKQKLSG 76

Query: 142 SGAELQDHRSLRDCELMDNAEIDVHVRP 169
               L+D+ SL    +     + + +R 
Sbjct: 77  KAGFLKDNMSLAHYNVGAGEILTLSLRE 104

>d1we6a_ d.15.1.1 (A:) Splicing factor 3 subunit 1, C-terminal domain {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 111

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]

 Score = 36.5 bits (84), Expect = 5e-04
 Identities = 14/78 (17%), Positives = 34/78 (43%), Gaps = 6/78 (7%)

Query: 182 GPRKLKLLVLTQCGNKRIPVEVN-ASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNV 240
           GP  +++    +   + + + V   S+NV  L++++          +P +      K   
Sbjct: 26  GPATIRVSKPNENDGQFMEITVQSLSENVGSLKEKIAG-----EIQIPANKQKLSGKAGF 80

Query: 241 MDDDRSFRWHHVGQGDTI 258
           + D+ S   ++VG G+ +
Sbjct: 81  LKDNMSLAHYNVGAGEIL 98

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	269
d1ogwa_	76	Ubiquitin {Human (Homo sapiens) [TaxId: 9606]}	99.86
d2zeqa1	78	Ubiquitin-like domain of parkin {Mouse (Mus muscul	99.85
d1bt0a_	73	Rub1 {Mouse-ear cress (Arabidopsis thaliana) [TaxI	99.85
d1wh3a_	87	2'-5'-oligoadenylate synthetase-like protein, OASL	99.85
d1z2ma2	76	Interferon-induced 15 kDa protein {Human (Homo sap	99.84
d1wh3a_	87	2'-5'-oligoadenylate synthetase-like protein, OASL	99.82
d2faza1	76	Ubiquitin-like PHD and RING finger domain-containi	99.82
d1ogwa_	76	Ubiquitin {Human (Homo sapiens) [TaxId: 9606]}	99.82
d1bt0a_	73	Rub1 {Mouse-ear cress (Arabidopsis thaliana) [TaxI	99.81
d1wy8a1	76	Ubiquitin-like PHD and RING finger domain-containi	99.81
d2zeqa1	78	Ubiquitin-like domain of parkin {Mouse (Mus muscul	99.81
d1ttna1	80	Dendritic cell-derived ubiquitin-like protein {Hum	99.81
d1z2ma2	76	Interferon-induced 15 kDa protein {Human (Homo sap	99.81
d1wx9a1	73	Large proline-rich protein BAT3 {Human (Homo sapie	99.81
d1uela_	95	Ubiquitin-like domain of Rad23 homolog B (Hhr23B)	99.8
d2faza1	76	Ubiquitin-like PHD and RING finger domain-containi	99.8
d1m94a_	73	Ubiquitin-like modifier protein hub1 {Baker's yeas	99.79
d1ttna1	80	Dendritic cell-derived ubiquitin-like protein {Hum	99.79
d1wy8a1	76	Ubiquitin-like PHD and RING finger domain-containi	99.78
d1m94a_	73	Ubiquitin-like modifier protein hub1 {Baker's yeas	99.78
d1z2ma1	76	Interferon-induced 15 kDa protein {Human (Homo sap	99.77
d1wx9a1	73	Large proline-rich protein BAT3 {Human (Homo sapie	99.77
d2bwfa1	73	DSK2 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.77
d1oqya4	77	Ubiquitin-like domain of Rad23 homolog A (Hhr23a)	99.77
d2bwfa1	73	DSK2 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.77
d1oqya4	77	Ubiquitin-like domain of Rad23 homolog A (Hhr23a)	99.76
d1uela_	95	Ubiquitin-like domain of Rad23 homolog B (Hhr23B)	99.76
d1uh6a_	100	Ubiquitin-like protein 5, ubl5 {Mouse (Mus musculu	99.76
d1z2ma1	76	Interferon-induced 15 kDa protein {Human (Homo sap	99.75
d1yqba1	84	Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]}	99.75
d1yqba1	84	Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]}	99.74
d1uh6a_	100	Ubiquitin-like protein 5, ubl5 {Mouse (Mus musculu	99.73
d1j8ca_	103	Ubiquitin-like N-terminal domain of PLIC-2 {Human	99.72
d1j8ca_	103	Ubiquitin-like N-terminal domain of PLIC-2 {Human	99.72
d1v5oa_	102	1700011n24rik protein {Mouse (Mus musculus) [TaxId	99.72
d1zkha1	86	Splicing factor 3 subunit 1, C-terminal domain {Hu	99.72
d1wx8a1	83	4931431F19Rik {Mouse (Mus musculus) [TaxId: 10090]	99.71
d1wx8a1	83	4931431F19Rik {Mouse (Mus musculus) [TaxId: 10090]	99.71
d1we6a_	111	Splicing factor 3 subunit 1, C-terminal domain {Th	99.7
d1wgga_	96	Ubiquitin carboxyl-terminal hydrolase 14 {Mouse (M	99.69
d1v5oa_	102	1700011n24rik protein {Mouse (Mus musculus) [TaxId	99.69
d1se9a_	101	Hypothetical protein At3g01050 {Thale cress (Arabi	99.69
d1wiaa_	95	Ubiquitin-like protein bab25500 (2010008E23Rik) {M	99.69
d1v2ya_	105	Ubiquitin-like protein 3300001g02rik {Mouse (Mus m	99.68
d1wgga_	96	Ubiquitin carboxyl-terminal hydrolase 14 {Mouse (M	99.67
d1v2ya_	105	Ubiquitin-like protein 3300001g02rik {Mouse (Mus m	99.67
d1wgha_	116	Ubiquitin-like protein 3, Ubl3 {Mouse (Mus musculu	99.66
d1we6a_	111	Splicing factor 3 subunit 1, C-terminal domain {Th	99.66
d1zkha1	86	Splicing factor 3 subunit 1, C-terminal domain {Hu	99.66
d1wgha_	116	Ubiquitin-like protein 3, Ubl3 {Mouse (Mus musculu	99.66
d1wjua_	100	NEDD8 ultimate buster-1, NUB1 {Human (Homo sapiens	99.65
d1wiaa_	95	Ubiquitin-like protein bab25500 (2010008E23Rik) {M	99.65
d1v86a_	95	hypothetical D7wsu128e protein {Mouse (Mus musculu	99.65
d1se9a_	101	Hypothetical protein At3g01050 {Thale cress (Arabi	99.64
d1wjua_	100	NEDD8 ultimate buster-1, NUB1 {Human (Homo sapiens	99.64
d1v86a_	95	hypothetical D7wsu128e protein {Mouse (Mus musculu	99.63
d1v5ta_	90	8430435i17rik protein {Mouse (Mus musculus) [TaxId	99.62
d1wgda_	93	Homocysteine-responsive endoplasmic reticulum-resi	99.61
d1v5ta_	90	8430435i17rik protein {Mouse (Mus musculus) [TaxId	99.61
d1wgda_	93	Homocysteine-responsive endoplasmic reticulum-resi	99.59
d1wxva1	81	Bag-family molecular chaperone regulator-1 {Human	99.59
d2c9wb1	103	Elongin B {Human (Homo sapiens) [TaxId: 9606]}	99.57
d2c9wb1	103	Elongin B {Human (Homo sapiens) [TaxId: 9606]}	99.56
d1wxva1	81	Bag-family molecular chaperone regulator-1 {Human	99.55
d1euvb_	79	SUMO-1 (smt3 homologue) {Baker's yeast (Saccharomy	99.5
d1v6ea_	95	Ubiquitin-like domain of tubulin folding cofactor	99.48
d1v6ea_	95	Ubiquitin-like domain of tubulin folding cofactor	99.46
d1euvb_	79	SUMO-1 (smt3 homologue) {Baker's yeast (Saccharomy	99.45
d1x1ma1	94	Ubiquitin-like protein 7 {Mouse (Mus musculus) [Ta	99.44
d1x1ma1	94	Ubiquitin-like protein 7 {Mouse (Mus musculus) [Ta	99.44
d1wjna_	97	Tubulin-folding protein TbcE {Mouse (Mus musculus)	99.42
d2uyzb1	77	SUMO-1 (smt3 homologue) {Human (Homo sapiens) [Tax	99.38
d1wjna_	97	Tubulin-folding protein TbcE {Mouse (Mus musculus)	99.29
d2uyzb1	77	SUMO-1 (smt3 homologue) {Human (Homo sapiens) [Tax	99.26
d1t0ya_	90	Ubiquitin-like domain of tubulin folding cofactor	99.26
d1t0ya_	90	Ubiquitin-like domain of tubulin folding cofactor	99.15
d1wm3a_	72	SUMO-2 {Human (Homo sapiens) [TaxId: 9606]}	98.74
d1wm3a_	72	SUMO-2 {Human (Homo sapiens) [TaxId: 9606]}	98.61
d1wf9a1	94	NPL4-like protein 1 {Thale cress (Arabidopsis thal	98.38
d1wf9a1	94	NPL4-like protein 1 {Thale cress (Arabidopsis thal	98.38
d2al3a1	76	Tether containing UBX domain for GLUT4 (Tug) {Mous	97.89
d2al3a1	76	Tether containing UBX domain for GLUT4 (Tug) {Mous	97.76
d1h8ca_	82	Fas-associated factor 1, Faf1 {Human (Homo sapiens	96.88
d1h8ca_	82	Fas-associated factor 1, Faf1 {Human (Homo sapiens	96.78
d2cr5a1	96	UBX domain-containing protein 6 (Reproduction 8) {	96.58
d1wj4a_	124	Hypothetical protein KIAA0794 {Human (Homo sapiens	96.35
d1i42a_	89	p47 {Rat (Rattus norvegicus) [TaxId: 10116]}	96.27
d1i42a_	89	p47 {Rat (Rattus norvegicus) [TaxId: 10116]}	95.6
d1wj4a_	124	Hypothetical protein KIAA0794 {Human (Homo sapiens	95.59
d2cr5a1	96	UBX domain-containing protein 6 (Reproduction 8) {	95.49
d1vjka_	88	Molybdopterin synthase subunit MoaD {Pyrococcus fu	93.65
d1xo3a_	101	C9orf74 homolog {Mouse (Mus musculus) [TaxId: 1009	92.05
d1fm0d_	81	Molybdopterin synthase subunit MoaD {Escherichia c	91.91
d1vjka_	88	Molybdopterin synthase subunit MoaD {Pyrococcus fu	91.85
d1zud21	65	Thiamin biosynthesis sulfur carrier protein ThiS {	91.02
d1ef1a3	84	Moesin {Human (Homo sapiens) [TaxId: 9606]}	88.55
d1oeya_	82	Neutrophil cytosol factor 2 (p67phox component of	84.85
d1gg3a3	81	Erythroid membrane protein 4.1R {Human (Homo sapie	83.79
d1v8ca1	87	MoaD-related protein, N-terminal domain {Thermus t	83.05
d1wxma1	73	A-Raf proto-oncogene serine/threonine-protein kina	82.34
d1tygb_	65	Thiamin biosynthesis sulfur carrier protein ThiS {	81.76
d1h4ra3	84	Merlin {Human (Homo sapiens) [TaxId: 9606]}	81.7
d1wgra_	100	Growth factor receptor-bound protein 7, GRB-7 {Hum	81.44
d1ip9a_	85	Bud emergence mediator Bemp1 {Baker's yeast (Sacch	81.31
d1wgya_	104	Rap guanine nucleotide exchange factor 5, RapGEF5	80.86
d1oeya_	82	Neutrophil cytosol factor 2 (p67phox component of	80.43

>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=99.86  E-value=6.7e-22  Score=137.37  Aligned_cols=76  Identities=32%  Similarity=0.535  Sum_probs=74.8

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNK   76 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g   76 (269)
                      |+|+||+++|++++++|++++||.+||++|+.+.|+|+++|+|+|+|+.|+|+.+|++|+|+++++|+|+++.+||
T Consensus         1 MqI~Vk~l~G~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~qrL~~~Gk~L~d~~tL~~y~i~~~s~I~L~~rlrgG   76 (76)
T d1ogwa_           1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG   76 (76)
T ss_dssp             CEEEEEETTSCEEEEECCTTSBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEECTTCC
T ss_pred             CEEEEEcCCCCEEEEEECCCCcHHHHHHhhhhhcCCChHHEEeEECCeEcCCCCCHHHcCCCCCCEEEEEEecCCC
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999999886

>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=99.85  E-value=1.3e-21  Score=136.39  Aligned_cols=75  Identities=25%  Similarity=0.470  Sum_probs=73.4

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDN   75 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~   75 (269)
                      |+|+||+.+|++++++|++++||.+||++|++++|+|+++|+|+|+|+.|+|+.+|++|+|.++++||++++++|
T Consensus         3 M~I~Vk~~~g~t~~l~v~~~~tV~~lK~~i~~~~gip~~~qrLi~~Gk~L~d~~tL~~y~I~~~sti~lv~R~rg   77 (78)
T d2zeqa1           3 MIVFVRFNSSYGFPVEVDSDTSILQLKEVVAKRQGVPADQLRVIFAGKELPNHLTVQNCDLEQQSIVHIVQRPRR   77 (78)
T ss_dssp             EEEEEESSSSSCEEEEECTTCBHHHHHHHHHHHHTCCGGGEEEEETTEEECTTCBGGGSSCCTTCEEEEEESSCC
T ss_pred             eEEEEEcCCCCEEEEEEcccccHHHHHHHHHHHHCcChhHeEEEEeeeEcCCCCCHHHcCCCCCCEEEEEeccCC
Confidence            899999999999999999999999999999999999999999999999999999999999999999999999875

>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=99.85  E-value=2.1e-21  Score=133.73  Aligned_cols=73  Identities=32%  Similarity=0.504  Sum_probs=71.5

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEec
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVAS   73 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~   73 (269)
                      |+|+||+.+|++++++|++++||++||++|+++.|+|+++|+|+|+|+.|+|+.+|++|+|+++++||+++|+
T Consensus         1 M~I~Vk~~~G~~~~l~V~~~~tV~~lK~~i~~~~gi~~~~qrLi~~Gk~L~d~~tL~~y~I~~~sti~lvlrL   73 (73)
T d1bt0a_           1 MLIKVKTLTGKEIEIDIEPTDTIDRIKERVEEKEGIPPVQQRLIYAGKQLADDKTAKDYNIEGGSVLHLVLAL   73 (73)
T ss_dssp             CEEEEECTTSCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEECC
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHhCCChHHEEEEECCeEcCCCCcHHHcCCCCCCEEEEEeeC
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999874

>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=99.85  E-value=1.6e-21  Score=138.86  Aligned_cols=77  Identities=27%  Similarity=0.411  Sum_probs=75.5

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKP   77 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~   77 (269)
                      |+|+||+++|++++++|++++||.+||++|+.++|+|+++|||+|+|+.|+|+.+|++|+|.++++|+|+.+.++||
T Consensus         8 mqI~Vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gip~~~qrLi~~Gk~L~d~~tL~~y~I~~~stl~l~~r~~~gp   84 (87)
T d1wh3a_           8 IQVFVKNPDGGSYAYAINPNSFILGLKQQIEDQQGLPKKQQQLEFQGQVLQDWLGLGIYGIQDSDTLILSKKKGSGP   84 (87)
T ss_dssp             EEEEEEETTTEEEEEEECSSSBHHHHHHHHHHHTCCCTTTEEEEETTEECCSSSBHHHHTCCTTEEEEEEECSCCCS
T ss_pred             EEEEEECCCCCEEEEEECCcCcHHHHHHHHHHHHCcChHHeEEEeeceEcCCCCcHHHcCCCCCCEEEEEecCCCCC
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999887

>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=99.84  E-value=9.1e-21  Score=131.59  Aligned_cols=73  Identities=19%  Similarity=0.320  Sum_probs=71.3

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEec
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVAS   73 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~   73 (269)
                      |+|+||+.+|++++++|++++||.+||++|+.++|+|+++|+|+|+|+.|+|+.+|++|||++|++|++++|+
T Consensus         4 ~qi~Vk~~~G~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~qrL~~~gk~L~d~~tL~~y~I~~~sti~l~lRL   76 (76)
T d1z2ma2           4 LSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNLRL   76 (76)
T ss_dssp             EEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEECC
T ss_pred             EEEEEEcCCCCEEEEEECCCCcHHHHHHHHHHHhcCChhHeEEEECCeECCCCCcHHHcCCCCCCEEEEEEeC
Confidence            7999999999999999999999999999999999999999999999999999999999999999999999874

>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=99.82  E-value=2.5e-20  Score=132.64  Aligned_cols=75  Identities=15%  Similarity=0.271  Sum_probs=71.3

Q ss_pred             CCcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEe
Q 044874          182 GPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIF  261 (269)
Q Consensus       182 ~~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~  261 (269)
                      +...|+|+|++++| +++.++|++++||.+||++|++++     |+|+++|+|+|+|+.|+|+++|.+|+|+++++|+|+
T Consensus         4 ~s~~mqI~Vk~~~g-~~~~l~v~~~~tV~~lK~~I~~~~-----gip~~~qrLi~~Gk~L~d~~tL~~y~I~~~stl~l~   77 (87)
T d1wh3a_           4 GSSGIQVFVKNPDG-GSYAYAINPNSFILGLKQQIEDQQ-----GLPKKQQQLEFQGQVLQDWLGLGIYGIQDSDTLILS   77 (87)
T ss_dssp             CSSSEEEEEEETTT-EEEEEEECSSSBHHHHHHHHHHHT-----CCCTTTEEEEETTEECCSSSBHHHHTCCTTEEEEEE
T ss_pred             CCCcEEEEEECCCC-CEEEEEECCcCcHHHHHHHHHHHH-----CcChHHeEEEeeceEcCCCCcHHHcCCCCCCEEEEE
Confidence            34569999999998 999999999999999999999987     999999999999999999999999999999999998


Q ss_pred             c
Q 044874          262 N  262 (269)
Q Consensus       262 ~  262 (269)
                      .
T Consensus        78 ~   78 (87)
T d1wh3a_          78 K   78 (87)
T ss_dssp             E
T ss_pred             e
Confidence            5

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

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

Probab=99.82  E-value=2.8e-20  Score=128.74  Aligned_cols=73  Identities=25%  Similarity=0.381  Sum_probs=70.2

Q ss_pred             CEEEEEcCCCC-EEEEE-EcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEec
Q 044874            1 MDVIFEPQRGK-AFTIE-VGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVAS   73 (269)
Q Consensus         1 M~i~vk~~~g~-~~~l~-v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~   73 (269)
                      |+|+||+++|+ +++++ +++++||++||++|+++.|+|+++|||+|+|+.|+|+.+|++|||+++++|||+++.
T Consensus         1 M~I~Vktl~Gk~t~~l~~v~~~~tV~~lK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~y~I~~~sti~lv~r~   75 (76)
T d2faza1           1 MWIQVRTMDGRQTHTVDSLSRLTKVEELRRKIQELFHVEPGLQRLFYRGKQMEDGHTLFDYEVRLNDTIQLLVRQ   75 (76)
T ss_dssp             EEEEEEETTSSCEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTCBTTTTTCCTTCEEEEEECC
T ss_pred             CEEEEEeCCCCcEEEEecCCCCCCHHHHHHHHHHHHCcChHHeEEEEeeEeccCCCcHHHcCCCCCCEEEEEEEc
Confidence            89999999996 88885 899999999999999999999999999999999999999999999999999999875

>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=99.82  E-value=3.8e-20  Score=128.37  Aligned_cols=76  Identities=24%  Similarity=0.471  Sum_probs=71.0

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCcc
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSV  265 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~  265 (269)
                      |+|+|++.+| +++.++|++++||.+||++|+++.     ++|+++|+|+|+|+.|+|+.||++|||++|++|+|+.+ +
T Consensus         1 MqI~Vk~l~G-~~~~l~v~~~~tV~~lK~~I~~~~-----gi~~~~qrL~~~Gk~L~d~~tL~~y~i~~~s~I~L~~r-l   73 (76)
T d1ogwa_           1 MQIFVKTLTG-KTITLEVEPSDTIENVKAKIQDKE-----GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR-L   73 (76)
T ss_dssp             CEEEEEETTS-CEEEEECCTTSBHHHHHHHHHHHH-----CCCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEEC-T
T ss_pred             CEEEEEcCCC-CEEEEEECCCCcHHHHHHhhhhhc-----CCChHHEEeEECCeEcCCCCCHHHcCCCCCCEEEEEEe-c
Confidence            7899999998 999999999999999999999987     99999999999999999999999999999999999864 4


Q ss_pred             cCC
Q 044874          266 TGG  268 (269)
Q Consensus       266 ~~~  268 (269)
                      .||
T Consensus        74 rgG   76 (76)
T d1ogwa_          74 RGG   76 (76)
T ss_dssp             TCC
T ss_pred             CCC
Confidence            444

>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=99.81  E-value=3.9e-20  Score=127.29  Aligned_cols=71  Identities=17%  Similarity=0.382  Sum_probs=68.6

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEec
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      |+|+|++.+| ++++++|++++||++||++|+++.     |+|+++|+|+|+|+.|+|+.||++|||++|++||++-
T Consensus         1 M~I~Vk~~~G-~~~~l~V~~~~tV~~lK~~i~~~~-----gi~~~~qrLi~~Gk~L~d~~tL~~y~I~~~sti~lvl   71 (73)
T d1bt0a_           1 MLIKVKTLTG-KEIEIDIEPTDTIDRIKERVEEKE-----GIPPVQQRLIYAGKQLADDKTAKDYNIEGGSVLHLVL   71 (73)
T ss_dssp             CEEEEECTTS-CEEEEECCTTCBHHHHHHHHHHHH-----CCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEE
T ss_pred             CEEEEEeCCC-CEEEEEECCCCcHHHHHHHHHHHh-----CCChHHEEEEECCeEcCCCCcHHHcCCCCCCEEEEEe
Confidence            7899999998 999999999999999999999987     9999999999999999999999999999999999974

>d1wy8a1 d.15.1.1 (A:8-83) Ubiquitin-like PHD and RING finger domain-containing protein 2 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=99.81  E-value=5.6e-20  Score=127.23  Aligned_cols=73  Identities=26%  Similarity=0.312  Sum_probs=70.0

Q ss_pred             CEEEEEcCCC-CEEEE-EEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEec
Q 044874            1 MDVIFEPQRG-KAFTI-EVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVAS   73 (269)
Q Consensus         1 M~i~vk~~~g-~~~~l-~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~   73 (269)
                      |+|+||+++| +++++ +|++++||++||.+|+.++|+|+++|+|+|+|+.|+|+.+|++|||+++++|+|++++
T Consensus         1 M~I~Vk~l~G~~t~~~~~v~~~~TV~~lK~~I~~~~gip~~~qrLi~~Gk~L~d~~tL~~y~I~~~s~i~lv~rp   75 (76)
T d1wy8a1           1 MWIQVRTIDGSKTCTIEDVSRKATIEELRERVWALFDVRPECQRLFYRGKQLENGYTLFDYDVGLNDIIQLLVRP   75 (76)
T ss_dssp             EEEEEEETTCSCEEEEEEECTTCBHHHHHHHHHHHSCCCTTTEEEEETTEECCSSSBHHHHTCCTTCEEEEEECC
T ss_pred             CEEEEEeCCCCceEEEeccCCCChHHHHHHHHHHHHCCCchhcEEEEEeeEecCCCCHHHcCCCCCCEEEEEEcc
Confidence            8999999998 57887 5999999999999999999999999999999999999999999999999999999885

>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=99.81  E-value=5.4e-20  Score=128.06  Aligned_cols=71  Identities=17%  Similarity=0.306  Sum_probs=69.1

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEec
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      |+|+|++.+| ++++++|++++||++||++|++++     |+|+++|+|+|+|++|+|+.+|++|||+++|+||++.
T Consensus         3 M~I~Vk~~~g-~t~~l~v~~~~tV~~lK~~i~~~~-----gip~~~qrLi~~Gk~L~d~~tL~~y~I~~~sti~lv~   73 (78)
T d2zeqa1           3 MIVFVRFNSS-YGFPVEVDSDTSILQLKEVVAKRQ-----GVPADQLRVIFAGKELPNHLTVQNCDLEQQSIVHIVQ   73 (78)
T ss_dssp             EEEEEESSSS-SCEEEEECTTCBHHHHHHHHHHHH-----TCCGGGEEEEETTEEECTTCBGGGSSCCTTCEEEEEE
T ss_pred             eEEEEEcCCC-CEEEEEEcccccHHHHHHHHHHHH-----CcChhHeEEEEeeeEcCCCCCHHHcCCCCCCEEEEEe
Confidence            8999999998 999999999999999999999997     9999999999999999999999999999999999985

>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=99.81  E-value=3.6e-20  Score=129.72  Aligned_cols=75  Identities=23%  Similarity=0.361  Sum_probs=72.5

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDN   75 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~   75 (269)
                      |+|+||+.+|+++.++|++++||++||++|++++|+|+++|+|+|+|+.|+|+.+|++|+|+++++|||+++.+.
T Consensus         4 ~qi~Vk~~~G~~~~l~V~~~~tV~~lK~~I~~~~~ip~~~qrLi~~Gk~L~d~~tL~~y~I~~~sti~lvi~~p~   78 (80)
T d1ttna1           4 CQLRLRLSTGKDLKLVVRSTDTVFHMKRRLHAAEGVEPGSQRWFFSGRPLTDKMKFEELKIPKDYVVQVIVSQPV   78 (80)
T ss_dssp             EEEEEEETTTEEEEEEECTTSHHHHHHHHHHHTTCCCSTTCEEEETTEECCTTSHHHHCCCSSSCEEEEECCCSS
T ss_pred             EEEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhCCCcccEEEEECceEcCCCCcHHHcCCCCCCEEEEEecCCC
Confidence            689999999999999999999999999999999999999999999999999999999999999999999988763

>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=99.81  E-value=9.2e-20  Score=126.42  Aligned_cols=72  Identities=17%  Similarity=0.271  Sum_probs=69.5

Q ss_pred             ceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEec
Q 044874          185 KLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       185 ~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      .|+|+|++..| ++++++|++++||++||++|+++.     |+|+++|+|+|+|+.|+|++||++|||++|++|+++.
T Consensus         3 ~~qi~Vk~~~G-~~~~l~v~~~~tV~~lK~~I~~~~-----gi~~~~qrL~~~gk~L~d~~tL~~y~I~~~sti~l~l   74 (76)
T d1z2ma2           3 PLSILVRNNKG-RSSTYEVRLTQTVAHLKQQVSGLE-----GVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNL   74 (76)
T ss_dssp             CEEEEEECTTS-CEEEEEECTTSBHHHHHHHHHHHH-----TCCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEE
T ss_pred             CEEEEEEcCCC-CEEEEEECCCCcHHHHHHHHHHHh-----cCChhHeEEEECCeECCCCCcHHHcCCCCCCEEEEEE
Confidence            59999999998 999999999999999999999997     9999999999999999999999999999999999974

>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=99.81  E-value=1.3e-20  Score=129.73  Aligned_cols=72  Identities=31%  Similarity=0.472  Sum_probs=69.2

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEec
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVAS   73 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~   73 (269)
                      |+|+||+++|++++++|++++||++||++|+++.|+|+++|||+|+|+.|+|+.+|++|+| ++++|||+.+.
T Consensus         1 m~I~Vk~~~g~~~~l~V~~~~tV~~lK~~I~~~~gip~~~qrLi~~Gk~L~d~~tL~dy~i-~~~ti~lv~r~   72 (73)
T d1wx9a1           1 LEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEYNV-GGKVIHLVERA   72 (73)
T ss_dssp             EEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHCCCTTTCCCEETTEECCSSSBHHHHTC-TTEEEBCCCSS
T ss_pred             CEEEEEcCCCCEEEEEECCCChHHHHHHHHHHHhCCChHHEEEEECCeEccCCCCHHHhCC-CCCEEEEEecC
Confidence            8999999999999999999999999999999999999999999999999999999999999 58999988765

>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=99.80  E-value=2.4e-19  Score=129.63  Aligned_cols=77  Identities=29%  Similarity=0.508  Sum_probs=72.9

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhC---CCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQG---IPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKP   77 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~g---i~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~   77 (269)
                      |+|+||+++|++++++|++++||.+||++|+++.|   +|+++|||+|+|+.|+|+.+|++|||.++++|+++++...+.
T Consensus         1 M~I~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~~~~i~~~~qrLi~~Gk~L~d~~tL~~y~I~~~s~i~lv~~~~~~~   80 (95)
T d1uela_           1 MQVTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALKEYKIDEKNFVVVMVTKPKAV   80 (95)
T ss_dssp             CEEEEEETTCCEEEEECCTTSBHHHHHHHHHHHHCTTTCCTTTEEEEETTEECCTTSBGGGGTCCSSSEEEEEESSCCCC
T ss_pred             CEEEEEeCCCCEEEEEECCCccHHHHHHHHHhhhcccCCCccceEEEECCeEccCCCcHHHcCCCCCCEEEEEECCCCCC
Confidence            99999999999999999999999999999999876   899999999999999999999999999999999999876543

>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=99.80  E-value=1.7e-19  Score=124.71  Aligned_cols=73  Identities=25%  Similarity=0.342  Sum_probs=68.4

Q ss_pred             eeEEEEecCCCeEEEEE-ecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecC
Q 044874          186 LKLLVLTQCGNKRIPVE-VNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNG  263 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~-v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~  263 (269)
                      |+|+|++.+|.+++.++ +++++||++||++|++++     |+|+++|+|+|+|+.|+|+.+|++|||++|++||++.+
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 MWIQVRTMDGRQTHTVDSLSRLTKVEELRRKIQELF-----HVEPGLQRLFYRGKQMEDGHTLFDYEVRLNDTIQLLVR   74 (76)
T ss_dssp             EEEEEEETTSSCEEEEEEECTTCBHHHHHHHHHHHH-----CCCGGGEEEEETTEECCTTCBTTTTTCCTTCEEEEEEC
T ss_pred             CEEEEEeCCCCcEEEEecCCCCCCHHHHHHHHHHHH-----CcChHHeEEEEeeEeccCCCcHHHcCCCCCCEEEEEEE
Confidence            78999999995588885 899999999999999997     99999999999999999999999999999999999853

>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=99.79  E-value=1.6e-19  Score=124.05  Aligned_cols=70  Identities=20%  Similarity=0.293  Sum_probs=67.9

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEe
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIF  261 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~  261 (269)
                      |+|+|++..| +++.++|++++||++||++|+++.     |+|+++|+|+|+|+.|+|+.||++|||++||+|+|+
T Consensus         2 i~i~vk~~~G-k~~~v~V~~~~tV~~lK~~I~~~~-----~i~~~~q~Li~~Gk~L~d~~tL~~y~I~~gstl~L~   71 (73)
T d1m94a_           2 IEVVVNDRLG-KKVRVKCLAEDSVGDFKKVLSLQI-----GTQPNKIVLQKGGSVLKDHISLEDYEVHDQTNLELY   71 (73)
T ss_dssp             EEEEEEETTT-EEEEEEECTTSBHHHHHHHHHHHH-----CCTTTSEEEESSSCEECTTSBHHHHTCCTTEEEEEE
T ss_pred             eEEEEECCCC-CEEEEEECCcCcHHHHHHHHHHhh-----cccccEEEEEEEeEEecccCcHHHcCCCCCCEEEEE
Confidence            6899999999 999999999999999999999987     999999999999999999999999999999999987

>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=99.79  E-value=2.5e-19  Score=125.36  Aligned_cols=74  Identities=12%  Similarity=0.245  Sum_probs=70.2

Q ss_pred             cceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecC
Q 044874          184 RKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNG  263 (269)
Q Consensus       184 ~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~  263 (269)
                      ..++|+|++.+| +++.++|++++||++||++|+++.     ++|+++|+|+|+|+.|+|++||++|||++|++||++-+
T Consensus         2 ~e~qi~Vk~~~G-~~~~l~V~~~~tV~~lK~~I~~~~-----~ip~~~qrLi~~Gk~L~d~~tL~~y~I~~~sti~lvi~   75 (80)
T d1ttna1           2 YECQLRLRLSTG-KDLKLVVRSTDTVFHMKRRLHAAE-----GVEPGSQRWFFSGRPLTDKMKFEELKIPKDYVVQVIVS   75 (80)
T ss_dssp             CSEEEEEEETTT-EEEEEEECTTSHHHHHHHHHHHTT-----CCCSTTCEEEETTEECCTTSHHHHCCCSSSCEEEEECC
T ss_pred             CeEEEEEEcCCC-CEEEEEECCcCcHHHHHHHHHHHh-----CCCcccEEEEECceEcCCCCcHHHcCCCCCCEEEEEec
Confidence            368999999998 999999999999999999999986     99999999999999999999999999999999999743

>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=99.78  E-value=3.7e-19  Score=123.01  Aligned_cols=72  Identities=19%  Similarity=0.314  Sum_probs=68.0

Q ss_pred             eeEEEEecCCCeEEEE-EecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEec
Q 044874          186 LKLLVLTQCGNKRIPV-EVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l-~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      |+|+|++.+|.+++.+ .|++++||++||++|+++.     |+|+++|+|+|+|+.|+|++||++|||++|++||++.
T Consensus         1 M~I~Vk~l~G~~t~~~~~v~~~~TV~~lK~~I~~~~-----gip~~~qrLi~~Gk~L~d~~tL~~y~I~~~s~i~lv~   73 (76)
T d1wy8a1           1 MWIQVRTIDGSKTCTIEDVSRKATIEELRERVWALF-----DVRPECQRLFYRGKQLENGYTLFDYDVGLNDIIQLLV   73 (76)
T ss_dssp             EEEEEEETTCSCEEEEEEECTTCBHHHHHHHHHHHS-----CCCTTTEEEEETTEECCSSSBHHHHTCCTTCEEEEEE
T ss_pred             CEEEEEeCCCCceEEEeccCCCChHHHHHHHHHHHH-----CCCchhcEEEEEeeEecCCCCHHHcCCCCCCEEEEEE
Confidence            7899999998678887 5999999999999999987     9999999999999999999999999999999999985

>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=99.78  E-value=2e-19  Score=123.58  Aligned_cols=71  Identities=23%  Similarity=0.316  Sum_probs=68.9

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEE
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLV   71 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~   71 (269)
                      |+|+|+...|+++.++|++++||++||++|+.++|+|+++|+|+|+|+.|+|+.+|++|||++|++|+|..
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            68999999999999999999999999999999999999999999999999999999999999999999863

>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=99.77  E-value=6.1e-19  Score=122.06  Aligned_cols=72  Identities=24%  Similarity=0.308  Sum_probs=69.7

Q ss_pred             EEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEE--cCEEcCCCCccccCCCCCCCEEEEEEec
Q 044874            2 DVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVF--NGQVLQDDRDVEHCEILQNSRIQLLVAS   73 (269)
Q Consensus         2 ~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~--~G~~L~d~~tL~~~~i~~~~~i~l~~~~   73 (269)
                      +|+||+++|+++.++|++++||.+||++|+.++|+|+++|||+|  +|+.|+|+.+|++|||.+|++|+|+++.
T Consensus         2 ~l~Vk~l~G~~~~v~V~~~~tV~~lK~~I~~~~gip~~~QrLi~~~~Gk~L~D~~tL~~y~i~~g~~i~lv~~~   75 (76)
T d1z2ma1           2 DLTVKMLAGNEFQVSLSSSMSVSELKAQITQKIGVHAFQQRLAVHPSGVALQDRVPLASQGLGPGSTVLLVVDK   75 (76)
T ss_dssp             EEEEEESSSCEEEEECCSSCCHHHHHHHHHHHHCCCGGGEEEEEETTCCBCCSSSCSGGGTCCTTCEEEEEECC
T ss_pred             EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHhccCCccEEEEEcCCCeeccCCCcHHHcCCCCCCEEEEEEEC
Confidence            79999999999999999999999999999999999999999999  6999999999999999999999999874

>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=99.77  E-value=1.9e-19  Score=123.72  Aligned_cols=72  Identities=25%  Similarity=0.383  Sum_probs=67.9

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCc
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGS  264 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~  264 (269)
                      |+|+|++.+| +++.++|++++||++||++|+++.     |+|+++|+|+|+|+.|+|+++|++|+| +++||||+.+.
T Consensus         1 m~I~Vk~~~g-~~~~l~V~~~~tV~~lK~~I~~~~-----gip~~~qrLi~~Gk~L~d~~tL~dy~i-~~~ti~lv~r~   72 (73)
T d1wx9a1           1 LEVLVKTLDS-QTRTFIVGAQMNVKEFKEHIAASV-----SIPSEKQRLIYQGRVLQDDKKLQEYNV-GGKVIHLVERA   72 (73)
T ss_dssp             EEEEEECTTS-CEEEEEECTTSBHHHHHHHHHHHH-----CCCTTTCCCEETTEECCSSSBHHHHTC-TTEEEBCCCSS
T ss_pred             CEEEEEcCCC-CEEEEEECCCChHHHHHHHHHHHh-----CCChHHEEEEECCeEccCCCCHHHhCC-CCCEEEEEecC
Confidence            7899999998 999999999999999999999997     999999999999999999999999999 58999998653

>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=99.77  E-value=9.3e-19  Score=120.23  Aligned_cols=72  Identities=17%  Similarity=0.404  Sum_probs=67.0

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCc
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGS  264 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~  264 (269)
                      |+|.|+.. + .++.++|++++||.+||++|+++.     |+|+++|+|+|+|+.|+|+.+|++|||++|++|||+.++
T Consensus         2 i~I~Vk~~-~-~~~~i~v~~~~tV~~lK~~I~~~~-----gip~~~qrLi~~Gk~L~D~~tL~~~~I~~g~~i~lV~~~   73 (73)
T d2bwfa1           2 LNIHIKSG-Q-DKWEVNVAPESTVLQFKEAINKAN-----GIPVANQRLIYSGKILKDDQTVESYHIQDGHSVHLVKSQ   73 (73)
T ss_dssp             EEEEEEET-T-EEEEEEECTTCBHHHHHHHHHHHH-----CCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEECC
T ss_pred             EEEEEEeC-C-eEEEEEECCCChHHHHHHHHHHHH-----CcChHHeEEEECCeEccCCCcHHHCCCCCCCEEEEEeeC
Confidence            78899874 4 689999999999999999999987     999999999999999999999999999999999998753

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

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

Probab=99.77  E-value=3.2e-19  Score=123.88  Aligned_cols=72  Identities=28%  Similarity=0.485  Sum_probs=69.3

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhC---CCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEe
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQG---IPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVA   72 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~g---i~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~   72 (269)
                      |+|+||+++|++++++|++++||++||++|+.+.|   +|+++|||+|+|+.|+|+.+|++|||+++++|+++++
T Consensus         3 ~~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           3 VTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIRDYRIDEKNFVVVMVT   77 (77)
T ss_dssp             CCEEEEETTTEEEEECCCTTCBHHHHHHHHHHHTCSSSCCSTEEEEESSSSEECSSSBTTTTCCCTTSCEEEEEE
T ss_pred             EEEEEECCCCCEEEEEECCCCcHHHHHHHHHHhcCCCCCChHHEEeEECCcCccCCCcHHHcCCCCCCEEEEEEC
Confidence            89999999999999999999999999999999987   8999999999999999999999999999999998864

>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=99.77  E-value=1.2e-18  Score=119.75  Aligned_cols=71  Identities=31%  Similarity=0.572  Sum_probs=67.4

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEe
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVA   72 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~   72 (269)
                      |+|+|++. ++.+.++|++++||.+||++|+..+|+|+++|+|+|+|+.|+|+.+|++|+|.+|++|||+.+
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            78999975 567999999999999999999999999999999999999999999999999999999999875

>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=99.76  E-value=6.6e-19  Score=122.27  Aligned_cols=73  Identities=14%  Similarity=0.283  Sum_probs=67.9

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEe
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIF  261 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~  261 (269)
                      |+|+|++.+| +++.++|++++||++||++|+++.  |...+|+++|+|+|+|++|+|+++|++|||++||+|+++
T Consensus         3 ~~i~vk~l~g-~~~~l~v~~~~TV~~lK~~i~~~~--g~~~i~~~~qrLi~~Gk~L~D~~tL~~y~I~~~s~i~~~   75 (77)
T d1oqya4           3 VTITLKTLQQ-QTFKIRMEPDETVKVLKEKIEAEK--GRDAFPVAGQKLIYAGKILSDDVPIRDYRIDEKNFVVVM   75 (77)
T ss_dssp             CCEEEEETTT-EEEEECCCTTCBHHHHHHHHHHHT--CSSSCCSTEEEEESSSSEECSSSBTTTTCCCTTSCEEEE
T ss_pred             EEEEEECCCC-CEEEEEECCCCcHHHHHHHHHHhc--CCCCCChHHEEeEECCcCccCCCcHHHcCCCCCCEEEEE
Confidence            8999999998 999999999999999999999975  123499999999999999999999999999999999987

>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=99.76  E-value=2.1e-18  Score=124.62  Aligned_cols=75  Identities=12%  Similarity=0.317  Sum_probs=68.7

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecC
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNG  263 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~  263 (269)
                      |+|+|++.+| +++.++|++++||.+||++|+++.  +..++|+++|+|+|+|+.|+|+++|++|||++|++|+++.+
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 MQVTLKTLQQ-QTFKIDIDPEETVKALKEKIESEK--GKDAFPVAGQKLIYAGKILNDDTALKEYKIDEKNFVVVMVT   75 (95)
T ss_dssp             CEEEEEETTC-CEEEEECCTTSBHHHHHHHHHHHH--CTTTCCTTTEEEEETTEECCTTSBGGGGTCCSSSEEEEEES
T ss_pred             CEEEEEeCCC-CEEEEEECCCccHHHHHHHHHhhh--cccCCCccceEEEECCeEccCCCcHHHcCCCCCCEEEEEEC
Confidence            7899999998 999999999999999999999874  12358999999999999999999999999999999999854

>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=99.76  E-value=1.1e-18  Score=126.48  Aligned_cols=72  Identities=15%  Similarity=0.274  Sum_probs=69.2

Q ss_pred             cceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEe
Q 044874          184 RKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIF  261 (269)
Q Consensus       184 ~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~  261 (269)
                      ..++|+|++..| +++.++|++++||.+||++|+++.     ++|+++|+|+|+|+.|+|+.+|++|||++|++|+|+
T Consensus        27 ~~i~V~V~~~~G-k~~~v~V~p~~TV~~LK~~I~~~~-----gip~~~qrLi~~Gk~L~D~~tL~dygI~~GstI~L~   98 (100)
T d1uh6a_          27 TMIEVVCNDRLG-KKVRVKCNTDDTIGDLKKLIAAQT-----GTRWNKIVLKKWYTIFKDHVSLGDYEIHDGMNLELY   98 (100)
T ss_dssp             CEEEEEEECSSS-SCEEEEEETTSBHHHHHHHHHHHH-----CCCGGGCEEEETTEECCSSCBHHHHTCCTTEEEEEE
T ss_pred             ceEEEEEECCCC-CEEEEEECCcChHHHHHHHHHHHH-----CCCcceEEEEEEeecccCcCCHHHcCCCCCCEEEEE
Confidence            447999999998 999999999999999999999997     999999999999999999999999999999999997

>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=99.75  E-value=2.5e-18  Score=118.89  Aligned_cols=71  Identities=18%  Similarity=0.214  Sum_probs=67.5

Q ss_pred             eEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEe--cCeeecCCCccccccCCCCCEEEEecC
Q 044874          187 KLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIY--KQNVMDDDRSFRWHHVGQGDTIEIFNG  263 (269)
Q Consensus       187 ~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~--~g~~L~d~~tL~~~~i~~~~~i~l~~~  263 (269)
                      +|.|++.+| +++.++|++++||.+||++|+++.     |+|+++|+|+|  +|+.|+|+.+|++|||++|++|+|+..
T Consensus         2 ~l~Vk~l~G-~~~~v~V~~~~tV~~lK~~I~~~~-----gip~~~QrLi~~~~Gk~L~D~~tL~~y~i~~g~~i~lv~~   74 (76)
T d1z2ma1           2 DLTVKMLAG-NEFQVSLSSSMSVSELKAQITQKI-----GVHAFQQRLAVHPSGVALQDRVPLASQGLGPGSTVLLVVD   74 (76)
T ss_dssp             EEEEEESSS-CEEEEECCSSCCHHHHHHHHHHHH-----CCCGGGEEEEEETTCCBCCSSSCSGGGTCCTTCEEEEEEC
T ss_pred             EEEEEeCCC-CEEEEEECCCCcHHHHHHHHHHHh-----ccCCccEEEEEcCCCeeccCCCcHHHcCCCCCCEEEEEEE
Confidence            689999998 999999999999999999999987     99999999999  799999999999999999999999853

>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=99.75  E-value=1.7e-18  Score=122.13  Aligned_cols=73  Identities=18%  Similarity=0.335  Sum_probs=69.4

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASD   74 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~   74 (269)
                      |+|+|++.++ .+.++|++++||.+||++|++++|+|+++|+|+|+|+.|+|+.+|++|||.+|++|+|+++..
T Consensus         8 i~I~Vkt~~~-~~~~~V~~~~tV~~lK~~i~~~~gi~~~~qrL~~~Gk~L~D~~tL~~y~i~~gsti~lv~r~~   80 (84)
T d1yqba1           8 IKVTVKTPKD-KEDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQCGVRDGLTVHLVIKRQ   80 (84)
T ss_dssp             EEEEEECSSC-EEEEEEETTCBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBHHHHTCCTTCEEEEEECCC
T ss_pred             EEEEEEcCCC-cEEEEECCCCcHHHHHHHHHHHHCcCchhEEEEEeeeeccccCcHHHcCCCCCCEEEEEECCC
Confidence            7899999755 689999999999999999999999999999999999999999999999999999999999876

>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=99.74  E-value=5e-18  Score=119.70  Aligned_cols=78  Identities=18%  Similarity=0.276  Sum_probs=70.5

Q ss_pred             CCcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEe
Q 044874          182 GPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIF  261 (269)
Q Consensus       182 ~~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~  261 (269)
                      ++..|+|+|++..+  ++.++|++++||.+||++|+++.     |+|+++|+|+|+|+.|+|+.+|++|||++|+||+|+
T Consensus         4 ~~~~i~I~Vkt~~~--~~~~~V~~~~tV~~lK~~i~~~~-----gi~~~~qrL~~~Gk~L~D~~tL~~y~i~~gsti~lv   76 (84)
T d1yqba1           4 SPHLIKVTVKTPKD--KEDFSVTDTCTIQQLKEEISQRF-----KAHPDQLVLIFAGKILKDPDSLAQCGVRDGLTVHLV   76 (84)
T ss_dssp             CTTEEEEEEECSSC--EEEEEEETTCBHHHHHHHHHHHH-----TCCGGGEEEEETTEECCTTSBHHHHTCCTTCEEEEE
T ss_pred             CCCEEEEEEEcCCC--cEEEEECCCCcHHHHHHHHHHHH-----CcCchhEEEEEeeeeccccCcHHHcCCCCCCEEEEE
Confidence            35679999999754  68999999999999999999987     999999999999999999999999999999999998


Q ss_pred             cCccc
Q 044874          262 NGSVT  266 (269)
Q Consensus       262 ~~~~~  266 (269)
                      .+.-+
T Consensus        77 ~r~~~   81 (84)
T d1yqba1          77 IKRQH   81 (84)
T ss_dssp             ECCCC
T ss_pred             ECCCC
Confidence            65433

>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=99.73  E-value=2.5e-18  Score=124.61  Aligned_cols=71  Identities=20%  Similarity=0.246  Sum_probs=68.7

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEE
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLV   71 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~   71 (269)
                      |+|+|++..|+++.++|++++||++||++|+.++|+|+++|+|+|+|+.|+|+.+|++|||.+|++|+|..
T Consensus        29 i~V~V~~~~Gk~~~v~V~p~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~dygI~~GstI~L~~   99 (100)
T d1uh6a_          29 IEVVCNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTRWNKIVLKKWYTIFKDHVSLGDYEIHDGMNLELYY   99 (100)
T ss_dssp             EEEEEECSSSSCEEEEEETTSBHHHHHHHHHHHHCCCGGGCEEEETTEECCSSCBHHHHTCCTTEEEEEEC
T ss_pred             EEEEEECCCCCEEEEEECCcChHHHHHHHHHHHHCCCcceEEEEEEeecccCcCCHHHcCCCCCCEEEEEE
Confidence            48999999999999999999999999999999999999999999999999999999999999999999874

>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=99.72  E-value=1.1e-17  Score=122.41  Aligned_cols=71  Identities=20%  Similarity=0.284  Sum_probs=67.5

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEe
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVA   72 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~   72 (269)
                      |+|+|++.++ .++++|++++||.+||++|+.++|+|++.|+|+|+|+.|+|+.+|++|||++|++|||+++
T Consensus        33 i~V~Vk~~~~-~~~i~V~~~~tV~~LK~~I~~~~gi~~~~qrLi~~Gk~L~D~~tL~~~~I~~g~~I~lvlr  103 (103)
T d1j8ca_          33 IKVTVKTPKE-KEEFAVPENSSVQQFKEAISKRFKSQTDQLVLIFAGKILKDQDTLIQHGIHDGLTVHLVIK  103 (103)
T ss_dssp             EEEEEECSSC-EEEEEECTTCCHHHHHHHHHHHHCSCSSSEEEEETTEEESTTSCGGGTTCSSSEEEEEEEC
T ss_pred             EEEEEECCCc-cEEEEECCCChHHHHHHHHHHHHCcCHHHeeeeeeeecccCCCcHHHcCCCCCCEEEEEEC
Confidence            7899998765 5899999999999999999999999999999999999999999999999999999999975

>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=99.72  E-value=3.8e-17  Score=119.57  Aligned_cols=74  Identities=18%  Similarity=0.326  Sum_probs=68.3

Q ss_pred             CCcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEe
Q 044874          182 GPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIF  261 (269)
Q Consensus       182 ~~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~  261 (269)
                      .++.|+|+|++.++  .+.++|++++||.+||++|+++.     |+|+++|+|+|+|++|+|+.+|++|||++|++|||+
T Consensus        29 ~~~~i~V~Vk~~~~--~~~i~V~~~~tV~~LK~~I~~~~-----gi~~~~qrLi~~Gk~L~D~~tL~~~~I~~g~~I~lv  101 (103)
T d1j8ca_          29 EPKIIKVTVKTPKE--KEEFAVPENSSVQQFKEAISKRF-----KSQTDQLVLIFAGKILKDQDTLIQHGIHDGLTVHLV  101 (103)
T ss_dssp             CCCCEEEEEECSSC--EEEEEECTTCCHHHHHHHHHHHH-----CSCSSSEEEEETTEEESTTSCGGGTTCSSSEEEEEE
T ss_pred             CCCeEEEEEECCCc--cEEEEECCCChHHHHHHHHHHHH-----CcCHHHeeeeeeeecccCCCcHHHcCCCCCCEEEEE
Confidence            44569999998765  57899999999999999999987     999999999999999999999999999999999997


Q ss_pred             c
Q 044874          262 N  262 (269)
Q Consensus       262 ~  262 (269)
                      .
T Consensus       102 l  102 (103)
T d1j8ca_         102 I  102 (103)
T ss_dssp             E
T ss_pred             E
Confidence            4

>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=99.72  E-value=8.4e-18  Score=122.54  Aligned_cols=78  Identities=15%  Similarity=0.197  Sum_probs=71.8

Q ss_pred             CEEEE----EcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcC-CCCccccCCCCCCCEEEEEEecCC
Q 044874            1 MDVIF----EPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQ-DDRDVEHCEILQNSRIQLLVASDN   75 (269)
Q Consensus         1 M~i~v----k~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~-d~~tL~~~~i~~~~~i~l~~~~~~   75 (269)
                      |+|+|    +.+++.+|+++|++++||.+||++|+.++|+|+++|+|+|+|+.|. |+.+|++|||.+|++|+|+.+...
T Consensus         8 m~itV~~~~~~~~~~t~~l~V~~~~tV~~LK~~Ie~~~gip~~~Q~Li~~Gk~L~dd~~tL~~~gI~~g~~i~l~~r~~~   87 (102)
T d1v5oa_           8 MLITVYCVRRDLTEVTFSLQVNPDFELSNFRVLCELESGVPAEEAQIVYMEQLLTDDHCSLGSYGLKDGDMVVLLQKDNV   87 (102)
T ss_dssp             EEEEEEECCCCCCCCEEEEEECTTCBHHHHHHHHHHHTCCCGGGBCEEETTEEECCSSSBHHHHTCCTTEEEEECBCCCC
T ss_pred             EEEEEEecccCCCCCEEEEEECCcccHHHHHHHHHHHhCCCcceEEEEeCCeEeecccCCHHHcCCCCCCEEEEEECCCC
Confidence            78999    7778999999999999999999999999999999999999999995 567999999999999999988776


Q ss_pred             CCC
Q 044874           76 KPQ   78 (269)
Q Consensus        76 g~~   78 (269)
                      ++.
T Consensus        88 ~~~   90 (102)
T d1v5oa_          88 GLR   90 (102)
T ss_dssp             CCS
T ss_pred             CCC
Confidence            553

>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=99.72  E-value=1.6e-17  Score=117.41  Aligned_cols=68  Identities=24%  Similarity=0.402  Sum_probs=65.8

Q ss_pred             CCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCC
Q 044874            8 QRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDN   75 (269)
Q Consensus         8 ~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~   75 (269)
                      ++|++++++|++++||++||++|+.++|+|+++|+|+|+|+.|+|+.+|++|||.+|++|+|+++.+|
T Consensus        19 L~G~~~~l~v~~~~tV~~lK~~I~~~~~ip~~~q~Li~~Gk~L~D~~tL~dY~I~~gsti~l~~r~RG   86 (86)
T d1zkha1          19 LNGQVLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDSNSLAYYNMANGAVIHLALKERG   86 (86)
T ss_dssp             CSSCEEEEEECTTSBHHHHHHHHHHHTCCCTTTEEEEETTEEECTTSBHHHHTCCTTEEEEEEESCCC
T ss_pred             cCCeEEEEEECCCChHHHHHHHHHhhhcCChHHEEEEeCCcCcCCCCCHHHcCCCCCCEEEEEEecCC
Confidence            57999999999999999999999999999999999999999999999999999999999999999874

>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=99.71  E-value=8e-18  Score=118.36  Aligned_cols=75  Identities=17%  Similarity=0.285  Sum_probs=68.5

Q ss_pred             CCcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEe
Q 044874          182 GPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIF  261 (269)
Q Consensus       182 ~~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~  261 (269)
                      +++.|+|+|++.++  .+.++|++++||.+||++|+++.     ++|+++|+|+|+|+.|+|+++|++|||++|++|+|+
T Consensus         7 ~~~~i~v~Vk~~~~--~~~i~v~~~~tV~~lK~~I~~~~-----~v~~~~qrL~f~Gk~L~d~~tL~~~gI~~gs~I~lv   79 (83)
T d1wx8a1           7 SSRIIRVSVKTPQD--CHEFFLAENSNVRRFKKQISKYL-----HCNADRLVLIFTGKILRDQDILSQRGILDGSTVHVV   79 (83)
T ss_dssp             CSCEEEEEEECSSS--EEEEEEETTCCHHHHHHHHHHHT-----CSCTTTBCCEETTEECCTTSCHHHHTCCTTEEEECC
T ss_pred             CCCeEEEEEEcCCC--cEEEEECCCChHHHHHHHHHHHh-----CCChhHEEEEEEhhccccCCcHHHcCCCCCCEEEEE
Confidence            44679999998765  56899999999999999999986     999999999999999999999999999999999997


Q ss_pred             cC
Q 044874          262 NG  263 (269)
Q Consensus       262 ~~  263 (269)
                      .+
T Consensus        80 ~r   81 (83)
T d1wx8a1          80 VR   81 (83)
T ss_dssp             BC
T ss_pred             Ee
Confidence            53

>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=99.71  E-value=4.7e-18  Score=119.56  Aligned_cols=72  Identities=22%  Similarity=0.356  Sum_probs=67.6

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEec
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVAS   73 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~   73 (269)
                      |+|+|++.++ .++++|++++||.+||++|++.+++|+++|+|+|+|+.|+|+.+|++|||.+|++|+|+++.
T Consensus        11 i~v~Vk~~~~-~~~i~v~~~~tV~~lK~~I~~~~~v~~~~qrL~f~Gk~L~d~~tL~~~gI~~gs~I~lv~r~   82 (83)
T d1wx8a1          11 IRVSVKTPQD-CHEFFLAENSNVRRFKKQISKYLHCNADRLVLIFTGKILRDQDILSQRGILDGSTVHVVVRS   82 (83)
T ss_dssp             EEEEEECSSS-EEEEEEETTCCHHHHHHHHHHHTCSCTTTBCCEETTEECCTTSCHHHHTCCTTEEEECCBCC
T ss_pred             EEEEEEcCCC-cEEEEECCCChHHHHHHHHHHHhCCChhHEEEEEEhhccccCCcHHHcCCCCCCEEEEEEeC
Confidence            7899998755 57999999999999999999999999999999999999999999999999999999998764

>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=99.70  E-value=6.3e-18  Score=124.87  Aligned_cols=75  Identities=25%  Similarity=0.282  Sum_probs=69.6

Q ss_pred             EEEEcC-CCCEEEEEEcC-CCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCC
Q 044874            3 VIFEPQ-RGKAFTIEVGF-FDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKP   77 (269)
Q Consensus         3 i~vk~~-~g~~~~l~v~~-~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~   77 (269)
                      |+|+.. +|++++++|.+ ++||.+||++|++++|+|+++|+|+|+|+.|+|+.+|++|+|+++++|+|.++.+||+
T Consensus        32 V~v~~~~~G~~i~l~v~~~sdtV~~lK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~ynI~~gsti~L~lr~rGG~  108 (111)
T d1we6a_          32 VSKPNENDGQFMEITVQSLSENVGSLKEKIAGEIQIPANKQKLSGKAGFLKDNMSLAHYNVGAGEILTLSLRERSGP  108 (111)
T ss_dssp             ECCTTCSSSCCEEEEESCSSSBHHHHHHHHHHHTTCCTTTSEEECSSSBCCTTSBTTTTTCSSSCEEEEECSSCCSS
T ss_pred             EEcccCCCCeEEEEEecCCccHHHHHHHHHHHHHCCCccceEEEEeeEEccccCCHHHcCCCCCCEEEEEeeCCCCC
Confidence            444433 58999999986 9999999999999999999999999999999999999999999999999999999998

>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=99.69  E-value=2.5e-17  Score=118.83  Aligned_cols=77  Identities=17%  Similarity=0.274  Sum_probs=70.7

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKPQ   78 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~~   78 (269)
                      |+|+||..+++.+.++|++++||.+||++|++.+|+|+++|+|+|+|+.|+|+ +|++|||++|++|+|+.+....+.
T Consensus         8 ~~I~VK~~~~~~~~v~v~~~~tV~~lK~~i~~~~gvp~~~QkLi~~Gk~L~d~-tL~~~gi~~g~~i~lv~t~~~~~~   84 (96)
T d1wgga_           8 YSVTVKWGKEKFEGVELNTDEPPMVFKAQLFALTGVQPARQKVMVKGGTLKDD-DWGNIKMKNGMTVLMMGSADALPE   84 (96)
T ss_dssp             EEEEEEETTEEEEEEEEESSSCHHHHHHHHHHHTCCCTTTSCCEETTEECCSS-CCCSCCCCSSCEEECCCCCCCCCC
T ss_pred             eEEEEEeCCCCEEEEEECCCCcHHHHHHHhhhhcCccceeeEEeecCcccCCC-cHHHCCCCCCCEEEEEeeCCcCCC
Confidence            68999998888889999999999999999999999999999999999999986 799999999999999877665443

>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=99.69  E-value=4.1e-17  Score=118.86  Aligned_cols=74  Identities=15%  Similarity=0.222  Sum_probs=66.4

Q ss_pred             ceeEEE----EecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeec-CCCccccccCCCCCEEE
Q 044874          185 KLKLLV----LTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMD-DDRSFRWHHVGQGDTIE  259 (269)
Q Consensus       185 ~~~i~V----~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~-d~~tL~~~~i~~~~~i~  259 (269)
                      -|.|+|    +..++ .++.++|++.+||++||+.|+.+.     ++|+++|+|+|+|+.|. |++||++|||++|++|+
T Consensus         7 ~m~itV~~~~~~~~~-~t~~l~V~~~~tV~~LK~~Ie~~~-----gip~~~Q~Li~~Gk~L~dd~~tL~~~gI~~g~~i~   80 (102)
T d1v5oa_           7 GMLITVYCVRRDLTE-VTFSLQVNPDFELSNFRVLCELES-----GVPAEEAQIVYMEQLLTDDHCSLGSYGLKDGDMVV   80 (102)
T ss_dssp             CEEEEEEECCCCCCC-CEEEEEECTTCBHHHHHHHHHHHT-----CCCGGGBCEEETTEEECCSSSBHHHHTCCTTEEEE
T ss_pred             CEEEEEEecccCCCC-CEEEEEECCcccHHHHHHHHHHHh-----CCCcceEEEEeCCeEeecccCCHHHcCCCCCCEEE
Confidence            388888    56666 899999999999999999999986     99999999999999995 55799999999999999


Q ss_pred             EecCc
Q 044874          260 IFNGS  264 (269)
Q Consensus       260 l~~~~  264 (269)
                      |+.+.
T Consensus        81 l~~r~   85 (102)
T d1v5oa_          81 LLQKD   85 (102)
T ss_dssp             ECBCC
T ss_pred             EEECC
Confidence            98543

>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=99.69  E-value=8.3e-17  Score=115.97  Aligned_cols=75  Identities=17%  Similarity=0.288  Sum_probs=69.2

Q ss_pred             CEEEEEcCCCCEE-EEEEcCCCCHHHHHHHHHHH-----hCCC--CCcEEEEEcCEEcCCCCccccCCCCCCC------E
Q 044874            1 MDVIFEPQRGKAF-TIEVGFFDTVLEIKEKIEKY-----QGIP--VPKQTLVFNGQVLQDDRDVEHCEILQNS------R   66 (269)
Q Consensus         1 M~i~vk~~~g~~~-~l~v~~~~tV~~lK~~I~~~-----~gi~--~~~q~L~~~G~~L~d~~tL~~~~i~~~~------~   66 (269)
                      |+|+||.++|+.+ .+.+++++||.+||++|++.     .|+|  +++|||+|+|+.|+|+.+|++|+|.+|+      +
T Consensus         8 i~I~~r~~~G~~i~~~~v~~s~TV~~lK~~I~~~~~~~k~~iP~~~~~qRLIf~Gk~L~D~~tL~dy~i~~g~~~~~~~t   87 (101)
T d1se9a_           8 LEIKFRLTDGSDIGPKAFPDATTVSALKETVISEWPREKENGPKTVKEVKLISAGKVLENSKTVKDYRSPVSNLAGAVTT   87 (101)
T ss_dssp             EEEEEEETTSCEEEEEEECTTCBHHHHHHHHHHHSCTTCSSSCCSGGGEEEEETTEECCTTSBGGGGSCCTTSCTTCCEE
T ss_pred             EEEEEEeCCCCeecceecCccCHHHHHHHHHHHhccccccCCCCCcccEEEEECCeEecCCCCHHHcCCCCCCcCCCceE
Confidence            6899999999976 69999999999999999886     6787  7799999999999999999999999997      9


Q ss_pred             EEEEEecCC
Q 044874           67 IQLLVASDN   75 (269)
Q Consensus        67 i~l~~~~~~   75 (269)
                      +||+++++.
T Consensus        88 mHlVvrpp~   96 (101)
T d1se9a_          88 MHVIIQAPV   96 (101)
T ss_dssp             EEEEECCCS
T ss_pred             EEEEeCCCC
Confidence            999998863

>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=99.69  E-value=6.6e-17  Score=116.07  Aligned_cols=75  Identities=19%  Similarity=0.137  Sum_probs=68.7

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcC-CCCccccCCCCCCCEEEEEEecCCCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQ-DDRDVEHCEILQNSRIQLLVASDNKPQ   78 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~-d~~tL~~~~i~~~~~i~l~~~~~~g~~   78 (269)
                      |+|+||+++|+.+.++|++++||.+||++|+   .+++++|||+|+|+.|. |.++|++|+|.++++|||+++.+++..
T Consensus         8 m~i~vK~l~~~~~~v~v~~~~TV~~lK~~i~---~~~~~~qrLi~~Gk~L~dd~~tL~~y~i~~g~~v~l~~~~~~~~~   83 (95)
T d1wiaa_           8 INVRLKFLNDTEELAVARPEDTVGTLKSKYF---PGQESQMKLIYQGRLLQDPARTLSSLNITNNCVIHCHRSPPGAAV   83 (95)
T ss_dssp             EEEEEEETTTEEEEEEECSSSBHHHHHHHHS---SSTTTTCEEEETTEECCCSSCBTTTTTCCTTEEEEEECCCCCCCC
T ss_pred             EEEEEEcCCCCEEEEEECCcCcHHHHHHHHh---cCCcceeEEEECCEEcccCCCCHHHcCCCCCCEEEEEEcCCCCCC
Confidence            8999999999999999999999999999986   56889999999999996 568999999999999999998876653

>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=99.68  E-value=1.8e-17  Score=121.47  Aligned_cols=75  Identities=19%  Similarity=0.267  Sum_probs=68.9

Q ss_pred             CcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceE---------------EEecCeeecCC-Cc
Q 044874          183 PRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYF---------------FIYKQNVMDDD-RS  246 (269)
Q Consensus       183 ~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~---------------l~~~g~~L~d~-~t  246 (269)
                      ...|+|+|++.+| +.+.++|++++||++||++|+++.     ++|+++|+               |+|+|+.|.|+ .|
T Consensus         5 ss~M~v~Vk~~~G-~~~~v~V~~~~TV~~LK~~I~~~~-----~ip~~~Qr~~~~~~~~~~~~~~~Li~~G~~L~d~~~t   78 (105)
T d1v2ya_           5 SSGMTVRVCKMDG-EVMPVVVVQNATVLDLKKAIQRYV-----QLKQEREGGVQHISWSYVWRTYHLTSAGEKLTEDRKK   78 (105)
T ss_dssp             CCSEEEEEECSSS-CEEEEEECTTCBHHHHHHHHHHHH-----HHHHHHTTCCCCCCHHHHHTTEEEESSSCEECCSSSB
T ss_pred             CCcEEEEEEeCCC-CEEEEEECCCChHHHHHHHHHHHH-----CcCHHHhcccccccccccccceEEEECCEECcccCCC
Confidence            3459999999998 999999999999999999999987     99999887               99999999776 59


Q ss_pred             cccccCCCCCEEEEecC
Q 044874          247 FRWHHVGQGDTIEIFNG  263 (269)
Q Consensus       247 L~~~~i~~~~~i~l~~~  263 (269)
                      |++|||++|++|+|+.+
T Consensus        79 L~~~gI~~g~~l~lv~r   95 (105)
T d1v2ya_          79 LRDYGIRNRDEVSFIKK   95 (105)
T ss_dssp             HHHHTCCSSEEEEEEEC
T ss_pred             HHHcCCCCCCEEEEEEe
Confidence            99999999999999864

>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=99.67  E-value=8.4e-17  Score=116.05  Aligned_cols=73  Identities=18%  Similarity=0.168  Sum_probs=67.4

Q ss_pred             CCcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEe
Q 044874          182 GPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIF  261 (269)
Q Consensus       182 ~~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~  261 (269)
                      +...++|.|+..++ +.+.++|++++||.+||++|++..     ++|+++|+|+|+|+.|+|+ +|++|||++|++|+|+
T Consensus         4 ~s~~~~I~VK~~~~-~~~~v~v~~~~tV~~lK~~i~~~~-----gvp~~~QkLi~~Gk~L~d~-tL~~~gi~~g~~i~lv   76 (96)
T d1wgga_           4 GSSGYSVTVKWGKE-KFEGVELNTDEPPMVFKAQLFALT-----GVQPARQKVMVKGGTLKDD-DWGNIKMKNGMTVLMM   76 (96)
T ss_dssp             CCCEEEEEEEETTE-EEEEEEEESSSCHHHHHHHHHHHT-----CCCTTTSCCEETTEECCSS-CCCSCCCCSSCEEECC
T ss_pred             CCCceEEEEEeCCC-CEEEEEECCCCcHHHHHHHhhhhc-----CccceeeEEeecCcccCCC-cHHHCCCCCCCEEEEE
Confidence            34569999998776 778999999999999999999986     9999999999999999986 8999999999999998

>d1v2ya_ d.15.1.1 (A:) Ubiquitin-like protein 3300001g02rik {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein 3300001g02rik
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.67  E-value=9.5e-18  Score=123.02  Aligned_cols=74  Identities=20%  Similarity=0.331  Sum_probs=70.5

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEE---------------EEEcCEEcCCC-CccccCCCCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQT---------------LVFNGQVLQDD-RDVEHCEILQN   64 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~---------------L~~~G~~L~d~-~tL~~~~i~~~   64 (269)
                      |+|+|++.+|+.++++|++++||.+||++|+.++++|+++||               |+|+|+.|.|+ .+|.+|+|.++
T Consensus         8 M~v~Vk~~~G~~~~v~V~~~~TV~~LK~~I~~~~~ip~~~Qr~~~~~~~~~~~~~~~Li~~G~~L~d~~~tL~~~gI~~g   87 (105)
T d1v2ya_           8 MTVRVCKMDGEVMPVVVVQNATVLDLKKAIQRYVQLKQEREGGVQHISWSYVWRTYHLTSAGEKLTEDRKKLRDYGIRNR   87 (105)
T ss_dssp             EEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHHHHHHHTTCCCCCCHHHHHTTEEEESSSCEECCSSSBHHHHTCCSS
T ss_pred             EEEEEEeCCCCEEEEEECCCChHHHHHHHHHHHHCcCHHHhcccccccccccccceEEEECCEECcccCCCHHHcCCCCC
Confidence            899999999999999999999999999999999999999998               99999999765 58999999999


Q ss_pred             CEEEEEEecC
Q 044874           65 SRIQLLVASD   74 (269)
Q Consensus        65 ~~i~l~~~~~   74 (269)
                      ++|+|+.+++
T Consensus        88 ~~l~lv~r~~   97 (105)
T d1v2ya_          88 DEVSFIKKLG   97 (105)
T ss_dssp             EEEEEEECSC
T ss_pred             CEEEEEEecC
Confidence            9999999875

>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=99.66  E-value=2.1e-16  Score=117.34  Aligned_cols=73  Identities=12%  Similarity=0.160  Sum_probs=66.3

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHH--------HHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCE--EEEE
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIE--------KYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSR--IQLL   70 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~--------~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~--i~l~   70 (269)
                      |+|+|++.+|+++.+.|++++||.+||++|+        ++.++|+++|||+|.|+.|+|+.+|++|+|.+|++  +||+
T Consensus        17 i~i~v~~l~Gk~~~~~v~p~~TV~~lK~~I~~~~p~~~~e~~~~~~~~qRLiy~Gk~L~D~~tL~~~~i~~g~~~~lhlv   96 (116)
T d1wgha_          17 INLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVTLGALKLPFGKTTVMHLV   96 (116)
T ss_dssp             EEEEEECSSSCEEEEEECTTCBHHHHHHHHHHSSSCCSSCCCCCCTTTEEEEETTEEECSSCBTTTTTCCSSCEEEEEEE
T ss_pred             EEEEEEEcCCCEEEEEECCcchHHHHHHHHHhhcccccccccCCChHHeEEEECCEEecCCCCHHHcCCCCCCEEEEEEE
Confidence            5799999999999999999999999999994        66789999999999999999999999999999987  5555


Q ss_pred             Eec
Q 044874           71 VAS   73 (269)
Q Consensus        71 ~~~   73 (269)
                      ++.
T Consensus        97 ~r~   99 (116)
T d1wgha_          97 ARE   99 (116)
T ss_dssp             ECS
T ss_pred             eCC
Confidence            553

>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=99.66  E-value=6.2e-17  Score=119.45  Aligned_cols=76  Identities=18%  Similarity=0.326  Sum_probs=65.2

Q ss_pred             eeEEEEec-CCCeEEEEEecC-CCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecC
Q 044874          186 LKLLVLTQ-CGNKRIPVEVNA-SDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNG  263 (269)
Q Consensus       186 ~~i~V~~~-~g~~~~~l~v~~-~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~  263 (269)
                      ++|.++.. +| +++.++|.+ ++||.+||++|+++.     |+|+++|+|+|+|+.|+|+.||++|+|++|++|+|+. 
T Consensus        30 i~V~v~~~~~G-~~i~l~v~~~sdtV~~lK~~I~~~~-----gip~~~QrLi~~Gk~L~D~~tL~~ynI~~gsti~L~l-  102 (111)
T d1we6a_          30 IRVSKPNENDG-QFMEITVQSLSENVGSLKEKIAGEI-----QIPANKQKLSGKAGFLKDNMSLAHYNVGAGEILTLSL-  102 (111)
T ss_dssp             EEECCTTCSSS-CCEEEEESCSSSBHHHHHHHHHHHT-----TCCTTTSEEECSSSBCCTTSBTTTTTCSSSCEEEEEC-
T ss_pred             EEEEcccCCCC-eEEEEEecCCccHHHHHHHHHHHHH-----CCCccceEEEEeeEEccccCCHHHcCCCCCCEEEEEe-
Confidence            44444333 45 999999987 899999999999987     9999999999999999999999999999999999986 


Q ss_pred             cccCC
Q 044874          264 SVTGG  268 (269)
Q Consensus       264 ~~~~~  268 (269)
                      |..||
T Consensus       103 r~rGG  107 (111)
T d1we6a_         103 RERSG  107 (111)
T ss_dssp             SSCCS
T ss_pred             eCCCC
Confidence            34444

>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=99.66  E-value=1.9e-16  Score=111.71  Aligned_cols=65  Identities=15%  Similarity=0.289  Sum_probs=61.7

Q ss_pred             cCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecC
Q 044874          193 QCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNG  263 (269)
Q Consensus       193 ~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~  263 (269)
                      ++| +++.++|++++||++||++|+++.     |+|+++|+|+|+|+.|+|+.||++|||++|++|+|+.+
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 LNG-QVLVFTLPLTDQVSVIKVKIHEAT-----GMPAGKQKLQYEGIFIKDSNSLAYYNMANGAVIHLALK   83 (86)
T ss_dssp             CSS-CEEEEEECTTSBHHHHHHHHHHHT-----CCCTTTEEEEETTEEECTTSBHHHHTCCTTEEEEEEES
T ss_pred             cCC-eEEEEEECCCChHHHHHHHHHhhh-----cCChHHEEEEeCCcCcCCCCCHHHcCCCCCCEEEEEEe
Confidence            567 899999999999999999999987     99999999999999999999999999999999999853

>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=99.66  E-value=2.8e-16  Score=116.67  Aligned_cols=81  Identities=12%  Similarity=0.167  Sum_probs=68.5

Q ss_pred             CCCcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhh---ccCCCCCCCceEEEecCeeecCCCccccccCCCCCE
Q 044874          181 MGPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQ---RYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDT  257 (269)
Q Consensus       181 ~~~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~---~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~  257 (269)
                      .+...|+|.|++.+| +++.+.|++++||.+||++|.....   ....++|+++|+|+|+|+.|+|+.+|.+|+|.+|++
T Consensus        12 ~~~~~i~i~v~~l~G-k~~~~~v~p~~TV~~lK~~I~~~~p~~~~e~~~~~~~~qRLiy~Gk~L~D~~tL~~~~i~~g~~   90 (116)
T d1wgha_          12 VPADMINLRLILVSG-KTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVTLGALKLPFGKT   90 (116)
T ss_dssp             CCSSSEEEEEECSSS-CEEEEEECTTCBHHHHHHHHHHSSSCCSSCCCCCCTTTEEEEETTEEECSSCBTTTTTCCSSCE
T ss_pred             CCCCeEEEEEEEcCC-CEEEEEECCcchHHHHHHHHHhhcccccccccCCChHHeEEEECCEEecCCCCHHHcCCCCCCE
Confidence            345679999999999 9999999999999999999953100   001389999999999999999999999999999997


Q ss_pred             --EEEec
Q 044874          258 --IEIFN  262 (269)
Q Consensus       258 --i~l~~  262 (269)
                        |||+.
T Consensus        91 ~~lhlv~   97 (116)
T d1wgha_          91 TVMHLVA   97 (116)
T ss_dssp             EEEEEEE
T ss_pred             EEEEEEe
Confidence              66664

>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=99.65  E-value=8e-17  Score=116.84  Aligned_cols=77  Identities=9%  Similarity=0.143  Sum_probs=67.6

Q ss_pred             eeEEE--EecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecC
Q 044874          186 LKLLV--LTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNG  263 (269)
Q Consensus       186 ~~i~V--~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~  263 (269)
                      ++|++  +...| +++.++|++++||.+||++|+++.     ++|+++|+|+|+|++|+|++||++|||+++++|+++..
T Consensus        18 i~V~~~~~~~~g-~~~~lev~~~~TV~~LK~~I~~~~-----gi~~~~qkLi~~Gk~L~d~~tL~~~gI~~~s~i~vi~~   91 (100)
T d1wjua_          18 IEVFLPPRLKKD-RKNLLETRLHITGRELRSKIAETF-----GLQENYIKIVINKKQLQLGKTLEEQGVAHNVKAMVLEL   91 (100)
T ss_dssp             EEEECCTTTCCS-SSEEEEEESSSBHHHHHHHHHHHT-----TCCSTTCEEEETTEECCTTSBHHHHTCCSSEEEEEECC
T ss_pred             EEEEEeeccCCC-eEEEEEECCCcHHHHHHHHHHHHH-----CCCCeeEEEEEcccCcCCCcCHHHcCCCCCCEEEEEEc
Confidence            45555  33455 899999999999999999999986     99999999999999999999999999999999999976


Q ss_pred             cccCC
Q 044874          264 SVTGG  268 (269)
Q Consensus       264 ~~~~~  268 (269)
                      +.+.+
T Consensus        92 ~~~~~   96 (100)
T d1wjua_          92 KQSSG   96 (100)
T ss_dssp             CCCCC
T ss_pred             CCCCC
Confidence            65544

>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=99.65  E-value=4.3e-16  Score=111.75  Aligned_cols=71  Identities=10%  Similarity=0.114  Sum_probs=63.9

Q ss_pred             cceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeec-CCCccccccCCCCCEEEEec
Q 044874          184 RKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMD-DDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       184 ~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~-d~~tL~~~~i~~~~~i~l~~  262 (269)
                      ..|+|+|++.+| +.+.++|++++||.+||++|+        ..++++|+|+|+|++|. |.++|++|+|++|++|||+.
T Consensus         6 s~m~i~vK~l~~-~~~~v~v~~~~TV~~lK~~i~--------~~~~~~qrLi~~Gk~L~dd~~tL~~y~i~~g~~v~l~~   76 (95)
T d1wiaa_           6 SGINVRLKFLND-TEELAVARPEDTVGTLKSKYF--------PGQESQMKLIYQGRLLQDPARTLSSLNITNNCVIHCHR   76 (95)
T ss_dssp             CSEEEEEEETTT-EEEEEEECSSSBHHHHHHHHS--------SSTTTTCEEEETTEECCCSSCBTTTTTCCTTEEEEEEC
T ss_pred             CcEEEEEEcCCC-CEEEEEECCcCcHHHHHHHHh--------cCCcceeEEEECCEEcccCCCCHHHcCCCCCCEEEEEE
Confidence            459999999998 999999999999999999884        35678999999999996 55799999999999999985


Q ss_pred             C
Q 044874          263 G  263 (269)
Q Consensus       263 ~  263 (269)
                      +
T Consensus        77 ~   77 (95)
T d1wiaa_          77 S   77 (95)
T ss_dssp             C
T ss_pred             c
Confidence            3

>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=99.65  E-value=2.6e-16  Score=113.21  Aligned_cols=80  Identities=21%  Similarity=0.369  Sum_probs=70.6

Q ss_pred             CCCCCcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEE
Q 044874          179 SGMGPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTI  258 (269)
Q Consensus       179 ~~~~~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i  258 (269)
                      ++.+...|.|.|+ +++ +++.++|++++||.+||++|++..     ++|+++|+|+|+|+ |+|+.+|++|+|++|++|
T Consensus        11 ~~~~~~~i~v~V~-~~~-k~~~i~v~~~~TV~~LK~~I~~~t-----gvp~~~q~Li~~g~-l~D~~tL~~~~I~~gs~i   82 (95)
T d1v86a_          11 GGVGKELVDLKII-WNK-TKHDVKVPLDSTGSELKQKIHSIT-----GLPPAMQKVMYKGL-VPEDKTLREIKVTSGAKI   82 (95)
T ss_dssp             CCCCCCCEEEEEE-ETT-EEEEEEECTTSBHHHHHHHHHHHH-----CSCSTTCCCBSSSB-CCSSSBHHHHCCCTTEEE
T ss_pred             cCCCccEEEEEEE-ECC-EEEEEEECCCCcHHHHHHHHHHHh-----CCChhHEEEEeccc-ccCCCcHHHCCCCCCCEE
Confidence            3444456888887 466 999999999999999999999987     99999999999997 999999999999999999


Q ss_pred             EEecCccc
Q 044874          259 EIFNGSVT  266 (269)
Q Consensus       259 ~l~~~~~~  266 (269)
                      +|+-...+
T Consensus        83 ~lvgs~~~   90 (95)
T d1v86a_          83 MVVGSTIS   90 (95)
T ss_dssp             EECCSSCC
T ss_pred             EEEecCCC
Confidence            99965554

>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=99.64  E-value=6.5e-16  Score=111.19  Aligned_cols=78  Identities=15%  Similarity=0.194  Sum_probs=67.9

Q ss_pred             cceeEEEEecCCCeEE-EEEecCCCcHHHHHHHHHHhhhccCCCCC--CCceEEEecCeeecCCCccccccCCCCC----
Q 044874          184 RKLKLLVLTQCGNKRI-PVEVNASDNVSELRKELQKLHQRYHFHLP--QDGYFFIYKQNVMDDDRSFRWHHVGQGD----  256 (269)
Q Consensus       184 ~~~~i~V~~~~g~~~~-~l~v~~~~tV~~lK~~i~~~~~~~~~~~p--~~~q~l~~~g~~L~d~~tL~~~~i~~~~----  256 (269)
                      ..|.|.++..+| +.+ .+.+++++||.+||++|++.......|+|  +++|+|||+|+.|+|++||++|+|..|+    
T Consensus         6 ~~i~I~~r~~~G-~~i~~~~v~~s~TV~~lK~~I~~~~~~~k~~iP~~~~~qRLIf~Gk~L~D~~tL~dy~i~~g~~~~~   84 (101)
T d1se9a_           6 NQLEIKFRLTDG-SDIGPKAFPDATTVSALKETVISEWPREKENGPKTVKEVKLISAGKVLENSKTVKDYRSPVSNLAGA   84 (101)
T ss_dssp             CCEEEEEEETTS-CEEEEEEECTTCBHHHHHHHHHHHSCTTCSSSCCSGGGEEEEETTEECCTTSBGGGGSCCTTSCTTC
T ss_pred             ceEEEEEEeCCC-CeecceecCccCHHHHHHHHHHHhccccccCCCCCcccEEEEECCeEecCCCCHHHcCCCCCCcCCC
Confidence            469999999999 665 79999999999999999886322223788  7799999999999999999999999998    


Q ss_pred             --EEEEec
Q 044874          257 --TIEIFN  262 (269)
Q Consensus       257 --~i~l~~  262 (269)
                        ++||+-
T Consensus        85 ~~tmHlVv   92 (101)
T d1se9a_          85 VTTMHVII   92 (101)
T ss_dssp             CEEEEEEE
T ss_pred             ceEEEEEe
Confidence              999984

>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=99.64  E-value=1.3e-16  Score=115.72  Aligned_cols=74  Identities=19%  Similarity=0.257  Sum_probs=67.8

Q ss_pred             CEEEE--EcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecC
Q 044874            1 MDVIF--EPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASD   74 (269)
Q Consensus         1 M~i~v--k~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~   74 (269)
                      |+|++  +...|++++++|++++||.+||.+|+++.|+|+++|+|+|+|+.|+|+.+|++|+|.++++|+++....
T Consensus        18 i~V~~~~~~~~g~~~~lev~~~~TV~~LK~~I~~~~gi~~~~qkLi~~Gk~L~d~~tL~~~gI~~~s~i~vi~~~~   93 (100)
T d1wjua_          18 IEVFLPPRLKKDRKNLLETRLHITGRELRSKIAETFGLQENYIKIVINKKQLQLGKTLEEQGVAHNVKAMVLELKQ   93 (100)
T ss_dssp             EEEECCTTTCCSSSEEEEEESSSBHHHHHHHHHHHTTCCSTTCEEEETTEECCTTSBHHHHTCCSSEEEEEECCCC
T ss_pred             EEEEEeeccCCCeEEEEEECCCcHHHHHHHHHHHHHCCCCeeEEEEEcccCcCCCcCHHHcCCCCCCEEEEEEcCC
Confidence            45666  456799999999999999999999999999999999999999999999999999999999998886554

>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=99.63  E-value=9.4e-17  Score=115.57  Aligned_cols=75  Identities=19%  Similarity=0.362  Sum_probs=69.8

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNKP   77 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g~   77 (269)
                      |.|+|+ .++++|.|+|++++||.+||++|++.+|+|+++|+|+|+|+ |+|+.+|++|+|.++++|+|+.+..+||
T Consensus        18 i~v~V~-~~~k~~~i~v~~~~TV~~LK~~I~~~tgvp~~~q~Li~~g~-l~D~~tL~~~~I~~gs~i~lvgs~~~gp   92 (95)
T d1v86a_          18 VDLKII-WNKTKHDVKVPLDSTGSELKQKIHSITGLPPAMQKVMYKGL-VPEDKTLREIKVTSGAKIMVVGSTISGP   92 (95)
T ss_dssp             EEEEEE-ETTEEEEEEECTTSBHHHHHHHHHHHHCSCSTTCCCBSSSB-CCSSSBHHHHCCCTTEEEEECCSSCCCC
T ss_pred             EEEEEE-ECCEEEEEEECCCCcHHHHHHHHHHHhCCChhHEEEEeccc-ccCCCcHHHCCCCCCCEEEEEecCCCCC
Confidence            567777 58899999999999999999999999999999999999996 9999999999999999999998887776

>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=99.62  E-value=2.4e-16  Score=112.39  Aligned_cols=76  Identities=20%  Similarity=0.420  Sum_probs=69.5

Q ss_pred             CEEEEEcCCCCEEEE-EEcCCCCHHHHHHHHHHHhCCCCCcEEEE---EcCEEcCCCCccccCCCCCCCEEEEEEecCCC
Q 044874            1 MDVIFEPQRGKAFTI-EVGFFDTVLEIKEKIEKYQGIPVPKQTLV---FNGQVLQDDRDVEHCEILQNSRIQLLVASDNK   76 (269)
Q Consensus         1 M~i~vk~~~g~~~~l-~v~~~~tV~~lK~~I~~~~gi~~~~q~L~---~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g   76 (269)
                      |+|+||. .++.+.+ ++++++||.+||++|+.++++|+++|||+   |.|+.|+|+.+|.+|+|++|++|+|+.+...+
T Consensus         8 ~~i~Vk~-~~~~~~i~~v~~~~tV~~LK~~i~~~t~vp~~~QkLi~~~~~Gk~L~D~~tL~~~~i~~g~~i~lv~s~~~~   86 (90)
T d1v5ta_           8 LPIIVKW-GGQEYSVTTLSEDDTVLDLKQFLKTLTGVLPERQKLLGLKVKGKPAENDVKLGALKLKPNTKIMMMGTRESG   86 (90)
T ss_dssp             CCEEEEE-TTEEEEECSCCSSSBHHHHHHHHHHHTCCCTTTCEEESCEETTEECCTTSBHHHHTCCTTEEEEEECCCSSS
T ss_pred             EEEEEEE-CCeEEEEEEeCCCCcHHHHHHHHHHHHcCCHHHhhhhhhccCCcCCCCcCcHHHcCCCCCCEEEEEeeCCCC
Confidence            7899996 5666777 79999999999999999999999999999   68999999999999999999999999887765


Q ss_pred             C
Q 044874           77 P   77 (269)
Q Consensus        77 ~   77 (269)
                      |
T Consensus        87 p   87 (90)
T d1v5ta_          87 P   87 (90)
T ss_dssp             S
T ss_pred             C
Confidence            5

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

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain member 1 protein, HERPUD1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.61  E-value=1.1e-15  Score=109.34  Aligned_cols=77  Identities=12%  Similarity=0.183  Sum_probs=67.6

Q ss_pred             CEEEEEcCCCC--EEEEEEcCCCCHHHHHHHHHHHhC--CCCCcEEEEEcCEEcCCCCccccCCCC--CCCEEEEEEecC
Q 044874            1 MDVIFEPQRGK--AFTIEVGFFDTVLEIKEKIEKYQG--IPVPKQTLVFNGQVLQDDRDVEHCEIL--QNSRIQLLVASD   74 (269)
Q Consensus         1 M~i~vk~~~g~--~~~l~v~~~~tV~~lK~~I~~~~g--i~~~~q~L~~~G~~L~d~~tL~~~~i~--~~~~i~l~~~~~   74 (269)
                      |+|+||+.+++  .+.+++++++||.+||++|++..+  +|+++|||+|+|+.|+|+.+|++|...  ++.+|||+.+..
T Consensus         8 i~l~Ik~~~~~~~~~~~~v~~~~TV~~LK~~I~~~~~~~~~~~~qrLIy~Gk~L~D~~~L~d~~~~~~~~~viHLV~~~~   87 (93)
T d1wgda_           8 VTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLLDHQCLRDLLPKQEKRHVLHLVCNVK   87 (93)
T ss_dssp             CEEEEECSSSSCCCEEEECCTTSCHHHHHHHHHHHSTTCCCTTTCEEEETTEECCSSSCHHHHSCSSSCSEEEEEECCCC
T ss_pred             EEEEEECCCCCceeEEEEcCCCCcHHHHHHHHHHHcCCCCChHHEEEEECCeEccCCCCHHHhCcccCCCCEEEEEecCC
Confidence            78999998765  488999999999999999999965  999999999999999999999999765  445999998777


Q ss_pred             CCC
Q 044874           75 NKP   77 (269)
Q Consensus        75 ~g~   77 (269)
                      .++
T Consensus        88 ~~p   90 (93)
T d1wgda_          88 SGP   90 (93)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            544

>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=99.61  E-value=9.5e-16  Score=109.22  Aligned_cols=74  Identities=18%  Similarity=0.263  Sum_probs=66.5

Q ss_pred             CCcceeEEEEecCCCeEEEE-EecCCCcHHHHHHHHHHhhhccCCCCCCCceEEE---ecCeeecCCCccccccCCCCCE
Q 044874          182 GPRKLKLLVLTQCGNKRIPV-EVNASDNVSELRKELQKLHQRYHFHLPQDGYFFI---YKQNVMDDDRSFRWHHVGQGDT  257 (269)
Q Consensus       182 ~~~~~~i~V~~~~g~~~~~l-~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~---~~g~~L~d~~tL~~~~i~~~~~  257 (269)
                      +...|+|+|+. .| +.+.+ +|++++||.+||++|+++.     ++|+++|+|+   |+|+.|+|+.+|.+|+|++|++
T Consensus         4 ~s~~~~i~Vk~-~~-~~~~i~~v~~~~tV~~LK~~i~~~t-----~vp~~~QkLi~~~~~Gk~L~D~~tL~~~~i~~g~~   76 (90)
T d1v5ta_           4 GSSGLPIIVKW-GG-QEYSVTTLSEDDTVLDLKQFLKTLT-----GVLPERQKLLGLKVKGKPAENDVKLGALKLKPNTK   76 (90)
T ss_dssp             CCCSCCEEEEE-TT-EEEEECSCCSSSBHHHHHHHHHHHT-----CCCTTTCEEESCEETTEECCTTSBHHHHTCCTTEE
T ss_pred             CCCcEEEEEEE-CC-eEEEEEEeCCCCcHHHHHHHHHHHH-----cCCHHHhhhhhhccCCcCCCCcCcHHHcCCCCCCE
Confidence            34569999996 55 67776 7999999999999999986     9999999999   6999999999999999999999


Q ss_pred             EEEec
Q 044874          258 IEIFN  262 (269)
Q Consensus       258 i~l~~  262 (269)
                      |+|+.
T Consensus        77 i~lv~   81 (90)
T d1v5ta_          77 IMMMG   81 (90)
T ss_dssp             EEEEC
T ss_pred             EEEEe
Confidence            99984

>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=99.59  E-value=3.3e-15  Score=106.83  Aligned_cols=78  Identities=14%  Similarity=0.179  Sum_probs=65.7

Q ss_pred             CcceeEEEEecCCC-eEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCC--EEE
Q 044874          183 PRKLKLLVLTQCGN-KRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGD--TIE  259 (269)
Q Consensus       183 ~~~~~i~V~~~~g~-~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~--~i~  259 (269)
                      +..|+|+|+.+++. ..+.+++++++||.+||++|++...   ..+|+++|+|+|+|++|+|+.+|++|..+.++  +||
T Consensus         5 s~~i~l~Ik~~~~~~~~~~~~v~~~~TV~~LK~~I~~~~~---~~~~~~~qrLIy~Gk~L~D~~~L~d~~~~~~~~~viH   81 (93)
T d1wgda_           5 SSGVTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVYP---ERPRPEDQRLIYSGKLLLDHQCLRDLLPKQEKRHVLH   81 (93)
T ss_dssp             SCCCEEEEECSSSSCCCEEEECCTTSCHHHHHHHHHHHST---TCCCTTTCEEEETTEECCSSSCHHHHSCSSSCSEEEE
T ss_pred             CCcEEEEEECCCCCceeEEEEcCCCCcHHHHHHHHHHHcC---CCCChHHEEEEECCeEccCCCCHHHhCcccCCCCEEE
Confidence            34599999998762 3589999999999999999999741   25999999999999999999999999765544  999


Q ss_pred             EecC
Q 044874          260 IFNG  263 (269)
Q Consensus       260 l~~~  263 (269)
                      |+..
T Consensus        82 LV~~   85 (93)
T d1wgda_          82 LVCN   85 (93)
T ss_dssp             EECC
T ss_pred             EEec
Confidence            9853

>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=99.59  E-value=1.9e-15  Score=105.38  Aligned_cols=73  Identities=19%  Similarity=0.338  Sum_probs=65.5

Q ss_pred             CEEEEEcCCCCEEEEEE-----cCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcC-CCCccccCCCCCCCEEEEEEecC
Q 044874            1 MDVIFEPQRGKAFTIEV-----GFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQ-DDRDVEHCEILQNSRIQLLVASD   74 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v-----~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~-d~~tL~~~~i~~~~~i~l~~~~~   74 (269)
                      |+|+|+. .++.+.+++     ++++||++||++|++.+|+|+++|+|+|+|+.|. |+.+|++|||++|++|+|+.+..
T Consensus         2 i~i~V~~-~~~~~~i~v~~~~~~~~~Tv~~LK~~I~~~tgvp~~~QkL~~~G~~L~~d~~tL~~~gi~~g~~i~lv~~~~   80 (81)
T d1wxva1           2 LTVTVTH-SNEKHDLHVTSQQGSSEPVVQDLAQVVEEVIGVPQSFQKLIFKGKSLKEMETPLSALGIQDGCRVMLIGKKN   80 (81)
T ss_dssp             EEEEEEC-SSSEEEEEECCCSSSSSCBHHHHHHHHHHHTCCCTTTCEEEETTEEECCSSSBHHHHTCCSSEEEEEESCCS
T ss_pred             EEEEEEE-CCeeEEEEEecCCCCCccHHHHHHHHHHHHHCcCHHHEEeeecCeEeCcCCCChHHCCCCCCCEEEEEEecC
Confidence            6788864 678899998     4688999999999999999999999999999995 67899999999999999997754

>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=99.57  E-value=2.9e-15  Score=108.49  Aligned_cols=75  Identities=23%  Similarity=0.326  Sum_probs=65.6

Q ss_pred             EEEEEcCCC-CEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCC-------CCCEEEEEEec
Q 044874            2 DVIFEPQRG-KAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEIL-------QNSRIQLLVAS   73 (269)
Q Consensus         2 ~i~vk~~~g-~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~-------~~~~i~l~~~~   73 (269)
                      +|||+...+ .++.++|++++||.+||++|++++|+|+++|||+|+|+.|+|+.+|++|||.       ..+++++.++.
T Consensus         1 qifv~i~~~k~Ti~l~v~~~~TV~~lK~~I~~~~gip~~~QrLi~~Gk~L~D~~TL~dYgI~~~~~~~~~~~~~~l~~~~   80 (103)
T d2c9wb1           1 DVFLMIRRHKTTIFTDAKESSTVFELKRIVEGILKRPPDEQRLYKDDQLLDDGKTLGECGFTSQTARPQAPATVGLAFRA   80 (103)
T ss_dssp             CEEEEEEEBTEEEEEEECTTSBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBHHHHTCCTTTSBTTBCEEEEEEEEE
T ss_pred             CEEEEEeCCCEEEEEEeCCCCcHHHHHHHHHHHhCCCcccEEEEECCEEcCCCCCHHHcCCCcccccccCCcEEEEEEec
Confidence            467776554 4788999999999999999999999999999999999999999999999995       45588888887


Q ss_pred             CCC
Q 044874           74 DNK   76 (269)
Q Consensus        74 ~~g   76 (269)
                      .++
T Consensus        81 ~~~   83 (103)
T d2c9wb1          81 DDT   83 (103)
T ss_dssp             TTE
T ss_pred             CCC
Confidence            764

>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=99.56  E-value=2.8e-15  Score=108.62  Aligned_cols=64  Identities=14%  Similarity=0.232  Sum_probs=58.1

Q ss_pred             EEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCC
Q 044874          188 LLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGD  256 (269)
Q Consensus       188 i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~  256 (269)
                      |||+...+..++.++|++++||.+||++|++++     |+|+++|+|+|+|+.|+|++||++|||.+++
T Consensus         2 ifv~i~~~k~Ti~l~v~~~~TV~~lK~~I~~~~-----gip~~~QrLi~~Gk~L~D~~TL~dYgI~~~~   65 (103)
T d2c9wb1           2 VFLMIRRHKTTIFTDAKESSTVFELKRIVEGIL-----KRPPDEQRLYKDDQLLDDGKTLGECGFTSQT   65 (103)
T ss_dssp             EEEEEEEBTEEEEEEECTTSBHHHHHHHHHHHH-----CCCGGGEEEEETTEECCTTSBHHHHTCCTTT
T ss_pred             EEEEEeCCCEEEEEEeCCCCcHHHHHHHHHHHh-----CCCcccEEEEECCEEcCCCCCHHHcCCCccc
Confidence            566666665789999999999999999999998     9999999999999999999999999997665

>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=1.1e-14  Score=101.42  Aligned_cols=72  Identities=14%  Similarity=0.229  Sum_probs=62.5

Q ss_pred             eeEEEEecCCCeEEEEEe-----cCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeec-CCCccccccCCCCCEEE
Q 044874          186 LKLLVLTQCGNKRIPVEV-----NASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMD-DDRSFRWHHVGQGDTIE  259 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v-----~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~-d~~tL~~~~i~~~~~i~  259 (269)
                      |+|.|+. .+ +.+.++|     ++++||++||++|++..     |+|+++|+|+|+|+.|. |+.+|++|||++|++|+
T Consensus         2 i~i~V~~-~~-~~~~i~v~~~~~~~~~Tv~~LK~~I~~~t-----gvp~~~QkL~~~G~~L~~d~~tL~~~gi~~g~~i~   74 (81)
T d1wxva1           2 LTVTVTH-SN-EKHDLHVTSQQGSSEPVVQDLAQVVEEVI-----GVPQSFQKLIFKGKSLKEMETPLSALGIQDGCRVM   74 (81)
T ss_dssp             EEEEEEC-SS-SEEEEEECCCSSSSSCBHHHHHHHHHHHT-----CCCTTTCEEEETTEEECCSSSBHHHHTCCSSEEEE
T ss_pred             EEEEEEE-CC-eeEEEEEecCCCCCccHHHHHHHHHHHHH-----CcCHHHEEeeecCeEeCcCCCChHHCCCCCCCEEE
Confidence            6788865 44 6788877     56889999999999986     99999999999999996 56799999999999999


Q ss_pred             EecCc
Q 044874          260 IFNGS  264 (269)
Q Consensus       260 l~~~~  264 (269)
                      |+.++
T Consensus        75 lv~~~   79 (81)
T d1wxva1          75 LIGKK   79 (81)
T ss_dssp             EESCC
T ss_pred             EEEec
Confidence            98654

>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=99.50  E-value=6.3e-14  Score=97.09  Aligned_cols=74  Identities=14%  Similarity=0.177  Sum_probs=69.0

Q ss_pred             EEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCCC
Q 044874            2 DVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDNK   76 (269)
Q Consensus         2 ~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~g   76 (269)
                      .|.|+. +|+.+.+.|.+++++..||++++++.|+++++++|+|+|+.|.++.|+++|+++++++|+++++..||
T Consensus         6 ~ikv~~-~~~~~~f~v~~~~~~~~l~~~~~~~~~i~~~~~~l~f~G~~l~~~~T~~~~~i~dgd~I~v~~~q~GG   79 (79)
T d1euvb_           6 NLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHREQIGG   79 (79)
T ss_dssp             EEEEES-SSCEEEEEEETTSCTHHHHHHHHHHTTCCGGGEEEEETTEECCTTCCTTTTTCCTTEEEEEEECCBCC
T ss_pred             EEEECC-CCeEEEEEECCCCcHHHHHHHHHHHhCCChHhEEEEECCEEeCCCCCHHHCCCCCCCEEEEEEeccCC
Confidence            455654 67888899999999999999999999999999999999999999999999999999999999999876

>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=99.48  E-value=9.1e-14  Score=99.53  Aligned_cols=78  Identities=13%  Similarity=0.112  Sum_probs=67.8

Q ss_pred             cceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCe-------eecCCCccccccCCCCC
Q 044874          184 RKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQN-------VMDDDRSFRWHHVGQGD  256 (269)
Q Consensus       184 ~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~-------~L~d~~tL~~~~i~~~~  256 (269)
                      .-+.|+|........+...+++.+||.+||++|+...     |+|+++|+|+|.|+       .++|+++|.+|+|.+|+
T Consensus         6 s~v~v~I~s~~~~~~~E~r~~~~~TV~~LK~kle~~t-----Gip~~~qrL~~~~~~~~~~~~l~~d~~~L~~y~i~dg~   80 (95)
T d1v6ea_           6 SGVMVFISSSLNSFRSEKRYSRSLTIAEFKCKLELVV-----GSPASCMELELYGADDKFYSKLDQEDALLGSYPVDDGC   80 (95)
T ss_dssp             CCEEEEEEETTSSSCEEEEECTTSBHHHHHHHHHHHT-----CSCTTTCBCEEECSSSCEEEECCCSSSBTTSSSCCTTC
T ss_pred             CcEEEEEEECCCCcEEEEEeCCCCCHHHHHHHHHHHh-----CcCchhEEEEEeCCCCceeecccCCcCCHHHCCCCCCC
Confidence            3489999874333667889999999999999999986     99999999999998       58899999999999999


Q ss_pred             EEEEecCccc
Q 044874          257 TIEIFNGSVT  266 (269)
Q Consensus       257 ~i~l~~~~~~  266 (269)
                      +|||+..+-+
T Consensus        81 ~ihlvd~~p~   90 (95)
T d1v6ea_          81 RIHVIDHSGS   90 (95)
T ss_dssp             EEEEBCCSCC
T ss_pred             EEEEEeCCCC
Confidence            9999975543

>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=99.46  E-value=5.3e-14  Score=100.78  Aligned_cols=77  Identities=21%  Similarity=0.186  Sum_probs=68.8

Q ss_pred             CEEEEEcC-CCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCE-------EcCCCCccccCCCCCCCEEEEEEe
Q 044874            1 MDVIFEPQ-RGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQ-------VLQDDRDVEHCEILQNSRIQLLVA   72 (269)
Q Consensus         1 M~i~vk~~-~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~-------~L~d~~tL~~~~i~~~~~i~l~~~   72 (269)
                      |.|+|++. ++..+...+++++||.+||++|+..+|+|++.|+|+|.|+       .++|+.+|.+|+|.+|++|||+.+
T Consensus         8 v~v~I~s~~~~~~~E~r~~~~~TV~~LK~kle~~tGip~~~qrL~~~~~~~~~~~~l~~d~~~L~~y~i~dg~~ihlvd~   87 (95)
T d1v6ea_           8 VMVFISSSLNSFRSEKRYSRSLTIAEFKCKLELVVGSPASCMELELYGADDKFYSKLDQEDALLGSYPVDDGCRIHVIDH   87 (95)
T ss_dssp             EEEEEEETTSSSCEEEEECTTSBHHHHHHHHHHHTCSCTTTCBCEEECSSSCEEEECCCSSSBTTSSSCCTTCEEEEBCC
T ss_pred             EEEEEEECCCCcEEEEEeCCCCCHHHHHHHHHHHhCcCchhEEEEEeCCCCceeecccCCcCCHHHCCCCCCCEEEEEeC
Confidence            57888873 6667888999999999999999999999999999999876       478999999999999999999988


Q ss_pred             cCCCC
Q 044874           73 SDNKP   77 (269)
Q Consensus        73 ~~~g~   77 (269)
                      .+.++
T Consensus        88 ~p~~~   92 (95)
T d1v6ea_          88 SGSGP   92 (95)
T ss_dssp             SCCSS
T ss_pred             CCCCC
Confidence            77655

>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=99.45  E-value=1.9e-13  Score=94.59  Aligned_cols=75  Identities=16%  Similarity=0.210  Sum_probs=67.3

Q ss_pred             cceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecC
Q 044874          184 RKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNG  263 (269)
Q Consensus       184 ~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~  263 (269)
                      ..++|.|+. +| ..+.++|..++++..|++.++++.     ++|+++++|+|+|+.|+++.|+++|+|++||+|+++..
T Consensus         3 ~~I~ikv~~-~~-~~~~f~v~~~~~~~~l~~~~~~~~-----~i~~~~~~l~f~G~~l~~~~T~~~~~i~dgd~I~v~~~   75 (79)
T d1euvb_           3 THINLKVSD-GS-SEIFFKIKKTTPLRRLMEAFAKRQ-----GKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHRE   75 (79)
T ss_dssp             SEEEEEEES-SS-CEEEEEEETTSCTHHHHHHHHHHT-----TCCGGGEEEEETTEECCTTCCTTTTTCCTTEEEEEEEC
T ss_pred             cEEEEEECC-CC-eEEEEEECCCCcHHHHHHHHHHHh-----CCChHhEEEEECCEEeCCCCCHHHCCCCCCCEEEEEEe
Confidence            457778875 45 788899999999999999999986     99999999999999999999999999999999999975


Q ss_pred             cc
Q 044874          264 SV  265 (269)
Q Consensus       264 ~~  265 (269)
                      .+
T Consensus        76 q~   77 (79)
T d1euvb_          76 QI   77 (79)
T ss_dssp             CB
T ss_pred             cc
Confidence            33

>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=99.44  E-value=8.5e-14  Score=98.67  Aligned_cols=86  Identities=19%  Similarity=0.191  Sum_probs=65.1

Q ss_pred             CEEEEEEecCCCCCCcccCCCCCceEEEEEecCCCCCCccccccceeecCCcchHHHHHHhhhhhc--CCC-CcceEEEe
Q 044874           65 SRIQLLVASDNKPQVKTEQSSPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEME--SIP-VNRLLVQS  141 (269)
Q Consensus        65 ~~i~l~~~~~~g~~~~~~~~~~~~~i~i~Vk~~~~~~~~~~~~~~~~~v~~~~TV~~lK~~I~~~~--gip-~~~q~L~~  141 (269)
                      +..|+.++..+++..+          ...++.....        .........||.+||++|+++.  ++| +++|+|+|
T Consensus         4 s~~~~~~~l~~~p~~p----------k~~i~~p~~~--------~~~~~~~~~tV~~lK~~i~~~~~~~~P~p~~~rLIy   65 (94)
T d1x1ma1           4 SDWHLAVKLADQPLAP----------KSILQLPETE--------LGEYSLGGYSISFLKQLIAGKLQESVPDPELIDLIY   65 (94)
T ss_dssp             CSCCEEEEETTCTTSC----------CEEECCCCCS--------SCSSCCCCCBHHHHHHHHHHHCTTTCCCSSSEEEEE
T ss_pred             ccceEEEEEccCCCCC----------cceEECCCCc--------cCccCCCccCHHHHHHHHHHHcccCCCChhheEEEE
Confidence            4567788887766321          2334333322        2223345789999999998876  455 69999999


Q ss_pred             CCeeeccCCcccccCCCCCCEEEEEEc
Q 044874          142 SGAELQDHRSLRDCELMDNAEIDVHVR  168 (269)
Q Consensus       142 ~g~~L~d~~~L~~y~i~~~~~i~l~~~  168 (269)
                      +|+.|+|+.+|++|+|++|++|||+.|
T Consensus        66 ~Gk~L~D~~tL~~y~I~~gstihLV~r   92 (94)
T d1x1ma1          66 CGRKLKDDQTLDFYGIQPGSTVHVLRK   92 (94)
T ss_dssp             TTEECCTTCBHHHHTCCTTCEEEEEES
T ss_pred             CCeEECCCccHHHcCCCCCCEEEEEEe
Confidence            999999999999999999999999976

>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=99.44  E-value=5e-14  Score=99.87  Aligned_cols=89  Identities=15%  Similarity=0.161  Sum_probs=63.1

Q ss_pred             CEEEEEEccCCCCCCCCCCCCCCcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCC-CCceEEEecCe
Q 044874          161 AEIDVHVRPSPTATSTTSSGMGPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLP-QDGYFFIYKQN  239 (269)
Q Consensus       161 ~~i~l~~~~~~~~~~~~~~~~~~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p-~~~q~l~~~g~  239 (269)
                      |+.|+.+++..        ++...  +..++..+.  .....+..+.||.+||+.|.++..   -+.| +++|+|||+|+
T Consensus         4 s~~~~~~~l~~--------~p~~p--k~~i~~p~~--~~~~~~~~~~tV~~lK~~i~~~~~---~~~P~p~~~rLIy~Gk   68 (94)
T d1x1ma1           4 SDWHLAVKLAD--------QPLAP--KSILQLPET--ELGEYSLGGYSISFLKQLIAGKLQ---ESVPDPELIDLIYCGR   68 (94)
T ss_dssp             CSCCEEEEETT--------CTTSC--CEEECCCCC--SSCSSCCCCCBHHHHHHHHHHHCT---TTCCCSSSEEEEETTE
T ss_pred             ccceEEEEEcc--------CCCCC--cceEECCCC--ccCccCCCccCHHHHHHHHHHHcc---cCCCChhheEEEECCe
Confidence            56777877772        22222  233333332  111124558899999999988641   1454 68999999999


Q ss_pred             eecCCCccccccCCCCCEEEEecCc
Q 044874          240 VMDDDRSFRWHHVGQGDTIEIFNGS  264 (269)
Q Consensus       240 ~L~d~~tL~~~~i~~~~~i~l~~~~  264 (269)
                      .|+|+++|++|||++|+||||+.+.
T Consensus        69 ~L~D~~tL~~y~I~~gstihLV~r~   93 (94)
T d1x1ma1          69 KLKDDQTLDFYGIQPGSTVHVLRKS   93 (94)
T ss_dssp             ECCTTCBHHHHTCCTTCEEEEEESS
T ss_pred             EECCCccHHHcCCCCCCEEEEEEeC
Confidence            9999999999999999999999753

>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=99.42  E-value=4.7e-13  Score=96.22  Aligned_cols=80  Identities=16%  Similarity=0.291  Sum_probs=64.9

Q ss_pred             cceeEEEEecC--CCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCee-------ec-CCCccccccCC
Q 044874          184 RKLKLLVLTQC--GNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNV-------MD-DDRSFRWHHVG  253 (269)
Q Consensus       184 ~~~~i~V~~~~--g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~-------L~-d~~tL~~~~i~  253 (269)
                      .-++|.|+..+  ..+.+.++++.++||.+||.+|+...     |+|+++|+|+|.|+.       |+ |+++|.+|||+
T Consensus         8 ~~iti~i~~~~~~~~~~~~~kv~~~~TV~~LK~~i~~~~-----gip~~~qrL~y~~~~~~~~~~~l~~d~~tL~~YgI~   82 (97)
T d1wjna_           8 QLLTLKIKCSNQPERQILEKQLPDSMTVQKVKGLLSRLL-----KVPVSELLLSYESSKMPGREIELENDLQPLQFYSVE   82 (97)
T ss_dssp             CEEEEEEEESSCSSSCCEEEEEETTSBHHHHHHHHHTTT-----TCCTTTCEEEEECTTSCSCEEECCCSSSBSGGGTCC
T ss_pred             CeEEEEEEeCCCCCCceEEEEcCCCCCHHHHHHHHHHHH-----CcChHHeEEEecCCCCCcccceecCCCcCHhhccCC
Confidence            44666666432  13788999999999999999999975     999999999999973       44 67899999999


Q ss_pred             CCCEEEEecCcccCC
Q 044874          254 QGDTIEIFNGSVTGG  268 (269)
Q Consensus       254 ~~~~i~l~~~~~~~~  268 (269)
                      +|++|+|.....+.|
T Consensus        83 dg~~I~V~~~~P~~~   97 (97)
T d1wjna_          83 NGDCLLVRWSGPSSG   97 (97)
T ss_dssp             TTCEEEEECCSSCCC
T ss_pred             CCCEEEEEeCCCCCC
Confidence            999999976554443

>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=99.38  E-value=9e-13  Score=90.66  Aligned_cols=75  Identities=16%  Similarity=0.292  Sum_probs=71.3

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEecCC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVASDN   75 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~~~~   75 (269)
                      |+|+|++.+|+.+.+.|.++.++..|+++++++.|+++++++|+|+|+.|.++.|++++++++|++|+++++..|
T Consensus         3 I~ikv~~~dg~~v~f~v~~~t~l~kl~~~y~~~~~~~~~~~~f~fdG~~l~~~~T~~~l~~edgD~Idv~~~q~G   77 (77)
T d2uyzb1           3 IKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQEQTG   77 (77)
T ss_dssp             EEEEEECTTCCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCHHHHTCCTTEEEEEEECCCC
T ss_pred             EEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCCChhHEEEEECCEECCCCCCHHHcCCCCCCEEEEEEecCC
Confidence            578899999999999999999999999999999999999999999999999999999999999999999987653

>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=99.29  E-value=2.6e-12  Score=92.27  Aligned_cols=70  Identities=11%  Similarity=0.149  Sum_probs=61.0

Q ss_pred             EEEEEc---CCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEE-------cC-CCCccccCCCCCCCEEEEE
Q 044874            2 DVIFEP---QRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQV-------LQ-DDRDVEHCEILQNSRIQLL   70 (269)
Q Consensus         2 ~i~vk~---~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~-------L~-d~~tL~~~~i~~~~~i~l~   70 (269)
                      +|+|+.   .+++.+++.+++++||.+||.+|+..+|+|++.|+|+|.|+.       |+ |+++|.+|+|++|++|++.
T Consensus        11 ti~i~~~~~~~~~~~~~kv~~~~TV~~LK~~i~~~~gip~~~qrL~y~~~~~~~~~~~l~~d~~tL~~YgI~dg~~I~V~   90 (97)
T d1wjna_          11 TLKIKCSNQPERQILEKQLPDSMTVQKVKGLLSRLLKVPVSELLLSYESSKMPGREIELENDLQPLQFYSVENGDCLLVR   90 (97)
T ss_dssp             EEEEEESSCSSSCCEEEEEETTSBHHHHHHHHHTTTTCCTTTCEEEEECTTSCSCEEECCCSSSBSGGGTCCTTCEEEEE
T ss_pred             EEEEEeCCCCCCceEEEEcCCCCCHHHHHHHHHHHHCcChHHeEEEecCCCCCcccceecCCCcCHhhccCCCCCEEEEE
Confidence            466664   347889999999999999999999999999999999998762       43 7899999999999999986


Q ss_pred             E
Q 044874           71 V   71 (269)
Q Consensus        71 ~   71 (269)
                      .
T Consensus        91 ~   91 (97)
T d1wjna_          91 W   91 (97)
T ss_dssp             C
T ss_pred             e
Confidence            4

>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=99.26  E-value=9e-12  Score=85.53  Aligned_cols=74  Identities=18%  Similarity=0.344  Sum_probs=69.1

Q ss_pred             ceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCc
Q 044874          185 KLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGS  264 (269)
Q Consensus       185 ~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~  264 (269)
                      .++|.|+..+| +.+.+.|..+.++..|++..+++.     ++|+++++|+|+|+.|.++.|++++++++||+|+++...
T Consensus         2 ~I~ikv~~~dg-~~v~f~v~~~t~l~kl~~~y~~~~-----~~~~~~~~f~fdG~~l~~~~T~~~l~~edgD~Idv~~~q   75 (77)
T d2uyzb1           2 YIKLKVIGQDS-SEIHFKVKMTTHLKKLKESYCQRQ-----GVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQEQ   75 (77)
T ss_dssp             EEEEEEECTTC-CEEEEEEETTSCTHHHHHHHHHHH-----TCCGGGEEEEETTEECCTTCCHHHHTCCTTEEEEEEECC
T ss_pred             EEEEEEECCCC-CEEEEEECCCChHHHHHHHHHHHh-----CCChhHEEEEECCEECCCCCCHHHcCCCCCCEEEEEEec
Confidence            47889999888 899999999999999999999987     999999999999999999999999999999999998644

>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=99.26  E-value=1.6e-11  Score=86.71  Aligned_cols=74  Identities=16%  Similarity=0.167  Sum_probs=60.8

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCe-------eecCCCccccccCCCCCEE
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQN-------VMDDDRSFRWHHVGQGDTI  258 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~-------~L~d~~tL~~~~i~~~~~i  258 (269)
                      +.+.|........+...++++.||.+||++|+...     |+|++.|+|+|.|+       .++|+++|.+|||.+|++|
T Consensus         5 ~~l~it~~~t~~~~E~r~~~~~TV~~LK~kle~~~-----Gip~~~q~L~~~~~~~~~~~~l~dd~~~L~~ygi~dG~~I   79 (90)
T d1t0ya_           5 YDLEITTNATDFPMEKKYPAGMSLNDLKKKLELVV-----GTTVDSMRIQLFDGDDQLKGELTDGAKSLKDLGVRDGYRI   79 (90)
T ss_dssp             EEEEEEESSCCSCEEEEEETTSBHHHHHHHHHHHH-----CCCTTTEEEEEECSSSSEEEECCCCSSBTTTTTCCSSEEE
T ss_pred             EEEEEEECCCccEEEEecCCCCCHHHHHHHHHHHH-----CCChhheEEEEeCCCCCcccccccCCCCHHHCCCCCCCEE
Confidence            35555543222446778899999999999999986     99999999999987       4677899999999999999


Q ss_pred             EEecCc
Q 044874          259 EIFNGS  264 (269)
Q Consensus       259 ~l~~~~  264 (269)
                      ||+..+
T Consensus        80 hvvd~~   85 (90)
T d1t0ya_          80 HAVDVT   85 (90)
T ss_dssp             EEEECT
T ss_pred             EEEeCC
Confidence            999743

>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=99.15  E-value=1.1e-10  Score=82.36  Aligned_cols=71  Identities=10%  Similarity=0.102  Sum_probs=59.0

Q ss_pred             EEEEc-CCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCE-------EcCCCCccccCCCCCCCEEEEEEec
Q 044874            3 VIFEP-QRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQ-------VLQDDRDVEHCEILQNSRIQLLVAS   73 (269)
Q Consensus         3 i~vk~-~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~-------~L~d~~tL~~~~i~~~~~i~l~~~~   73 (269)
                      |.|.+ .++..+...++++.||.+||.+|+..+|+|++.|+|+|.|+       .++|+.+|.+|||.+|++||++-..
T Consensus         7 l~it~~~t~~~~E~r~~~~~TV~~LK~kle~~~Gip~~~q~L~~~~~~~~~~~~l~dd~~~L~~ygi~dG~~Ihvvd~~   85 (90)
T d1t0ya_           7 LEITTNATDFPMEKKYPAGMSLNDLKKKLELVVGTTVDSMRIQLFDGDDQLKGELTDGAKSLKDLGVRDGYRIHAVDVT   85 (90)
T ss_dssp             EEEEESSCCSCEEEEEETTSBHHHHHHHHHHHHCCCTTTEEEEEECSSSSEEEECCCCSSBTTTTTCCSSEEEEEEECT
T ss_pred             EEEEECCCccEEEEecCCCCCHHHHHHHHHHHHCCChhheEEEEeCCCCCcccccccCCCCHHHCCCCCCCEEEEEeCC
Confidence            44443 23444677789999999999999999999999999999875       3578999999999999999996543

>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=98.74  E-value=3.6e-08  Score=66.06  Aligned_cols=70  Identities=13%  Similarity=0.283  Sum_probs=66.3

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEE
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLL   70 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~   70 (269)
                      +.|+|+..+|+.+.+.|..+.++..|..+.++..+++++..+++|+|..|..+.|.+++++++|++|.+.
T Consensus         2 I~lkv~~~~g~~v~f~vk~~t~l~kl~~~y~~~~~~~~~~~~f~fdG~~i~~~~Tp~~l~med~D~Idv~   71 (72)
T d1wm3a_           2 INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVF   71 (72)
T ss_dssp             EEEEEECTTSCEEEEEECTTSCTHHHHHHHHHHHTCCTTTCEEEETTEECCTTCCTTTTTCCTTEEEEEE
T ss_pred             EEEEEECCCCCEEEEEEcCCChHHHHHHHHHHHhCCCccceEEEECCEEcCCCCCHHHcCCCCCCEEEEE
Confidence            4688888899999999999999999999999999999999999999999999999999999999999874

>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=98.61  E-value=1.4e-07  Score=63.13  Aligned_cols=71  Identities=18%  Similarity=0.265  Sum_probs=65.0

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEec
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      ++|.|+..+| +.+.+.|..+.+...|....+++.     ++++...+|+|.|..+..+.|-+++++++||+|.++.
T Consensus         2 I~lkv~~~~g-~~v~f~vk~~t~l~kl~~~y~~~~-----~~~~~~~~f~fdG~~i~~~~Tp~~l~med~D~Idv~~   72 (72)
T d1wm3a_           2 INLKVAGQDG-SVVQFKIKRHTPLSKLMKAYCERQ-----GLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQ   72 (72)
T ss_dssp             EEEEEECTTS-CEEEEEECTTSCTHHHHHHHHHHH-----TCCTTTCEEEETTEECCTTCCTTTTTCCTTEEEEEEC
T ss_pred             EEEEEECCCC-CEEEEEEcCCChHHHHHHHHHHHh-----CCCccceEEEECCEEcCCCCCHHHcCCCCCCEEEEEC
Confidence            5677887777 889999999999999999998876     8999999999999999999999999999999999873

>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=98.38  E-value=3.1e-07  Score=62.96  Aligned_cols=70  Identities=21%  Similarity=0.214  Sum_probs=56.3

Q ss_pred             EEEEcCCCCEEEEEEcC-CCCHHHHHHHHHHHhCCCCCcEEEEEc--------------CEEcCC-CCccccCCCCCCCE
Q 044874            3 VIFEPQRGKAFTIEVGF-FDTVLEIKEKIEKYQGIPVPKQTLVFN--------------GQVLQD-DRDVEHCEILQNSR   66 (269)
Q Consensus         3 i~vk~~~g~~~~l~v~~-~~tV~~lK~~I~~~~gi~~~~q~L~~~--------------G~~L~d-~~tL~~~~i~~~~~   66 (269)
                      |.|++.+| +..++|+. +.|+.+||.+|++..++|.+.|.|..+              -..|.| ..+|+++||.+|+.
T Consensus         3 iRiRsrdG-~eRv~v~~~~~Tl~~LK~~Ie~~L~VPv~~Q~LSl~~~llL~k~P~~~~~~~~l~d~~~~L~sl~i~hGsi   81 (94)
T d1wf9a1           3 LRVRSRDG-LERVSVDGPHITVSQLKTLIQDQLQIPIHNQTLSTNRNLLLAKSPSDFLAFTDMADPNLRISSLNLAHGSM   81 (94)
T ss_dssp             EEEECSSC-EEEEEECCTTSBHHHHHHHHHHHSCCCTTTCCCBSSGGGGTCCSHHHHTTCCSSCCTTCBGGGTCCCTTCE
T ss_pred             EEEEecCC-ceEEEecCCCCcHHHHHHHHHHHhCCCcccceeecChhhhccCCccccchhhhccCCccCHHHcCccCceE
Confidence            67787766 57789964 789999999999999999999999654              122544 46699999999999


Q ss_pred             EEEEEec
Q 044874           67 IQLLVAS   73 (269)
Q Consensus        67 i~l~~~~   73 (269)
                      |++....
T Consensus        82 vyL~y~~   88 (94)
T d1wf9a1          82 VYLAYEG   88 (94)
T ss_dssp             EECCCSS
T ss_pred             EEEEeee
Confidence            9987543

>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=98.38  E-value=4.6e-07  Score=62.07  Aligned_cols=67  Identities=19%  Similarity=0.221  Sum_probs=53.4

Q ss_pred             EEEEecCCCeEEEEEecC-CCcHHHHHHHHHHhhhccCCCCCCCceEEEec--------------CeeecCCC-cccccc
Q 044874          188 LLVLTQCGNKRIPVEVNA-SDNVSELRKELQKLHQRYHFHLPQDGYFFIYK--------------QNVMDDDR-SFRWHH  251 (269)
Q Consensus       188 i~V~~~~g~~~~~l~v~~-~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~--------------g~~L~d~~-tL~~~~  251 (269)
                      |.++...|  +.-++|+. ..||.+||.+|++.     +++|.+.|.|.-+              -..|.|+. +|+++|
T Consensus         3 iRiRsrdG--~eRv~v~~~~~Tl~~LK~~Ie~~-----L~VPv~~Q~LSl~~~llL~k~P~~~~~~~~l~d~~~~L~sl~   75 (94)
T d1wf9a1           3 LRVRSRDG--LERVSVDGPHITVSQLKTLIQDQ-----LQIPIHNQTLSTNRNLLLAKSPSDFLAFTDMADPNLRISSLN   75 (94)
T ss_dssp             EEEECSSC--EEEEEECCTTSBHHHHHHHHHHH-----SCCCTTTCCCBSSGGGGTCCSHHHHTTCCSSCCTTCBGGGTC
T ss_pred             EEEEecCC--ceEEEecCCCCcHHHHHHHHHHH-----hCCCcccceeecChhhhccCCccccchhhhccCCccCHHHcC
Confidence            44566677  66778865 67999999999996     5999999999543              33466654 799999


Q ss_pred             CCCCCEEEEe
Q 044874          252 VGQGDTIEIF  261 (269)
Q Consensus       252 i~~~~~i~l~  261 (269)
                      |..|+.||+.
T Consensus        76 i~hGsivyL~   85 (94)
T d1wf9a1          76 LAHGSMVYLA   85 (94)
T ss_dssp             CCTTCEEECC
T ss_pred             ccCceEEEEE
Confidence            9999999986

>d2al3a1 d.15.1.2 (A:10-85) Tether containing UBX domain for GLUT4 (Tug) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: UBX domain
domain: Tether containing UBX domain for GLUT4 (Tug)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.89  E-value=4.5e-05  Score=50.34  Aligned_cols=72  Identities=18%  Similarity=0.307  Sum_probs=66.1

Q ss_pred             EEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCcc
Q 044874          188 LLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSV  265 (269)
Q Consensus       188 i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~  265 (269)
                      +.|-..+| +..++.|.|+.++.++-++.+.+.     |+.++++.|.|+++.|+-...++-.|+.+|..+.|+...-
T Consensus         3 V~Vl~~~~-rR~~VKvtP~t~l~~VL~eaC~k~-----~~~~~~~~Lkh~~k~ldLsl~~R~sgLpnnakLELv~~s~   74 (76)
T d2al3a1           3 VSVLAPNG-RRHTVKVTPSTVLLQVLEDTCRRQ-----DFNPSEYDLKFQRTVLDLSLQWRFANLPNNAKLEMVPVSR   74 (76)
T ss_dssp             EEEECTTS-CEEEECCCTTSBHHHHHHHHHHHT-----TCCGGGCEEEETTEEESSSCBHHHHCCCSSCEEEEECSSS
T ss_pred             EEEECCCC-cEEEEEeCCCcCHHHHHHHHHHHh-----CCChhHceeeeCCEEcCccceeeecCCCCCCEEEEEEccc
Confidence            56777788 999999999999999999999986     9999999999999999999999999999999999997543

>d2al3a1 d.15.1.2 (A:10-85) Tether containing UBX domain for GLUT4 (Tug) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: UBX domain
domain: Tether containing UBX domain for GLUT4 (Tug)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.76  E-value=6.6e-05  Score=49.55  Aligned_cols=70  Identities=17%  Similarity=0.236  Sum_probs=66.0

Q ss_pred             EEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEcCEEcCCCCccccCCCCCCCEEEEEEe
Q 044874            3 VIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFNGQVLQDDRDVEHCEILQNSRIQLLVA   72 (269)
Q Consensus         3 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~d~~tL~~~~i~~~~~i~l~~~   72 (269)
                      |.|-..+|+..++.|.|+.++.++-+...+++|+.+++-.|.|+++.|+-+..+...|+.+|+.+.|+-.
T Consensus         3 V~Vl~~~~rR~~VKvtP~t~l~~VL~eaC~k~~~~~~~~~Lkh~~k~ldLsl~~R~sgLpnnakLELv~~   72 (76)
T d2al3a1           3 VSVLAPNGRRHTVKVTPSTVLLQVLEDTCRRQDFNPSEYDLKFQRTVLDLSLQWRFANLPNNAKLEMVPV   72 (76)
T ss_dssp             EEEECTTSCEEEECCCTTSBHHHHHHHHHHHTTCCGGGCEEEETTEEESSSCBHHHHCCCSSCEEEEECS
T ss_pred             EEEECCCCcEEEEEeCCCcCHHHHHHHHHHHhCCChhHceeeeCCEEcCccceeeecCCCCCCEEEEEEc
Confidence            6777889999999999999999999999999999999999999999999999999999999999998743

>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=96.88  E-value=0.0027  Score=42.44  Aligned_cols=69  Identities=17%  Similarity=0.184  Sum_probs=58.0

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEE--ecCeee---cCCCccccccCCCCCEEEE
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFI--YKQNVM---DDDRSFRWHHVGQGDTIEI  260 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~--~~g~~L---~d~~tL~~~~i~~~~~i~l  260 (269)
                      .+|.++.++| ..+.-....++|+.+|.+=+...      +.+.+.+.|+  |-.+.+   +++.||.+.|+-+..+|+|
T Consensus         6 ~~i~iRlPdG-~~~~~~F~~~~tl~~v~~~v~~~------~~~~~~~~l~~~~Pr~~l~~~d~~~TL~e~gL~p~~~L~v   78 (82)
T d1h8ca_           6 SKLRIRTPSG-EFLERRFLASNKLQIVFDFVASK------GFPWDEYKLLSTFPRRDVTQLDPNKSLLEVKLFPQETLFL   78 (82)
T ss_dssp             EEEEEECTTS-CEEEEEECTTSBHHHHHHHHHHH------TCCSSSEEEEETTTTEETTTCCTTSBHHHHCCCSEEEEEE
T ss_pred             EEEEEECCCC-CEEEEEECCCCcHHHHHHHHHhc------CCCCCceEEEecCcccccccccccCCHHHCCCCCCCEEEE
Confidence            5788888998 88888999999999999999875      5666677777  788888   3467999999999999887


Q ss_pred             e
Q 044874          261 F  261 (269)
Q Consensus       261 ~  261 (269)
                      =
T Consensus        79 q   79 (82)
T d1h8ca_          79 E   79 (82)
T ss_dssp             E
T ss_pred             E
Confidence            3

>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=96.78  E-value=0.0052  Score=40.96  Aligned_cols=69  Identities=7%  Similarity=0.109  Sum_probs=58.3

Q ss_pred             EEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEE--cCEEcC---CCCccccCCCCCCCEEEEEE
Q 044874            2 DVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVF--NGQVLQ---DDRDVEHCEILQNSRIQLLV   71 (269)
Q Consensus         2 ~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~--~G~~L~---d~~tL~~~~i~~~~~i~l~~   71 (269)
                      +|.||..+|+.+.-.+..++||.+|.+-|... +.++....|+.  ..+.+.   ++.||.+.|+.+.+++++--
T Consensus         7 ~i~iRlPdG~~~~~~F~~~~tl~~v~~~v~~~-~~~~~~~~l~~~~Pr~~l~~~d~~~TL~e~gL~p~~~L~vq~   80 (82)
T d1h8ca_           7 KLRIRTPSGEFLERRFLASNKLQIVFDFVASK-GFPWDEYKLLSTFPRRDVTQLDPNKSLLEVKLFPQETLFLEA   80 (82)
T ss_dssp             EEEEECTTSCEEEEEECTTSBHHHHHHHHHHH-TCCSSSEEEEETTTTEETTTCCTTSBHHHHCCCSEEEEEEEE
T ss_pred             EEEEECCCCCEEEEEECCCCcHHHHHHHHHhc-CCCCCceEEEecCcccccccccccCCHHHCCCCCCCEEEEEe
Confidence            58899999999999999999999999999874 77777888875  577773   46899999999999888643

>d2cr5a1 d.15.1.2 (A:8-103) UBX domain-containing protein 6 (Reproduction 8) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: UBX domain
domain: UBX domain-containing protein 6 (Reproduction 8)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.58  E-value=0.0066  Score=41.68  Aligned_cols=72  Identities=10%  Similarity=0.083  Sum_probs=57.9

Q ss_pred             cceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEE--ecCeeec--CCCccccccCCCCCEEE
Q 044874          184 RKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFI--YKQNVMD--DDRSFRWHHVGQGDTIE  259 (269)
Q Consensus       184 ~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~--~~g~~L~--d~~tL~~~~i~~~~~i~  259 (269)
                      ....|.|+.++| +.+.-....++||.+|..=+...      +...+.++|+  |-.+.+.  .+.||.+.|+.+..+|+
T Consensus        15 ~~~~i~iRlPdG-~r~~r~F~~~dtl~~l~~fv~~~------~~~~~~f~l~~~~Pr~~~~~d~~~TL~e~gl~p~~~L~   87 (96)
T d2cr5a1          15 EVVTVALRCPNG-RVLRRRFFKSWNSQVLLDWMMKV------GYHKSLYRLSTSFPRRALEVEGGSSLEDIGITVDTVLN   87 (96)
T ss_dssp             SEEEEEEECTTS-CEEEEEEESSSBTHHHHHHHHHH------TCCTTTEEEECSSSCCBCCCCSSCBHHHHTCSSCEEEE
T ss_pred             CeEEEEEECCCC-CEEEEEECCcccHHHHHHHHHHh------ccCcccceeecCCCceecCccCCCcHHHCCCCCCCEEE
Confidence            468899999999 88888999999999999999775      4455667776  5556664  35799999999999888


Q ss_pred             Eec
Q 044874          260 IFN  262 (269)
Q Consensus       260 l~~  262 (269)
                      |-.
T Consensus        88 v~~   90 (96)
T d2cr5a1          88 VEE   90 (96)
T ss_dssp             EEE
T ss_pred             Eec
Confidence            754

>d1wj4a_ d.15.1.2 (A:) Hypothetical protein KIAA0794 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: UBX domain
domain: Hypothetical protein KIAA0794
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.35  E-value=0.012  Score=42.32  Aligned_cols=73  Identities=15%  Similarity=0.244  Sum_probs=59.8

Q ss_pred             cceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEE--ecCeeec---CCCccccccCCCCCEE
Q 044874          184 RKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFI--YKQNVMD---DDRSFRWHHVGQGDTI  258 (269)
Q Consensus       184 ~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~--~~g~~L~---d~~tL~~~~i~~~~~i  258 (269)
                      ...+|.++.++| +.+......++||.+|..-++..      +.+...+.|+  |-.+.|.   .+.||.+.|+-+..+|
T Consensus        42 p~~~l~iRlPdG-~r~~r~F~~~~tl~~l~~~v~~~------~~~~~~~~L~~~fPr~~l~~~d~~~TL~e~gL~P~~~L  114 (124)
T d1wj4a_          42 PKAQLMLRYPDG-KREQITLPEQAKLLALVKHVQSK------GYPNERFELLTNFPRRKLSHLDYDITLQEAGLCPQETV  114 (124)
T ss_dssp             CEEEEEEECTTS-CEEEEEEETTSCHHHHHHHHHHH------HCCTTTEEEECSSSCCEETSSCSSSCTTTTTCCSSBCC
T ss_pred             CceEEEEECCCC-CEEEEEeCCCCcHHHHHHHHHhc------ccCCcceEEeecccccccccccccCcHHHcCCCCCCEE
Confidence            356888898999 88888999999999999999875      4555667666  7788883   4679999999999999


Q ss_pred             EEecC
Q 044874          259 EIFNG  263 (269)
Q Consensus       259 ~l~~~  263 (269)
                      +|=..
T Consensus       115 ~vee~  119 (124)
T d1wj4a_         115 FVQES  119 (124)
T ss_dssp             EEEEC
T ss_pred             EEEec
Confidence            88653

>d1i42a_ d.15.1.2 (A:) p47 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: UBX domain
domain: p47
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=96.27  E-value=0.011  Score=39.94  Aligned_cols=66  Identities=11%  Similarity=0.215  Sum_probs=54.3

Q ss_pred             EEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHh-CCCCCcEEEEEc--CEEc-CCCCccccCCCCCCCEEE
Q 044874            2 DVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQ-GIPVPKQTLVFN--GQVL-QDDRDVEHCEILQNSRIQ   68 (269)
Q Consensus         2 ~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~-gi~~~~q~L~~~--G~~L-~d~~tL~~~~i~~~~~i~   68 (269)
                      +|.||..+|..+...+..+++|.++.+-+.... +.+.....|+.+  .+.| +++.||.++|+.+ +.|.
T Consensus        16 ~I~iRlPdG~~~~~~F~~~~tl~dv~~~v~~~~~~~~~~~f~L~t~~Prr~l~d~~~TL~e~gL~~-s~vl   85 (89)
T d1i42a_          16 NIQIRLADGGRLVQKFNHSHRISDIRLFIVDARPAMAATSFVLMTTFPNKELADENQTLKEANLLN-AVIV   85 (89)
T ss_dssp             EEEEEETTTCCEEEEECSSSCGGGHHHHHHHHCTTTSSCCEEEEETTTTEECCCCSSCSGGGTTCC-SEEE
T ss_pred             EEEEEcCCCCEEEEEECCchhHHHHHHHHHHhCccCCCCCEEEecCCCCcccCCCcCcHHHCCCcC-ceEE
Confidence            577899999999999999999999999998764 566667888865  6777 4579999999985 4443

>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=95.60  E-value=0.028  Score=37.83  Aligned_cols=68  Identities=12%  Similarity=0.257  Sum_probs=52.4

Q ss_pred             ceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEE--ecCeeecC-CCccccccCCCCCEE
Q 044874          185 KLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFI--YKQNVMDD-DRSFRWHHVGQGDTI  258 (269)
Q Consensus       185 ~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~--~~g~~L~d-~~tL~~~~i~~~~~i  258 (269)
                      ...|.|+.++| ..+......+++|.+|++-+....    .+.+...+.|+  |-.+.++| +.||.+.|+.+ +.|
T Consensus        14 ~t~I~iRlPdG-~~~~~~F~~~~tl~dv~~~v~~~~----~~~~~~~f~L~t~~Prr~l~d~~~TL~e~gL~~-s~v   84 (89)
T d1i42a_          14 TTNIQIRLADG-GRLVQKFNHSHRISDIRLFIVDAR----PAMAATSFVLMTTFPNKELADENQTLKEANLLN-AVI   84 (89)
T ss_dssp             CEEEEEEETTT-CCEEEEECSSSCGGGHHHHHHHHC----TTTSSCCEEEEETTTTEECCCCSSCSGGGTTCC-SEE
T ss_pred             cEEEEEEcCCC-CEEEEEECCchhHHHHHHHHHHhC----ccCCCCCEEEecCCCCcccCCCcCcHHHCCCcC-ceE
Confidence            35788888998 888899999999999999998742    14555567777  45777844 57999999985 444

>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=95.59  E-value=0.021  Score=41.01  Aligned_cols=70  Identities=13%  Similarity=0.193  Sum_probs=56.8

Q ss_pred             EEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEE--cCEEc---CCCCccccCCCCCCCEEEEEEe
Q 044874            2 DVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVF--NGQVL---QDDRDVEHCEILQNSRIQLLVA   72 (269)
Q Consensus         2 ~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~--~G~~L---~d~~tL~~~~i~~~~~i~l~~~   72 (269)
                      +|-||..+|+.+.-.+..++||.+|.+.+... +.+.....|+.  --+.|   +.+.+|.+.|+.+.++|++--.
T Consensus        45 ~l~iRlPdG~r~~r~F~~~~tl~~l~~~v~~~-~~~~~~~~L~~~fPr~~l~~~d~~~TL~e~gL~P~~~L~vee~  119 (124)
T d1wj4a_          45 QLMLRYPDGKREQITLPEQAKLLALVKHVQSK-GYPNERFELLTNFPRRKLSHLDYDITLQEAGLCPQETVFVQES  119 (124)
T ss_dssp             EEEEECTTSCEEEEEEETTSCHHHHHHHHHHH-HCCTTTEEEECSSSCCEETSSCSSSCTTTTTCCSSBCCEEEEC
T ss_pred             EEEEECCCCCEEEEEeCCCCcHHHHHHHHHhc-ccCCcceEEeecccccccccccccCcHHHcCCCCCCEEEEEec
Confidence            57889999999999999999999999999875 45666677764  45666   3468999999999998876543

>d2cr5a1 d.15.1.2 (A:8-103) UBX domain-containing protein 6 (Reproduction 8) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: UBX domain
domain: UBX domain-containing protein 6 (Reproduction 8)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.49  E-value=0.029  Score=38.23  Aligned_cols=70  Identities=11%  Similarity=0.042  Sum_probs=56.2

Q ss_pred             EEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEc--CEEcC--CCCccccCCCCCCCEEEEEEe
Q 044874            2 DVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFN--GQVLQ--DDRDVEHCEILQNSRIQLLVA   72 (269)
Q Consensus         2 ~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~--G~~L~--d~~tL~~~~i~~~~~i~l~~~   72 (269)
                      +|-||..+|+.+.-.+..++||.+|..-+... +......+|+..  .+.+.  .+.||.++|+.+.++++|--+
T Consensus        18 ~i~iRlPdG~r~~r~F~~~dtl~~l~~fv~~~-~~~~~~f~l~~~~Pr~~~~~d~~~TL~e~gl~p~~~L~v~~~   91 (96)
T d2cr5a1          18 TVALRCPNGRVLRRRFFKSWNSQVLLDWMMKV-GYHKSLYRLSTSFPRRALEVEGGSSLEDIGITVDTVLNVEEK   91 (96)
T ss_dssp             EEEEECTTSCEEEEEEESSSBTHHHHHHHHHH-TCCTTTEEEECSSSCCBCCCCSSCBHHHHTCSSCEEEEEEEC
T ss_pred             EEEEECCCCCEEEEEECCcccHHHHHHHHHHh-ccCcccceeecCCCceecCccCCCcHHHCCCCCCCEEEEecC
Confidence            57889999999999999999999999998765 455566777654  45553  468999999999988877544

>d1vjka_ d.15.3.1 (A:) Molybdopterin synthase subunit MoaD {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: MoaD/ThiS
family: MoaD
domain: Molybdopterin synthase subunit MoaD
species: Pyrococcus furiosus [TaxId: 2261]

Probab=93.65  E-value=0.49  Score=30.96  Aligned_cols=72  Identities=17%  Similarity=0.257  Sum_probs=47.0

Q ss_pred             eeEEEEecC------CCeEEEEEecCCCcHHHHHHHHHHhhhccCCCC------CCCceEEEecCeeecCCCccccccCC
Q 044874          186 LKLLVLTQC------GNKRIPVEVNASDNVSELRKELQKLHQRYHFHL------PQDGYFFIYKQNVMDDDRSFRWHHVG  253 (269)
Q Consensus       186 ~~i~V~~~~------g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~------p~~~q~l~~~g~~L~d~~tL~~~~i~  253 (269)
                      |+|.|+-..      |.....+++....||.+|++.+.++.....-.+      .....++.-+|+.-++     ++-++
T Consensus         2 mkI~v~~Fa~lre~~G~~~~~~~~~~~~Tv~~l~~~L~~~~~~~~~~l~~~~~~~~~~i~iavN~~~~~~-----d~~L~   76 (88)
T d1vjka_           2 VKVKVKYFARFRQLAGVDEEEIELPEGARVRDLIEEIKKRHEKFKEEVFGEGYDEDADVNIAVNGRYVSW-----DEELK   76 (88)
T ss_dssp             EEEEEEECTHHHHHHSSSEEEEEECTTCBHHHHHHHHHHHCGGGGGSCBCSSSCTTSSBEEEETTBCCCT-----TCBCC
T ss_pred             eEEEEEEhHHHHHHhCCCeEEEECCCCCCHHHHHHHHHHHChHHHHHhhhccccccccEEEEEcceEcCC-----CcCcC
Confidence            566665543      345778899999999999999998753211111      1122444456665544     45689


Q ss_pred             CCCEEEEec
Q 044874          254 QGDTIEIFN  262 (269)
Q Consensus       254 ~~~~i~l~~  262 (269)
                      +||.|.+++
T Consensus        77 ~gDevai~P   85 (88)
T d1vjka_          77 DGDVVGVFP   85 (88)
T ss_dssp             TTCEEEEES
T ss_pred             CCCEEEEeC
Confidence            999999986

>d1xo3a_ d.15.3.3 (A:) C9orf74 homolog {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: MoaD/ThiS
family: C9orf74 homolog
domain: C9orf74 homolog
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.05  E-value=0.14  Score=35.03  Aligned_cols=80  Identities=16%  Similarity=0.150  Sum_probs=45.1

Q ss_pred             ceeEEEEecCC-------CeEEEEEecC---CCcHHHHHHHHHHhhhccCCCC------CCCceEEEecCeeecCCCcc-
Q 044874          185 KLKLLVLTQCG-------NKRIPVEVNA---SDNVSELRKELQKLHQRYHFHL------PQDGYFFIYKQNVMDDDRSF-  247 (269)
Q Consensus       185 ~~~i~V~~~~g-------~~~~~l~v~~---~~tV~~lK~~i~~~~~~~~~~~------p~~~q~l~~~g~~L~d~~tL-  247 (269)
                      .|+|.|+-..|       .+...++++.   ..||.+|-+.+.++..+..-.+      ......+..+|+..+   -+ 
T Consensus         4 ~m~V~V~F~g~L~~lf~~~r~~~v~l~~~~~~~TV~dll~~L~~~~p~~~~~l~~~~~~lr~~v~v~vN~~di~---~l~   80 (101)
T d1xo3a_           4 PLCVKVEFGGGAELLFDGVKKHQVALPGQEEPWDIRNLLVWIKKNLLKERPELFIQGDSVRPGILVLINDADWE---LLG   80 (101)
T ss_dssp             SCEEEEEECSSGGGGGTTCCCEEEECCSSSCCCCHHHHHHHHHHHHCCSCGGGSCCTTSCCSSEEEEETTEEHH---HHT
T ss_pred             CeEEEEEEechHHHHhCCcceEEEEcCCCCCCcCHHHHHHHHHHhCCcchhhhhccCcCeeeeEEEEEcCccee---ccC
Confidence            37777776443       2444555543   4699999999988752110000      000112223333221   11 


Q ss_pred             -ccccCCCCCEEEEecCcccCC
Q 044874          248 -RWHHVGQGDTIEIFNGSVTGG  268 (269)
Q Consensus       248 -~~~~i~~~~~i~l~~~~~~~~  268 (269)
                       .++-+++||.|.+++ .|+||
T Consensus        81 gl~t~l~dgDeV~~~p-~v~GG  101 (101)
T d1xo3a_          81 ELDYQLQDQDSILFIS-TLHGG  101 (101)
T ss_dssp             TTSCCCCTTCEEEEEE-TTCCC
T ss_pred             CCccCcCCCCEEEEeC-CCCCC
Confidence             267899999999986 67766

>d1fm0d_ d.15.3.1 (D:) Molybdopterin synthase subunit MoaD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: MoaD/ThiS
family: MoaD
domain: Molybdopterin synthase subunit MoaD
species: Escherichia coli [TaxId: 562]

Probab=91.91  E-value=0.15  Score=33.28  Aligned_cols=65  Identities=25%  Similarity=0.426  Sum_probs=41.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCcccCC
Q 044874          197 KRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSVTGG  268 (269)
Q Consensus       197 ~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~~~~  268 (269)
                      ....++.+ ..||.+|++.+.++.......+.....++-.+++.-+++     .-|++||.|-+++ .|+||
T Consensus        17 ~~~~~~~~-~~tv~~l~~~L~~~~~~~~~~l~~~~~~vavn~~~~~~~-----~~l~~gdevAi~P-PVsGG   81 (81)
T d1fm0d_          17 DATEVAAD-FPTVEALRQHMAAQSDRWALALEDGKLLAAVNQTLVSFD-----HPLTDGDEVAFFP-PVTGG   81 (81)
T ss_dssp             SEEEECSC-CSBHHHHHHHHHTTCHHHHHHHCCTTCEEEETTEECCTT-----CBCCTTCEEEEEC-CCCCC
T ss_pred             CeEEecCC-CCCHHHHHHHHHHhCchHHHHhcCCcEEEecCceecCCC-----CCcCCCCEEEEEC-CCCCC
Confidence            45555554 459999999998865221112333445555666654433     4589999999987 67776

>d1vjka_ d.15.3.1 (A:) Molybdopterin synthase subunit MoaD {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: MoaD/ThiS
family: MoaD
domain: Molybdopterin synthase subunit MoaD
species: Pyrococcus furiosus [TaxId: 2261]

Probab=91.85  E-value=0.74  Score=30.02  Aligned_cols=65  Identities=17%  Similarity=0.119  Sum_probs=46.7

Q ss_pred             CEEEEEcCC-------CCEEEEEEcCCCCHHHHHHHHHHHhCC-----------CCCcEEEEEcCEEcCCCCccccCCCC
Q 044874            1 MDVIFEPQR-------GKAFTIEVGFFDTVLEIKEKIEKYQGI-----------PVPKQTLVFNGQVLQDDRDVEHCEIL   62 (269)
Q Consensus         1 M~i~vk~~~-------g~~~~l~v~~~~tV~~lK~~I~~~~gi-----------~~~~q~L~~~G~~L~d~~tL~~~~i~   62 (269)
                      |+|+|+...       .....+++....||.+|.+.+..+++-           .....++..+|+...++     +-+.
T Consensus         2 mkI~v~~Fa~lre~~G~~~~~~~~~~~~Tv~~l~~~L~~~~~~~~~~l~~~~~~~~~~i~iavN~~~~~~d-----~~L~   76 (88)
T d1vjka_           2 VKVKVKYFARFRQLAGVDEEEIELPEGARVRDLIEEIKKRHEKFKEEVFGEGYDEDADVNIAVNGRYVSWD-----EELK   76 (88)
T ss_dssp             EEEEEEECTHHHHHHSSSEEEEEECTTCBHHHHHHHHHHHCGGGGGSCBCSSSCTTSSBEEEETTBCCCTT-----CBCC
T ss_pred             eEEEEEEhHHHHHHhCCCeEEEECCCCCCHHHHHHHHHHHChHHHHHhhhccccccccEEEEEcceEcCCC-----cCcC
Confidence            889998663       357889999999999999999987531           11234666777766543     4467


Q ss_pred             CCCEEEEE
Q 044874           63 QNSRIQLL   70 (269)
Q Consensus        63 ~~~~i~l~   70 (269)
                      +|+.|-+.
T Consensus        77 ~gDevai~   84 (88)
T d1vjka_          77 DGDVVGVF   84 (88)
T ss_dssp             TTCEEEEE
T ss_pred             CCCEEEEe
Confidence            78887765

>d1zud21 d.15.3.2 (2:2-66) Thiamin biosynthesis sulfur carrier protein ThiS {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: MoaD/ThiS
family: ThiS
domain: Thiamin biosynthesis sulfur carrier protein ThiS
species: Escherichia coli [TaxId: 562]

Probab=91.02  E-value=0.54  Score=29.14  Aligned_cols=57  Identities=28%  Similarity=0.485  Sum_probs=43.1

Q ss_pred             EEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCcccCC
Q 044874          201 VEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSVTGG  268 (269)
Q Consensus       201 l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~~~~  268 (269)
                      ++++...|+.+|=+.+         +++.....+..++.++.-+ ...++-+++||.|.++. .+.||
T Consensus         9 ~~~~~~~tl~~ll~~l---------~~~~~~vaV~vN~~ivpk~-~~~~~~L~~gD~ieIv~-~v~GG   65 (65)
T d1zud21           9 MQCAAGQTVHELLEQL---------DQRQAGAALAINQQIVPRE-QWAQHIVQDGDQILLFQ-VIAGG   65 (65)
T ss_dssp             ECCCTTCBHHHHHHHH---------TCCCTTEEEEETTEECCGG-GTTTCBCCTTCEEEEEE-CCCCC
T ss_pred             EEcCCCCcHHHHHHHc---------CCCCCcEEEEECCEEcCHH-HHhhccCCCCCEEEEEE-EecCC
Confidence            4567788999887543         7888778888999888633 66788899999999985 34443

>d1ef1a3 d.15.1.4 (A:4-87) Moesin {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=88.55  E-value=1.1  Score=29.16  Aligned_cols=65  Identities=14%  Similarity=0.137  Sum_probs=50.6

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCC-cEEEEEc---CE--EcCCCCccccCCCCCCCE
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVP-KQTLVFN---GQ--VLQDDRDVEHCEILQNSR   66 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~-~q~L~~~---G~--~L~d~~tL~~~~i~~~~~   66 (269)
                      |+|.|..+++ ++.+.++...+..+|=+++.+..++... -.-|.|-   |.  -|+.++.|..+.+..+..
T Consensus         2 ~~v~V~~LD~-~~~~~v~~~a~G~~l~~~Vc~~l~L~E~dYFGL~y~d~~~~~~WLd~~k~l~kq~~~~~~~   72 (84)
T d1ef1a3           2 ISVRVTTMDA-ELEFAIQPNTTGKQLFDQVVKTIGLREVWFFGLQYQDTKGFSTWLKLNKKVTAQDVRKESP   72 (84)
T ss_dssp             EEEEEEETTE-EEEEEECTTCBHHHHHHHHHHHHTCCCGGGEEEEEEBTTSCEEECCSSSBGGGSCBCCCSS
T ss_pred             EEEEEEEcCC-EEEEEEcCCChHHHHHHHHHHHcCCcccccceEEEECCCCCeEeccCCCchhhhccCCCCC
Confidence            6788999987 5899999999999999999999997643 4567664   32  378888888876554443

>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=84.85  E-value=0.93  Score=29.39  Aligned_cols=43  Identities=5%  Similarity=0.060  Sum_probs=36.8

Q ss_pred             EEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEc
Q 044874            4 IFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFN   46 (269)
Q Consensus         4 ~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~   46 (269)
                      +||-.=--|+.+.+.+..+..+|.++|++++..+++.-+|.|.
T Consensus         7 ~vkVh~~fTVal~v~~G~~y~~L~~lvs~KL~l~~~~~~LSY~   49 (82)
T d1oeya_           7 TLKVHYKYTVVMKTQPGLPYSQVRDMVSKKLELRLEHTKLSYR   49 (82)
T ss_dssp             EEEEESSSEEEEEECTTCCHHHHHHHHHHHTTCCGGGCCEEEC
T ss_pred             EEEEEEEEEEEEEccCCCCHHHHHHHHHHHhCCChhheEEEec
Confidence            3333334688889999999999999999999999999999995

>d1gg3a3 d.15.1.4 (A:1-81) Erythroid membrane protein 4.1R {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: First domain of FERM
domain: Erythroid membrane protein 4.1R
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.79  E-value=1.5  Score=28.25  Aligned_cols=59  Identities=7%  Similarity=0.038  Sum_probs=45.9

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCc-EEEEEc---CE--EcCCCCccccC
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPK-QTLVFN---GQ--VLQDDRDVEHC   59 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~-q~L~~~---G~--~L~d~~tL~~~   59 (269)
                      |...|..++|..+.+.++...+..++=+++.+..++...+ .-|.|-   |.  -|+.++.+...
T Consensus         1 ~~C~V~lLD~~~~~~~v~~~~~G~~l~~~Vc~~l~l~E~~YFGL~y~d~~~~~~WLd~~K~i~kq   65 (81)
T d1gg3a3           1 MHCKVSLLDDTVYECVVEKHAKGQDLLKRVCEHLNLLEEDYFGLAIWDNATSKTWLDSAKEIKKQ   65 (81)
T ss_dssp             CEEEEECTTSCEEEEECCTTCCHHHHHHHHHHHHTTCSCCSSSCEEECCSSSCCBCCTTSCHHHH
T ss_pred             CEEEEEecCCCEEEEEECCCCcHHHHHHHHHHHcCCcccccceEEEECCCCceEecccccchhhh
Confidence            7889999999999999999999999999999999976443 334443   21  35666666654

>d1v8ca1 d.15.3.1 (A:1-87) MoaD-related protein, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: MoaD/ThiS
family: MoaD
domain: MoaD-related protein, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=83.05  E-value=2  Score=27.79  Aligned_cols=64  Identities=17%  Similarity=0.257  Sum_probs=40.8

Q ss_pred             EEecCCCcHHHHHHHHHHhhhccC------CCCCCCceEEEecCeeecCCCccccccCCCCCEEEEecCcccCC
Q 044874          201 VEVNASDNVSELRKELQKLHQRYH------FHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFNGSVTGG  268 (269)
Q Consensus       201 l~v~~~~tV~~lK~~i~~~~~~~~------~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~~~~~~~  268 (269)
                      ++++ ..||.+|.+.+.++.+...      -++ .....+..+|+...+...+ +.-|++||.|.+++ .++||
T Consensus        18 ~~v~-~~Tv~~ll~~L~~~~p~l~~~l~~~~~~-~~~v~i~vng~~i~~~~~~-~~~l~~gdeV~i~P-pvsGG   87 (87)
T d1v8ca1          18 LELP-GATVGEVLENLVRAYPALKEELFEGEGL-AERVSVFLEGRDVRYLQGL-STPLSPGATLDLFP-PVAGG   87 (87)
T ss_dssp             EECC-CSBHHHHHHHHHHHCGGGHHHHEETTEE-CTTCEEEETTEEGGGTTGG-GCBCCTTCEEEEEC-SCCSE
T ss_pred             EEEc-CCCHHHHHHHHHHHCHHHHHHhcccccc-cceEEEEEcCeeeecccCC-cccCCCCCEEEEEC-CCCCC
Confidence            4565 4699999999988652110      011 1234566677766544333 44799999999987 66665

>d1wxma1 d.15.1.5 (A:8-80) A-Raf proto-oncogene serine/threonine-protein kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ras-binding domain, RBD
domain: A-Raf proto-oncogene serine/threonine-protein kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.34  E-value=1.8  Score=27.32  Aligned_cols=43  Identities=14%  Similarity=-0.036  Sum_probs=38.9

Q ss_pred             EEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEE
Q 044874            3 VIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVF   45 (269)
Q Consensus         3 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~   45 (269)
                      +.|-.++|+.-.+.+.|..||.++-.++.++.|+.++...++.
T Consensus         3 iRv~LPngq~T~V~vrpG~tir~~L~k~l~kRgl~~~~~~V~~   45 (73)
T d1wxma1           3 VKVYLPNKQRTVVTVRDGMSVYDSLDKALKVRGLNQDCCVVYR   45 (73)
T ss_dssp             EEEECSSSCEEEEECCSSCBSHHHHHHHHHTTTCCSSSEEEEE
T ss_pred             EEEEcCCCCeEEEEecCCCCHHHHHHHHHHHcCCCHHHEEEEE
Confidence            5666789999999999999999999999999999999888865

>d1tygb_ d.15.3.2 (B:) Thiamin biosynthesis sulfur carrier protein ThiS {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: MoaD/ThiS
family: ThiS
domain: Thiamin biosynthesis sulfur carrier protein ThiS
species: Bacillus subtilis [TaxId: 1423]

Probab=81.76  E-value=2.5  Score=25.87  Aligned_cols=56  Identities=14%  Similarity=0.265  Sum_probs=41.4

Q ss_pred             CCCeEEEEEecCC-CcHHHHHHHHHHhhhccCCCCCCCceEEEecCeeecCCCccccccCCCCCEEEEec
Q 044874          194 CGNKRIPVEVNAS-DNVSELRKELQKLHQRYHFHLPQDGYFFIYKQNVMDDDRSFRWHHVGQGDTIEIFN  262 (269)
Q Consensus       194 ~g~~~~~l~v~~~-~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~g~~L~d~~tL~~~~i~~~~~i~l~~  262 (269)
                      +| +.+  +++.. .|+.+|=+   ..      ++++....+-++|.++.-+ ...++-+++||.|.++.
T Consensus         5 NG-~~~--~~~~~~~tl~~LL~---~l------~~~~~~vAVevN~~iv~k~-~~~~~~L~~gD~IEIv~   61 (65)
T d1tygb_           5 NG-KDV--KWKKDTGTIQDLLA---SY------QLENKIVIVERNKEIIGKE-RYHEVELCDRDVIEIVH   61 (65)
T ss_dssp             TT-EEE--CCSSSCCBHHHHHH---HT------TCTTSCCEEEETTEEECGG-GTTTSBCCSSSEEEEEE
T ss_pred             CC-EEE--EcCCCcccHHHHHH---Hc------CCCCCcEEEEECCEEcCHH-HcCcccCCCCCEEEEEE
Confidence            55 443  45544 58888844   32      7888888888999988643 67888899999999984

>d1h4ra3 d.15.1.4 (A:20-103) Merlin {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=81.70  E-value=4.8  Score=25.90  Aligned_cols=68  Identities=9%  Similarity=0.104  Sum_probs=50.9

Q ss_pred             CEEEEEcCCCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCc-EEEEE--cCE--EcCCCCccccCCCCCCCEEEE
Q 044874            1 MDVIFEPQRGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPK-QTLVF--NGQ--VLQDDRDVEHCEILQNSRIQL   69 (269)
Q Consensus         1 M~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~-q~L~~--~G~--~L~d~~tL~~~~i~~~~~i~l   69 (269)
                      |.|.|..+++. +.++++...+-.+|=+++++..++...+ .-|.|  .|.  -|+.++.|..+.+..+..+.+
T Consensus         3 ~~v~V~lLD~~-le~~v~~~a~G~~L~d~Vc~~L~L~E~~YFGL~y~~~~~~~WLd~~k~l~kq~~~~~~~~~~   75 (84)
T d1h4ra3           3 FTVRIVTMDAE-MEFNCEMKWKGKDLFDLVCRTLGLRETWFFGLQYTIKDTVAWLKMDKKVLDHDVSKEEPVTF   75 (84)
T ss_dssp             EEEEEECSSCE-EEEEEETTCBHHHHHHHHHHHHTCCCGGGEEEEEEETTEEEECCTTSBGGGSSCCCSSSEEE
T ss_pred             EEEEEEEcCCc-EEEEEcCCChHHHHHHHHHHHcCCcccccceEEEecCCceEEccCCCchhhhccCCCCCEEE
Confidence            46788889874 7999999999999999999999975443 45555  343  378888898876655554433

>d1wgra_ d.15.1.5 (A:) Growth factor receptor-bound protein 7, GRB-7 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ras-binding domain, RBD
domain: Growth factor receptor-bound protein 7, GRB-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.44  E-value=2.2  Score=28.54  Aligned_cols=61  Identities=21%  Similarity=0.224  Sum_probs=42.9

Q ss_pred             CCCCcceeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCc-eEEE--ec--C--eeecCCCc
Q 044874          180 GMGPRKLKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDG-YFFI--YK--Q--NVMDDDRS  246 (269)
Q Consensus       180 ~~~~~~~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~-q~l~--~~--g--~~L~d~~t  246 (269)
                      +++.++.-|.|-..+| .+..+.|++++|+.++=+.+.++.     ++..+. ..|+  +.  |  |.|+|...
T Consensus         4 ~~~~~~~vvkv~~~dg-~~k~l~V~~~tTa~eV~~~l~~K~-----~~~~~~~f~L~E~~~~~~leR~L~d~E~   71 (100)
T d1wgra_           4 GSSGRPHVVKVYSEDG-ACRSVEVAAGATARHVCEMLVQRA-----HALSDETWGLVECHPHLALERGLEDHES   71 (100)
T ss_dssp             CCCCSCEEEEEEETTS-CEEEEEECTTCCHHHHHHHHHCSS-----SCCCCCCCCEEEEETTTTEEEEECSSSC
T ss_pred             cCCCCceEEEEEecCC-CEEEEEECCCCcHHHHHHHHHHHh-----CCCCCCCeEEEEecCCCcceeecCchHh
Confidence            3445666677777787 888999999999999999999875     655443 3333  22  2  77777653

>d1ip9a_ d.15.2.2 (A:) Bud emergence mediator Bemp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: CAD & PB1 domains
family: PB1 domain
domain: Bud emergence mediator Bemp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=81.31  E-value=2.5  Score=27.42  Aligned_cols=42  Identities=14%  Similarity=0.052  Sum_probs=34.5

Q ss_pred             EEEEcC-CCCEEEEEEcCCCCHHHHHHHHHHHhCCCCCcEEEEEc
Q 044874            3 VIFEPQ-RGKAFTIEVGFFDTVLEIKEKIEKYQGIPVPKQTLVFN   46 (269)
Q Consensus         3 i~vk~~-~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~   46 (269)
                      |.||.. ++..+.+.++++.+..+|+++|+.++++.  ..+|.|.
T Consensus        13 ikVKv~~~~D~~~~~l~~~it~~dL~~kI~~rf~~~--~~~lkY~   55 (85)
T d1ip9a_          13 TKIKFYYKDDIFALMLKGDTTYKELRSKIAPRIDTD--NFKLQTK   55 (85)
T ss_dssp             EEEEECBTTCCEEEEECSCCCHHHHHHHHHHHHTSS--CEEEEEC
T ss_pred             EEEEEEECCcEEEEEeCCCCCHHHHHHHHHHHhCCC--ceEEEEE
Confidence            556644 67889999999999999999999999864  4777775

>d1wgya_ d.15.1.5 (A:) Rap guanine nucleotide exchange factor 5, RapGEF5 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ras-binding domain, RBD
domain: Rap guanine nucleotide exchange factor 5, RapGEF5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=80.86  E-value=4  Score=27.50  Aligned_cols=77  Identities=19%  Similarity=0.197  Sum_probs=53.6

Q ss_pred             CCCceEEEEEecCCCCCCccccccceeecCCcchHHHHHHhhhhhcCCCCcceEEE---eCCe--eeccCCcccccCCCC
Q 044874           85 SPSKKIHLKINIPSNSKTHHHHHHLPLDMDVNDTVLRLKEKIHEMESIPVNRLLVQ---SSGA--ELQDHRSLRDCELMD  159 (269)
Q Consensus        85 ~~~~~i~i~Vk~~~~~~~~~~~~~~~~~v~~~~TV~~lK~~I~~~~gip~~~q~L~---~~g~--~L~d~~~L~~y~i~~  159 (269)
                      +++++|...|.......       .........|+.++++.++++.+.+.+++.|.   ++|.  .|+++..--.=.+.-
T Consensus         5 ss~dei~~~VY~~Dhsy-------~tlr~~v~~sa~eI~~~vaeKl~~~~e~L~LV~V~SsGEr~~lkp~d~sV~TsL~l   77 (104)
T d1wgya_           5 SSGEEIFCHVYITEHSY-------VSVKAKVSSIAQEILKVVAEKIQYAEEDLALVAITFSGEKHELQPNDLVISKSLEA   77 (104)
T ss_dssp             CCSSCCCEEEECSSSCE-------EEECCCTTCBSHHHHHHHHHHHTSCGGGEEEEEECSSCCCCBCCTTSBSSCCSSCS
T ss_pred             CCCCeEEEEEEecCCcE-------EEEEeeccCcHHHHHHHHHHHhCCCCCceEEEEEccCCcEEeeCccceeEEeeeee
Confidence            35566777777766665       56677789999999999999999999998887   5664  355433222234556


Q ss_pred             CCEEEEEEc
Q 044874          160 NAEIDVHVR  168 (269)
Q Consensus       160 ~~~i~l~~~  168 (269)
                      ++.+++..+
T Consensus        78 N~rLFvc~~   86 (104)
T d1wgya_          78 SGRIYVYRK   86 (104)
T ss_dssp             SCEEEEEEC
T ss_pred             cceEEEech
Confidence            677777644

>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=80.43  E-value=2.3  Score=27.42  Aligned_cols=46  Identities=11%  Similarity=0.149  Sum_probs=39.8

Q ss_pred             eeEEEEecCCCeEEEEEecCCCcHHHHHHHHHHhhhccCCCCCCCceEEEec
Q 044874          186 LKLLVLTQCGNKRIPVEVNASDNVSELRKELQKLHQRYHFHLPQDGYFFIYK  237 (269)
Q Consensus       186 ~~i~V~~~~g~~~~~l~v~~~~tV~~lK~~i~~~~~~~~~~~p~~~q~l~~~  237 (269)
                      |.-.|+.... -++.+++.+.....+|+++|.++     +.++++.-.|.|+
T Consensus         4 ~~~~vkVh~~-fTVal~v~~G~~y~~L~~lvs~K-----L~l~~~~~~LSY~   49 (82)
T d1oeya_           4 MAYTLKVHYK-YTVVMKTQPGLPYSQVRDMVSKK-----LELRLEHTKLSYR   49 (82)
T ss_dssp             SCEEEEEESS-SEEEEEECTTCCHHHHHHHHHHH-----TTCCGGGCCEEEC
T ss_pred             CCEEEEEEEE-EEEEEEccCCCCHHHHHHHHHHH-----hCCChhheEEEec
Confidence            4556666665 89999999999999999999998     5899999999996