Citrus Sinensis ID: 012177

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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-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------47
Protein Sequence
MSMACVALSPVLEESLNFPGNFTHRPEKLSNDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKSAKVRAKPVQKDFEVSIEATELNEKGADVVGEHQFETLFMGYQIRERKLLQNDLLLEPLIVESNFKLPLMIKRLISSTVDGLERGNEPIPSSEGSGGAYFMQDSSGQKYISVFKPMDEEPMSVNNPRGLPISVDGEGLKKGTRAGEGALREVAAYILDHPRDATYSLHDEERGFAGVPPTVMVRCLHKGFNHPNGYKHDLENVKIGSLQMFVENVGSCEEMGPRAFPVDEVHKISVLDIRLANTDRHAGNILVSKDEGGQIKLVPIDHGYCLPYSVCPFSFPLYP
Secondary Structure (PSIPRED)
ccccEEEEcccccccccccccccccccccccccEEEEEEccccEEEEEccccccHHHHHHHHHHcccccccccEEEEccEEEccccccccEEccccccEEEEEEEEcccccEEEEcccccEEEEEEcccccHHHHHHHHHHHccccccccccEEEEccEEccccccccccccccccEEEEEEEccccccccccccccccHHHHHHcccccccccccccEEEEEcccccHHHHccccccccccEEEcccccHHHHHHHHHHHHHHHHHcccccccccccccEEEEEEcccccEEEEEEccccccccccccccccccccccccccccccccccHHHHHHHHHccccccccccccccccccccccccEEEEEEEcccccccccccccccccccEEEEcccccccccccccccccccHHHHHEEEEEEEEccccccccEEEEEcccccEEEEEcccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccEEEccccccccEEEcccccccEEccccccEEEEEEccccEEEEEEcccccHHHHHHHHHHcccccccccEEEEEccHccccccccHHcccccccEEEEEEEEcccEEEEEEEccccEEEEEEcccccHHHHHHHHHHHHHccccccccEEEEcccEcccccEHHHccccccccEEEEEEcccccEEEEccccEEEEEEEccccccEccccccccHHHHHcccccccccccccccEEEEEEEcccccccHHHHHHHHHHHHHHHcccccEEEccccccEEEEEcccccEEEEEEccccccccccccccccEEEEcccccccccEccccHHHHHHHHHHccccccccEEEEccccccccccEEEEEEEcccEEcccccccccccccEcEHHHHccccccHHHcccccccHHHHEEEEEEEEEEEccccccccEEEEEccccEEEEEEcccccccccccccEEEEEcc
Coil and Loop (DISEMBL)
msmacvalspvleeslnfpgnfthrpeklsndSILIFLSVggsvipmrvmesdsIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQelicdgeeleDQRLITDICKRNEAVIHLLVRKSAkvrakpvqkdFEVSIEATELNEKGADVVGEHQFETLFMGYQIRERKLLQndllleplivesnfkLPLMIKRLISSTvdglergnepipssegsggayfmqdssgqkyisvfkpmdeepmsvnnprglpisvdgeglkkgtragEGALREVAAYILDhprdatyslhdeergfagvpptvMVRClhkgfnhpngykhdlenvkigSLQMFVENVgsceemgprafpvdevhkISVLDIRlantdrhagnilvskdeggqiklvpidhgyclpysvcpfsfplyp
Flexible Loop (DISEMBL)
MSMACVALSPVLEESLNFPGNFTHrpeklsndSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDLQAITVTTVCGKVFEFhvergrnvgyvKQQIakkgrefvdlknqelicdgeeleDQRLITDICKRNEAVIHLlvrksakvrakpvqkdfeVSIEatelnekgadvvGEHQFETLFMGYQIRERKLLQNDLLLEPLIVESNFKLPLMIKRLISSTVDGLERGNEPIPSSEGSGGAYFMQDSSGQKYISVFKPMDEEPMSVNNPRGLPISVDGEGLKKGTRAGEGALREVAAYILDHPRDATYSLHDEERGFAGVPPTVMVRCLHKGFNHPNGYKHDLENVKIGSLQMFVENVGSCEEMGPRAFPVDEVHKISVLDIRLantdrhagnilvskdeggqIKLVPIDHGYCLPYSVCPFSFPLYP
Low Complexity Region (SEG)
MSMACVALSPVLEESLNFPGNFTHRPEKLSNDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKSAKVRAKPVQKDFEVSIEATELNEKGADVVGEHQFETLFMGYQIRERKLLQNDLLLEPLIVESNFKLPLMIKRLISSTVDGLERGNEPIPSSEGSGGAYFMQDSSGQKYISVFKPMDEEPMSVNNPRGLPISVDGEGLKKGTRAGEGALREVAAYILDHPRDATYSLHDEERGFAGVPPTVMVRCLHKGFNHPNGYKHDLENVKIGSLQMFVENVGSCEEMGPRAFPVDEVHKISVLDIRLANTDRHAGNILVSKDEGGQIKLVPIDHGYCLPYSVCPFSFPLYP
Disordered region (IsUnstruct)
*****VALSPVL***LNFPGNFT****KLSNDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKSAKVRAKPVQKDFEVSIEATELNEKGADVVGEHQFETLFMGYQIRERKLLQNDLLLEPLIVESNFKLPLMIKRLISSTV********************************************************************ALREVAAYILDHPRDATYSLHDEERGFAGVPPTVMVRCLHKGFNHPNGYKHDLENVKIGSLQMFVENVGSCEEMGPRAFPVDEVHKISVLDIRLANTDRHAGNILVSKDEGGQIKLVPIDHGYCLPYSVCPFSFPL**
Disordered Region (DISOPRED)
******A**PVL***********HRPEKLSNDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKSAKVRAKPVQKDFEVSIEATELNEKGADVVGEHQFETLFMGYQIRERKLLQNDLLLEPLIVESNFKLPLMIKRLISSTVDGLERGNEPIPSSEGSGGAYFMQDSSGQKYISVFKPMDEEPMSVNNPRGLPISVDGEGLKKGTRAGEGALREVAAYILDHPRDATYSLHDEERGFAGVPPTVMVRCLHKGFNHPNGYK**LENVKIGSLQMFVENVGSCEEMGPRAFPVDEVHKISVLDIRLANTDRHAGNILVSKDEGGQIKLVPIDHGYCLPYSVCPFSFPLYP
Disordered Region (DISEMBL)
MSMACVALSPVLEESLNFPGNFTHRPEKLSNDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKSAKVRAKPVQKDFEVSIEATELNEKGADVVGEHQFETLFMGYQIRERKLLQNDLLLEPLIVESNFKLPLMIKRLISSTVDGLERGNEPIPSSEGSGGAYFMQDSSGQKYISVFKPMDEEPMSVNNPRGLPISVDGEGLKKGTRAGEGALREVAAYILDHPRDATYSLHDEERGFAGVPPTVMVRCLHKGFNHPNGYKHDLENVKIGSLQMFVENVGSCEEMGPRAFPVDEVHKISVLDIRLANTDRHAGNILVSKDEGGQIKLVPIDHGYCLPYSVCPFSFPLYP
Disordered Region (DISPRO)
***ACVALSPVLEESLNFPGNFTHRPEKLSNDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKSAKVRAKPVQKDFEVSIEATELNEKGADVVGEHQFETLFMGYQIRERKLLQNDLLLEPLIVESNFKLPLMIKRLISSTVDGLERGNEPIPSSEGSGGAYFMQDSSGQKYISVFKPMDEEPMSVNNPRGLPISVDGEGLKKGTRAGEGALREVAAYILDHPRDATYSLHDEERGFAGVPPTVMVRCLHKGFNHPNGYKHDLENVKIGSLQMFVENVGSCEEMGPRAFPVDEVHKISVLDIRLANTDRHAGNILVSKDEGGQIKLVPIDHGYCLPYSVCPFSFPLYP
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSMACVALSPVLEESLNFPGNFTHRPEKLSNDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKSAKVRAKPVQKDFEVSIEATELNEKGADVVGEHQFETLFMGYQIRERKLLQNDLLLEPLIVESNFKLPLMIKRLISSTVDGLERGNEPIPSSEGSGGAYFMQDSSGQKYISVFKPMDEEPMSVNNPRGLPISVDGEGLKKGTRAGEGALREVAAYILDHPRDATYSLHDEERGFAGVPPTVMVRCLHKGFNHPNGYKHDLENVKIGSLQMFVENVGSCEEMGPRAFPVDEVHKISVLDIRLANTDRHAGNILVSKDEGGQIKLVPIDHGYCLPYSVCPFSFPLYP
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	469	2.2.26 [Sep-21-2011]
Q9C671	630	Probable phosphatidylinos	no	no	0.413	0.307	0.405	2e-38
P0CG54	311	Polyubiquitin-B OS=Cavia	yes	no	0.330	0.498	0.345	2e-15
P22589	229	Polyubiquitin OS=Phytopht	N/A	no	0.422	0.864	0.312	4e-15
P0CG70	305	Polyubiquitin OS=Neurospo	N/A	no	0.309	0.475	0.355	8e-15
P0CH28	690	Polyubiquitin-C OS=Bos ta	yes	no	0.328	0.223	0.341	1e-14
P42740	457	Polyubiquitin OS=Aglaotha	N/A	no	0.309	0.317	0.348	2e-14
P0CG69	763	Polyubiquitin OS=Drosophi	yes	no	0.324	0.199	0.339	2e-14
P69315	305	Polyubiquitin (Fragment)	N/A	no	0.309	0.475	0.355	2e-14
P0CG76	381	Polyubiquitin-A OS=Dictyo	no	no	0.309	0.380	0.355	3e-14
P0CG78	533	Polyubiquitin-F OS=Dictyo	no	no	0.309	0.272	0.355	3e-14

>sp|Q9C671|P4K2B_ARATH Probable phosphatidylinositol 4-kinase type 2-beta At1g26270 OS=Arabidopsis thaliana GN=At1g26270 PE=1 SV=1

 Score =  160 bits (405), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 88/217 (40%), Positives = 128/217 (58%), Gaps = 23/217 (10%)

Query: 254 MIKRLISSTVDGLERGNEPIPSSEGSGGAYFMQDSSGQKYISVFKPMDEEPMSVNNPRGL 313
            ++++       +++G +P+  + G GGAY+ ++S G+  +++ KP DEEP + NNP+G 
Sbjct: 147 FVRQMAKDITKAVKKGIDPVAVNSGLGGAYYFKNSRGES-VAIVKPTDEEPYAPNNPKGF 205

Query: 314 PISVDGE-GLKKGTRAGEGALREVAAYILDHPRDATYSLHDEERGFAGVPPTVMVRCLHK 372
                G+ GLK+  R GE   REVAAY+LD            +  FA VPPT +V+  H 
Sbjct: 206 VGKALGQPGLKRSVRVGETGYREVAAYLLD------------KEHFANVPPTALVKITHS 253

Query: 373 GFNHPNGYKHD--LENV---KIGSLQMFVENVGSCEEMGPRAFPVDEVHKISVLDIRLAN 427
            FN  +G K    +E +   KI SLQ F+ +     E G   FPV  VH+I +LDIR+ N
Sbjct: 254 IFNVNDGVKASKPMEKMLVSKIASLQQFIPHDYDASEHGTSNFPVSAVHRIGILDIRILN 313

Query: 428 TDRHAGNILVSKDEG----GQIKLVPIDHGYCLPYSV 460
           TDRH+GN+LV K +G    GQ++LVPIDHG CLP ++
Sbjct: 314 TDRHSGNLLVKKLDGDGMFGQVELVPIDHGLCLPETL 350

The phosphorylation of phosphatidylinositol (PI) to PI4P is the first committed step in the generation of phosphatidylinositol 4,5-bisphosphate (PIP2), a precursor of the second messenger inositol 1,4,5-trisphosphate (InsP3).
Arabidopsis thaliana (taxid: 3702)
EC: 2EC: .EC: 7EC: .EC: 1EC: .EC: 6EC: 7

>sp|P0CG54|UBB_CAVPO Polyubiquitin-B OS=Cavia porcellus GN=UBB PE=2 SV=1

 Score = 84.0 bits (206), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 55/159 (34%), Positives = 85/159 (53%), Gaps = 4/159 (2%)

Query: 36  IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
           IF+ ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +
Sbjct: 155 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 213

Query: 95  ADGNVLHLVLRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQEL 154
              + LHLVLRL     I V T+ GK     VE    +  VK +I  K  E +    Q L
Sbjct: 214 QKESTLHLVLRLRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRL 271

Query: 155 ICDGEELEDQRLITDICKRNEAVIHLLVRKSAKVRAKPV 193
           I  G++LED R ++D   + E+ +HL++R    V A P+
Sbjct: 272 IFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGVYASPI 310

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.

Cavia porcellus (taxid: 10141)

>sp|P22589|UBIQP_PHYIN Polyubiquitin OS=Phytophthora infestans PE=1 SV=2

 Score = 83.2 bits (204), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 66/211 (31%), Positives = 105/211 (49%), Gaps = 13/211 (6%)

Query: 36  IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
           IF+ ++ G  I + V  SDSI +VK +IQ   G    +Q+L+F G++L    + + DY +
Sbjct: 3   IFVKTLTGKTITLDVEPSDSIDNVKQKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 61

Query: 95  ADGNVLHLVLRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQEL 154
              + LHLVLRL     I V T+ GK     VE   ++  VKQ+I  K  E +    Q L
Sbjct: 62  QKESTLHLVLRLRGGMQIFVKTLTGKTITLDVEPSDSIDNVKQKIQDK--EGIPPDQQRL 119

Query: 155 ICDGEELEDQRLITDICKRNEAVIHLLVRKSAKVR-------AKPVQKDFEVSIEATELN 207
           I  G++LED R ++D   + E+ +HL++R    ++        K +  D E S     + 
Sbjct: 120 IFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGMQIFVKTLTGKTITLDVEPSDSIDNVK 179

Query: 208 EKGADVVG--EHQFETLFMGYQIRERKLLQN 236
           +K  D  G    Q   +F G Q+ + + L +
Sbjct: 180 QKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 210

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.

Phytophthora infestans (taxid: 4787)

>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 = 82.4 bits (202), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 53/149 (35%), Positives = 82/149 (55%), Gaps = 4/149 (2%)

Query: 36  IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
           IF+ ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +
Sbjct: 3   IFVKTLTGKTITLEVESSDTIDNVKQKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 61

Query: 95  ADGNVLHLVLRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQEL 154
              + LHLVLRL     I V T+ GK     VE    +  VKQ+I  K  E +    Q L
Sbjct: 62  QKESTLHLVLRLRGGMQIFVKTLTGKTITLEVESSDTIDNVKQKIQDK--EGIPPDQQRL 119

Query: 155 ICDGEELEDQRLITDICKRNEAVIHLLVR 183
           I  G++LED R ++D   + E+ +HL++R
Sbjct: 120 IFAGKQLEDGRTLSDYNIQKESTLHLVLR 148

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|P0CH28|UBC_BOVIN Polyubiquitin-C OS=Bos taurus GN=UBC PE=1 SV=1

 Score = 81.3 bits (199), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 54/158 (34%), Positives = 84/158 (53%), Gaps = 4/158 (2%)

Query: 36  IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
           IF+ ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +
Sbjct: 535 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 593

Query: 95  ADGNVLHLVLRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQEL 154
              + LHLVLRL     I V T+ GK     VE    +  VK +I  K  E +    Q L
Sbjct: 594 QKESTLHLVLRLRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRL 651

Query: 155 ICDGEELEDQRLITDICKRNEAVIHLLVRKSAKVRAKP 192
           I  G++LED R ++D   + E+ +HL++R    V + P
Sbjct: 652 IFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGVLSSP 689

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.

Bos taurus (taxid: 9913)

>sp|P42740|UBIQP_AGLNE Polyubiquitin OS=Aglaothamnion neglectum PE=2 SV=2

 Score = 81.3 bits (199), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 52/149 (34%), Positives = 81/149 (54%), Gaps = 4/149 (2%)

Query: 36  IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
           IF+ ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +
Sbjct: 155 IFVKTITGKTITLEVESSDTIENVKTKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 213

Query: 95  ADGNVLHLVLRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQEL 154
              + LHLVLRL     I V T+ GK     VE    +  VK +I  K  E +    Q L
Sbjct: 214 QKESTLHLVLRLRGGMQIFVKTLTGKTITLEVESSDTIENVKTKIQDK--EGIPPDQQRL 271

Query: 155 ICDGEELEDQRLITDICKRNEAVIHLLVR 183
           I  G++LED R ++D   + E+ +HL++R
Sbjct: 272 IFAGKQLEDGRTLSDYNLQKESTLHLVLR 300

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.

Aglaothamnion neglectum (taxid: 2765)

>sp|P0CG69|UBIQP_DROME Polyubiquitin OS=Drosophila melanogaster GN=Ubi-p63E PE=3 SV=1

 Score = 80.5 bits (197), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 53/156 (33%), Positives = 84/156 (53%), Gaps = 4/156 (2%)

Query: 36  IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
           IF+ ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +
Sbjct: 611 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 669

Query: 95  ADGNVLHLVLRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQEL 154
              + LHLVLRL     I V T+ GK     VE    +  VK +I  K  E +    Q L
Sbjct: 670 QKESTLHLVLRLRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRL 727

Query: 155 ICDGEELEDQRLITDICKRNEAVIHLLVRKSAKVRA 190
           I  G++LED R ++D   + E+ +HL++R    ++A
Sbjct: 728 IFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGIQA 763

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.

Drosophila melanogaster (taxid: 7227)

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

 Score = 80.5 bits (197), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 53/149 (35%), Positives = 80/149 (53%), Gaps = 4/149 (2%)

Query: 36  IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
           IFL ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +
Sbjct: 44  IFLKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LADYNI 102

Query: 95  ADGNVLHLVLRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQEL 154
              + LHLVLRL     I V T+ GK     VE    +  VK +I  K  E +    Q L
Sbjct: 103 QKESTLHLVLRLRGGMQIFVKTLTGKTITLEVESSDTIDNVKAKIQDK--EGIPPDQQRL 160

Query: 155 ICDGEELEDQRLITDICKRNEAVIHLLVR 183
           I  G++LED R + D   + E+ +HL++R
Sbjct: 161 IFAGKQLEDGRTLADYNIQKESTLHLVLR 189

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

Linum usitatissimum (taxid: 4006)

>sp|P0CG76|UBIQA_DICDI Polyubiquitin-A OS=Dictyostelium discoideum GN=ubqA PE=1 SV=1

 Score = 80.5 bits (197), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 53/149 (35%), Positives = 82/149 (55%), Gaps = 4/149 (2%)

Query: 36  IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
           IF+ ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +
Sbjct: 3   IFVKTLTGKTITLEVEGSDNIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 61

Query: 95  ADGNVLHLVLRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQEL 154
              + LHLVLRL     I V T+ GK     VE   N+  VK +I  K  E +    Q L
Sbjct: 62  QKESTLHLVLRLRGGMQIFVKTLTGKTITLEVEGSDNIENVKTKIQDK--EGIPPDQQRL 119

Query: 155 ICDGEELEDQRLITDICKRNEAVIHLLVR 183
           I  G++LED R ++D   + E+ +HL++R
Sbjct: 120 IFAGKQLEDGRTLSDYNIQKESTLHLVLR 148

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.

Dictyostelium discoideum (taxid: 44689)

>sp|P0CG78|UBIQF_DICDI Polyubiquitin-F OS=Dictyostelium discoideum GN=ubqF PE=1 SV=1

 Score = 80.5 bits (197), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 53/149 (35%), Positives = 82/149 (55%), Gaps = 4/149 (2%)

Query: 36  IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
           IF+ ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +
Sbjct: 3   IFVKTLTGKTITLEVEGSDNIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 61

Query: 95  ADGNVLHLVLRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQEL 154
              + LHLVLRL     I V T+ GK     VE   N+  VK +I  K  E +    Q L
Sbjct: 62  QKESTLHLVLRLRGGMQIFVKTLTGKTITLEVEGSDNIENVKAKIQDK--EGIPPDQQRL 119

Query: 155 ICDGEELEDQRLITDICKRNEAVIHLLVR 183
           I  G++LED R ++D   + E+ +HL++R
Sbjct: 120 IFAGKQLEDGRTLSDYNIQKESTLHLVLR 148

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.

Dictyostelium discoideum (taxid: 44689)

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	469
255551301	583	ubiquitin, putative [Ricinus communis] g	0.991	0.797	0.728	0.0
225455384	585	PREDICTED: probable phosphatidylinositol	0.997	0.8	0.691	0.0
356509263	583	PREDICTED: uncharacterized protein LOC10	0.991	0.797	0.669	1e-176
357463917	593	Phosphatidylinositol 4-kinase type 2-bet	0.974	0.770	0.648	1e-166
297812587	574	phosphatidylinositol 3-and 4-kinase fami	0.963	0.787	0.631	1e-166
15237921	574	phosphatidylinositol 3- and 4-kinase fam	0.974	0.796	0.639	1e-165
225426304	583	PREDICTED: uncharacterized protein LOC10	0.991	0.797	0.630	1e-164
255564699	585	protein with unknown function [Ricinus c	0.980	0.786	0.635	1e-162
297828377	566	phosphatidylinositol 3-and 4-kinase fami	0.957	0.793	0.603	1e-158
18407090	566	phosphoinositide 4-kinase gamma 4 [Arabi	0.953	0.789	0.603	1e-158

>gi|255551301|ref|XP_002516697.1| ubiquitin, putative [Ricinus communis] gi|223544192|gb|EEF45716.1| ubiquitin, putative [Ricinus communis]

 Score =  687 bits (1772), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 344/472 (72%), Positives = 395/472 (83%), Gaps = 7/472 (1%)

Query: 3   MACVALSPVLEESLNFPGNFT--HRPEKLSNDSILIFLSVGGSVIPMRVMESDSIASVKL 60
           MA VALS V EESLN   N    H P + SNDSILIFLSV GS+IPM VMESDSIASVKL
Sbjct: 1   MASVALSTVNEESLNLHCNLARWHGPPR-SNDSILIFLSVAGSLIPMHVMESDSIASVKL 59

Query: 61  RIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDLQAITVTTVCGK 120
           RIQ+  GFFVKKQKLVFEGRELARSNS VRDYG+ADG VLHLVLRLSDLQAITV TVCGK
Sbjct: 60  RIQASKGFFVKKQKLVFEGRELARSNSHVRDYGVADGKVLHLVLRLSDLQAITVRTVCGK 119

Query: 121 VFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHL 180
            F+FHV+RGRNVGYVKQQI+KKG+ F +L +QELICDGEELEDQR+I DICK N++VIHL
Sbjct: 120 EFKFHVQRGRNVGYVKQQISKKGKGF-NLIDQELICDGEELEDQRIIDDICKSNDSVIHL 178

Query: 181 LVRKSAKVRAKPVQKDFEVSIEATELNEKGADVVGEHQFETLFMGYQIRERKLLQNDLLL 240
           LVRKSAKVR K + +DFE+SIEA +L++    VVGEHQ + L + Y+  +RK L  D +L
Sbjct: 179 LVRKSAKVRTKTIDRDFELSIEALDLSDSADCVVGEHQKQALALEYRALDRKPLLQDFIL 238

Query: 241 EPLIVESNFKLPLMIKRLISSTVDGLERGNEPIPSSEGSGGAYFMQDSSGQKYISVFKPM 300
           EPLIV    +LPL++K+LI+ST  GLERGNEPI SSEGSGGAYFMQDSSG KY+SVFKP+
Sbjct: 239 EPLIVNFKVELPLVLKKLINSTSLGLERGNEPIRSSEGSGGAYFMQDSSGHKYVSVFKPV 298

Query: 301 DEEPMSVNNPRGLPISVDGEGLKKGTRAGEGALREVAAYILDHPRDATYSLHDEERGFAG 360
           DEEPM+VNNPRGLP+SV+GEGLKKGTR G GALREVAAYILD+P++      D+E+GFAG
Sbjct: 299 DEEPMAVNNPRGLPVSVNGEGLKKGTRVGGGALREVAAYILDYPKNGPRLSWDDEKGFAG 358

Query: 361 VPPTVMVRCLHKGFNHPNGYKHDLENVKIGSLQMFVENVGSCEEMGPRAFPVDEVHKISV 420
           VPPTVM++CLHK FNHP+GYK  L+N+KIGSLQMFVEN GSCE+MGPRAFPVDEVHKISV
Sbjct: 359 VPPTVMIKCLHKAFNHPDGYKRSLKNIKIGSLQMFVENSGSCEDMGPRAFPVDEVHKISV 418

Query: 421 LDIRLANTDRHAGNILVSKD-EGGQIKLVPIDHGYCLP--YSVCPFSFPLYP 469
           LDIRLAN DRHAGNILV+KD   G+I L+PIDHGYCLP  +  C F +  +P
Sbjct: 419 LDIRLANADRHAGNILVTKDGNEGKIALIPIDHGYCLPENFEDCTFDWLYWP 470

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225455384|ref|XP_002277933.1| PREDICTED: probable phosphatidylinositol 4-kinase type 2-beta At1g26270-like [Vitis vinifera]

 Score =  663 bits (1710), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 327/473 (69%), Positives = 393/473 (83%), Gaps = 5/473 (1%)

Query: 1   MSMACVALSPVLEESLNFPGNFTHRPEKLSNDSILIFLSVGGSVIPMRVMESDSIASVKL 60
           MS+A V++SPV E+S NFP  FT R     ++SILI+L+VGGSVIPM V+ESDSIASVK 
Sbjct: 1   MSIASVSVSPVCEDSPNFPCYFTDRCGPCLSNSILIYLTVGGSVIPMHVLESDSIASVKR 60

Query: 61  RIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDLQAITVTTVCGK 120
           +IQ++ G FVK QKLVFEGRELAR+NSRV+DYG+ DGNVLHLVLRLSDLQAITV +VCGK
Sbjct: 61  KIQTFKGSFVKMQKLVFEGRELARNNSRVQDYGVTDGNVLHLVLRLSDLQAITVRSVCGK 120

Query: 121 VFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHL 180
             EF VER RNVGYVKQQIAK G+ F DLK+QEL CDGEELEDQRLI DICK+N+ VIHL
Sbjct: 121 ELEFQVERSRNVGYVKQQIAKTGKGFFDLKDQELTCDGEELEDQRLIHDICKKNDVVIHL 180

Query: 181 LVRKSAKVRAKPVQKDFEVSIEATELNEKGADVVG--EHQFETLFMGYQIRERKLLQNDL 238
           L+ +SAKVR KP++KDF+VSI A++L++K  DVV   E+Q+ T     ++ +RK L +D+
Sbjct: 181 LICRSAKVRTKPIKKDFKVSIVASDLSDKRDDVVDKEEYQWRTQSKEPEVVDRKSLLSDV 240

Query: 239 LLEPLIVESNFKLPLMIKRLISSTVDGLERGNEPIPSSEGSGGAYFMQDSSGQKYISVFK 298
           LLEPLIV  N +L  ++K LI+ST+DGL RGN+PI SSEGSGG YFMQDSSG K+ISVFK
Sbjct: 241 LLEPLIVNPNIELSSVVKELITSTIDGLNRGNQPIRSSEGSGGVYFMQDSSGLKHISVFK 300

Query: 299 PMDEEPMSVNNPRGLPISVDGEGLKKGTRAGEGALREVAAYILDHPRDATYSLHDEERGF 358
           P+DEEPM+VNNP GLP+S+DGEGLKKGTR GEGALREVAAYILDHPR   +S  + ++GF
Sbjct: 301 PIDEEPMAVNNPHGLPLSMDGEGLKKGTRVGEGALREVAAYILDHPRSGPHSFCN-KKGF 359

Query: 359 AGVPPTVMVRCLHKGFNHPNGYKHDLENVKIGSLQMFVENVGSCEEMGPRAFPVDEVHKI 418
           AGVPPTVMV+CLH GFNHP GY++  +N+KIGSLQMF++N GSCE+MGPRAFPVDEVHKI
Sbjct: 360 AGVPPTVMVKCLHGGFNHPEGYEYSPKNIKIGSLQMFMKNQGSCEDMGPRAFPVDEVHKI 419

Query: 419 SVLDIRLANTDRHAGNILVSKDEGGQIKLVPIDHGYCLP--YSVCPFSFPLYP 469
           +VLDIRLAN DRHAGNILVSK+  GQ+ L+PIDHGYCLP  +  C F +  +P
Sbjct: 420 TVLDIRLANADRHAGNILVSKEGEGQLVLIPIDHGYCLPENFEDCTFDWLYWP 472

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356509263|ref|XP_003523370.1| PREDICTED: uncharacterized protein LOC100812724 [Glycine max]

 Score =  624 bits (1609), Expect = e-176,   Method: Compositional matrix adjust.
 Identities = 316/472 (66%), Positives = 382/472 (80%), Gaps = 7/472 (1%)

Query: 3   MACVALSPVLEESLNFPGNFTHRPEKLSNDSILIFLSVGGSVIPMRVMESDSIASVKLRI 62
           MACVAL PV EESLN  G FT        +SILI+L+VGGSVIPM +M++DSIASVKLRI
Sbjct: 1   MACVALHPVCEESLN-RGEFTSCFSPHLRESILIYLTVGGSVIPMHIMKTDSIASVKLRI 59

Query: 63  QSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDLQAITVTTVCGKVF 122
           Q++ GFFVKKQKLVFEG+ELAR+ S +RDYG+ DGNVLHLVLRLSDL+AITV T+CGK F
Sbjct: 60  QTFKGFFVKKQKLVFEGKELARNRSCIRDYGVGDGNVLHLVLRLSDLKAITVRTMCGKEF 119

Query: 123 EFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLV 182
             +VE+ R+VGYVKQQIAKKG+ F+D K+QELIC+GEELEDQRLI DICK N+AVIH LV
Sbjct: 120 GLYVEKSRSVGYVKQQIAKKGQGFLDHKDQELICEGEELEDQRLIEDICKDNDAVIHFLV 179

Query: 183 RKS-AKVRAKPVQKDFEVSIEATELNEKGADVVGEHQFETLFMGYQIRERKLLQNDLLLE 241
           RKS AKVR KPV KDFE+SIEA+ ++    ++  + Q  ++ +  ++ ER  L  D +LE
Sbjct: 180 RKSDAKVRTKPVDKDFELSIEASYVHNLVPNLHAD-QLGSVSVTNEVLERSQLTRDFVLE 238

Query: 242 PLIVESNFKLPLMIKRLISSTVDGLERGNEPIPSSEGSGGAYFMQDSSGQKYISVFKPMD 301
           P+I+ SN K+PL+I+ LI ST +GLE+G +PI SSEGSGGAY MQDSSG KY+SVFKP+D
Sbjct: 239 PIIMNSNIKIPLVIQELIKSTSEGLEKGCKPIQSSEGSGGAYLMQDSSGLKYVSVFKPID 298

Query: 302 EEPMSVNNPRGLPISVDGEGLKKGTRAGEGALREVAAYILDHPRDATYSLH-DEERGFAG 360
           EEPM++NNPRGLP+S DGEGLKKGTR G+GALREVAAYILDHPR    S + +EE GFAG
Sbjct: 299 EEPMAINNPRGLPVSEDGEGLKKGTRVGQGALREVAAYILDHPRKGPRSYYNNEEGGFAG 358

Query: 361 VPPTVMVRCLHKGFNHPNGYKHDLENVKIGSLQMFVENVGSCEEMGPRAFPVDEVHKISV 420
           VPPTVMV+CL KGF++   Y++D  NVKIGSLQMF+ N+GSCE+MGP AFPV+EVHKISV
Sbjct: 359 VPPTVMVKCLDKGFHNIEDYQNDSANVKIGSLQMFMRNIGSCEDMGPSAFPVEEVHKISV 418

Query: 421 LDIRLANTDRHAGNILVSKD-EGGQIKLVPIDHGYCLPYSV--CPFSFPLYP 469
           LDIRL N DRHAGNIL+++D E GQ  L+PIDHGYCLP S   C F +  +P
Sbjct: 419 LDIRLVNADRHAGNILIARDGEDGQTILIPIDHGYCLPESFEDCTFDWLYWP 470

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357463917|ref|XP_003602240.1| Phosphatidylinositol 4-kinase type 2-beta [Medicago truncatula] gi|355491288|gb|AES72491.1| Phosphatidylinositol 4-kinase type 2-beta [Medicago truncatula]

 Score =  591 bits (1524), Expect = e-166,   Method: Compositional matrix adjust.
 Identities = 302/466 (64%), Positives = 363/466 (77%), Gaps = 9/466 (1%)

Query: 3   MACVALSPVLEESLNFPGNFTHRPEKLSNDSILIFLSVGGSVIPMRVMESDSIASVKLRI 62
           MAC+ L P+ E      G FT        +SILI+L+VGGSVIPM ++E+DSIASVKLRI
Sbjct: 1   MACLVLHPMHEN-----GEFTSSFSPHMRESILIYLTVGGSVIPMHILETDSIASVKLRI 55

Query: 63  QSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDLQAITVTTVCGKVF 122
           Q+  GFFVKK KLVFEG+ELA + S V DYG+ADGNVLHLVLRLSDL+AITV T+ GK F
Sbjct: 56  QTLEGFFVKKLKLVFEGKELAHNKSCVGDYGVADGNVLHLVLRLSDLKAITVRTLSGKEF 115

Query: 123 EFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLV 182
            F+VE+ RNVGYVKQQIAKKGR   +L +QEL+ +GE LEDQRLI DICK N+AVIHLLV
Sbjct: 116 GFYVEKTRNVGYVKQQIAKKGRGVFNLADQELVWEGEALEDQRLIEDICKDNDAVIHLLV 175

Query: 183 RKS-AKVRAKPVQKDFEVSIEATELNEKGADVVGEHQFETLFMGYQIRERKLLQNDLLLE 241
           R S +KVR KPV+KD E+SIEA   ++   +   + Q   + +  ++ +R  L  + LLE
Sbjct: 176 RISDSKVRTKPVEKDLELSIEALFAHDTVPNSAVD-QLGPVSITNKVLKRNQLTREFLLE 234

Query: 242 PLIVESNFKLPLMIKRLISSTVDGLERGNEPIPSSEGSGGAYFMQDSSGQKYISVFKPMD 301
           P+   SN K+P ++  LI  T++GLE+G +PI SSEGSGGAY MQDSSG KY+S+FKP D
Sbjct: 235 PIFNNSNIKIPPVVHELIKVTLEGLEKGRKPIRSSEGSGGAYLMQDSSGLKYVSIFKPTD 294

Query: 302 EEPMSVNNPRGLPISVDGEGLKKGTRAGEGALREVAAYILDHPRDATYSLH-DEERGFAG 360
           EEPM+ NNPRGLPISVDGEGLKKGT+ G+GALREVAAYILDHPR    S H +EE+GFAG
Sbjct: 295 EEPMAFNNPRGLPISVDGEGLKKGTQVGQGALREVAAYILDHPRKGPRSYHNNEEKGFAG 354

Query: 361 VPPTVMVRCLHKGFNHPNGYKHDLENVKIGSLQMFVENVGSCEEMGPRAFPVDEVHKISV 420
           VPPTVMVRC+H+GF+HP GYK+   NVKIGSLQMF+ N+GSCE+MGPR FPV+EVHKISV
Sbjct: 355 VPPTVMVRCMHEGFHHPEGYKNVSSNVKIGSLQMFMRNIGSCEDMGPRTFPVEEVHKISV 414

Query: 421 LDIRLANTDRHAGNILVSKD-EGGQIKLVPIDHGYCLPYSVCPFSF 465
           LD+RL N DRHAGNILV+K+ E G I L+PIDHGYCLP SV P  F
Sbjct: 415 LDMRLVNADRHAGNILVAKNGEDGPIVLIPIDHGYCLPKSVSPLRF 460

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297812587|ref|XP_002874177.1| phosphatidylinositol 3-and 4-kinase family protein [Arabidopsis lyrata subsp. lyrata] gi|297320014|gb|EFH50436.1| phosphatidylinositol 3-and 4-kinase family protein [Arabidopsis lyrata subsp. lyrata]

 Score =  589 bits (1519), Expect = e-166,   Method: Compositional matrix adjust.
 Identities = 301/477 (63%), Positives = 358/477 (75%), Gaps = 25/477 (5%)

Query: 1   MSMACVALSPVLEESLNFPGNFTHRPEKLSNDSILIFLSVGGSVIPMRVMESDSIASVKL 60
           MS+A VALSP LEE +NFPG        L +D IL+FL++ GSVIP RVMESDSIASVKL
Sbjct: 1   MSVASVALSPALEELVNFPGTIGRFGLNL-DDPILVFLTIAGSVIPKRVMESDSIASVKL 59

Query: 61  RIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDLQAITVTTVCGK 120
           RIQS  GFFVKKQKL+++GRE  R++S++RDYGLADG +LHLV+RLSDLQAI+V TV GK
Sbjct: 60  RIQSIKGFFVKKQKLLYDGREPTRNDSQIRDYGLADGKLLHLVIRLSDLQAISVRTVDGK 119

Query: 121 VFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHL 180
            FE  VER RNVG+VKQQIA K +E    ++ EL  DGEEL+DQRLITD+CK  E VIHL
Sbjct: 120 EFELVVERSRNVGFVKQQIASKEKELGIPRDHELTLDGEELDDQRLITDLCKNGENVIHL 179

Query: 181 LVRKSAKVRAKPVQKDFEVSIEATELNE-----KGADVVGEHQFETLFMGYQIRERKLLQ 235
           L+RKS KVRAKPV KDFEV IE           +G +++ + + +  F            
Sbjct: 180 LIRKSVKVRAKPVGKDFEVFIENVNHKHNVDGRRGKNILSQAKPKEFF------------ 227

Query: 236 NDLLLEPLIVESNFKLPLMIKRLISSTVDGLERGNEPIPSSEGSGGAYFMQDSSGQKYIS 295
               +EP+IV    KLPL++K LISST++GLE+GN PI SS+GSGGAYFMQD SG KY+S
Sbjct: 228 ----VEPVIVNPEIKLPLLLKELISSTLEGLEKGNGPIQSSDGSGGAYFMQDPSGHKYVS 283

Query: 296 VFKPMDEEPMSVNNPRGLPISVDGEGLKKGTRAGEGALREVAAYILDHPRDATYSLHDEE 355
           VFKP+DEEPM+VNNPRG  +SVDGEGLKKGT+ GEGA+REVAAYILD+P     +   ++
Sbjct: 284 VFKPIDEEPMAVNNPRGQAVSVDGEGLKKGTQVGEGAMREVAAYILDYPMSGPLTFPHDQ 343

Query: 356 RGFAGVPPTVMVRCLHKGFNHPNGYKHDLENVKIGSLQMFVENVGSCEEMGPRAFPVDEV 415
            GFAGVPPT MV+CLHK FNHPNGY    EN KIGSLQMFV NVGSCE+MG R FPVD+V
Sbjct: 344 TGFAGVPPTTMVKCLHKDFNHPNGYSFAPENTKIGSLQMFVSNVGSCEDMGYRVFPVDQV 403

Query: 416 HKISVLDIRLANTDRHAGNILVSKD-EGGQIKLVPIDHGYCLP--YSVCPFSFPLYP 469
           HKISVLDIRLAN DRHAGNILVS+D + GQ+ L PIDHGYC P  +  C F +  +P
Sbjct: 404 HKISVLDIRLANADRHAGNILVSRDGKDGQMVLTPIDHGYCFPNKFEDCTFEWLYWP 460

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15237921|ref|NP_197812.1| phosphatidylinositol 3- and 4-kinase family protein / ubiquitin family protein [Arabidopsis thaliana] gi|10177083|dbj|BAB10389.1| ubiquitin [Arabidopsis thaliana] gi|110741569|dbj|BAE98733.1| ubiquitin [Arabidopsis thaliana] gi|332005891|gb|AED93274.1| phosphatidylinositol 3- and 4-kinase family protein / ubiquitin family protein [Arabidopsis thaliana]

 Score =  588 bits (1515), Expect = e-165,   Method: Compositional matrix adjust.
 Identities = 302/472 (63%), Positives = 358/472 (75%), Gaps = 15/472 (3%)

Query: 1   MSMACVALSPVLEESLNFPGNFTHRPEKLSNDSILIFLSVGGSVIPMRVMESDSIASVKL 60
           MS+A VALSP LEE +NFPG        L +D IL+FL++ GSVIP RVMESDSIASVKL
Sbjct: 1   MSVASVALSPALEELVNFPGIIGRFGFNL-DDPILVFLTIAGSVIPKRVMESDSIASVKL 59

Query: 61  RIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDLQAITVTTVCGK 120
           RIQS  GFFVKKQKL+++GRE++R++S++RDYGLADG +LHLV+RLSDLQAI+V TV GK
Sbjct: 60  RIQSIKGFFVKKQKLLYDGREVSRNDSQIRDYGLADGKLLHLVIRLSDLQAISVRTVDGK 119

Query: 121 VFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHL 180
            FE  VER RNVGYVKQQIA K +E    ++ EL  DGEEL+DQRLITD+C+  + VIHL
Sbjct: 120 EFELVVERSRNVGYVKQQIASKEKELGIPRDHELTLDGEELDDQRLITDLCQNGDNVIHL 179

Query: 181 LVRKSAKVRAKPVQKDFEVSIEATELNEKGADVVGEHQFETLFMGYQIRERKLLQNDLLL 240
           L+ KSAKVRAKPV KDFEV IE         DV  +H  +         E K    +  +
Sbjct: 180 LISKSAKVRAKPVGKDFEVFIE---------DVNHKHNVDGRRGKNISSEAK--PKEFFV 228

Query: 241 EPLIVESNFKLPLMIKRLISSTVDGLERGNEPIPSSEGSGGAYFMQDSSGQKYISVFKPM 300
           EP IV    KLP+++K LISST++GLE+GN PI SS+GSGGAYFMQD SG KY+SVFKP+
Sbjct: 229 EPFIVNPEIKLPILLKELISSTLEGLEKGNGPIRSSDGSGGAYFMQDPSGHKYVSVFKPI 288

Query: 301 DEEPMSVNNPRGLPISVDGEGLKKGTRAGEGALREVAAYILDHPRDATYSLHDEERGFAG 360
           DEEPM+VNNP G P+SVDGEGLKKGT+ GEGA+REVAAYILD+P     +   ++ GFAG
Sbjct: 289 DEEPMAVNNPHGQPVSVDGEGLKKGTQVGEGAIREVAAYILDYPMTGPRTFPHDQTGFAG 348

Query: 361 VPPTVMVRCLHKGFNHPNGYKHDLENVKIGSLQMFVENVGSCEEMGPRAFPVDEVHKISV 420
           VPPT MV+CLHK FNHPNGY    EN KIGSLQMFV NVGSCE+MG R FPVD+VHKISV
Sbjct: 349 VPPTTMVKCLHKDFNHPNGYSFSPENTKIGSLQMFVSNVGSCEDMGYRVFPVDQVHKISV 408

Query: 421 LDIRLANTDRHAGNILVSKD-EGGQIKLVPIDHGYCLP--YSVCPFSFPLYP 469
           LDIRLAN DRHAGNILVS+D + GQ+ L PIDHGYC P  +  C F +  +P
Sbjct: 409 LDIRLANADRHAGNILVSRDGKDGQMVLTPIDHGYCFPNKFEDCTFEWLYWP 460

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225426304|ref|XP_002268042.1| PREDICTED: uncharacterized protein LOC100249570 [Vitis vinifera]

 Score =  585 bits (1509), Expect = e-164,   Method: Compositional matrix adjust.
 Identities = 299/474 (63%), Positives = 361/474 (76%), Gaps = 9/474 (1%)

Query: 1   MSMACVALSPVLEESLNFPGNFTHRPEKLSNDSILIFLSVGGSVIPMRVMESDSIASVKL 60
           MS+A VA SP+  ES++ PG F  +PE  S++SIL++L+V GSVIP+RV+ESDSIASVK 
Sbjct: 1   MSVAAVASSPIRGESVHSPGFFHGQPEPCSSESILVYLTVAGSVIPLRVLESDSIASVKF 60

Query: 61  RIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDLQAITVTTVCGK 120
           RIQ   GF VKKQKLVF GRELAR++S VRDYG+  GNVLHLVL+LSDL AITV T CGK
Sbjct: 61  RIQICQGFVVKKQKLVFGGRELARNDSLVRDYGVTSGNVLHLVLKLSDLLAITVRTACGK 120

Query: 121 VFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHL 180
            FEFHV+R  NVGY+KQ+I K  + FVDL++ E  C+G +L+DQ LI DIC  ++ +IHL
Sbjct: 121 EFEFHVDRYSNVGYLKQRIVKTRKCFVDLEDHEFFCNGNKLDDQVLIDDICT-SDPIIHL 179

Query: 181 LVRKSAKVRAKPVQKDFEVSIEATELNEKGADVV--GEHQFETLFMGYQIRERKLLQNDL 238
           LV+KSAKVRAKPV KDFE+S+ A + NE   D    GE++ E      Q+ E++    D 
Sbjct: 180 LVQKSAKVRAKPVDKDFELSVVAEDRNEGTRDGANEGENRSEEQL---QVVEKEPPDRDF 236

Query: 239 LLEPLIVESNFKLPLMIKRLISSTVDGLERGNEPIPSSEGSGGAYFMQDSSGQKYISVFK 298
            LEP+IV    K P  I  LI+ST DGL+ GN PI SSEG+GG YFMQDS G KY+SVFK
Sbjct: 237 WLEPIIVNPKLKFPSFIWDLINSTFDGLDSGNHPILSSEGTGGTYFMQDSLGLKYVSVFK 296

Query: 299 PMDEEPMSVNNPRGLPISVDGEGLKKGTRAGEGALREVAAYILDHPRDATYSLHDEERGF 358
           PMDEEPM+VNNPRGLP S +GEGLK+GTR GEGA+REVAAY+LDHP+       DEE GF
Sbjct: 297 PMDEEPMAVNNPRGLPASSNGEGLKRGTRVGEGAVREVAAYVLDHPKSGPRLFSDEEIGF 356

Query: 359 AGVPPTVMVRCLHKGFNHPNGYKHDLENVKIGSLQMFVENVGSCEEMGPRAFPVDEVHKI 418
           AGVPPTVMV+CLHKG NHP GY+   E VKIGSLQ F+ + GSCE+MGP AFPV+EVHKI
Sbjct: 357 AGVPPTVMVQCLHKGLNHPEGYECSEEKVKIGSLQKFMNSHGSCEDMGPGAFPVEEVHKI 416

Query: 419 SVLDIRLANTDRHAGNILVSKD-EGGQIKLVPIDHGYCLP--YSVCPFSFPLYP 469
           SV DIR+ANTDRHAGNILV+K+ + GQI L+PIDHGYCLP  +  C F +  +P
Sbjct: 417 SVFDIRMANTDRHAGNILVNKEGKDGQIVLIPIDHGYCLPENFEDCTFDWLYWP 470

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255564699|ref|XP_002523344.1| protein with unknown function [Ricinus communis] gi|223537432|gb|EEF39060.1| protein with unknown function [Ricinus communis]

 Score =  577 bits (1487), Expect = e-162,   Method: Compositional matrix adjust.
 Identities = 304/478 (63%), Positives = 359/478 (75%), Gaps = 18/478 (3%)

Query: 1   MSMACVALSPVLEESLNFPGNFTHRPEKLSNDSILIFLSVGGSVIPMRVMESDSIASVKL 60
           MS A VALSP+    +     F+ +P   S++ ILI+LSVG SVIPMRV+ SDSI SVKL
Sbjct: 1   MSSAGVALSPIQNGVVLPVDYFSAQPS--SDEYILIYLSVGRSVIPMRVLGSDSIESVKL 58

Query: 61  RIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDLQAITVTTVCGK 120
           RIQS  GF VK QKLV  GREL+RSNS +RDYG+ DGNVLHLVLRLSDLQ I V T  GK
Sbjct: 59  RIQSCKGFVVKNQKLVCGGRELSRSNSLIRDYGVTDGNVLHLVLRLSDLQVIKVKTTSGK 118

Query: 121 VFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICK-RNEAVIH 179
            + F VERGR+VGYVKQQ+AKK REF    + E++CDGEEL+DQRLI DICK  N+AVIH
Sbjct: 119 EYTFCVERGRDVGYVKQQVAKKEREFD--SDHEVVCDGEELDDQRLIDDICKYNNDAVIH 176

Query: 180 LLVRKSAKVRAKPVQKDFEVSIEATELNE----KGADVVGEHQFETLF-MGYQIRERKLL 234
            LVRKS KVR KPV K+FE+SI A  LNE    +  D+VGE    T + +  QI  RK  
Sbjct: 177 FLVRKSVKVRTKPVDKNFELSIVAPRLNEENGTRNCDIVGEENNGTKYDVDKQILFRKPP 236

Query: 235 QNDLLLEPLIVESNFKLPLMIKRLISSTVDGLERGNEPIPSSEGSGGAYFMQDSSGQKYI 294
             D L+EP+IV    +LP +IK ++++T DGLE  N PI S EG+GGAYFMQD SGQK++
Sbjct: 237 DRDFLIEPIIVNPKIELPYVIKDMVNATFDGLECRNNPIRSMEGTGGAYFMQDYSGQKFV 296

Query: 295 SVFKPMDEEPMSVNNPRGLPISVDGEGLKKGTRAGEGALREVAAYILDHPRDATYSLHDE 354
           SVFKP+DEEPM+VNNPRGLP+S DGEGLK+GTR GEGA REVAAYILDHP    +SL  +
Sbjct: 297 SVFKPVDEEPMAVNNPRGLPLSTDGEGLKRGTRVGEGAFREVAAYILDHPESGRWSLFGD 356

Query: 355 ERGFAGVPPTVMVRCLHKGFNHPNGYKHDLENVKIGSLQMFVENVGSCEEMGPRAFPVDE 414
           E+GFAGVPPTVMV+C HKGFNH +  K     VK+GSLQMF+EN GSCE+MGP AFPV E
Sbjct: 357 EKGFAGVPPTVMVKCFHKGFNHVDDIK-----VKVGSLQMFMENNGSCEDMGPGAFPVKE 411

Query: 415 VHKISVLDIRLANTDRHAGNILVSKD-EGGQIKLVPIDHGYCLPYSV--CPFSFPLYP 469
           VHKI+VLDIR+AN DRHAGNIL+S+D E GQ  L+PIDHGYCLP S   C F +  +P
Sbjct: 412 VHKIAVLDIRMANADRHAGNILLSRDAENGQTLLIPIDHGYCLPDSFEDCTFDWLYWP 469

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297828377|ref|XP_002882071.1| phosphatidylinositol 3-and 4-kinase family protein [Arabidopsis lyrata subsp. lyrata] gi|297327910|gb|EFH58330.1| phosphatidylinositol 3-and 4-kinase family protein [Arabidopsis lyrata subsp. lyrata]

 Score =  564 bits (1454), Expect = e-158,   Method: Compositional matrix adjust.
 Identities = 285/472 (60%), Positives = 352/472 (74%), Gaps = 23/472 (4%)

Query: 1   MSMACVALSPVLEESLNFPGNFTHR-PEKLSNDSILIFLSVGGSVIPMRVMESDSIASVK 59
           MS A VALSPV  E L  P    +   +   +D+I+I+L++ G+VIPMRV+ESDSI SVK
Sbjct: 1   MSSAGVALSPVRSEPLIMPLVRANSCADSYPDDTIMIYLTLPGTVIPMRVLESDSIESVK 60

Query: 60  LRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDLQAITVTTVCG 119
           LRIQSY GF V+ QKLVF GRELARSNS +RDYG+++GN+LHLVL+LSDLQ + V T CG
Sbjct: 61  LRIQSYRGFVVRNQKLVFGGRELARSNSNMRDYGVSEGNILHLVLKLSDLQVLDVKTTCG 120

Query: 120 KVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIH 179
           K   FHVERGRN+GYVK+QI+KK  +FVD   QEL+ +GE+LEDQ LI DIC+ +++V+H
Sbjct: 121 KHCRFHVERGRNIGYVKKQISKKRGDFVDPDEQELLYEGEKLEDQSLINDICRNDDSVLH 180

Query: 180 LLVRKSAKVRAKPVQKDFEVSIEATELNEKGADVVGEHQFETLFMGYQIRERKLLQNDLL 239
           LLVR+SAKVRAKPV+K+FE+SI A +  +K                 +  +R +    L 
Sbjct: 181 LLVRRSAKVRAKPVEKNFELSIVAPQAKDKKG---------------READRIVPPKKLS 225

Query: 240 LEPLIVESNFKLPLMIKRLISSTVDGLERGNEPIPSSEGSGGAYFMQDSSGQKYISVFKP 299
           LEP+IV S  K+PL++K +I S  DGL+ GN P+ S EG+GGAYFMQ  SG K++ VFKP
Sbjct: 226 LEPVIVNSKAKVPLVVKDMIKSASDGLKSGNSPVRSREGTGGAYFMQGPSGNKFVGVFKP 285

Query: 300 MDEEPMSVNNPRGLPISVDGEGLKKGTRAGEGALREVAAYILDHPRDATYSLHDEERGFA 359
           +DEEPM+ NNP+GLP+S +GEGLKKGT+ GEGALREVAAYILDHP+    S+  EE GFA
Sbjct: 286 IDEEPMAENNPQGLPLSPNGEGLKKGTKVGEGALREVAAYILDHPKIGNRSMSGEEIGFA 345

Query: 360 GVPPTVMVRCLHKGFNHPNGYKHDLENVKIGSLQMFVENVGSCEEMGPRAFPVDEVHKIS 419
           GVPPT M+ CLH GFNHP G K      KIGSLQMF EN GSCE+MGP +FPV+EVHKIS
Sbjct: 346 GVPPTAMIECLHPGFNHPKGIK-----TKIGSLQMFTENDGSCEDMGPLSFPVEEVHKIS 400

Query: 420 VLDIRLANTDRHAGNILVSKDEGGQIKLVPIDHGYCLPYSV--CPFSFPLYP 469
           VLDIRLAN DRH GNIL++KDE G++ LVPIDHGYCLP S   C F +  +P
Sbjct: 401 VLDIRLANADRHGGNILMTKDENGKLVLVPIDHGYCLPESFEDCTFEWLYWP 452

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18407090|ref|NP_566076.1| phosphoinositide 4-kinase gamma 4 [Arabidopsis thaliana] gi|42571253|ref|NP_973700.1| phosphoinositide 4-kinase gamma 4 [Arabidopsis thaliana] gi|16930425|gb|AAL31898.1|AF419566_1 At2g46500/F11C10.19 [Arabidopsis thaliana] gi|4415931|gb|AAD20161.1| expressed protein [Arabidopsis thaliana] gi|20197828|gb|AAM15268.1| expressed protein [Arabidopsis thaliana] gi|27363382|gb|AAO11610.1| At2g46500/F11C10.19 [Arabidopsis thaliana] gi|330255614|gb|AEC10708.1| phosphoinositide 4-kinase gamma 4 [Arabidopsis thaliana] gi|330255615|gb|AEC10709.1| phosphoinositide 4-kinase gamma 4 [Arabidopsis thaliana]

 Score =  564 bits (1453), Expect = e-158,   Method: Compositional matrix adjust.
 Identities = 286/474 (60%), Positives = 352/474 (74%), Gaps = 27/474 (5%)

Query: 1   MSMACVALSPVLEESLNFPGNFTHRP-EKLSNDSILIFLSVGGSVIPMRVMESDSIASVK 59
           MS A VALSPV  E L  P    +   +   +D+I+I+L++ GSVIPMRV+ESDSI SVK
Sbjct: 1   MSSAGVALSPVRSEPLIMPLVRANSCLDSYPDDTIMIYLTLPGSVIPMRVLESDSIESVK 60

Query: 60  LRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDLQAITVTTVCG 119
           LRIQSY GF V+ QKLVF GRELARSNS +RDYG+++GN+LHLVL+LSDLQ + V T CG
Sbjct: 61  LRIQSYRGFVVRNQKLVFGGRELARSNSNMRDYGVSEGNILHLVLKLSDLQVLDVKTTCG 120

Query: 120 KVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIH 179
           K   FHVERGRN+GYVK+QI+KK  +FVD   QE++ +GE+LEDQ LI DIC+ +++V+H
Sbjct: 121 KHCRFHVERGRNIGYVKKQISKKRGDFVDPDEQEILYEGEKLEDQSLINDICRNDDSVLH 180

Query: 180 LLVRKSAKVRAKPVQKDFEVSIEATELNEKGADVVGEHQFETLFMGYQIRERKLL--QND 237
           LLVR+SAKVR KPV+K+FE+SI A +  +K                   RE K +     
Sbjct: 181 LLVRRSAKVRVKPVEKNFELSIVAPQAKDKKG-----------------REAKSIVPPKK 223

Query: 238 LLLEPLIVESNFKLPLMIKRLISSTVDGLERGNEPIPSSEGSGGAYFMQDSSGQKYISVF 297
           L LEP++V S  K+PL++K +I S  DGL+ GN P+ SSEG+GGAYFMQ  SG K++ VF
Sbjct: 224 LSLEPVVVNSKAKVPLVVKDMIQSASDGLKSGNSPVRSSEGTGGAYFMQGPSGNKFVGVF 283

Query: 298 KPMDEEPMSVNNPRGLPISVDGEGLKKGTRAGEGALREVAAYILDHPRDATYSLHDEERG 357
           KP+DEEPM+ NNP+GLP+S +GEGLKKGT+ GEGALREVAAYILDHP+    S+  EE G
Sbjct: 284 KPIDEEPMAENNPQGLPLSPNGEGLKKGTKVGEGALREVAAYILDHPKSGNKSMFGEEIG 343

Query: 358 FAGVPPTVMVRCLHKGFNHPNGYKHDLENVKIGSLQMFVENVGSCEEMGPRAFPVDEVHK 417
           FAGVPPT M+ CLH GFNHP G K      KIGSLQMF EN GSCE+MGP +FPV+EVHK
Sbjct: 344 FAGVPPTAMIECLHPGFNHPKGIK-----TKIGSLQMFTENDGSCEDMGPLSFPVEEVHK 398

Query: 418 ISVLDIRLANTDRHAGNILVSKDEGGQIKLVPIDHGYCLPYSV--CPFSFPLYP 469
           ISVLDIRLAN DRH GNIL++KDE G++ LVPIDHGYCLP S   C F +  +P
Sbjct: 399 ISVLDIRLANADRHGGNILMTKDESGKLVLVPIDHGYCLPESFEDCTFEWLYWP 452

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	469
TAIR|locus:2169774	574	AT5G24240 [Arabidopsis thalian	0.974	0.796	0.641	4.5e-153
TAIR|locus:2039064	566	PI4K GAMMA 4 "phosphoinositide	0.797	0.660	0.574	1.5e-113
TAIR|locus:2019419	301	AT1G64460 [Arabidopsis thalian	0.394	0.614	0.632	1.1e-62
TAIR|locus:2019459	213	AT1G64470 "AT1G64470" [Arabido	0.407	0.896	0.552	1.5e-49
TAIR|locus:2023865	622	AT1G13640 "AT1G13640" [Arabido	0.432	0.326	0.421	3.7e-42
TAIR|locus:2056799	650	PI4K GAMMA 7 "AT2G03890" [Arab	0.407	0.293	0.420	4.3e-42
TAIR|locus:2028798	630	AT1G26270 "AT1G26270" [Arabido	0.405	0.301	0.417	2e-39
TAIR|locus:2102604	536	AT3G56600 [Arabidopsis thalian	0.398	0.348	0.415	4e-35
TAIR|locus:2058485	561	PI4K GAMMA 1 "AT2G40850" [Arab	0.405	0.338	0.388	4.2e-32
DICTYBASE|DDB_G0291370	401	DDB_G0291370 "phosphatidylinos	0.371	0.433	0.394	1.1e-23

TAIR|locus:2169774 AT5G24240 [Arabidopsis thaliana (taxid:3702)]

 Score = 1493 (530.6 bits), Expect = 4.5e-153, P = 4.5e-153
 Identities = 303/472 (64%), Positives = 361/472 (76%)

Query:     1 MSMACVALSPVLEESLNFPGNFTHRPEKLSNDSILIFLSVGGSVIPMRVMESDSIASVKL 60
             MS+A VALSP LEE +NFPG        L +D IL+FL++ GSVIP RVMESDSIASVKL
Sbjct:     1 MSVASVALSPALEELVNFPGIIGRFGFNL-DDPILVFLTIAGSVIPKRVMESDSIASVKL 59

Query:    61 RIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDLQAITVTTVCGK 120
             RIQS  GFFVKKQKL+++GRE++R++S++RDYGLADG +LHLV+RLSDLQAI+V TV GK
Sbjct:    60 RIQSIKGFFVKKQKLLYDGREVSRNDSQIRDYGLADGKLLHLVIRLSDLQAISVRTVDGK 119

Query:   121 VFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHL 180
              FE  VER RNVGYVKQQIA K +E    ++ EL  DGEEL+DQRLITD+C+  + VIHL
Sbjct:   120 EFELVVERSRNVGYVKQQIASKEKELGIPRDHELTLDGEELDDQRLITDLCQNGDNVIHL 179

Query:   181 LVRKSAKVRAKPVQKDFEVSIEATELNEKGADVVGEHQFETLFMGYQIRERKLLQNDLLL 240
             L+ KSAKVRAKPV KDFEV IE  ++N K  +V G         G  I   +    +  +
Sbjct:   180 LISKSAKVRAKPVGKDFEVFIE--DVNHKH-NVDGRR-------GKNISS-EAKPKEFFV 228

Query:   241 EPLIVESNFKLPLMIKRLISSTVDGLERGNEPIPSSEGSGGAYFMQDSSGQKYISVFKPM 300
             EP IV    KLP+++K LISST++GLE+GN PI SS+GSGGAYFMQD SG KY+SVFKP+
Sbjct:   229 EPFIVNPEIKLPILLKELISSTLEGLEKGNGPIRSSDGSGGAYFMQDPSGHKYVSVFKPI 288

Query:   301 DEEPMSVNNPRGLPISVDGEGLKKGTRAGEGALREVAAYILDHPRDATYSLHDEERGFAG 360
             DEEPM+VNNP G P+SVDGEGLKKGT+ GEGA+REVAAYILD+P     +   ++ GFAG
Sbjct:   289 DEEPMAVNNPHGQPVSVDGEGLKKGTQVGEGAIREVAAYILDYPMTGPRTFPHDQTGFAG 348

Query:   361 VPPTVMVRCLHKGFNHPNGYKHDLENVKIGSLQMFVENVGSCEEMGPRAFPVDEVHKISV 420
             VPPT MV+CLHK FNHPNGY    EN KIGSLQMFV NVGSCE+MG R FPVD+VHKISV
Sbjct:   349 VPPTTMVKCLHKDFNHPNGYSFSPENTKIGSLQMFVSNVGSCEDMGYRVFPVDQVHKISV 408

Query:   421 LDIRLANTDRHAGNILVSKD-EGGQIKLVPIDHGYCLP--YSVCPFSFPLYP 469
             LDIRLAN DRHAGNILVS+D + GQ+ L PIDHGYC P  +  C F +  +P
Sbjct:   409 LDIRLANADRHAGNILVSRDGKDGQMVLTPIDHGYCFPNKFEDCTFEWLYWP 460

GO:0009507 "chloroplast" evidence=ISM

GO:0016773 "phosphotransferase activity, alcohol group as acceptor" evidence=IEA

GO:0005777 "peroxisome" evidence=IDA

GO:0005829 "cytosol" evidence=RCA

TAIR|locus:2039064 PI4K GAMMA 4 "phosphoinositide 4-kinase gamma 4" [Arabidopsis thaliana (taxid:3702)]

 Score = 1120 (399.3 bits), Expect = 1.5e-113, P = 1.5e-113
 Identities = 224/390 (57%), Positives = 290/390 (74%)

Query:     1 MSMACVALSPVLEESLNFP-GNFTHRPEKLSNDSILIFLSVGGSVIPMRVMESDSIASVK 59
             MS A VALSPV  E L  P        +   +D+I+I+L++ GSVIPMRV+ESDSI SVK
Sbjct:     1 MSSAGVALSPVRSEPLIMPLVRANSCLDSYPDDTIMIYLTLPGSVIPMRVLESDSIESVK 60

Query:    60 LRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDLQAITVTTVCG 119
             LRIQSY GF V+ QKLVF GRELARSNS +RDYG+++GN+LHLVL+LSDLQ + V T CG
Sbjct:    61 LRIQSYRGFVVRNQKLVFGGRELARSNSNMRDYGVSEGNILHLVLKLSDLQVLDVKTTCG 120

Query:   120 KVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIH 179
             K   FHVERGRN+GYVK+QI+KK  +FVD   QE++ +GE+LEDQ LI DIC+ +++V+H
Sbjct:   121 KHCRFHVERGRNIGYVKKQISKKRGDFVDPDEQEILYEGEKLEDQSLINDICRNDDSVLH 180

Query:   180 LLVRKSAKVRAKPVQKDFEVSIEATELNEKGADVVGEHQFETLFMGYQIRERKLLQNDLL 239
             LLVR+SAKVR KPV+K+FE+SI A +  +K        + +++     +  +KL      
Sbjct:   181 LLVRRSAKVRVKPVEKNFELSIVAPQAKDKKG-----REAKSI-----VPPKKLS----- 225

Query:   240 LEPLIVESNFKLPLMIKRLISSTVDGLERGNEPIPSSEGSGGAYFMQDSSGQKYISVFKP 299
             LEP++V S  K+PL++K +I S  DGL+ GN P+ SSEG+GGAYFMQ  SG K++ VFKP
Sbjct:   226 LEPVVVNSKAKVPLVVKDMIQSASDGLKSGNSPVRSSEGTGGAYFMQGPSGNKFVGVFKP 285

Query:   300 MDEEPMSVNNPRGLPISVDGEGLKKGTRAGEGALREVAAYILDHPRDATYSLHDEERGFA 359
             +DEEPM+ NNP+GLP+S +GEGLKKGT+ GEGALREVAAYILDHP+    S+  EE GFA
Sbjct:   286 IDEEPMAENNPQGLPLSPNGEGLKKGTKVGEGALREVAAYILDHPKSGNKSMFGEEIGFA 345

Query:   360 GVPPTVMVRCLHKGFNHPNGYKHDLENVKI 389
             GVPPT M+ CLH GFNHP G K  + ++++
Sbjct:   346 GVPPTAMIECLHPGFNHPKGIKTKIGSLQM 375

GO:0009507 "chloroplast" evidence=ISM

GO:0016773 "phosphotransferase activity, alcohol group as acceptor" evidence=IEA

GO:0004430 "1-phosphatidylinositol 4-kinase activity" evidence=IDA

GO:0046854 "phosphatidylinositol phosphorylation" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0000165 "MAPK cascade" evidence=RCA

GO:0002679 "respiratory burst involved in defense response" evidence=RCA

GO:0006499 "N-terminal protein myristoylation" evidence=RCA

GO:0006612 "protein targeting to membrane" evidence=RCA

GO:0006944 "cellular membrane fusion" evidence=RCA

GO:0007154 "cell communication" evidence=RCA

GO:0009409 "response to cold" evidence=RCA

GO:0009414 "response to water deprivation" evidence=RCA

GO:0009611 "response to wounding" evidence=RCA

GO:0009738 "abscisic acid mediated signaling pathway" evidence=RCA

GO:0009862 "systemic acquired resistance, salicylic acid mediated signaling pathway" evidence=RCA

GO:0009867 "jasmonic acid mediated signaling pathway" evidence=RCA

GO:0010200 "response to chitin" evidence=RCA

GO:0010363 "regulation of plant-type hypersensitive response" evidence=RCA

GO:0030968 "endoplasmic reticulum unfolded protein response" evidence=RCA

GO:0031348 "negative regulation of defense response" evidence=RCA

GO:0035556 "intracellular signal transduction" evidence=RCA

GO:0042538 "hyperosmotic salinity response" evidence=RCA

GO:0043069 "negative regulation of programmed cell death" evidence=RCA

GO:0050832 "defense response to fungus" evidence=RCA

TAIR|locus:2019419 AT1G64460 [Arabidopsis thaliana (taxid:3702)]

 Score = 640 (230.4 bits), Expect = 1.1e-62, P = 1.1e-62
 Identities = 119/188 (63%), Positives = 145/188 (77%)

Query:   285 MQDSSGQKYISVFKPMDEEPMSVNNPRGLPISVDGEGLKKGTRAGEGALREVAAYILDHP 344
             MQDSSG  Y+SVFKPMDEEPM+VNNP+ LP+S DG+GLK+GTR GEGA REVAAY+LDHP
Sbjct:     1 MQDSSGLNYVSVFKPMDEEPMAVNNPQQLPVSSDGQGLKRGTRVGEGATREVAAYLLDHP 60

Query:   345 RDATYSLHDEERGFAGVPPTVMVRCLHKGFNHPNGYKH-DLENVKIGSLQMFVENVGSCE 403
             +    S+  E  GFAGVPPT MVR  HK +N+PNG+     ++ K+GSLQMF++N GSCE
Sbjct:    61 KSGLRSVSKEVMGFAGVPPTAMVRSSHKVYNYPNGFSSCATKDAKVGSLQMFMKNNGSCE 120

Query:   404 EMGPRAFPVDEVHKISVLDIRLANTDRHAGNILVSKDEGGQIKLVPIDHGYCLP--YSVC 461
             ++GP AFPV+EVHKI V DIR+AN DRHAGNIL  K E G+  L+PIDHGYCLP  +  C
Sbjct:   121 DIGPGAFPVEEVHKICVFDIRMANADRHAGNILTGKSEEGKTLLIPIDHGYCLPENFEDC 180

Query:   462 PFSFPLYP 469
              F +  +P
Sbjct:   181 TFEWLYWP 188

GO:0005634 "nucleus" evidence=ISM

GO:0016773 "phosphotransferase activity, alcohol group as acceptor" evidence=IEA

GO:0005773 "vacuole" evidence=IDA

TAIR|locus:2019459 AT1G64470 "AT1G64470" [Arabidopsis thaliana (taxid:3702)]

 Score = 516 (186.7 bits), Expect = 1.5e-49, P = 1.5e-49
 Identities = 106/192 (55%), Positives = 141/192 (73%)

Query:     1 MSMACVALSPVLEESLNFPGNFTHRPEK-LSNDSILIFLSVGGSVIPMRVMESDSIASVK 59
             MS+A VALSP+   S    G F        S  S+L+FLSV GS +PM ++ESDSIA VK
Sbjct:     1 MSVADVALSPIHRGSAFAVGGFGQSTTTHYSVKSVLVFLSVSGSTMPMLILESDSIAEVK 60

Query:    60 LRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDLQAITVTTVCG 119
             LRIQ+ NGF V++QKLVF GRELAR+ SRV+DYG+  G+VLHLVL+L D   +TV T CG
Sbjct:    61 LRIQTCNGFRVRRQKLVFSGRELARNASRVKDYGVTGGSVLHLVLKLYDPLLVTVITTCG 120

Query:   120 KVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIH 179
             KVF+FHV+R RNVGY+K++I+K+G+ F ++ +QE++  GE+L+D R+I  ICK   +VIH
Sbjct:   121 KVFQFHVDRRRNVGYLKKRISKEGKGFPEVDDQEILFKGEKLDDNRIIDGICKDGNSVIH 180

Query:   180 LLVRKSAKVRAK 191
             LLV+KS +   K
Sbjct:   181 LLVKKSVEDTVK 192

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

TAIR|locus:2023865 AT1G13640 "AT1G13640" [Arabidopsis thaliana (taxid:3702)]

 Score = 413 (150.4 bits), Expect = 3.7e-42, Sum P(2) = 3.7e-42
 Identities = 97/230 (42%), Positives = 131/230 (56%)

Query:   242 PLIVESNFKLPLMIKRLISSTVDGLERGNEPIPSSEGSGGAYFMQDSSGQKYISVFKPMD 301
             P+ + S+    L +K+  +  V  ++ G EPIP + G GGAY+ +D  GQ  +++ KP D
Sbjct:   131 PIEILSHSPCFLSLKQTANDIVKAMKMGVEPIPVNGGLGGAYYFRDEKGQS-VAIVKPTD 189

Query:   302 EEPMSVNNPRGLPISVDGE-GLKKGTRAGEGALREVAAYILDHPRDATYSLHDEERGFAG 360
             EEP + NNP+G      G+ GLK   R GE   REVAAY+LD+        H     FA 
Sbjct:   190 EEPFAPNNPKGFVGKALGQPGLKPSVRVGETGFREVAAYLLDYD-------H-----FAN 237

Query:   361 VPPTVMVRCLHKGFNHPNGY-------KHDLENVKIGSLQMFVENVGSCEEMGPRAFPVD 413
             VPPT +V+  H  FN  +G        K  L + KI S Q FV +     + G  +FPV 
Sbjct:   238 VPPTALVKITHSVFNVNDGMDGNKSREKKKLVSSKIASFQKFVPHDFDASDHGTSSFPVA 297

Query:   414 EVHKISVLDIRLANTDRHAGNILVSK-DEGG-----QIKLVPIDHGYCLP 457
              VH+I +LDIR+ NTDRH GN+LV K D+GG     Q++L+PIDHG CLP
Sbjct:   298 SVHRIGILDIRILNTDRHGGNLLVKKLDDGGVGRFGQVELIPIDHGLCLP 347

GO:0005575 "cellular_component" evidence=ND

GO:0016773 "phosphotransferase activity, alcohol group as acceptor" evidence=IEA

TAIR|locus:2056799 PI4K GAMMA 7 "AT2G03890" [Arabidopsis thaliana (taxid:3702)]

 Score = 408 (148.7 bits), Expect = 4.3e-42, Sum P(2) = 4.3e-42
 Identities = 90/214 (42%), Positives = 125/214 (58%)

Query:   254 MIKRLISSTVDGLERGNEPIPSSEGSGGAYFMQDSSGQKYISVFKPMDEEPMSVNNPRGL 313
             ++K ++   V  ++ G EP+P   G GGAY+ ++  G+  +++ KP DEEP + NNP+G 
Sbjct:   151 IVKHMVKDIVKAMKMGVEPLPVHSGLGGAYYFRNKRGES-VAIVKPTDEEPFAPNNPKGF 209

Query:   314 PISVDGE-GLKKGTRAGEGALREVAAYILDHPRDATYSLHDEERGFAGVPPTVMVRCLHK 372
                  G+ GLK   R GE   REVAAY+LD+ R            FA VPPT +V+  H 
Sbjct:   210 VGKALGQPGLKSSVRVGETGFREVAAYLLDYGR------------FANVPPTALVKITHS 257

Query:   373 GFNHPNGYK----HDLENV-KIGSLQMFVENVGSCEEMGPRAFPVDEVHKISVLDIRLAN 427
              FN  +G K     + + V KI S Q FV +     + G  +FPV  VH+I +LDIR+ N
Sbjct:   258 VFNVNDGVKGNKPREKKLVSKIASFQKFVAHDFDASDHGTSSFPVTSVHRIGILDIRIFN 317

Query:   428 TDRHAGNILVSKDEG----GQIKLVPIDHGYCLP 457
             TDRH GN+LV K +G    GQ++L+PIDHG CLP
Sbjct:   318 TDRHGGNLLVKKLDGVGMFGQVELIPIDHGLCLP 351

GO:0005575 "cellular_component" evidence=ND

GO:0016773 "phosphotransferase activity, alcohol group as acceptor" evidence=IEA

GO:0004430 "1-phosphatidylinositol 4-kinase activity" evidence=IDA

GO:0046854 "phosphatidylinositol phosphorylation" evidence=IDA

TAIR|locus:2028798 AT1G26270 "AT1G26270" [Arabidopsis thaliana (taxid:3702)]

 Score = 399 (145.5 bits), Expect = 2.0e-39, Sum P(2) = 2.0e-39
 Identities = 89/213 (41%), Positives = 126/213 (59%)

Query:   255 IKRLISSTVDGLERGNEPIPSSEGSGGAYFMQDSSGQKYISVFKPMDEEPMSVNNPRGLP 314
             ++++       +++G +P+  + G GGAY+ ++S G+  +++ KP DEEP + NNP+G  
Sbjct:   148 VRQMAKDITKAVKKGIDPVAVNSGLGGAYYFKNSRGES-VAIVKPTDEEPYAPNNPKGFV 206

Query:   315 ISVDGE-GLKKGTRAGEGALREVAAYILDHPRDATYSLHDEERGFAGVPPTVMVRCLHKG 373
                 G+ GLK+  R GE   REVAAY+LD         H     FA VPPT +V+  H  
Sbjct:   207 GKALGQPGLKRSVRVGETGYREVAAYLLDKE-------H-----FANVPPTALVKITHSI 254

Query:   374 FNHPNGYKHD--LENV---KIGSLQMFVENVGSCEEMGPRAFPVDEVHKISVLDIRLANT 428
             FN  +G K    +E +   KI SLQ F+ +     E G   FPV  VH+I +LDIR+ NT
Sbjct:   255 FNVNDGVKASKPMEKMLVSKIASLQQFIPHDYDASEHGTSNFPVSAVHRIGILDIRILNT 314

Query:   429 DRHAGNILVSKDEG----GQIKLVPIDHGYCLP 457
             DRH+GN+LV K +G    GQ++LVPIDHG CLP
Sbjct:   315 DRHSGNLLVKKLDGDGMFGQVELVPIDHGLCLP 347

GO:0005575 "cellular_component" evidence=ND

GO:0016773 "phosphotransferase activity, alcohol group as acceptor" evidence=IEA

GO:0043424 "protein histidine kinase binding" evidence=IPI

TAIR|locus:2102604 AT3G56600 [Arabidopsis thaliana (taxid:3702)]

 Score = 380 (138.8 bits), Expect = 4.0e-35, P = 4.0e-35
 Identities = 89/214 (41%), Positives = 123/214 (57%)

Query:   255 IKRLISSTVDGLERGNEPIPSSEGSGGAYFMQDSSGQKYISVFKPMDEEPMSVNNPRGLP 314
             ++ L++     +  G +P+    G GGAY +Q   G   I+V KP+DEEP++ NNP+G  
Sbjct:    90 VRSLVAEVTIAIVSGAQPLLLPSGLGGAYLLQTEKGNN-IAVAKPVDEEPLAFNNPKGSG 148

Query:   315 -ISVDGEGLKKGTRAGEGALREVAAYILDHPRDATYSLHDEERGFAGVPPTVMVRCLHKG 373
              +++   G+K+  R GE  +RE+AAY+LDH            +GF+ VPPT +VR  H  
Sbjct:   149 GLTLGQPGMKRSIRVGESGIRELAAYLLDH------------QGFSSVPPTALVRISHVP 196

Query:   374 FNHPNGYKHDLENVKIGSLQMFVENVGSCEEMGPRAFPVDEVHKISVLDIRLANTDRHAG 433
             F H  G  H     K+ SLQ FV +     E+GP +F V  VH+I +LD+R+ N DRHAG
Sbjct:   197 F-HDRGSDHAA--YKVASLQRFVGHDFDAGELGPGSFTVVSVHRIGILDVRVLNLDRHAG 253

Query:   434 NILVSK----DE-----G-GQIKLVPIDHGYCLP 457
             N+LV K    DE     G G  +LVPIDHG CLP
Sbjct:   254 NMLVKKIHDQDETTCSNGVGAAELVPIDHGLCLP 287

GO:0016773 "phosphotransferase activity, alcohol group as acceptor" evidence=IEA

GO:0006944 "cellular membrane fusion" evidence=RCA

TAIR|locus:2058485 PI4K GAMMA 1 "AT2G40850" [Arabidopsis thaliana (taxid:3702)]

 Score = 355 (130.0 bits), Expect = 4.2e-32, P = 4.2e-32
 Identities = 82/211 (38%), Positives = 117/211 (55%)

Query:   255 IKRLISSTVDGLERGNEPIPSSEGSGGAYFMQDSSGQKYISVFKPMDEEPMSVNNPRGLP 314
             ++ L++     +  G +P+    G GGAY +Q   G   I+V KP+DEEP++ NNP+   
Sbjct:   107 VRALVAEVTMAMVSGAQPLLLPSGMGGAYLLQTGKGHN-IAVAKPVDEEPLAFNNPKKSG 165

Query:   315 ISVDGE-GLKKGTRAGEGALREVAAYILDHPRDATYSLHDEERGFAGVPPTVMVRCLHKG 373
               + G+ G+K     GE  +RE+AAY+LD+            +GF+GVPPT +V   H  
Sbjct:   166 NLMLGQPGMKHSIPVGETGIRELAAYLLDY------------QGFSGVPPTALVSISHVP 213

Query:   374 FNHPNGYKHDLENVKIGSLQMFVENVGSCEEMGPRAFPVDEVHKISVLDIRLANTDRHAG 433
             F+  + +       K+ SLQ FV +     E+GP +F    VH+I +LD+RL N DRHAG
Sbjct:   214 FHVSDAFSFSSMPYKVASLQRFVGHDFDAGELGPGSFTATSVHRIGILDVRLLNLDRHAG 273

Query:   434 NILVS---KDEG----GQIKLVPIDHGYCLP 457
             N+LV    K E     G  +LVPIDHG CLP
Sbjct:   274 NMLVKRCDKKEAYNRLGTAELVPIDHGLCLP 304

GO:0005575 "cellular_component" evidence=ND

GO:0016773 "phosphotransferase activity, alcohol group as acceptor" evidence=IEA

DICTYBASE|DDB_G0291370 DDB_G0291370 "phosphatidylinositol 3-kinase-related protein kinase" [Dictyostelium discoideum (taxid:44689)]

 Score = 286 (105.7 bits), Expect = 1.1e-23, P = 1.1e-23
 Identities = 80/203 (39%), Positives = 111/203 (54%)

Query:   270 NEPIPSSEG-SGGAYFMQDSSGQKYISVFKPMDEEPMSVNNPRGLPISVDGEGLKKGTRA 328
             + P   SEG  GG YF+Q       ISVFKP DEE    N   G   S+   G+K GT  
Sbjct:    88 SSPKLCSEGVGGGVYFIQGEKDTHPISVFKPRDEE----NGIIGPNHSM--MGMKAGTLP 141

Query:   329 GEGALREVAAYILDHPRDATYSLHDEERGFAGVPPTVMVRCLHKGFN---HPNGYK---- 381
             GEG  +EVA Y+ D        LH   +G+ GVP T +V   H  +N     +G      
Sbjct:   142 GEGVFKEVAIYLFDQ-------LH---KGYFGVPVTTLVEVQHPIWNKQQQADGAATEND 191

Query:   382 ---HDLENVK-IGSLQMFVENVGSCEEMGPRAFPVDEVHKISVLDIRLANTDRHAGNILV 437
                ++L  VK IGSLQ ++    + +E+G   F VD++H+I +LD  + N DRH+GN+LV
Sbjct:   192 SNFNELLGVKKIGSLQEYIVYEDTADEVGCSKFSVDDIHRIGLLDSLVLNCDRHSGNLLV 251

Query:   438 -SKDEGGQIKLVPIDHGYCLPYS 459
              +K++  +++LVPIDH  CLP S
Sbjct:   252 VAKEDSDRLELVPIDHSLCLPSS 274

GO:0016773 "phosphotransferase activity, alcohol group as acceptor" evidence=IEA

GO:0016310 "phosphorylation" evidence=IEA

GO:0016301 "kinase activity" 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

Your Input: fgenesh2_kg.6__2416__AT5G24240.1 annotation not avaliable (574 aa) (Arabidopsis lyrata)

Predicted Functional Partners:

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

---

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	469
pfam00454	233	pfam00454, PI3_PI4_kinase, Phosphatidylinositol 3-	3e-35
pfam00240	69	pfam00240, ubiquitin, Ubiquitin family	3e-12
cd01769	69	cd01769, UBL, Ubiquitin-like domain of UBL	7e-08
cd01803	76	cd01803, Ubiquitin, Ubiquitin	2e-07
smart00213	72	smart00213, UBQ, Ubiquitin homologues	7e-07
cd01800	76	cd01800, SF3a120_C, Ubiquitin-like domain of Mamma	4e-06
pfam00240	69	pfam00240, ubiquitin, Ubiquitin family	1e-05
cd01803	76	cd01803, Ubiquitin, Ubiquitin	2e-05
cd01806	76	cd01806, Nedd8, Nebb8-like ubiquitin protein	5e-05
TIGR03843	253	TIGR03843, TIGR03843, conserved hypothetical prote	1e-04
cd01802	103	cd01802, AN1_N, ubiquitin-like domain of AN1	2e-04
smart00213	72	smart00213, UBQ, Ubiquitin homologues	6e-04
cd01809	72	cd01809, Scythe_N, Ubiquitin-like domain of Scythe	8e-04
cd01769	69	cd01769, UBL, Ubiquitin-like domain of UBL	0.001
PTZ00044	76	PTZ00044, PTZ00044, ubiquitin; Provisional	0.002

>gnl|CDD|189554 pfam00454, PI3_PI4_kinase, Phosphatidylinositol 3- and 4-kinase

 Score =  130 bits (330), Expect = 3e-35
 Identities = 56/197 (28%), Positives = 69/197 (35%), Gaps = 36/197 (18%)

Query: 280 GGAYFMQDSSGQKYISVFKPMDEEPMSVNNPRGLPISVDGEGLKKGTRAGEGALREVAAY 339
           GG    QD    + I                          GL     +GEG  R +AAY
Sbjct: 8   GGDDLRQDERVLQLI--------------------------GLMNKLLSGEGLDRRLAAY 41

Query: 340 ILDH--PRDATYSLHDEERGFAGVPPTVMVRCLHKGFNHPNGYKHDLENV----KIGSLQ 393
           ++    P              A +P T MV+     FN+               K+G LQ
Sbjct: 42  LVIPLGPGSGLIEWVPNSTTLAEIPRTYMVKKGIPLFNYSRKVLVFESRTALFPKVGLLQ 101

Query: 394 MFVENVGSCEEMG-PRAFPVDEVHKISVLDIRLANTDRHAGNILVSKDEGGQIKLVPIDH 452
            FV++    EE G  R   V     +SVLD  L N DRH  NILV K  G   KL  ID 
Sbjct: 102 WFVKHFPDAEEWGEARKNFVRSCAGMSVLDYILGNGDRHLDNILVDKTTG---KLFHIDF 158

Query: 453 GYCLPYSVCPFSFPLYP 469
           G C P +         P
Sbjct: 159 GLCFPKAKRGPKPERVP 175

Some members of this family probably do not have lipid kinase activity and are protein kinases, . Length = 233

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

 Score = 61.5 bits (150), Expect = 3e-12
 Identities = 25/67 (37%), Positives = 42/67 (62%), Gaps = 1/67 (1%)

Query: 41  GGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVL 100
            G  I + V  SD+++ +K +I+   G  V +Q+L+F G+ L   ++ + +YG+ DG+ L
Sbjct: 4   DGKTITLEVDPSDTVSELKEKIEDKEGIPVDQQRLIFSGKVL-EDDTTLSEYGIQDGSTL 62

Query: 101 HLVLRLS 107
           HLVLRL 
Sbjct: 63  HLVLRLR 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|176364 cd01769, UBL, Ubiquitin-like domain of UBL

 Score = 49.2 bits (118), Expect = 7e-08
 Identities = 22/65 (33%), Positives = 39/65 (60%), Gaps = 1/65 (1%)

Query: 41  GGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVL 100
            G    + V   D++A +K +I +  G   ++Q+L++ G+ L + +  + DYG+ DG+ L
Sbjct: 6   TGKTFELEVSPDDTVAELKAKIAAKEGVPPEQQRLIYAGKIL-KDDKTLSDYGIQDGSTL 64

Query: 101 HLVLR 105
           HLVLR
Sbjct: 65  HLVLR 69

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

>gnl|CDD|176398 cd01803, Ubiquitin, Ubiquitin

 Score = 47.6 bits (113), Expect = 2e-07
 Identities = 27/72 (37%), Positives = 42/72 (58%), Gaps = 2/72 (2%)

Query: 36  IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
           IF+ ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L      + DY +
Sbjct: 3   IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTLSDYNI 61

Query: 95  ADGNVLHLVLRL 106
              + LHLVLRL
Sbjct: 62  QKESTLHLVLRL 73

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

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

 Score = 46.1 bits (110), Expect = 7e-07
 Identities = 22/65 (33%), Positives = 40/65 (61%), Gaps = 1/65 (1%)

Query: 41  GGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVL 100
            G  I + V  SD+++ +K +I    G   ++Q+L+++G+ L   +  + DYG+ DG+ +
Sbjct: 9   DGKTITLEVKPSDTVSELKEKIAELTGIPPEQQRLIYKGKVL-EDDRTLADYGIQDGSTI 67

Query: 101 HLVLR 105
           HLVLR
Sbjct: 68  HLVLR 72

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

>gnl|CDD|176395 cd01800, SF3a120_C, Ubiquitin-like domain of Mammalian splicing factor SF3a_120

 Score = 44.0 bits (104), Expect = 4e-06
 Identities = 22/65 (33%), Positives = 36/65 (55%), Gaps = 1/65 (1%)

Query: 41  GGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVL 100
            G ++   +  SD ++ +K++I    G    KQKL +EG  +  SNS    Y LA+G ++
Sbjct: 6   NGQMLNFTLQLSDPVSVLKVKIHEETGMPAGKQKLQYEGIFIKDSNSLAY-YNLANGTII 64

Query: 101 HLVLR 105
           HL L+
Sbjct: 65  HLQLK 69

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. Length = 76

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

 Score = 42.6 bits (101), Expect = 1e-05
 Identities = 18/68 (26%), Positives = 35/68 (51%), Gaps = 2/68 (2%)

Query: 116 TVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNE 175
           T+ GK     V+    V  +K++I  K    + +  Q LI  G+ LED   +++   ++ 
Sbjct: 2   TLDGKTITLEVDPSDTVSELKEKIEDKEG--IPVDQQRLIFSGKVLEDDTTLSEYGIQDG 59

Query: 176 AVIHLLVR 183
           + +HL++R
Sbjct: 60  STLHLVLR 67

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|176398 cd01803, Ubiquitin, Ubiquitin

 Score = 42.2 bits (99), Expect = 2e-05
 Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 2/72 (2%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
           I V T+ GK     VE    +  VK +I  K  E +    Q LI  G++LED R ++D  
Sbjct: 3   IFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSDYN 60

Query: 172 KRNEAVIHLLVR 183
            + E+ +HL++R
Sbjct: 61  IQKESTLHLVLR 72

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

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

 Score = 40.9 bits (96), Expect = 5e-05
 Identities = 20/65 (30%), Positives = 37/65 (56%), Gaps = 1/65 (1%)

Query: 42  GSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLH 101
           G  I + +  +D +  +K R++   G   ++Q+L++ G+++   +    DY L  G+VLH
Sbjct: 10  GKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMN-DDKTAADYKLEGGSVLH 68

Query: 102 LVLRL 106
           LVL L
Sbjct: 69  LVLAL 73

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|234372 TIGR03843, TIGR03843, conserved hypothetical protein

 Score = 43.4 bits (103), Expect = 1e-04
 Identities = 40/158 (25%), Positives = 58/158 (36%), Gaps = 61/158 (38%)

Query: 325 GTRAGEGALREVAAYILDHPRDATYSLHDEERGFAGVPPTVMVRCLHKGFNHPNGYKHDL 384
           GT AG    REVAAY++            E  G+  VPPTV    L  G   P G     
Sbjct: 50  GTLAG----REVAAYLVS-----------EALGWGLVPPTV----LRDG---PFG----- 82

Query: 385 ENVKIGSLQMFVENVGSCE----------------------EMGPRAFPVDEVH----KI 418
                G +Q++++     +                      E G     V   H    ++
Sbjct: 83  ----PGMVQLWIDPDDDPDLVDLVPAGEVPEGWLPVLRAEDEEGEPVVLVHADHPQLRRM 138

Query: 419 SVLDIRLANTDRHAGNILVSKDEGGQIKLVPIDHGYCL 456
           +V D  + N DR  G++L   D  G++    +DHG C 
Sbjct: 139 AVFDALVNNADRKGGHVLPGPD--GRV--WGVDHGVCF 172

This model represents a protein family largely restricted to the Actinobacteria (high-GC Gram-positives), although it is also found in the Chloroflexi. Distant similarity to the phosphatidylinositol 3- and 4-kinase is suggested by the matching of some members to pfam00454. Length = 253

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

 Score = 40.6 bits (95), Expect = 2e-04
 Identities = 23/76 (30%), Positives = 43/76 (56%), Gaps = 2/76 (2%)

Query: 32  DSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVR 90
           D++ +F+ ++ G+   +RV   +++ SVK +IQ   G  V +Q L++   EL      + 
Sbjct: 26  DTMELFIETLTGTCFELRVSPFETVISVKAKIQRLEGIPVAQQHLIWNNMELEDEYC-LN 84

Query: 91  DYGLADGNVLHLVLRL 106
           DY +++G  L LVL +
Sbjct: 85  DYNISEGCTLKLVLAM 100

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|214563 smart00213, UBQ, Ubiquitin homologues

 Score = 38.0 bits (89), Expect = 6e-04
 Identities = 23/72 (31%), Positives = 39/72 (54%), Gaps = 2/72 (2%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
           +TV T+ GK     V+    V  +K++IA+     +  + Q LI  G+ LED R + D  
Sbjct: 3   LTVKTLDGKTITLEVKPSDTVSELKEKIAE--LTGIPPEQQRLIYKGKVLEDDRTLADYG 60

Query: 172 KRNEAVIHLLVR 183
            ++ + IHL++R
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|176404 cd01809, Scythe_N, Ubiquitin-like domain of Scythe protein

 Score = 37.6 bits (88), Expect = 8e-04
 Identities = 16/47 (34%), Positives = 29/47 (61%), Gaps = 1/47 (2%)

Query: 59  KLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLR 105
           K +I    G  V++Q+L++ GR L + +  + +Y + DG+ +HLV R
Sbjct: 27  KEKIAEEVGIPVEQQRLIYSGRVL-KDDETLSEYKVEDGHTIHLVKR 72

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 = 36.9 bits (86), Expect = 0.001
 Identities = 25/71 (35%), Positives = 40/71 (56%), Gaps = 2/71 (2%)

Query: 113 TVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICK 172
           TV T+ GK FE  V     V  +K +IA K  E V  + Q LI  G+ L+D + ++D   
Sbjct: 1   TVKTLTGKTFELEVSPDDTVAELKAKIAAK--EGVPPEQQRLIYAGKILKDDKTLSDYGI 58

Query: 173 RNEAVIHLLVR 183
           ++ + +HL++R
Sbjct: 59  QDGSTLHLVLR 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|185411 PTZ00044, PTZ00044, ubiquitin; Provisional

 Score = 36.7 bits (85), Expect = 0.002
 Identities = 15/55 (27%), Positives = 35/55 (63%), Gaps = 1/55 (1%)

Query: 52  SDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRL 106
            +++  VK+ +Q   G  VK+ +L++ G++++    ++ DY +  G+ +H+VL+L
Sbjct: 20  DNTVQQVKMALQEKEGIDVKQIRLIYSGKQMSDDL-KLSDYKVVPGSTIHMVLQL 73

Length = 76

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	469
KOG2381	286	consensus Phosphatidylinositol 4-kinase [Signal tr	100.0
TIGR03843	253	conserved hypothetical protein. This model represe	100.0
cd01802	103	AN1_N ubiquitin-like domain of AN1. AN1 (also know	99.69
cd01807	74	GDX_N ubiquitin-like domain of GDX. GDX contains a	99.63
cd01802	103	AN1_N ubiquitin-like domain of AN1. AN1 (also know	99.62
cd01793	74	Fubi Fubi ubiquitin-like protein. Fubi is a ubiqui	99.61
cd01807	74	GDX_N ubiquitin-like domain of GDX. GDX contains a	99.61
PTZ00044	76	ubiquitin; Provisional	99.6
cd01793	74	Fubi Fubi ubiquitin-like protein. Fubi is a ubiqui	99.56
cd01797	78	NIRF_N amino-terminal ubiquitin-like domain of Np9	99.55
cd01797	78	NIRF_N amino-terminal ubiquitin-like domain of Np9	99.55
PTZ00044	76	ubiquitin; Provisional	99.54
cd01798	70	parkin_N amino-terminal ubiquitin-like of parkin p	99.54
cd01810	74	ISG15_repeat2 ISG15 ubiquitin-like protein, second	99.54
cd01806	76	Nedd8 Nebb8-like ubiquitin protein. Nedd8 (also kn	99.53
cd01803	76	Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40	99.53
cd01810	74	ISG15_repeat2 ISG15 ubiquitin-like protein, second	99.52
cd01805	77	RAD23_N Ubiquitin-like domain of RAD23. RAD23 belo	99.52
KOG0003	128	consensus Ubiquitin/60s ribosomal protein L40 fusi	99.51
cd01804	78	midnolin_N Ubiquitin-like domain of midnolin. midn	99.5
cd01794	70	DC_UbP_C dendritic cell derived ubiquitin-like pro	99.5
cd01806	76	Nedd8 Nebb8-like ubiquitin protein. Nedd8 (also kn	99.49
cd01791	73	Ubl5 UBL5 ubiquitin-like modifier. UBL5 (also know	99.49
cd01798	70	parkin_N amino-terminal ubiquitin-like of parkin p	99.49
cd01803	76	Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40	99.48
cd01809	72	Scythe_N Ubiquitin-like domain of Scythe protein.	99.48
cd01791	73	Ubl5 UBL5 ubiquitin-like modifier. UBL5 (also know	99.47
KOG0004	156	consensus Ubiquitin/40S ribosomal protein S27a fus	99.47
cd01794	70	DC_UbP_C dendritic cell derived ubiquitin-like pro	99.47
cd01805	77	RAD23_N Ubiquitin-like domain of RAD23. RAD23 belo	99.46
KOG0005	70	consensus Ubiquitin-like protein [Cell cycle contr	99.46
cd01809	72	Scythe_N Ubiquitin-like domain of Scythe protein.	99.45
cd01804	78	midnolin_N Ubiquitin-like domain of midnolin. midn	99.44
cd01792	80	ISG15_repeat1 ISG15 ubiquitin-like protein, first	99.44
cd01808	71	hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC	99.43
PF00240	69	ubiquitin: Ubiquitin family; InterPro: IPR000626 U	99.41
cd01792	80	ISG15_repeat1 ISG15 ubiquitin-like protein, first	99.4
cd01800	76	SF3a120_C Ubiquitin-like domain of Mammalian splic	99.4
cd01808	71	hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC	99.4
KOG0005	70	consensus Ubiquitin-like protein [Cell cycle contr	99.39
cd01796	71	DDI1_N DNA damage inducible protein 1 ubiquitin-li	99.39
KOG0003	128	consensus Ubiquitin/60s ribosomal protein L40 fusi	99.39
cd01796	71	DDI1_N DNA damage inducible protein 1 ubiquitin-li	99.38
PF00240	69	ubiquitin: Ubiquitin family; InterPro: IPR000626 U	99.38
KOG0004	156	consensus Ubiquitin/40S ribosomal protein S27a fus	99.37
cd01812	71	BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-ter	99.32
cd01763	87	Sumo Small ubiquitin-related modifier (SUMO). Smal	99.31
cd01790	79	Herp_N Homocysteine-responsive endoplasmic reticul	99.31
cd01813	74	UBP_N UBP ubiquitin processing protease. The UBP (	99.29
cd01812	71	BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-ter	99.28
cd01800	76	SF3a120_C Ubiquitin-like domain of Mammalian splic	99.27
cd01790	79	Herp_N Homocysteine-responsive endoplasmic reticul	99.25
cd01799	75	Hoil1_N Ubiquitin-like domain of HOIL1. HOIL1_N HO	99.24
cd01763	87	Sumo Small ubiquitin-related modifier (SUMO). Smal	99.22
TIGR00601	378	rad23 UV excision repair protein Rad23. All protei	99.18
cd01815	75	BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP. BMSC	99.14
cd01813	74	UBP_N UBP ubiquitin processing protease. The UBP (	99.13
smart00213	64	UBQ Ubiquitin homologues. Ubiquitin-mediated prote	99.12
smart00213	64	UBQ Ubiquitin homologues. Ubiquitin-mediated prote	99.1
TIGR00601	378	rad23 UV excision repair protein Rad23. All protei	99.08
cd01815	75	BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP. BMSC	99.07
cd01814	113	NTGP5 Ubiquitin-like NTGP5 and ATGP4. NTGP5 and AT	99.02
cd01799	75	Hoil1_N Ubiquitin-like domain of HOIL1. HOIL1_N HO	99.0
cd01795	107	USP48_C USP ubiquitin-specific protease. The USP (	98.97
PF00454	235	PI3_PI4_kinase: Phosphatidylinositol 3- and 4-kina	98.94
cd01769	69	UBL Ubiquitin-like domain of UBL. UBLs function by	98.87
cd01814	113	NTGP5 Ubiquitin-like NTGP5 and ATGP4. NTGP5 and AT	98.83
PF11976	72	Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; Inter	98.82
KOG0010	493	consensus Ubiquitin-like protein [Posttranslationa	98.8
KOG0011	340	consensus Nucleotide excision repair factor NEF2,	98.8
cd01789	84	Alp11_N Ubiquitin-like domain of Alp11 tubulin-fol	98.79
cd01769	69	UBL Ubiquitin-like domain of UBL. UBLs function by	98.78
KOG0011	340	consensus Nucleotide excision repair factor NEF2,	98.77
KOG0010	493	consensus Ubiquitin-like protein [Posttranslationa	98.76
PF11976	72	Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; Inter	98.74
cd01795	107	USP48_C USP ubiquitin-specific protease. The USP (	98.73
KOG0001	75	consensus Ubiquitin and ubiquitin-like proteins [P	98.72
KOG0001	75	consensus Ubiquitin and ubiquitin-like proteins [P	98.66
PF14560	87	Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2K	98.43
cd01789	84	Alp11_N Ubiquitin-like domain of Alp11 tubulin-fol	98.39
cd01788	119	ElonginB Ubiquitin-like domain of Elongin B. Elong	98.35
PF13881	111	Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB	98.29
cd01788	119	ElonginB Ubiquitin-like domain of Elongin B. Elong	98.22
KOG3829	486	consensus Uncharacterized conserved protein [Funct	98.2
KOG4248	1143	consensus Ubiquitin-like protein, regulator of apo	98.19
PLN02560	308	enoyl-CoA reductase	98.18
KOG4248	1143	consensus Ubiquitin-like protein, regulator of apo	98.14
PLN02560	308	enoyl-CoA reductase	98.14
cd01811	80	OASL_repeat1 2'-5' oligoadenylate synthetase-like	98.07
PF14560	87	Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2K	98.01
PF13881	111	Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB	97.98
cd00196	69	UBQ Ubiquitin-like proteins. Ubiquitin homologs; I	97.85
PF11543	80	UN_NPL4: Nuclear pore localisation protein NPL4; I	97.77
cd00196	69	UBQ Ubiquitin-like proteins. Ubiquitin homologs; I	97.72
cd01801	77	Tsc13_N Ubiquitin-like domain of Tsc13. Tsc13_N N-	97.68
cd01801	77	Tsc13_N Ubiquitin-like domain of Tsc13. Tsc13_N N-	97.65
PF11543	80	UN_NPL4: Nuclear pore localisation protein NPL4; I	97.5
cd01811	80	OASL_repeat1 2'-5' oligoadenylate synthetase-like	97.36
KOG0006	446	consensus E3 ubiquitin-protein ligase (Parkin prot	97.3
KOG0006	446	consensus E3 ubiquitin-protein ligase (Parkin prot	97.17
KOG4495	110	consensus RNA polymerase II transcription elongati	96.73
KOG3493	73	consensus Ubiquitin-like protein [Posttranslationa	96.65
KOG3493	73	consensus Ubiquitin-like protein [Posttranslationa	96.24
PF07804	79	HipA_C: HipA-like C-terminal domain; InterPro: IPR	96.02
KOG4495	110	consensus RNA polymerase II transcription elongati	95.95
KOG1872	473	consensus Ubiquitin-specific protease [Posttransla	95.93
PF06702	221	DUF1193: Protein of unknown function (DUF1193); In	95.31
KOG1769	99	consensus Ubiquitin-like proteins [Posttranslation	95.3
PF11470	65	TUG-UBL1: GLUT4 regulating protein TUG; InterPro:	95.09
PF13019	162	Telomere_Sde2: Telomere stability and silencing	94.84
KOG1872	473	consensus Ubiquitin-specific protease [Posttransla	94.82
KOG1769	99	consensus Ubiquitin-like proteins [Posttranslation	94.63
PF10302	97	DUF2407: DUF2407 ubiquitin-like domain; InterPro:	94.57
PF08817	79	YukD: WXG100 protein secretion system (Wss), prote	94.32
PF08817	79	YukD: WXG100 protein secretion system (Wss), prote	94.08
PF11470	65	TUG-UBL1: GLUT4 regulating protein TUG; InterPro:	94.0
PF00789	82	UBX: UBX domain; InterPro: IPR001012 The UBX domai	93.66
cd00893	289	PI4Kc_III Phosphoinositide 4-kinase (PI4K), Type I	93.46
PF00789	82	UBX: UBX domain; InterPro: IPR001012 The UBX domai	93.42
KOG0013	231	consensus Uncharacterized conserved protein [Funct	93.35
PF10302	97	DUF2407: DUF2407 ubiquitin-like domain; InterPro:	93.31
KOG3206	234	consensus Alpha-tubulin folding cofactor B [Posttr	92.74
cd05177	354	PI3Kc_C2_gamma Phosphoinositide 3-kinase (PI3K), c	92.48
KOG0013	231	consensus Uncharacterized conserved protein [Funct	92.4
cd05168	293	PI4Kc_III_beta Phosphoinositide 4-kinase (PI4K), T	92.28
cd05165	366	PI3Kc_I Phosphoinositide 3-kinase (PI3K), class I,	92.27
cd05174	361	PI3Kc_IA_delta Phosphoinositide 3-kinase (PI3K), c	92.24
cd05175	366	PI3Kc_IA_alpha Phosphoinositide 3-kinase (PI3K), c	91.97
cd05167	311	PI4Kc_III_alpha Phosphoinositide 4-kinase (PI4K),	91.9
cd05166	353	PI3Kc_II Phosphoinositide 3-kinase (PI3K), class I	91.74
cd05173	362	PI3Kc_IA_beta Phosphoinositide 3-kinase (PI3K), cl	91.63
cd00891	352	PI3Kc Phosphoinositide 3-kinase (PI3K), catalytic	91.43
PF13019	162	Telomere_Sde2: Telomere stability and silencing	91.26
cd00896	350	PI3Kc_III Phosphoinositide 3-kinase (PI3K), class	91.26
cd00895	354	PI3Kc_C2_beta Phosphoinositide 3-kinase (PI3K), cl	91.21
smart00166	80	UBX Domain present in ubiquitin-regulatory protein	91.13
PF14533	213	USP7_C2: Ubiquitin-specific protease C-terminal; P	91.05
cd01770	79	p47_UBX p47-like ubiquitin domain. p47_UBX p47 is	91.02
cd01770	79	p47_UBX p47-like ubiquitin domain. p47_UBX p47 is	89.73
KOG1639	297	consensus Steroid reductase required for elongatio	89.7
COG5417	81	Uncharacterized small protein [Function unknown]	89.54
KOG1639	297	consensus Steroid reductase required for elongatio	89.22
smart00166	80	UBX Domain present in ubiquitin-regulatory protein	88.75
cd00894	365	PI3Kc_IB_gamma Phosphoinositide 3-kinase (PI3K), c	88.31
cd01772	79	SAKS1_UBX SAKS1-like UBX domain. SAKS1 (SAPK-subst	88.26
cd05176	353	PI3Kc_C2_alpha Phosphoinositide 3-kinase (PI3K), c	87.76
PF09379	80	FERM_N: FERM N-terminal domain ; InterPro: IPR0189	87.59
PF15044	76	CLU_N: Mitochondrial function, CLU-N-term	86.52
PF14836	88	Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A	86.07
cd01767	77	UBX UBX (ubiquitin regulatory X) domain. The UBX (	86.0
COG5417	81	Uncharacterized small protein [Function unknown]	85.87
PF11620	88	GABP-alpha: GA-binding protein alpha chain; InterP	85.16
cd01774	85	Faf1_like2_UBX Faf1 ike-2 UBX domain. Faf1_like2 i	85.12
KOG4583	391	consensus Membrane-associated ER protein involved	84.98
KOG0903	847	consensus Phosphatidylinositol 4-kinase, involved	84.79
PF12436	249	USP7_ICP0_bdg: ICP0-binding domain of Ubiquitin-sp	84.07
cd00892	237	PIKKc_ATR ATR (Ataxia telangiectasia and Rad3-rela	84.01
PF11620	88	GABP-alpha: GA-binding protein alpha chain; InterP	83.87
COG5227	103	SMT3 Ubiquitin-like protein (sentrin) [Posttransla	83.75
KOG0012	380	consensus DNA damage inducible protein [Replicatio	83.7
cd01767	77	UBX UBX (ubiquitin regulatory X) domain. The UBX (	83.58
COG5227	103	SMT3 Ubiquitin-like protein (sentrin) [Posttransla	83.34
PTZ00303	1374	phosphatidylinositol kinase; Provisional	83.1
cd00142	219	PI3Kc_like Phosphoinositide 3-kinase (PI3K)-like f	82.94
PF15044	76	CLU_N: Mitochondrial function, CLU-N-term	82.66
cd01774	85	Faf1_like2_UBX Faf1 ike-2 UBX domain. Faf1_like2 i	81.93
cd01772	79	SAKS1_UBX SAKS1-like UBX domain. SAKS1 (SAPK-subst	81.53
cd06406	80	PB1_P67 A PB1 domain is present in p67 proteins wh	81.08
KOG0906	843	consensus Phosphatidylinositol 3-kinase VPS34, inv	80.34
cd05169	280	PIKKc_TOR TOR (Target of rapamycin), catalytic dom	80.04

>KOG2381 consensus Phosphatidylinositol 4-kinase [Signal transduction mechanisms]

Probab=100.00  E-value=1.7e-51  Score=406.95  Aligned_cols=196  Identities=45%  Similarity=0.711  Sum_probs=177.5

Q ss_pred             HHHHHHHHcCCCCccccCCCCcEEEEEeCCCCeEEEEEecCCCCCCCcCCCCCCCCCCCC-CCccCCCcCCCcchh-hee
Q 012177          260 SSTVDGLERGNEPIPSSEGSGGAYFMQDSSGQKYISVFKPMDEEPMSVNNPRGLPISVDG-EGLKKGTRAGEGALR-EVA  337 (469)
Q Consensus       260 ~~~~~~~~~g~~p~~~~~gs~g~y~~~~~~g~~~~~vfKP~deEp~~~~nP~g~~~~~~~-~~~~~~~~~g~~~~r-Eva  337 (469)
                      .++..|++.|+.|++++.|++|+|||++..|. .+|||||+|||||+.+||+|+++...+ +|++||+++|+++.| |+|
T Consensus         2 ~~~~~a~~~g~~p~~~~~g~~gayf~~~~~~~-~~~v~kP~deEp~~~~Npk~~~~~~~g~~~~~~~~~v~~~g~~~E~a   80 (286)
T KOG2381|consen    2 REAIEAIEKGIFPELLPLGSGGAYFMQDTSGW-IVGVFKPKDEEPYARNNPKGTKVLQRGQCGCKRSCLVGNSGYRSEAA   80 (286)
T ss_pred             chHHHHhhcCCCcccccCCCchhHHHhccccc-eeeccCCCcccccccCCCccCchhhccccccccceeccCccccchhh
Confidence            56789999999999999999999999999995 599999999999999999999998854 589999999888777 999


Q ss_pred             eeecccCCCCcccccccccCCCCCCCeEEEEeccccccCCCCCCC--CCCCccceeEeeeecCcCCcccCCCCCCChhhh
Q 012177          338 AYILDHPRDATYSLHDEERGFAGVPPTVMVRCLHKGFNHPNGYKH--DLENVKIGSLQMFVENVGSCEEMGPRAFPVDEV  415 (469)
Q Consensus       338 Aylld~~~~~~~~~~~~~~g~~~VP~T~~v~~~~~~f~~~~~~~~--~~~~~k~GSlQ~fv~~~~~~~~~~~~~f~~~ev  415 (469)
                      ||||||+            +|+.||+|.+++++|+.|||++++..  .....|+||+|+||++ .++.|+++..|+++|+
T Consensus        81 ayLlD~~------------~~~~Vp~t~~v~i~~~~f~~~~~~~~~~~~~~~k~gs~q~Fve~-~~~~d~~~~~F~~~e~  147 (286)
T KOG2381|consen   81 AYLLDHP------------EFNDVPRTALVKITHFTFNYNAAFLSKRQGKKSKIGSLQLFVEG-YSAADYGLRRFEAEEV  147 (286)
T ss_pred             hhccCcc------------ccCCCCceeeEEEeeecccccccceecccccccchhhHHHhhcC-ccccceeEEecccccc
Confidence            9999985            89999999999999999999987532  2334799999999999 8888999999999999


Q ss_pred             hheeeecEEEecCCCCCCcEEEecCCCCceEEEeeecCCccCCC--CCCcCCCcCC
Q 012177          416 HKISVLDIRLANTDRHAGNILVSKDEGGQIKLVPIDHGYCLPYS--VCPFSFPLYP  469 (469)
Q Consensus       416 ~ki~ilD~~~~N~DR~~gN~Lv~~~~~~~~~l~~IDhg~~~p~~--~~~~~W~~wp  469 (469)
                      |||+|||+||+|||||+|||||++..........+|||||||++  +|+|+|+|||
T Consensus       148 hkivvlD~ri~NtDRh~~N~lvk~~~~~~~~~~~~Dhgl~fP~~~~d~~f~W~~~p  203 (286)
T KOG2381|consen  148 HKIVVLDIRIRNTDRHAGNWLVKKEPTLEQAAILGDHGLCFPEKHPDEWFEWLYWP  203 (286)
T ss_pred             ceeEEEEEEeeccCCCCCceeEEeccCcccccccccCceeCcccCCccccchHHHH
Confidence            99999999999999999999999974333345666999999999  9999999998

>TIGR03843 conserved hypothetical protein

Probab=100.00  E-value=3.2e-42  Score=330.38  Aligned_cols=153  Identities=29%  Similarity=0.486  Sum_probs=131.2

Q ss_pred             cCCCCc--cccCCCCcEEEEEeC-CCCeEEEEEecCCCCCCCcCCCCCCCCCCCCCCccCCCcCCCcchhheeeeecccC
Q 012177          268 RGNEPI--PSSEGSGGAYFMQDS-SGQKYISVFKPMDEEPMSVNNPRGLPISVDGEGLKKGTRAGEGALREVAAYILDHP  344 (469)
Q Consensus       268 ~g~~p~--~~~~gs~g~y~~~~~-~g~~~~~vfKP~deEp~~~~nP~g~~~~~~~~~~~~~~~~g~~~~rEvaAylld~~  344 (469)
                      .|.+-+  ++.++||+||+|... +|....|||||..+|.++|+||+|             ||    |.||+||||||  
T Consensus         3 ~Gel~v~gri~~aSN~t~~~~~~~~~~~~~~VYKPv~gErPLWDFpdG-------------tL----a~REvAAYlvs--   63 (253)
T TIGR03843         3 DGELTVLGRLVDASNATLLCEVTLGGVSARAVYKPVRGERPLWDFPDG-------------TL----AGREVAAYLVS--   63 (253)
T ss_pred             cceEEEEEEEccccceeEEEEEecCCeeEEEEECCcCCccccccCCCC-------------ch----HHHHHHHHHHH--
Confidence            455555  799999999999964 455678999999999999999999             78    99999999999  


Q ss_pred             CCCcccccccccCCCCCCCeEEEEeccccccCCCCCCCCCCCccceeEeeeecCcCC--------cccCCCCCCCh----
Q 012177          345 RDATYSLHDEERGFAGVPPTVMVRCLHKGFNHPNGYKHDLENVKIGSLQMFVENVGS--------CEEMGPRAFPV----  412 (469)
Q Consensus       345 ~~~~~~~~~~~~g~~~VP~T~~v~~~~~~f~~~~~~~~~~~~~k~GSlQ~fv~~~~~--------~~~~~~~~f~~----  412 (469)
                               +++||++||+|++++          |      |.|+||+|.||+++.+        +++++++++++    
T Consensus        64 ---------~~lGw~~VPpTvlrD----------G------P~G~GmvQlwie~~~~~~lv~l~~~~~~~~g~~~v~~~~  118 (253)
T TIGR03843        64 ---------EALGWGLVPPTVLRD----------G------PFGPGMVQLWIDPDDDPDLVDLVPAGEVPEGWLPVLRAE  118 (253)
T ss_pred             ---------HHhCCCcCCCeeeec----------C------CCCCceEEEeccCCCccchhhcccccccCCccccccccc
Confidence                     589999999999984          5      7899999999999754        45677888864    


Q ss_pred             --------------hhhhheeeecEEEecCCCCCCcEEEecCCCCceEEEeeecCCccCCCCCCcCCCcCC
Q 012177          413 --------------DEVHKISVLDIRLANTDRHAGNILVSKDEGGQIKLVPIDHGYCLPYSVCPFSFPLYP  469 (469)
Q Consensus       413 --------------~ev~ki~ilD~~~~N~DR~~gN~Lv~~~~~~~~~l~~IDhg~~~p~~~~~~~W~~wp  469 (469)
                                    .++|||||||++|+|+|||+||||+.++  |+  |+|||||||||+. ..++|++|+
T Consensus       119 d~~g~~v~l~h~d~~~l~riaVfDi~inNaDRk~GhiL~~~d--g~--l~~IDHGl~f~~~-~klrtvlW~  184 (253)
T TIGR03843       119 DEEGEPVVLVHADHPQLRRMAVFDALVNNADRKGGHVLPGPD--GR--VWGVDHGVCFHVE-PKLRTVLWG  184 (253)
T ss_pred             cccCcceeecccccHHHhhhhhheeeeecCCCCCCcEeEcCC--Cc--EEEecCceecCCC-Ccccccccc
Confidence                          2699999999999999999999999986  65  8999999999994 445555554

This model represents a protein family largely restricted to the Actinobacteria (high-GC Gram-positives), although it is also found in the Chloroflexi. Distant similarity to the phosphatidylinositol 3- and 4-kinase is suggested by the matching of some members to pfam00454.

>cd01802 AN1_N ubiquitin-like domain of AN1

Probab=99.69  E-value=8e-17  Score=138.45  Aligned_cols=92  Identities=23%  Similarity=0.269  Sum_probs=87.7

Q ss_pred             ccCccCccceeeeeeccccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCccccc
Q 012177           91 DYGLADGNVLHLVLRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDI  170 (469)
Q Consensus        91 dygI~~gstl~LvlrLsd~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy  170 (469)
                      .+++.+-+++|+.+++++.|+|+||+..|+++.++|++++||.+||++|+++.|++  +++|+|+|+|+.|+|+++|++|
T Consensus         9 ~~~~~~~~~~~~~~~~~~~M~I~Vk~l~G~~~~leV~~~~TV~~lK~kI~~~~gip--~~~QrLi~~Gk~L~D~~tL~dy   86 (103)
T cd01802           9 FFNEDNMGPFHYKLPFYDTMELFIETLTGTCFELRVSPFETVISVKAKIQRLEGIP--VAQQHLIWNNMELEDEYCLNDY   86 (103)
T ss_pred             ccccCCcceeEEeeccCCCEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCC--hHHEEEEECCEECCCCCcHHHc
Confidence            46777888999999999999999999999999999999999999999999999988  9999999999999999999999


Q ss_pred             CCCCCCEEEEEEee
Q 012177          171 CKRNEAVIHLLVRK  184 (469)
Q Consensus       171 ~I~~~svI~Lv~rk  184 (469)
                      +|+++++|||+++.
T Consensus        87 ~I~~~stL~l~~~l  100 (103)
T cd01802          87 NISEGCTLKLVLAM  100 (103)
T ss_pred             CCCCCCEEEEEEec
Confidence            99999999998874

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=99.63  E-value=7.3e-16  Score=124.31  Aligned_cols=73  Identities=22%  Similarity=0.324  Sum_probs=70.6

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEee
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rk  184 (469)
                      |+|+||+.+|++++++|++++||++||++|+++.|++  +++|+|+|+|++|+|+++|++|+|+++++|+|++|.
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 MFLTVKLLQGRECSLQVSEKESVSTLKKLVSEHLNVP--EEQQRLLFKGKALADDKRLSDYSIGPNAKLNLVVRP   73 (74)
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCC--HHHeEEEECCEECCCCCCHHHCCCCCCCEEEEEEcC
Confidence            7899999999999999999999999999999999988  999999999999999999999999999999999874

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

>cd01802 AN1_N ubiquitin-like domain of AN1

Probab=99.62  E-value=1.3e-15  Score=130.87  Aligned_cols=78  Identities=29%  Similarity=0.536  Sum_probs=74.6

Q ss_pred             CCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecccc
Q 012177           31 NDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDL  109 (469)
Q Consensus        31 ~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~  109 (469)
                      .+.|+|+| ++.|++++++|.+++||.+||++|++++|+|+.+|+|+|+|+.|. |+.+|++|+|+++++|||++++.++
T Consensus        25 ~~~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          25 YDTMELFIETLTGTCFELRVSPFETVISVKAKIQRLEGIPVAQQHLIWNNMELE-DEYCLNDYNISEGCTLKLVLAMRGG  103 (103)
T ss_pred             CCCEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEECCEECC-CCCcHHHcCCCCCCEEEEEEecCCC
Confidence            77899999 889999999999999999999999999999999999999999998 8999999999999999999988764

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.

>cd01793 Fubi Fubi ubiquitin-like protein

Probab=99.61  E-value=1.4e-15  Score=122.70  Aligned_cols=74  Identities=18%  Similarity=0.332  Sum_probs=69.2

Q ss_pred             EEEEEEeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecccc
Q 012177           34 ILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDL  109 (469)
Q Consensus        34 M~I~V~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~  109 (469)
                      |+|+|+. +++++++|++++||++||.+|++++|+|+++|+|+|+|++|. |+.+|++|+|++++++||++++.++
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-QNTHTLEVTGQETVSDIKAHVAGLEGIDVEDQVLLLAGVPLE-DDATLGQCGVEELCTLEVAGRLLGG   74 (74)
T ss_pred             CEEEEEC-CCEEEEEECCcCcHHHHHHHHHhhhCCCHHHEEEEECCeECC-CCCCHHHcCCCCCCEEEEEEecCCC
Confidence            7899943 478999999999999999999999999999999999999998 8999999999999999999998764

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

>cd01807 GDX_N ubiquitin-like domain of GDX

Probab=99.61  E-value=1.5e-15  Score=122.56  Aligned_cols=72  Identities=25%  Similarity=0.470  Sum_probs=69.4

Q ss_pred             EEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeec
Q 012177           34 ILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRL  106 (469)
Q Consensus        34 M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrL  106 (469)
                      |+|+| +..|++++++|.+++||.+||++|++++|+|+++|+|+|+|++|. |+.+|++|||+++++++|+++.
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 MFLTVKLLQGRECSLQVSEKESVSTLKKLVSEHLNVPEEQQRLLFKGKALA-DDKRLSDYSIGPNAKLNLVVRP   73 (74)
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEECC-CCCCHHHCCCCCCCEEEEEEcC
Confidence            79999 889999999999999999999999999999999999999999998 8999999999999999999874

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

>PTZ00044 ubiquitin; Provisional

Probab=99.60  E-value=2.7e-15  Score=121.14  Aligned_cols=75  Identities=23%  Similarity=0.533  Sum_probs=71.9

Q ss_pred             EEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecccc
Q 012177           34 ILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDL  109 (469)
Q Consensus        34 M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~  109 (469)
                      |+|+| +++|+++++++.+++||++||.+|+++.|+|+.+|+|+|+|+.|. |+.+|++|+|++++++||++++.++
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 MQILIKTLTGKKQSFNFEPDNTVQQVKMALQEKEGIDVKQIRLIYSGKQMS-DDLKLSDYKVVPGSTIHMVLQLRGG   76 (76)
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEEcc-CCCcHHHcCCCCCCEEEEEEEccCC
Confidence            89999 889999999999999999999999999999999999999999998 8999999999999999999988753

>cd01793 Fubi Fubi ubiquitin-like protein

Probab=99.56  E-value=9.4e-15  Score=117.90  Aligned_cols=71  Identities=17%  Similarity=0.168  Sum_probs=67.2

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEee
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rk  184 (469)
                      |+|+||+  +++++++|++++||++||++|++++|+|  +++|+|+|+|++|+|+++|++|+|+++++|||++|.
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--QNTHTLEVTGQETVSDIKAHVAGLEGID--VEDQVLLLAGVPLEDDATLGQCGVEELCTLEVAGRL   71 (74)
T ss_pred             CEEEEEC--CCEEEEEECCcCcHHHHHHHHHhhhCCC--HHHEEEEECCeECCCCCCHHHcCCCCCCEEEEEEec
Confidence            6899998  4789999999999999999999999988  999999999999999999999999999999999874

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.

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

Probab=99.55  E-value=1.1e-14  Score=119.04  Aligned_cols=74  Identities=26%  Similarity=0.266  Sum_probs=69.8

Q ss_pred             ceeeeeeeccee-EEEE-eecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeC
Q 012177          110 QAITVTTVCGKV-FEFH-VERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKS  185 (469)
Q Consensus       110 m~I~Vkt~~Gk~-~~l~-V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks  185 (469)
                      |+|+||+.+|++ +.++ +++++||.+||++|++..|++  +++|+|+|+|+.|+|+++|++|+|+++++|+|++|..
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 MWIQVRTMDGKETRTVDSLSRLTKVEELREKIQELFNVE--PECQRLFYRGKQMEDGHTLFDYNVGLNDIIQLLVRQD   76 (78)
T ss_pred             CEEEEEcCCCCEEEEeeccCCcCcHHHHHHHHHHHhCCC--HHHeEEEeCCEECCCCCCHHHcCCCCCCEEEEEEecC
Confidence            789999999997 6895 899999999999999999988  9999999999999999999999999999999998854

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.

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

Probab=99.55  E-value=9.6e-15  Score=119.41  Aligned_cols=73  Identities=15%  Similarity=0.346  Sum_probs=69.0

Q ss_pred             EEEEE-EeCCeE-EEEE-eCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecc
Q 012177           34 ILIFL-SVGGSV-IPMR-VMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLS  107 (469)
Q Consensus        34 M~I~V-~l~G~~-~~l~-V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLs  107 (469)
                      |+|+| ++.|++ ++++ +.+++||.+||++|++.+|+|+.+|+|+|+|+.|. |+.+|++|||+++++|+|++++.
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 MWIQVRTMDGKETRTVDSLSRLTKVEELREKIQELFNVEPECQRLFYRGKQME-DGHTLFDYNVGLNDIIQLLVRQD   76 (78)
T ss_pred             CEEEEEcCCCCEEEEeeccCCcCcHHHHHHHHHHHhCCCHHHeEEEeCCEECC-CCCCHHHcCCCCCCEEEEEEecC
Confidence            89999 889986 6895 89999999999999999999999999999999998 89999999999999999999874

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.

>PTZ00044 ubiquitin; Provisional

Probab=99.54  E-value=1.9e-14  Score=116.27  Aligned_cols=73  Identities=25%  Similarity=0.336  Sum_probs=70.6

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEee
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rk  184 (469)
                      |+|+||+.+|+++++++++++||++||++|++..|+|  +++|+|+|+|+.|+|..+|++|+++++++|||+++.
T Consensus         1 m~i~vk~~~G~~~~l~v~~~~tv~~lK~~i~~~~gi~--~~~q~L~~~g~~L~d~~~l~~~~i~~~~~i~l~~~~   73 (76)
T PTZ00044          1 MQILIKTLTGKKQSFNFEPDNTVQQVKMALQEKEGID--VKQIRLIYSGKQMSDDLKLSDYKVVPGSTIHMVLQL   73 (76)
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCC--HHHeEEEECCEEccCCCcHHHcCCCCCCEEEEEEEc
Confidence            7899999999999999999999999999999999988  999999999999999999999999999999999874

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

Probab=99.54  E-value=1.6e-14  Score=115.09  Aligned_cols=70  Identities=21%  Similarity=0.343  Sum_probs=67.3

Q ss_pred             eeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEe
Q 012177          112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVR  183 (469)
Q Consensus       112 I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~r  183 (469)
                      |+||+..|+++.+++++++||++||++|+++.|++  +++|+|+|+|++|+|+++|++|+|+++++|||+.|
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 VYVRTNTGHTFPVEVDPDTDIKQLKEVVAKRQGVP--PDQLRVIFAGKELRNTTTIQECDLGQQSILHAVRR   70 (70)
T ss_pred             CEEEcCCCCEEEEEECCCChHHHHHHHHHHHHCCC--HHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEeC
Confidence            68999999999999999999999999999999988  89999999999999999999999999999999765

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

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

Probab=99.54  E-value=1.4e-14  Score=116.96  Aligned_cols=73  Identities=23%  Similarity=0.367  Sum_probs=69.1

Q ss_pred             EEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecccc
Q 012177           36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDL  109 (469)
Q Consensus        36 I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~  109 (469)
                      ||| ++.|++++++|++++||++||++|+++.|+|+++|+|+|+|+.|. |+.+|++|||+++++++|++++.++
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 ILVRNDKGRSSIYEVQLTQTVATLKQQVSQRERVQADQFWLSFEGRPME-DEHPLGEYGLKPGCTVFMNLRLRGG   74 (74)
T ss_pred             CEEECCCCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCEECC-CCCCHHHcCCCCCCEEEEEEEccCC
Confidence            678 789999999999999999999999999999999999999999998 8899999999999999999987653

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

>cd01806 Nedd8 Nebb8-like ubiquitin protein

Probab=99.53  E-value=2.6e-14  Score=114.85  Aligned_cols=75  Identities=29%  Similarity=0.572  Sum_probs=71.4

Q ss_pred             EEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecccc
Q 012177           34 ILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDL  109 (469)
Q Consensus        34 M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~  109 (469)
                      |+|+| +.+|+++.++|.+++||.+||++|+++.|+|+..|+|+|+|+.|. |+.+|++|+|+++++|||+++++++
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 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMN-DDKTAADYKLEGGSVLHLVLALRGG   76 (76)
T ss_pred             CEEEEEeCCCCEEEEEECCCCCHHHHHHHHhHhhCCChhhEEEEECCeEcc-CCCCHHHcCCCCCCEEEEEEEccCC
Confidence            78999 889999999999999999999999999999999999999999998 8899999999999999999988753

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=99.53  E-value=2.3e-14  Score=115.16  Aligned_cols=75  Identities=36%  Similarity=0.625  Sum_probs=71.6

Q ss_pred             EEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecccc
Q 012177           34 ILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDL  109 (469)
Q Consensus        34 M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~  109 (469)
                      |+|+| +..|+++.++|.+++||++||++|+++.|+|+.+|+|+|+|+.|. |+.+|++|++++++++++++++.++
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 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLE-DGRTLSDYNIQKESTLHLVLRLRGG   76 (76)
T ss_pred             CEEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhCCCHHHeEEEECCEECC-CCCcHHHcCCCCCCEEEEEEEccCC
Confidence            78999 788999999999999999999999999999999999999999998 8899999999999999999998764

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

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

Probab=99.52  E-value=3e-14  Score=114.98  Aligned_cols=71  Identities=20%  Similarity=0.265  Sum_probs=68.4

Q ss_pred             eeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEee
Q 012177          112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       112 I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rk  184 (469)
                      |+||+..|+++++++++++||++||++|++..|+|  +++|+|+|+|+.|+|+++|++|+|+++++|+|.++.
T Consensus         1 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~--~~~q~L~~~G~~L~D~~tL~~~~i~~~~tl~l~~~l   71 (74)
T cd01810           1 ILVRNDKGRSSIYEVQLTQTVATLKQQVSQRERVQ--ADQFWLSFEGRPMEDEHPLGEYGLKPGCTVFMNLRL   71 (74)
T ss_pred             CEEECCCCCEEEEEECCcChHHHHHHHHHHHhCCC--HHHeEEEECCEECCCCCCHHHcCCCCCCEEEEEEEc
Confidence            68999999999999999999999999999999988  999999999999999999999999999999998874

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.

>cd01805 RAD23_N Ubiquitin-like domain of RAD23

Probab=99.52  E-value=5.3e-14  Score=113.76  Aligned_cols=76  Identities=21%  Similarity=0.286  Sum_probs=70.8

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeC
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKS  185 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks  185 (469)
                      |+|+|++.+|+++.+++++++||.+||++|++..++..++++|+|+|+|+.|+|+.+|++|+++++++|+++++++
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            7899999999999999999999999999999999981129999999999999999999999999999999988764

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=99.51  E-value=2.2e-15  Score=127.28  Aligned_cols=75  Identities=36%  Similarity=0.622  Sum_probs=72.5

Q ss_pred             EEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecccc
Q 012177           34 ILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDL  109 (469)
Q Consensus        34 M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~  109 (469)
                      |+||+ ++.|++++++|++++||..||.+|+.+.|+|+++|+|+|+|++|+ |..++++|||+..+|+|+++++.++
T Consensus         1 ~~~~~~~~~GKT~~le~EpS~ti~~vKA~i~~~~Gi~~~~~~L~~~~k~LE-D~~Tla~Y~i~~~~Tl~~~~rL~GG   76 (128)
T KOG0003|consen    1 MQIFVKTLTGKTITLEVEPSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLE-DGRTLADYNIQKESTLHLVLRLRGG   76 (128)
T ss_pred             CcEEEEEeeCceEEEEecccchHHHHHHHhccccCCCHHHHHHHhcccccc-cCCcccccCccchhhhhhhHHHhcC
Confidence            57787 999999999999999999999999999999999999999999999 9999999999999999999999887

>cd01804 midnolin_N Ubiquitin-like domain of midnolin

Probab=99.50  E-value=6.4e-14  Score=114.43  Aligned_cols=75  Identities=23%  Similarity=0.336  Sum_probs=70.8

Q ss_pred             CEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecccc
Q 012177           33 SILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDL  109 (469)
Q Consensus        33 ~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~  109 (469)
                      .|+|+| +..|+.++++|++++||++||.+|+++.|+++++|+|+|.|+.|. |+ +|++|||+++++|+|+..+.++
T Consensus         1 ~m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~~~~~~~qrL~~~Gk~L~-d~-~L~~~gi~~~~~i~l~~~~~~~   76 (78)
T cd01804           1 PMNLNIHSTTGTRFDLSVPPDETVEGLKKRISQRLKVPKERLALLHRETRLS-SG-KLQDLGLGDGSKLTLVPTVEAG   76 (78)
T ss_pred             CeEEEEEECCCCEEEEEECCcCHHHHHHHHHHHHhCCChHHEEEEECCcCCC-CC-cHHHcCCCCCCEEEEEeecccc
Confidence            499999 788999999999999999999999999999999999999999998 67 8999999999999999988665

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=99.50  E-value=5.3e-14  Score=112.71  Aligned_cols=68  Identities=21%  Similarity=0.254  Sum_probs=65.5

Q ss_pred             eeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEE
Q 012177          113 TVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLV  182 (469)
Q Consensus       113 ~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~  182 (469)
                      .||+.+|+++.+++++++||++||++|++.+|+|  +++|+|+|+|+.|+|+.+|.+|+|+++++|||.+
T Consensus         2 ~vk~~~G~~~~l~v~~~~TV~~lK~~I~~~~gi~--~~~q~Li~~G~~L~D~~~l~~~~i~~~~tv~~~~   69 (70)
T cd01794           2 KVRLSTGKDVKLSVSSKDTVGQLKKQLQAAEGVD--PCCQRWFFSGKLLTDKTRLQETKIQKDYVVQVIV   69 (70)
T ss_pred             eEEcCCCCEEEEEECCcChHHHHHHHHHHHhCCC--HHHeEEEECCeECCCCCCHHHcCCCCCCEEEEEe
Confidence            5788999999999999999999999999999988  9999999999999999999999999999999976

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.

>cd01806 Nedd8 Nebb8-like ubiquitin protein

Probab=99.49  E-value=9.5e-14  Score=111.58  Aligned_cols=73  Identities=26%  Similarity=0.394  Sum_probs=70.3

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEee
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rk  184 (469)
                      |+|+|++.+|+++.++++++.||++||++|++..++|  +++|+|+|+|+.|+|.++|++|+++++++|||+++.
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 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIP--PQQQRLIYSGKQMNDDKTAADYKLEGGSVLHLVLAL   73 (76)
T ss_pred             CEEEEEeCCCCEEEEEECCCCCHHHHHHHHhHhhCCC--hhhEEEEECCeEccCCCCHHHcCCCCCCEEEEEEEc
Confidence            6899999999999999999999999999999999988  999999999999999999999999999999999874

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.

>cd01791 Ubl5 UBL5 ubiquitin-like modifier

Probab=99.49  E-value=6.2e-14  Score=113.26  Aligned_cols=70  Identities=21%  Similarity=0.192  Sum_probs=66.9

Q ss_pred             EEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeee
Q 012177           34 ILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVL  104 (469)
Q Consensus        34 M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~Lvl  104 (469)
                      |+|+| ++.|+.+.++|++++||.+||++|+++.|+++++|||+|.|+.|. |+.+|++|||++++++||..
T Consensus         2 ~~i~vkt~~Gk~~~~~v~~~~TV~~LK~~I~~~~~~~~~~qrLi~~Gk~L~-D~~tL~~ygi~~~stv~l~~   72 (73)
T cd01791           2 IEVVCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRPEKIVLKKWYTIFK-DHISLGDYEIHDGMNLELYY   72 (73)
T ss_pred             EEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEeCCcCCC-CCCCHHHcCCCCCCEEEEEe
Confidence            88999 888999999999999999999999999999999999999999998 88999999999999999864

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.

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

Probab=99.49  E-value=5.6e-14  Score=112.04  Aligned_cols=69  Identities=22%  Similarity=0.470  Sum_probs=65.5

Q ss_pred             EEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeee
Q 012177           36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLR  105 (469)
Q Consensus        36 I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~Lvlr  105 (469)
                      |+| ++.|++++++|++++||++||.+|+++.|+|+.+|+|+|+|++|. |+.+|++|+|++++++||+.|
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 VYVRTNTGHTFPVEVDPDTDIKQLKEVVAKRQGVPPDQLRVIFAGKELR-NTTTIQECDLGQQSILHAVRR   70 (70)
T ss_pred             CEEEcCCCCEEEEEECCCChHHHHHHHHHHHHCCCHHHeEEEECCeECC-CCCcHHHcCCCCCCEEEEEeC
Confidence            577 788999999999999999999999999999999999999999998 899999999999999999864

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

>cd01803 Ubiquitin Ubiquitin

Probab=99.48  E-value=1.2e-13  Score=110.90  Aligned_cols=73  Identities=33%  Similarity=0.454  Sum_probs=70.3

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEee
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rk  184 (469)
                      |+|+|++.+|+++.+++++++||++||++|++..++|  +++|+|+|+|+.|+|..+|++|+++++++||++++.
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 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIP--PDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRL   73 (76)
T ss_pred             CEEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhCCC--HHHeEEEECCEECCCCCcHHHcCCCCCCEEEEEEEc
Confidence            6899999999999999999999999999999999988  999999999999999999999999999999999874

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

>cd01809 Scythe_N Ubiquitin-like domain of Scythe protein

Probab=99.48  E-value=1.3e-13  Score=109.62  Aligned_cols=72  Identities=28%  Similarity=0.343  Sum_probs=69.1

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEe
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVR  183 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~r  183 (469)
                      |+|+||+.+|++++++++++.||.+||++|++..|++  ++.|+|+|+|+.|+|+++|++|+++++++|||+.|
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 IEIKVKTLDSQTHTFTVEEEITVLDLKEKIAEEVGIP--VEQQRLIYSGRVLKDDETLSEYKVEDGHTIHLVKR   72 (72)
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcC--HHHeEEEECCEECCCcCcHHHCCCCCCCEEEEEeC
Confidence            6899999999999999999999999999999999987  99999999999999999999999999999999764

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.

>cd01791 Ubl5 UBL5 ubiquitin-like modifier

Probab=99.47  E-value=9.3e-14  Score=112.23  Aligned_cols=70  Identities=14%  Similarity=0.079  Sum_probs=67.5

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEE
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLL  181 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv  181 (469)
                      |.|+|++..|+.+.+++++++||++||++|+++.+++  +++|||+|.|+.|+|+.+|++|+|+++++|||.
T Consensus         2 ~~i~vkt~~Gk~~~~~v~~~~TV~~LK~~I~~~~~~~--~~~qrLi~~Gk~L~D~~tL~~ygi~~~stv~l~   71 (73)
T cd01791           2 IEVVCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTR--PEKIVLKKWYTIFKDHISLGDYEIHDGMNLELY   71 (73)
T ss_pred             EEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhCCC--hHHEEEEeCCcCCCCCCCHHHcCCCCCCEEEEE
Confidence            7899999999999999999999999999999999987  999999999999999999999999999999985

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.

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

Probab=99.47  E-value=2e-14  Score=129.60  Aligned_cols=76  Identities=34%  Similarity=0.611  Sum_probs=73.4

Q ss_pred             EEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeeccccc
Q 012177           34 ILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDLQ  110 (469)
Q Consensus        34 M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~m  110 (469)
                      |+||| ++.+++++++|.+++||..+|.+||.++|||+++|||+|.|++|+ |+++|+||+|+..+++||+++++++.
T Consensus         1 m~ifVk~l~~kti~~eve~~~ti~~~Kakiq~~egIp~dqqrlifag~qLe-dgrtlSDY~Iqkestl~l~l~l~Gg~   77 (156)
T KOG0004|consen    1 MQIFVKTLTGKTITLEVEANDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLE-DGRTLSDYNIQKESTLHLVLRLRGGA   77 (156)
T ss_pred             CccchhhccccceeeeecccccHHHHHHhhhcccCCCchhhhhhhhhcccc-cCCccccccccccceEEEEEEecCCc
Confidence            78999 999999999999999999999999999999999999999999999 89999999999999999999998763

>cd01794 DC_UbP_C dendritic cell derived ubiquitin-like protein

Probab=99.47  E-value=9.2e-14  Score=111.30  Aligned_cols=67  Identities=18%  Similarity=0.342  Sum_probs=63.5

Q ss_pred             EE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeee
Q 012177           37 FL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVL  104 (469)
Q Consensus        37 ~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~Lvl  104 (469)
                      .| .++|++++++|++++||++||.+|++++|+|+++|+|+|+|++|. |+.+|.+|+|++++++||++
T Consensus         2 ~vk~~~G~~~~l~v~~~~TV~~lK~~I~~~~gi~~~~q~Li~~G~~L~-D~~~l~~~~i~~~~tv~~~~   69 (70)
T cd01794           2 KVRLSTGKDVKLSVSSKDTVGQLKKQLQAAEGVDPCCQRWFFSGKLLT-DKTRLQETKIQKDYVVQVIV   69 (70)
T ss_pred             eEEcCCCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCeECC-CCCCHHHcCCCCCCEEEEEe
Confidence            45 568999999999999999999999999999999999999999998 89999999999999999976

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.

>cd01805 RAD23_N Ubiquitin-like domain of RAD23

Probab=99.46  E-value=1.6e-13  Score=110.91  Aligned_cols=72  Identities=19%  Similarity=0.438  Sum_probs=68.4

Q ss_pred             EEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCC--CCcceEEEEcCeecccCCccccccCccCccceeeeeec
Q 012177           34 ILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGF--FVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRL  106 (469)
Q Consensus        34 M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gi--p~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrL  106 (469)
                      |+|+| +.+|++++++|.+++||.+||++|++++|+  ++++|+|+|+|+.|. |+.+|++|||+++++++++++-
T Consensus         1 m~i~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~i~~~~~~q~L~~~G~~L~-d~~~L~~~~i~~~~~i~~~~~~   75 (77)
T cd01805           1 MKITFKTLKQQTFPIEVDPDDTVAELKEKIEEEKGCDYPPEQQKLIYSGKILK-DDTTLEEYKIDEKDFVVVMVSK   75 (77)
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCCChhHeEEEECCEEcc-CCCCHHHcCCCCCCEEEEEEec
Confidence            89999 889999999999999999999999999999  999999999999998 8899999999999999988753

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

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

Probab=99.46  E-value=4.7e-14  Score=107.27  Aligned_cols=69  Identities=28%  Similarity=0.587  Sum_probs=66.7

Q ss_pred             EEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeee
Q 012177           34 ILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLV  103 (469)
Q Consensus        34 M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~Lv  103 (469)
                      |.|.| +++|+.+.++++|+|+|..+|++|++++|||+.+|||+|.|++|. |+.+-++|++.-|+++||+
T Consensus         1 m~iKvktLt~KeIeidIep~DkverIKErvEEkeGIPp~qqrli~~gkqm~-DD~tA~~Y~~~~GSVlHlv   70 (70)
T KOG0005|consen    1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYAGKQMN-DDKTAAHYNLLGGSVLHLV   70 (70)
T ss_pred             CeeeEeeeccceEEEeeCcchHHHHHHHHhhhhcCCCchhhhhhhcccccc-ccccHHHhhhccceeEeeC
Confidence            68899 999999999999999999999999999999999999999999998 8999999999999999985

>cd01809 Scythe_N Ubiquitin-like domain of Scythe protein

Probab=99.45  E-value=2.1e-13  Score=108.41  Aligned_cols=71  Identities=28%  Similarity=0.488  Sum_probs=67.7

Q ss_pred             EEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeee
Q 012177           34 ILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLR  105 (469)
Q Consensus        34 M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~Lvlr  105 (469)
                      |+|+| ++.|+++++++.+++||.+||++|++..|+|+..|+|+|+|+.|. |+.+|++|||++++++||+.+
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 IEIKVKTLDSQTHTFTVEEEITVLDLKEKIAEEVGIPVEQQRLIYSGRVLK-DDETLSEYKVEDGHTIHLVKR   72 (72)
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCEECC-CcCcHHHCCCCCCCEEEEEeC
Confidence            78999 888999999999999999999999999999999999999999998 889999999999999998764

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.

>cd01804 midnolin_N Ubiquitin-like domain of midnolin

Probab=99.44  E-value=3.5e-13  Score=110.11  Aligned_cols=73  Identities=14%  Similarity=0.211  Sum_probs=69.1

Q ss_pred             cceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEee
Q 012177          109 LQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       109 ~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rk  184 (469)
                      .|+|+|++..|+.+.++++++.||++||++|+++.+++  +++|+|+|+|+.|+|+ +|.+|+|+++++|+|+...
T Consensus         1 ~m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~~~~--~~~qrL~~~Gk~L~d~-~L~~~gi~~~~~i~l~~~~   73 (78)
T cd01804           1 PMNLNIHSTTGTRFDLSVPPDETVEGLKKRISQRLKVP--KERLALLHRETRLSSG-KLQDLGLGDGSKLTLVPTV   73 (78)
T ss_pred             CeEEEEEECCCCEEEEEECCcCHHHHHHHHHHHHhCCC--hHHEEEEECCcCCCCC-cHHHcCCCCCCEEEEEeec
Confidence            38899999999999999999999999999999999987  9999999999999999 9999999999999998764

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.

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

Probab=99.44  E-value=2.1e-13  Score=111.71  Aligned_cols=74  Identities=23%  Similarity=0.193  Sum_probs=70.5

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEE--EECCEEcCCCCcccccCCCCCCEEEEEEeeC
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQEL--ICDGEELEDQRLITDICKRNEAVIHLLVRKS  185 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrL--if~Gk~LeD~~tL~dy~I~~~svI~Lv~rks  185 (469)
                      |+|+|++..|+++.++++++.||++||++|++..+++  +++|+|  .|+|+.|+|+++|++|+++++++|+|++++-
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 WDLKVKMLGGNEFLVSLRDSMTVSELKQQIAQKIGVP--AFQQRLAHLDSREVLQDGVPLVSQGLGPGSTVLLVVQNC   78 (80)
T ss_pred             eEEEEEeCCCCEEEEEcCCCCcHHHHHHHHHHHhCCC--HHHEEEEeccCCCCCCCCCCHHHcCCCCCCEEEEEEEcc
Confidence            7899999999999999999999999999999999987  999999  8999999999999999999999999998853

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

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

Probab=99.43  E-value=3.7e-13  Score=107.67  Aligned_cols=71  Identities=24%  Similarity=0.298  Sum_probs=66.5

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEe
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVR  183 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~r  183 (469)
                      +.|+|++..|+ ..++++++.||++||++|++..+++  +++|+|+|+|+.|+|+++|++|+++++++|||++|
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-EEIEIAEDASVKDFKEAVSKKFKAN--QEQLVLIFAGKILKDTDTLTQHNIKDGLTVHLVIK   71 (71)
T ss_pred             CEEEEEcCCCC-EEEEECCCChHHHHHHHHHHHhCCC--HHHEEEEECCeEcCCCCcHHHcCCCCCCEEEEEEC
Confidence            46899999997 5899999999999999999999987  99999999999999999999999999999999875

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.

>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=99.41  E-value=7.5e-13  Score=104.70  Aligned_cols=68  Identities=31%  Similarity=0.528  Sum_probs=65.0

Q ss_pred             eeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEee
Q 012177          115 TTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       115 kt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rk  184 (469)
                      ||.+|+.+.++|++++||.+||++|++..+++  +++|+|+|+|++|+|..+|.+|+|+++++|+|+.++
T Consensus         1 k~~~g~~~~~~v~~~~tV~~lK~~i~~~~~~~--~~~~~L~~~G~~L~d~~tL~~~~i~~~~~I~l~~k~   68 (69)
T PF00240_consen    1 KTLSGKTFTLEVDPDDTVADLKQKIAEETGIP--PEQQRLIYNGKELDDDKTLSDYGIKDGSTIHLVIKP   68 (69)
T ss_dssp             EETTSEEEEEEEETTSBHHHHHHHHHHHHTST--GGGEEEEETTEEESTTSBTGGGTTSTTEEEEEEESS
T ss_pred             CCCCCcEEEEEECCCCCHHHhhhhcccccccc--cccceeeeeeecccCcCcHHHcCCCCCCEEEEEEec
Confidence            57899999999999999999999999999988  999999999999999999999999999999998764

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 ....

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

Probab=99.40  E-value=5.5e-13  Score=109.28  Aligned_cols=72  Identities=19%  Similarity=0.261  Sum_probs=68.5

Q ss_pred             CEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEE--EEcCeecccCCccccccCccCccceeeeee
Q 012177           33 SILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKL--VFEGRELARSNSRVRDYGLADGNVLHLVLR  105 (469)
Q Consensus        33 ~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrL--vf~Gk~L~~D~~tL~dygI~~gstl~Lvlr  105 (469)
                      .|+|+| +..|+++.++|++++||++||++|+++.|+++++|+|  +|+|+.|. |+.+|++|||+++++|+|+++
T Consensus         2 ~~~i~Vk~~~G~~~~~~v~~~~TV~~lK~~I~~~~~i~~~~qrL~~~~~G~~L~-D~~tL~~~gi~~gs~l~l~~~   76 (80)
T cd01792           2 GWDLKVKMLGGNEFLVSLRDSMTVSELKQQIAQKIGVPAFQQRLAHLDSREVLQ-DGVPLVSQGLGPGSTVLLVVQ   76 (80)
T ss_pred             ceEEEEEeCCCCEEEEEcCCCCcHHHHHHHHHHHhCCCHHHEEEEeccCCCCCC-CCCCHHHcCCCCCCEEEEEEE
Confidence            389999 8889999999999999999999999999999999999  89999998 889999999999999999887

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.

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

Probab=99.40  E-value=5.8e-13  Score=108.10  Aligned_cols=70  Identities=27%  Similarity=0.476  Sum_probs=66.2

Q ss_pred             EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecccc
Q 012177           39 SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDL  109 (469)
Q Consensus        39 ~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~  109 (469)
                      .++|++++++|++++||++||.+|++.+|+|+.+|+|+|.|+.|. |+.+|++|+|+++++|+|++++.++
T Consensus         4 ~l~g~~~~l~v~~~~TV~~lK~~i~~~~gip~~~q~L~~~G~~L~-d~~tL~~~~i~~g~~l~v~~~~~gg   73 (76)
T cd01800           4 KLNGQMLNFTLQLSDPVSVLKVKIHEETGMPAGKQKLQYEGIFIK-DSNSLAYYNLANGTIIHLQLKERGG   73 (76)
T ss_pred             ccCCeEEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCEEcC-CCCcHHHcCCCCCCEEEEEEecCCC
Confidence            367999999999999999999999999999999999999999998 8899999999999999999998764

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.

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

Probab=99.40  E-value=6.3e-13  Score=106.33  Aligned_cols=70  Identities=19%  Similarity=0.296  Sum_probs=65.1

Q ss_pred             EEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeee
Q 012177           34 ILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLR  105 (469)
Q Consensus        34 M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~Lvlr  105 (469)
                      |+|+| +..|+ .++++++++||.+||++|+++.|+++.+|+|+|+|+.|. |+.+|++|||++++++||+++
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-EEIEIAEDASVKDFKEAVSKKFKANQEQLVLIFAGKILK-DTDTLTQHNIKDGLTVHLVIK   71 (71)
T ss_pred             CEEEEEcCCCC-EEEEECCCChHHHHHHHHHHHhCCCHHHEEEEECCeEcC-CCCcHHHcCCCCCCEEEEEEC
Confidence            57888 77887 489999999999999999999999999999999999998 889999999999999999874

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=99.39  E-value=2.4e-13  Score=103.41  Aligned_cols=70  Identities=26%  Similarity=0.384  Sum_probs=67.5

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEE
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLL  181 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv  181 (469)
                      |.|.|+|++|+.+.++++++++|..+|++|++++|+|  |.+|||+|.|++|.|+.+-.+|++..||++|++
T Consensus         1 m~iKvktLt~KeIeidIep~DkverIKErvEEkeGIP--p~qqrli~~gkqm~DD~tA~~Y~~~~GSVlHlv   70 (70)
T KOG0005|consen    1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIP--PQQQRLIYAGKQMNDDKTAAHYNLLGGSVLHLV   70 (70)
T ss_pred             CeeeEeeeccceEEEeeCcchHHHHHHHHhhhhcCCC--chhhhhhhccccccccccHHHhhhccceeEeeC
Confidence            5688999999999999999999999999999999999  999999999999999999999999999999984

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

Probab=99.39  E-value=6.8e-13  Score=106.42  Aligned_cols=67  Identities=24%  Similarity=0.420  Sum_probs=61.8

Q ss_pred             EEE-Ee-CCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCC-ccccccCccCccceeee
Q 012177           36 IFL-SV-GGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSN-SRVRDYGLADGNVLHLV  103 (469)
Q Consensus        36 I~V-~l-~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~-~tL~dygI~~gstl~Lv  103 (469)
                      |+| +. .|++++++|++++||++||.+|++++|+|+++|+|+|+|++|. |+ .+|++|||+++++++|.
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 ITVYTARSETTFSLDVDPDLELENFKALCEAESGIPASQQQLIYNGRELV-DNKRLLALYGVKDGDLVVLR   70 (71)
T ss_pred             CEEEECCCCCEEEEEECCcCCHHHHHHHHHHHhCCCHHHeEEEECCeEcc-CCcccHHHcCCCCCCEEEEe
Confidence            466 56 8899999999999999999999999999999999999999998 55 78999999999999874

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.

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

Probab=99.39  E-value=4.2e-14  Score=119.59  Aligned_cols=73  Identities=33%  Similarity=0.454  Sum_probs=70.2

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEee
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rk  184 (469)
                      |+++|++++|++.++++++++||.+||++|+.++|++  +++|+|+|+|++|||++|+++|+++..++||++.|.
T Consensus         1 ~~~~~~~~~GKT~~le~EpS~ti~~vKA~i~~~~Gi~--~~~~~L~~~~k~LED~~Tla~Y~i~~~~Tl~~~~rL   73 (128)
T KOG0003|consen    1 MQIFVKTLTGKTITLEVEPSDTIDNVKAKIQDKEGIP--PDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRL   73 (128)
T ss_pred             CcEEEEEeeCceEEEEecccchHHHHHHHhccccCCC--HHHHHHHhcccccccCCcccccCccchhhhhhhHHH
Confidence            5789999999999999999999999999999999998  999999999999999999999999999999998773

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

Probab=99.38  E-value=1e-12  Score=105.35  Aligned_cols=68  Identities=25%  Similarity=0.302  Sum_probs=64.0

Q ss_pred             eeeeee-cceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCC-CcccccCCCCCCEEEEE
Q 012177          112 ITVTTV-CGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQ-RLITDICKRNEAVIHLL  181 (469)
Q Consensus       112 I~Vkt~-~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~-~tL~dy~I~~~svI~Lv  181 (469)
                      |+|++. +|+++.++++++.||++||++|++..|+|  +++|+|+|+|+.|+|+ .+|++|+|+++++|+|.
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 ITVYTARSETTFSLDVDPDLELENFKALCEAESGIP--ASQQQLIYNGRELVDNKRLLALYGVKDGDLVVLR   70 (71)
T ss_pred             CEEEECCCCCEEEEEECCcCCHHHHHHHHHHHhCCC--HHHeEEEECCeEccCCcccHHHcCCCCCCEEEEe
Confidence            578999 99999999999999999999999999988  9999999999999987 68999999999999973

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.

>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=99.38  E-value=1.6e-12  Score=102.85  Aligned_cols=67  Identities=30%  Similarity=0.659  Sum_probs=63.7

Q ss_pred             EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeec
Q 012177           39 SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRL  106 (469)
Q Consensus        39 ~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrL  106 (469)
                      +++|++++++|.+++||.+||.+|+++.|+|++.|+|+|+|+.|. |+.+|++|||+++++|+|+++.
T Consensus         2 ~~~g~~~~~~v~~~~tV~~lK~~i~~~~~~~~~~~~L~~~G~~L~-d~~tL~~~~i~~~~~I~l~~k~   68 (69)
T PF00240_consen    2 TLSGKTFTLEVDPDDTVADLKQKIAEETGIPPEQQRLIYNGKELD-DDKTLSDYGIKDGSTIHLVIKP   68 (69)
T ss_dssp             ETTSEEEEEEEETTSBHHHHHHHHHHHHTSTGGGEEEEETTEEES-TTSBTGGGTTSTTEEEEEEESS
T ss_pred             CCCCcEEEEEECCCCCHHHhhhhcccccccccccceeeeeeeccc-CcCcHHHcCCCCCCEEEEEEec
Confidence            357899999999999999999999999999999999999999996 9999999999999999998875

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=99.37  E-value=2.9e-13  Score=122.13  Aligned_cols=73  Identities=33%  Similarity=0.459  Sum_probs=70.8

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEee
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rk  184 (469)
                      |.|+|+++.|+++.++|++++||..+|++|+.+++||  +++|||+|.|++|+|+++|+||+|+..++|||+++-
T Consensus         1 m~ifVk~l~~kti~~eve~~~ti~~~Kakiq~~egIp--~dqqrlifag~qLedgrtlSDY~Iqkestl~l~l~l   73 (156)
T KOG0004|consen    1 MQIFVKTLTGKTITLEVEANDTIDNVKAKIQDKEGIP--PDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRL   73 (156)
T ss_pred             CccchhhccccceeeeecccccHHHHHHhhhcccCCC--chhhhhhhhhcccccCCccccccccccceEEEEEEe
Confidence            6899999999999999999999999999999999999  999999999999999999999999999999999873

>cd01812 BAG1_N Ubiquitin-like domain of BAG1

Probab=99.32  E-value=4.4e-12  Score=100.73  Aligned_cols=70  Identities=21%  Similarity=0.369  Sum_probs=65.5

Q ss_pred             EEEEEEeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeee
Q 012177           34 ILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVL  104 (469)
Q Consensus        34 M~I~V~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~Lvl  104 (469)
                      |+|+|...|+++++++.+++||++||.+|++.+|+|++.|+|+|+|+.|. |+.+|++|||++|++|+++.
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 IRVRVKHGGESHDLSISSQATFGDLKKMLAPVTGVEPRDQKLIFKGKERD-DAETLDMSGVKDGSKVMLLE   70 (71)
T ss_pred             CEEEEEECCEEEEEEECCCCcHHHHHHHHHHhhCCChHHeEEeeCCcccC-ccCcHHHcCCCCCCEEEEec
Confidence            57888667999999999999999999999999999999999999999998 88999999999999998864

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

>cd01763 Sumo Small ubiquitin-related modifier (SUMO)

Probab=99.31  E-value=8.9e-12  Score=103.87  Aligned_cols=81  Identities=15%  Similarity=0.317  Sum_probs=76.0

Q ss_pred             CCCCCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeec
Q 012177           28 KLSNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRL  106 (469)
Q Consensus        28 ~~~~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrL  106 (469)
                      +..+..|+|+| +..|+++.++|.+++|+..||.+++++.|+++++|+|+|+|+.|. ++.|+.+|++.++++|++++++
T Consensus         6 ~~~~~~i~I~v~~~~g~~~~~~v~~~~~l~~l~~~y~~~~gi~~~~~rf~f~G~~L~-~~~T~~~l~m~d~d~I~v~l~l   84 (87)
T cd01763           6 GEISEHINLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQRQGLSMNSVRFLFDGQRIR-DNQTPDDLGMEDGDEIEVMLEQ   84 (87)
T ss_pred             CCCCCeEEEEEECCCCCEEEEEEcCCCHHHHHHHHHHHHhCCCccceEEEECCeECC-CCCCHHHcCCCCCCEEEEEEec
Confidence            45688999999 888999999999999999999999999999999999999999998 8999999999999999999988


Q ss_pred             ccc
Q 012177          107 SDL  109 (469)
Q Consensus       107 sd~  109 (469)
                      .++
T Consensus        85 ~GG   87 (87)
T cd01763          85 TGG   87 (87)
T ss_pred             ccC
Confidence            754

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

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

Probab=99.31  E-value=4.5e-12  Score=103.72  Aligned_cols=72  Identities=18%  Similarity=0.216  Sum_probs=63.3

Q ss_pred             ceeeeeeeccee--EEEEeecCchHHHHHHHHHHhcC-CCCCCCceEEEECCEEcCCCCcccccC--CCCCCEEEEEE
Q 012177          110 QAITVTTVCGKV--FEFHVERGRNVGYVKQQIAKKGR-EFVDLKNQELICDGEELEDQRLITDIC--KRNEAVIHLLV  182 (469)
Q Consensus       110 m~I~Vkt~~Gk~--~~l~V~~~~TV~~LK~kI~~~~g-ip~~~e~QrLif~Gk~LeD~~tL~dy~--I~~~svI~Lv~  182 (469)
                      +.|+||+.++++  +.++++++.||.+||++|++..+ .+ ++++|+|+|+|+.|+|..+|++|.  +.++.+|||+.
T Consensus         2 i~l~IK~~~~~~~~~~ve~~~~~TV~~lK~~i~~~~~~~~-~~~~QrLIy~GKiLkD~~tL~~~~~~~~~~~tiHLV~   78 (79)
T cd01790           2 VTLLIKSPNQKYEDQTVSCFLNWTVGELKTHLSRVYPSKP-LEQDQRLIYSGKLLPDHLKLRDVLRKQDEYHMVHLVC   78 (79)
T ss_pred             eEEEEECCCCCeEEEEEecCCcChHHHHHHHHHHhcCCCC-ChhHeEEEEcCeeccchhhHHHHhhcccCCceEEEEe
Confidence            578999999998  44555899999999999999874 33 479999999999999999999996  99999999974

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.

>cd01813 UBP_N UBP ubiquitin processing protease

Probab=99.29  E-value=8.8e-12  Score=100.94  Aligned_cols=70  Identities=16%  Similarity=0.344  Sum_probs=65.5

Q ss_pred             EEEEEEeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEE---cCeecccCCccccccCccCccceeeee
Q 012177           34 ILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVF---EGRELARSNSRVRDYGLADGNVLHLVL  104 (469)
Q Consensus        34 M~I~V~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf---~Gk~L~~D~~tL~dygI~~gstl~Lvl  104 (469)
                      |.|.|...|++++++|++++||++||++|++++|+|+++|+|+|   .|+.|. |+.+|++|+|++++.++|+-
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 VPVIVKWGGQEYSVTTLSEDTVLDLKQFIKTLTGVLPERQKLLGLKVKGKPAE-DDVKISALKLKPNTKIMMMG   73 (74)
T ss_pred             CEEEEEECCEEEEEEECCCCCHHHHHHHHHHHHCCCHHHEEEEeecccCCcCC-CCcCHHHcCCCCCCEEEEEe
Confidence            56888889999999999999999999999999999999999996   899998 89999999999999998863

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=99.28  E-value=9.5e-12  Score=98.80  Aligned_cols=70  Identities=19%  Similarity=0.255  Sum_probs=65.9

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEE
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLV  182 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~  182 (469)
                      ++|.||+. |+.+.++++++.||++||++|++..|++  +++|+|+|+|+.|+|.++|++|+++++++|+++.
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-GESHDLSISSQATFGDLKKMLAPVTGVE--PRDQKLIFKGKERDDAETLDMSGVKDGSKVMLLE   70 (71)
T ss_pred             CEEEEEEC-CEEEEEEECCCCcHHHHHHHHHHhhCCC--hHHeEEeeCCcccCccCcHHHcCCCCCCEEEEec
Confidence            47889986 9999999999999999999999999988  9999999999999999999999999999999863

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=99.27  E-value=1.3e-11  Score=100.25  Aligned_cols=66  Identities=20%  Similarity=0.301  Sum_probs=63.2

Q ss_pred             ecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEee
Q 012177          117 VCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       117 ~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rk  184 (469)
                      ++|+++++++++++||++||++|+...|+|  +++|+|+|+|+.|+|+++|++|+++++++|+|+++.
T Consensus         5 l~g~~~~l~v~~~~TV~~lK~~i~~~~gip--~~~q~L~~~G~~L~d~~tL~~~~i~~g~~l~v~~~~   70 (76)
T cd01800           5 LNGQMLNFTLQLSDPVSVLKVKIHEETGMP--AGKQKLQYEGIFIKDSNSLAYYNLANGTIIHLQLKE   70 (76)
T ss_pred             cCCeEEEEEECCCCcHHHHHHHHHHHHCCC--HHHEEEEECCEEcCCCCcHHHcCCCCCCEEEEEEec
Confidence            578999999999999999999999999988  999999999999999999999999999999999885

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.

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

Probab=99.25  E-value=1.2e-11  Score=101.27  Aligned_cols=71  Identities=15%  Similarity=0.280  Sum_probs=62.3

Q ss_pred             CEEEEE-EeCCeE--EEEEeCCCCcHHHHHHHHHHHhC--CCCcceEEEEcCeecccCCccccccC--ccCccceeeee
Q 012177           33 SILIFL-SVGGSV--IPMRVMESDSIASVKLRIQSYNG--FFVKKQKLVFEGRELARSNSRVRDYG--LADGNVLHLVL  104 (469)
Q Consensus        33 ~M~I~V-~l~G~~--~~l~V~~sdTV~~LK~kIq~~~G--ip~~~QrLvf~Gk~L~~D~~tL~dyg--I~~gstl~Lvl  104 (469)
                      +|.|+| +.+++.  +++++++++||.+||++|++..+  .++++|||+|.|+.|. |+.+|++|.  +.++.++||+.
T Consensus         1 ~i~l~IK~~~~~~~~~~ve~~~~~TV~~lK~~i~~~~~~~~~~~~QrLIy~GKiLk-D~~tL~~~~~~~~~~~tiHLV~   78 (79)
T cd01790           1 PVTLLIKSPNQKYEDQTVSCFLNWTVGELKTHLSRVYPSKPLEQDQRLIYSGKLLP-DHLKLRDVLRKQDEYHMVHLVC   78 (79)
T ss_pred             CeEEEEECCCCCeEEEEEecCCcChHHHHHHHHHHhcCCCCChhHeEEEEcCeecc-chhhHHHHhhcccCCceEEEEe
Confidence            478889 778887  55666899999999999999874  5589999999999998 899999996  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.

>cd01799 Hoil1_N Ubiquitin-like domain of HOIL1

Probab=99.24  E-value=1.9e-11  Score=99.29  Aligned_cols=69  Identities=20%  Similarity=0.250  Sum_probs=61.7

Q ss_pred             EEEE--E-eCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCcc-Cccceeeee
Q 012177           35 LIFL--S-VGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLA-DGNVLHLVL  104 (469)
Q Consensus        35 ~I~V--~-l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~-~gstl~Lvl  104 (469)
                      .++|  . ..|.+++++|.+++||++||.+|++++|+|+++|+| |.|+.|.+|+.+|++||++ +|++++|.+
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            4566  2 357899999999999999999999999999999999 9999997677999999999 789999864

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.

>cd01763 Sumo Small ubiquitin-related modifier (SUMO)

Probab=99.22  E-value=5e-11  Score=99.33  Aligned_cols=76  Identities=13%  Similarity=0.262  Sum_probs=72.2

Q ss_pred             cccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEee
Q 012177          107 SDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       107 sd~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rk  184 (469)
                      +..|.|.|++.+|+.+.++|.+++++..||++++++.|++  +++|+|+|+|+.|+++.|+.+|+++++++|+++++.
T Consensus         9 ~~~i~I~v~~~~g~~~~~~v~~~~~l~~l~~~y~~~~gi~--~~~~rf~f~G~~L~~~~T~~~l~m~d~d~I~v~l~l   84 (87)
T cd01763           9 SEHINLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQRQGLS--MNSVRFLFDGQRIRDNQTPDDLGMEDGDEIEVMLEQ   84 (87)
T ss_pred             CCeEEEEEECCCCCEEEEEEcCCCHHHHHHHHHHHHhCCC--ccceEEEECCeECCCCCCHHHcCCCCCCEEEEEEec
Confidence            4568899999999999999999999999999999999998  899999999999999999999999999999998874

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.

>TIGR00601 rad23 UV excision repair protein Rad23

Probab=99.18  E-value=5.9e-11  Score=123.44  Aligned_cols=76  Identities=20%  Similarity=0.317  Sum_probs=71.5

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcC---CCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeCC
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGR---EFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKSA  186 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~g---ip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks~  186 (469)
                      |+|+|||+.|+++.++|++++||.+||++|+...|   ++  +++|+|+|+|+.|+|+++|.+|+|+++++|++++.+..
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 MTLTFKTLQQQKFKIDMEPDETVKELKEKIEAEQGKDAYP--VAQQKLIYSGKILSDDKTVREYKIKEKDFVVVMVSKPK   78 (378)
T ss_pred             CEEEEEeCCCCEEEEEeCCcChHHHHHHHHHHhhCCCCCC--hhHeEEEECCEECCCCCcHHHcCCCCCCEEEEEeccCC
Confidence            78999999999999999999999999999999988   76  89999999999999999999999999999999988654


Q ss_pred             c
Q 012177          187 K  187 (469)
Q Consensus       187 k  187 (469)
                      .
T Consensus        79 ~   79 (378)
T TIGR00601        79 T   79 (378)
T ss_pred             C
Confidence            4

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).

>cd01815 BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP

Probab=99.14  E-value=4.5e-11  Score=96.74  Aligned_cols=55  Identities=20%  Similarity=0.346  Sum_probs=49.8

Q ss_pred             eCC-CCcHHHHHHHHHHHh--CCC-CcceEEEEcCeecccCCccccccCccCccceeeee
Q 012177           49 VME-SDSIASVKLRIQSYN--GFF-VKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVL  104 (469)
Q Consensus        49 V~~-sdTV~~LK~kIq~~~--Gip-~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~Lvl  104 (469)
                      |++ ++||.+||++|+++.  |++ +++|||+|.|++|. |+.+|++|||+++++|||+.
T Consensus        16 ~~~~~~TV~~LK~kI~~~~~egi~~~dqQrLIy~GKiL~-D~~TL~dygI~~gstlhLv~   74 (75)
T cd01815          16 VSPGGYQVSTLKQLIAAQLPDSLPDPELIDLIHCGRKLK-DDQTLDFYGIQSGSTIHILR   74 (75)
T ss_pred             cCCccCcHHHHHHHHHHhhccCCCChHHeEEEeCCcCCC-CCCcHHHcCCCCCCEEEEEe
Confidence            454 889999999999995  575 99999999999998 89999999999999999874

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.

>cd01813 UBP_N UBP ubiquitin processing protease

Probab=99.13  E-value=1.6e-10  Score=93.57  Aligned_cols=69  Identities=19%  Similarity=0.202  Sum_probs=63.7

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEE---CCEEcCCCCcccccCCCCCCEEEEE
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELIC---DGEELEDQRLITDICKRNEAVIHLL  181 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif---~Gk~LeD~~tL~dy~I~~~svI~Lv  181 (469)
                      |.|.|+ ..|+++.++|++++||++||++|++..++|  +++|+|+|   .|+.|+|+.+|++|++++++.|+|+
T Consensus         1 ~~i~vk-~~g~~~~v~v~~~~Tv~~lK~~i~~~tgvp--~~~QKLi~~~~~Gk~l~D~~~L~~~~i~~g~~i~lm   72 (74)
T cd01813           1 VPVIVK-WGGQEYSVTTLSEDTVLDLKQFIKTLTGVL--PERQKLLGLKVKGKPAEDDVKISALKLKPNTKIMMM   72 (74)
T ss_pred             CEEEEE-ECCEEEEEEECCCCCHHHHHHHHHHHHCCC--HHHEEEEeecccCCcCCCCcCHHHcCCCCCCEEEEE
Confidence            356676 578999999999999999999999999988  99999996   9999999999999999999999986

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

>smart00213 UBQ Ubiquitin homologues

Probab=99.12  E-value=1.4e-10  Score=89.41  Aligned_cols=63  Identities=27%  Similarity=0.581  Sum_probs=58.5

Q ss_pred             EEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCcc
Q 012177           34 ILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN   98 (469)
Q Consensus        34 M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gs   98 (469)
                      |+|+| ..+ +++.++|.+++||++||.+|+.+.|+|+..|+|+|+|+.|. |+.+|.+|||++|+
T Consensus         1 ~~i~vk~~~-~~~~~~v~~~~tv~~lk~~i~~~~~~~~~~~~L~~~g~~L~-d~~tL~~~~i~~~~   64 (64)
T smart00213        1 IELTVKTLD-GTITLEVKPSDTVSELKEKIAELTGIPVEQQRLIYKGKVLE-DDRTLADYNIQDGS   64 (64)
T ss_pred             CEEEEEECC-ceEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCEECC-CCCCHHHcCCcCCC
Confidence            78999 555 79999999999999999999999999999999999999998 78999999999874

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

>smart00213 UBQ Ubiquitin homologues

Probab=99.10  E-value=2.1e-10  Score=88.42  Aligned_cols=64  Identities=27%  Similarity=0.343  Sum_probs=60.1

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCC
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEA  176 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~s  176 (469)
                      |+|+||+.+ +.+.++|+++.||++||++|+...+++  ++.|+|+|+|+.|.|..+|.+|++++++
T Consensus         1 ~~i~vk~~~-~~~~~~v~~~~tv~~lk~~i~~~~~~~--~~~~~L~~~g~~L~d~~tL~~~~i~~~~   64 (64)
T smart00213        1 IELTVKTLD-GTITLEVKPSDTVSELKEKIAELTGIP--VEQQRLIYKGKVLEDDRTLADYNIQDGS   64 (64)
T ss_pred             CEEEEEECC-ceEEEEECCCCcHHHHHHHHHHHHCCC--HHHEEEEECCEECCCCCCHHHcCCcCCC
Confidence            679999988 789999999999999999999999987  8999999999999999999999998874

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=99.08  E-value=1.9e-10  Score=119.61  Aligned_cols=72  Identities=17%  Similarity=0.437  Sum_probs=68.0

Q ss_pred             EEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhC---CCCcceEEEEcCeecccCCccccccCccCccceeeeeec
Q 012177           34 ILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNG---FFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRL  106 (469)
Q Consensus        34 M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~G---ip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrL  106 (469)
                      |+|+| ++.|+++.|+|++++||.+||.+|+...|   +++.+|+|+|.|+.|. |+.+|++|+|+++++|+++++-
T Consensus         1 MkItVKtl~g~~~~IeV~~~~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GkiL~-Dd~tL~dy~I~e~~~Ivvmv~k   76 (378)
T TIGR00601         1 MTLTFKTLQQQKFKIDMEPDETVKELKEKIEAEQGKDAYPVAQQKLIYSGKILS-DDKTVREYKIKEKDFVVVMVSK   76 (378)
T ss_pred             CEEEEEeCCCCEEEEEeCCcChHHHHHHHHHHhhCCCCCChhHeEEEECCEECC-CCCcHHHcCCCCCCEEEEEecc
Confidence            89999 89999999999999999999999999998   9999999999999998 8899999999999999887643

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).

>cd01815 BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP

Probab=99.07  E-value=1.6e-10  Score=93.55  Aligned_cols=54  Identities=28%  Similarity=0.273  Sum_probs=48.7

Q ss_pred             cCchHHHHHHHHHHhc--CCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEE
Q 012177          128 RGRNVGYVKQQIAKKG--REFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLV  182 (469)
Q Consensus       128 ~~~TV~~LK~kI~~~~--gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~  182 (469)
                      .++||.+||++|+++.  +++ ++++|+|+|+|+.|+|+++|++|+|+++++|||+.
T Consensus        19 ~~~TV~~LK~kI~~~~~egi~-~~dqQrLIy~GKiL~D~~TL~dygI~~gstlhLv~   74 (75)
T cd01815          19 GGYQVSTLKQLIAAQLPDSLP-DPELIDLIHCGRKLKDDQTLDFYGIQSGSTIHILR   74 (75)
T ss_pred             ccCcHHHHHHHHHHhhccCCC-ChHHeEEEeCCcCCCCCCcHHHcCCCCCCEEEEEe
Confidence            3679999999999995  454 38999999999999999999999999999999964

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.

>cd01814 NTGP5 Ubiquitin-like NTGP5 and ATGP4

Probab=99.02  E-value=3.9e-10  Score=97.43  Aligned_cols=77  Identities=14%  Similarity=0.203  Sum_probs=62.8

Q ss_pred             ceeeeeeecceeEE-EEeecCchHHHHHHHHHHhc-----CCCCCCCceEEEECCEEcCCCCcccccC------CCCCCE
Q 012177          110 QAITVTTVCGKVFE-FHVERGRNVGYVKQQIAKKG-----REFVDLKNQELICDGEELEDQRLITDIC------KRNEAV  177 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~-l~V~~~~TV~~LK~kI~~~~-----gip~~~e~QrLif~Gk~LeD~~tL~dy~------I~~~sv  177 (469)
                      +.|..|..+|..+. +.+.+++||++||++|++..     ++|.++++|+|+|.|+.|+|++||++|+      +....|
T Consensus         5 ~e~kfrl~dg~digp~~~~~sdTV~~lKekI~~~~p~~ke~~P~~~~~qKLIysGKiLeD~~TL~d~~~p~g~~~~~~~T   84 (113)
T cd01814           5 IEIKFRLYDGSDIGPKRYPAATTVDFLKERVVSQWPKDKEVGPKTVNEVKLISAGKILENSKTVGECRSPVGDIAGGVIT   84 (113)
T ss_pred             EEEEEEccCCCccCccccChhhHHHHHHHHHHHhcccccccCCCCHHHeEEEeCCeecCCCCcHHHhCCcccccCCCceE
Confidence            34555556665444 77889999999999999554     4555689999999999999999999999      778899


Q ss_pred             EEEEEeeCC
Q 012177          178 IHLLVRKSA  186 (469)
Q Consensus       178 I~Lv~rks~  186 (469)
                      +||++|.+.
T Consensus        85 mHvvlr~~~   93 (113)
T cd01814          85 MHVVVQPPL   93 (113)
T ss_pred             EEEEecCCC
Confidence            999999554

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

>cd01799 Hoil1_N Ubiquitin-like domain of HOIL1

Probab=99.00  E-value=7.9e-10  Score=89.81  Aligned_cols=64  Identities=17%  Similarity=0.064  Sum_probs=58.3

Q ss_pred             eecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcC-CCCcccccCCC-CCCEEEEEE
Q 012177          116 TVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELE-DQRLITDICKR-NEAVIHLLV  182 (469)
Q Consensus       116 t~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~Le-D~~tL~dy~I~-~~svI~Lv~  182 (469)
                      ...|.++++++++++||++||++|++++|+|  +++|+| |+|+.|. |.++|++|+++ +|++++|.+
T Consensus         9 ~~~~~t~~l~v~~~~TV~~lK~kI~~~~gip--~~~QrL-~~G~~L~dD~~tL~~ygi~~~g~~~~l~~   74 (75)
T cd01799           9 QSHTVTIWLTVRPDMTVAQLKDKVFLDYGFP--PAVQRW-VIGQRLARDQETLYSHGIRTNGDSAFLYI   74 (75)
T ss_pred             ccCCCeEEEEECCCCcHHHHHHHHHHHHCcC--HHHEEE-EcCCeeCCCcCCHHHcCCCCCCCEEEEEe
Confidence            3568899999999999999999999999998  999999 9999995 77999999998 889999864

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

>cd01795 USP48_C USP ubiquitin-specific protease

Probab=98.97  E-value=9.5e-10  Score=92.66  Aligned_cols=63  Identities=16%  Similarity=0.195  Sum_probs=59.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeec
Q 012177           44 VIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRL  106 (469)
Q Consensus        44 ~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrL  106 (469)
                      ..+++|++++||.+||.+|+++.++++.+|+|.|+|+.|.||.++|++|||..+++|.|.++.
T Consensus        16 ~~~L~V~~~~TVg~LK~lImQ~f~V~P~dQkL~~dG~~L~DDsrTLssyGv~sgSvl~Llide   78 (107)
T cd01795          16 EKALLVSANQTLKELKIQIMHAFSVAPFDQNLSIDGKILSDDCATLGTLGVIPESVILLKADE   78 (107)
T ss_pred             CceEEeCccccHHHHHHHHHHHhcCCcccceeeecCceeccCCccHHhcCCCCCCEEEEEecC
Confidence            567889999999999999999999999999999999999999999999999999999988754

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,

>PF00454 PI3_PI4_kinase: Phosphatidylinositol 3- and 4-kinase; InterPro: IPR000403 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases

Probab=98.94  E-value=3.2e-12  Score=124.24  Aligned_cols=138  Identities=28%  Similarity=0.319  Sum_probs=70.9

Q ss_pred             CcCCCcchhheeeeecccCCCCccc--ccccccCCCCCCCeEEEEeccccccCCCCC------CCCCCCccceeEeeeec
Q 012177          326 TRAGEGALREVAAYILDHPRDATYS--LHDEERGFAGVPPTVMVRCLHKGFNHPNGY------KHDLENVKIGSLQMFVE  397 (469)
Q Consensus       326 ~~~g~~~~rEvaAylld~~~~~~~~--~~~~~~g~~~VP~T~~v~~~~~~f~~~~~~------~~~~~~~k~GSlQ~fv~  397 (469)
                      ++.++++.+++++|.+....+..+.  .-+....+..|+.|...+..++.+++....      .......+.++.|.|++
T Consensus        28 ~l~~~~~~~~~~~Y~vipls~~~Glie~v~~~~tl~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~  107 (235)
T PF00454_consen   28 ILKKEGETREIRTYRVIPLSPNCGLIEWVPNTITLQEIYKTYCVRIGHSNDNPSRKYKAKLFEKQSSKVPKDGLRQYFLK  107 (235)
T ss_dssp             HHHHTT---------EEEEETTEEEEE--TTEEEHHHHHHHSTTSSTTTCSC------------------TTHHHHHHHH
T ss_pred             HHhcCCCCceEEEeEEEecCCCCceeEEeccccchhHhhccccccccccccccccccccccccccccccccchHHHHHHh
Confidence            3446778888999999853111000  001122333444444444444444433211      11244678899999999


Q ss_pred             CcCCcccCC-CCCCChhhhhheeeecEEEecCCCCCCcEEEecCCCCceEEEeeecCCccC------CCCCCcCCC
Q 012177          398 NVGSCEEMG-PRAFPVDEVHKISVLDIRLANTDRHAGNILVSKDEGGQIKLVPIDHGYCLP------YSVCPFSFP  466 (469)
Q Consensus       398 ~~~~~~~~~-~~~f~~~ev~ki~ilD~~~~N~DR~~gN~Lv~~~~~~~~~l~~IDhg~~~p------~~~~~~~W~  466 (469)
                      ...+++++. ....-..++++++|+||++.|.|||.+|||+... +|+  +++||||+||+      ....+|.|.
T Consensus       108 ~~~~~~~~~~~r~~f~~sla~~si~~yilg~gDRh~~Nili~~~-~g~--~~hIDfg~~f~~~~~~~~e~vPFrLT  180 (235)
T PF00454_consen  108 SFPSAEEWFEARKNFTRSLAAYSILDYILGLGDRHPGNILIDKK-TGE--LIHIDFGFIFGGKHLPVPETVPFRLT  180 (235)
T ss_dssp             HSCTTHHHHHHHHHHHHHHHHHHHHHHHHT-CS--TTTEEE-ET-TSE--EEE--HSSCTTHHHGSSSS--SSTTH
T ss_pred             cCCChhhhHhhhHhhHHHHHHHhhceEEEeecCCCchhheeccc-cce--eeeEEeHHhhhccccCCCCCCCeEeC
Confidence            988876664 3333467899999999999999999999999552 366  99999999999      117788874

Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. Phosphatidylinositol 3-kinase (PI3-kinase) (2.7.1.137 from EC) [] is an enzyme that phosphorylates phosphoinositides on the 3-hydroxyl group of the inositol ring. The three products of PI3-kinase - PI-3-P, PI-3,4-P(2) and PI-3,4,5-P(3) function as secondary messengers in cell signalling. Phosphatidylinositol 4-kinase (PI4-kinase) (2.7.1.67 from EC) [] is an enzyme that acts on phosphatidylinositol (PI) in the first committed step in the production of the secondary messenger inositol-1'4'5'-trisphosphate. This domain is also present in a wide range of protein kinases, involved in diverse cellular functions, such as control of cell growth, regulation of cell cycle progression, a DNA damage checkpoint, recombination, and maintenance of telomere length. Despite significant homology to lipid kinases, no lipid kinase activity has been demonstrated for any of the PIK-related kinases []. The PI3- and PI4-kinases share a well conserved domain at their C-terminal section; this domain seems to be distantly related to the catalytic domain of protein kinases [, ]. The catalytic domain of PI3K has the typical bilobal structure that is seen in other ATP-dependent kinases, with a small N-terminal lobe and a large C-terminal lobe. The core of this domain is the most conserved region of the PI3Ks. The ATP cofactor binds in the crevice formed by the N-and C-terminal lobes, a loop between two strands provides a hydrophobic pocket for binding of the adenine moiety, and a lysine residue interacts with the alpha-phosphate. In contrast to protein kinases, the PI3K loop which interacts with the phosphates of the ATP and is known as the glycine-rich or P-loop, contains no glycine residues. Instead, contact with the ATP -phosphate is maintained through the side chain of a conserved serine residue.; GO: 0016773 phosphotransferase activity, alcohol group as acceptor; PDB: 2WXL_A 4AJW_B 2WXQ_A 2WXP_A 2WXM_A 2WXH_A 2WXK_A 2WXG_A 2X38_A 2WXF_A ....

>cd01769 UBL Ubiquitin-like domain of UBL

Probab=98.87  E-value=6.5e-09  Score=81.14  Aligned_cols=67  Identities=31%  Similarity=0.469  Sum_probs=62.7

Q ss_pred             eeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEE
Q 012177          114 VTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLV  182 (469)
Q Consensus       114 Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~  182 (469)
                      |+..+|+.+.+++.++.||++||++|+...+++  ++.|+|.|+|+.|+|..+|.+|++.+++.|++..
T Consensus         2 v~~~~~~~~~~~~~~~~ti~~lK~~i~~~~~~~--~~~~~l~~~g~~l~d~~~l~~~~v~~~~~i~v~~   68 (69)
T cd01769           2 VKTLTGKTFELEVSPDDTVAELKAKIAAKEGVP--PEQQRLIYAGKILKDDKTLSDYGIQDGSTLHLVL   68 (69)
T ss_pred             eEccCCCEEEEEECCCChHHHHHHHHHHHHCcC--hHHEEEEECCcCCCCcCCHHHCCCCCCCEEEEEE
Confidence            667789999999999999999999999999987  9999999999999999999999999999999864

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.

>cd01814 NTGP5 Ubiquitin-like NTGP5 and ATGP4

Probab=98.83  E-value=3.5e-09  Score=91.55  Aligned_cols=75  Identities=21%  Similarity=0.259  Sum_probs=61.2

Q ss_pred             CCEEEEEEe-CC-eEEEEEeCCCCcHHHHHHHHHHH-----hCCC--CcceEEEEcCeecccCCccccccC------ccC
Q 012177           32 DSILIFLSV-GG-SVIPMRVMESDSIASVKLRIQSY-----NGFF--VKKQKLVFEGRELARSNSRVRDYG------LAD   96 (469)
Q Consensus        32 ~~M~I~V~l-~G-~~~~l~V~~sdTV~~LK~kIq~~-----~Gip--~~~QrLvf~Gk~L~~D~~tL~dyg------I~~   96 (469)
                      +.+.|...+ .| -.=+..+.+++||++||++|++.     +++|  +++|+|+|+|+.|. |+.+|++|+      +..
T Consensus         3 ~~~e~kfrl~dg~digp~~~~~sdTV~~lKekI~~~~p~~ke~~P~~~~~qKLIysGKiLe-D~~TL~d~~~p~g~~~~~   81 (113)
T cd01814           3 EQIEIKFRLYDGSDIGPKRYPAATTVDFLKERVVSQWPKDKEVGPKTVNEVKLISAGKILE-NSKTVGECRSPVGDIAGG   81 (113)
T ss_pred             ccEEEEEEccCCCccCccccChhhHHHHHHHHHHHhcccccccCCCCHHHeEEEeCCeecC-CCCcHHHhCCcccccCCC
Confidence            345555533 44 45577888999999999999944     4555  99999999999998 899999999      777


Q ss_pred             ccceeeeeecc
Q 012177           97 GNVLHLVLRLS  107 (469)
Q Consensus        97 gstl~LvlrLs  107 (469)
                      ..|+||+++.+
T Consensus        82 ~~TmHvvlr~~   92 (113)
T cd01814          82 VITMHVVVQPP   92 (113)
T ss_pred             ceEEEEEecCC
Confidence            89999999875

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=98.82  E-value=1.5e-08  Score=80.81  Aligned_cols=71  Identities=21%  Similarity=0.290  Sum_probs=65.1

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCC-CceEEEECCEEcCCCCcccccCCCCCCEEEEEE
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDL-KNQELICDGEELEDQRLITDICKRNEAVIHLLV  182 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~-e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~  182 (469)
                      |+|.|++.+|+.+.+.|.+++++..|++..+++.+++  . +..+|+|+|++|.++.|+.+|+++++++|++++
T Consensus         1 I~i~v~~~~~~~~~~~v~~~~~~~~l~~~~~~~~~i~--~~~~~~l~fdG~~L~~~~T~~~~~ied~d~Idv~I   72 (72)
T PF11976_consen    1 ITIKVRSQDGKEIKFKVKPTTTVSKLIEKYCEKKGIP--PEESIRLIFDGKRLDPNDTPEDLGIEDGDTIDVII   72 (72)
T ss_dssp             EEEEEEETTSEEEEEEEETTSCCHHHHHHHHHHHTTT--T-TTEEEEETTEEE-TTSCHHHHT-STTEEEEEE-
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCC--ccceEEEEECCEEcCCCCCHHHCCCCCCCEEEEEC
Confidence            5789999999999999999999999999999999988  7 999999999999999999999999999999863

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 ....

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

Probab=98.80  E-value=6.9e-09  Score=109.04  Aligned_cols=77  Identities=22%  Similarity=0.286  Sum_probs=70.7

Q ss_pred             ccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeCCc
Q 012177          108 DLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKSAK  187 (469)
Q Consensus       108 d~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks~k  187 (469)
                      ..++|+|||.++ +..+.|....||.++|++|+...+.+  +++++|+|.||.|+|+.+|..|+|++|.+||||.+...+
T Consensus        14 ~~irV~Vkt~~d-k~~~~V~~~ssV~qlKE~I~~~f~a~--~dqlvLIfaGrILKD~dTL~~~gI~Dg~TvHLVik~~~~   90 (493)
T KOG0010|consen   14 SLIRVTVKTPKD-KYEVNVASDSSVLQLKELIAQRFGAP--PDQLVLIYAGRILKDDDTLKQYGIQDGHTVHLVIKSQPR   90 (493)
T ss_pred             ceeEEEEecCCc-ceeEecccchHHHHHHHHHHHhcCCC--hhHeeeeecCccccChhhHHHcCCCCCcEEEEEeccCCC
Confidence            357899999988 78999999999999999999999987  999999999999999999999999999999999875433

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

Probab=98.80  E-value=9.9e-09  Score=103.07  Aligned_cols=77  Identities=22%  Similarity=0.294  Sum_probs=71.7

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeCC
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKSA  186 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks~  186 (469)
                      |.|+|||+.|.+|++++.+++||..+|++|+...|-..|.++|+|+|+|+.|.|..++.+|++..+..|.+++.|+.
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            68999999999999999999999999999999999444599999999999999999999999999999999888775

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

Probab=98.79  E-value=3.1e-08  Score=82.12  Aligned_cols=70  Identities=17%  Similarity=0.328  Sum_probs=60.0

Q ss_pred             EEEEEEeC--CeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEE-EcCe-----ecccCCccccccCccCccceeee
Q 012177           34 ILIFLSVG--GSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLV-FEGR-----ELARSNSRVRDYGLADGNVLHLV  103 (469)
Q Consensus        34 M~I~V~l~--G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLv-f~Gk-----~L~~D~~tL~dygI~~gstl~Lv  103 (469)
                      +.|+|+.+  ......++.++.||.+||++++...|+++..|+|. |.|+     .|.+|+.+|.+|++++|.+||++
T Consensus         2 v~v~i~~~~~~~~~ekr~~~~~Tv~~lK~kl~~~~G~~~~~mrL~l~~~~~~~~~~l~~d~~~L~~y~~~dg~~IhVv   79 (84)
T cd01789           2 VTVNITSSADSFSFEKKYSRGLTIAELKKKLELVVGTPASSMRLQLFDGDDKLVSKLDDDDALLGSYPVDDGCRIHVI   79 (84)
T ss_pred             EEEEEEeCCCceeeeEecCCCCcHHHHHHHHHHHHCCCccceEEEEEcCCCCeEeecCCCccEeeeccCCCCCEEEEE
Confidence            45666443  55666679999999999999999999999999995 7888     68778899999999999999986

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.

>cd01769 UBL Ubiquitin-like domain of UBL

Probab=98.78  E-value=1.6e-08  Score=78.91  Aligned_cols=64  Identities=33%  Similarity=0.658  Sum_probs=59.7

Q ss_pred             eCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeee
Q 012177           40 VGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVL  104 (469)
Q Consensus        40 l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~Lvl  104 (469)
                      .+|+.+.+++.++.||.+||.+|++..|+++..|+|+|+|+.|. |+.+|.+|++.++++|++..
T Consensus         5 ~~~~~~~~~~~~~~ti~~lK~~i~~~~~~~~~~~~l~~~g~~l~-d~~~l~~~~v~~~~~i~v~~   68 (69)
T cd01769           5 LTGKTFELEVSPDDTVAELKAKIAAKEGVPPEQQRLIYAGKILK-DDKTLSDYGIQDGSTLHLVL   68 (69)
T ss_pred             cCCCEEEEEECCCChHHHHHHHHHHHHCcChHHEEEEECCcCCC-CcCCHHHCCCCCCCEEEEEE
Confidence            46889999999999999999999999999999999999999997 88999999999999998764

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

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

Probab=98.77  E-value=8.9e-09  Score=103.39  Aligned_cols=73  Identities=19%  Similarity=0.439  Sum_probs=68.9

Q ss_pred             EEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhC--CCCcceEEEEcCeecccCCccccccCccCccceeeeeecc
Q 012177           34 ILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNG--FFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLS  107 (469)
Q Consensus        34 M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~G--ip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLs  107 (469)
                      |+|+| ++.++++++++.|++||.++|++|+...|  +|+.+|+|+|+|+.|. |+.++.+|+|+++..+.+++.-+
T Consensus         1 m~lt~KtL~q~~F~iev~Pe~tV~evK~kIet~~g~dyP~~~QkLIy~GkiL~-D~~tv~Eykv~E~~fiVvMlsK~   76 (340)
T KOG0011|consen    1 MKLTVKTLKQQTFTIEVKPEDTVVEVKKKIETEKGPDYPAEQQKLIYSGKILK-DETTVGEYKVKEKKFIVVMLSKD   76 (340)
T ss_pred             CeeEeeeccCceeEeecCcchhHHHHHHHHHhccCCCCchhhheeeecceecc-CCcchhhhccccCceEEEEEecC
Confidence            78999 99999999999999999999999999999  9999999999999998 99999999999999888777654

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

Probab=98.76  E-value=9.3e-09  Score=108.06  Aligned_cols=75  Identities=23%  Similarity=0.382  Sum_probs=68.7

Q ss_pred             CCEEEEEEeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecc
Q 012177           32 DSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLS  107 (469)
Q Consensus        32 ~~M~I~V~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLs  107 (469)
                      ..|+|+|+..+..+.+.|..+.||.+||++|....++++++|+|+|.||.|. |+.+|..|||++|.||||+++..
T Consensus        14 ~~irV~Vkt~~dk~~~~V~~~ssV~qlKE~I~~~f~a~~dqlvLIfaGrILK-D~dTL~~~gI~Dg~TvHLVik~~   88 (493)
T KOG0010|consen   14 SLIRVTVKTPKDKYEVNVASDSSVLQLKELIAQRFGAPPDQLVLIYAGRILK-DDDTLKQYGIQDGHTVHLVIKSQ   88 (493)
T ss_pred             ceeEEEEecCCcceeEecccchHHHHHHHHHHHhcCCChhHeeeeecCcccc-ChhhHHHcCCCCCcEEEEEeccC
Confidence            5688999444449999999999999999999999999999999999999998 99999999999999999998764

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

Probab=98.74  E-value=3.1e-08  Score=79.00  Aligned_cols=70  Identities=23%  Similarity=0.470  Sum_probs=63.9

Q ss_pred             EEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCC-cceEEEEcCeecccCCccccccCccCccceeeee
Q 012177           34 ILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFV-KKQKLVFEGRELARSNSRVRDYGLADGNVLHLVL  104 (469)
Q Consensus        34 M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~-~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~Lvl  104 (469)
                      |+|+| ..+|+.+.+.|.+++++..|+.+.+++.|++. +..+|+|+|+.|. ++.|+++|++.++++|++.+
T Consensus         1 I~i~v~~~~~~~~~~~v~~~~~~~~l~~~~~~~~~i~~~~~~~l~fdG~~L~-~~~T~~~~~ied~d~Idv~I   72 (72)
T PF11976_consen    1 ITIKVRSQDGKEIKFKVKPTTTVSKLIEKYCEKKGIPPEESIRLIFDGKRLD-PNDTPEDLGIEDGDTIDVII   72 (72)
T ss_dssp             EEEEEEETTSEEEEEEEETTSCCHHHHHHHHHHHTTTT-TTEEEEETTEEE--TTSCHHHHT-STTEEEEEE-
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCccceEEEEECCEEcC-CCCCHHHCCCCCCCEEEEEC
Confidence            78999 77889999999999999999999999999999 9999999999997 88999999999999999864

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=98.73  E-value=2.4e-08  Score=84.29  Aligned_cols=61  Identities=23%  Similarity=0.128  Sum_probs=56.9

Q ss_pred             eEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcC-CCCcccccCCCCCCEEEEEEe
Q 012177          121 VFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELE-DQRLITDICKRNEAVIHLLVR  183 (469)
Q Consensus       121 ~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~Le-D~~tL~dy~I~~~svI~Lv~r  183 (469)
                      ...++|++++||.+||.+|+..++++  +++|+|.|+|+.|. |.++|++|++..+++|.|.+.
T Consensus        16 ~~~L~V~~~~TVg~LK~lImQ~f~V~--P~dQkL~~dG~~L~DDsrTLssyGv~sgSvl~Llid   77 (107)
T cd01795          16 EKALLVSANQTLKELKIQIMHAFSVA--PFDQNLSIDGKILSDDCATLGTLGVIPESVILLKAD   77 (107)
T ss_pred             CceEEeCccccHHHHHHHHHHHhcCC--cccceeeecCceeccCCccHHhcCCCCCCEEEEEec
Confidence            56788999999999999999999988  99999999999996 589999999999999999875

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,

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

Probab=98.72  E-value=5.4e-08  Score=75.56  Aligned_cols=71  Identities=38%  Similarity=0.700  Sum_probs=66.6

Q ss_pred             EEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecc
Q 012177           36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLS  107 (469)
Q Consensus        36 I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLs  107 (469)
                      +++ ++.|+++.+++.++++|..+|.+|+.+.|++..+|++.+.|+.|+ |+.++.+|+|..+++++|..++.
T Consensus         2 ~~~~~~~gk~~~~~~~~~~~i~~~k~~i~~~~~~~~~~q~~~~~~~~l~-d~~~l~~~~i~~~~~~~l~~~~~   73 (75)
T KOG0001|consen    2 IFVKTLDGKTITLEVSPSDTIEVVKAKIRDKEGIPVDQQRLIFGGKPLE-DGRTLADYNIQEGSTLHLVLSLR   73 (75)
T ss_pred             EEEEecCCCEEEEEecCCCHHHHHHHHHHhhcCCCCeeEEEEECCEECc-CCCcHHHhCCCCCCEEEEEEecC
Confidence            456 788999999999999999999999999999999999999999998 88999999999999999988765

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

Probab=98.66  E-value=1.6e-07  Score=72.86  Aligned_cols=71  Identities=30%  Similarity=0.407  Sum_probs=66.9

Q ss_pred             eeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEee
Q 012177          112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       112 I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rk  184 (469)
                      +++++..|+++.+++.++.+|..+|.+|+...+++  ..+|++.+.|+.|+|..++.+|+|..+++++|..+.
T Consensus         2 ~~~~~~~gk~~~~~~~~~~~i~~~k~~i~~~~~~~--~~~q~~~~~~~~l~d~~~l~~~~i~~~~~~~l~~~~   72 (75)
T KOG0001|consen    2 IFVKTLDGKTITLEVSPSDTIEVVKAKIRDKEGIP--VDQQRLIFGGKPLEDGRTLADYNIQEGSTLHLVLSL   72 (75)
T ss_pred             EEEEecCCCEEEEEecCCCHHHHHHHHHHhhcCCC--CeeEEEEECCEECcCCCcHHHhCCCCCCEEEEEEec
Confidence            57788999999999999999999999999999988  899999999999999999999999999999997764

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

Probab=98.43  E-value=1e-06  Score=73.25  Aligned_cols=70  Identities=20%  Similarity=0.450  Sum_probs=57.3

Q ss_pred             EEEEEEeCC---eEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEc----C---eecccCCccccccCccCccceeee
Q 012177           34 ILIFLSVGG---SVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFE----G---RELARSNSRVRDYGLADGNVLHLV  103 (469)
Q Consensus        34 M~I~V~l~G---~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~----G---k~L~~D~~tL~dygI~~gstl~Lv  103 (469)
                      +.|+|+.+.   .....++.++.||.+||.+|+..+|+++..|+|.+.    +   ..+.+|..+|.+||+++|.+||+.
T Consensus         2 v~l~It~~~~~~~~~ekr~~~~~Tv~eLK~kl~~~~Gi~~~~m~L~l~~~~~~~~~~~~~dd~~~L~~y~~~dg~~i~V~   81 (87)
T PF14560_consen    2 VKLFITSSNSKQRSVEKRFPKSITVSELKQKLEKLTGIPPSDMRLQLKSDKDDSKIEELDDDDATLGSYGIKDGMRIHVV   81 (87)
T ss_dssp             EEEEEEESSSSSSEEEEEEETTSBHHHHHHHHHHHHTS-TTTEEEEEE-TSSSSEEEESSGSSSBCCHHT-STTEEEEEE
T ss_pred             EEEEEEeCCCCCeeEEEEcCCCCCHHHHHHHHHHHhCCCcccEEEEEEecCCCccccccCCCccEeecCCCCCCCEEEEE
Confidence            567774433   489999999999999999999999999999999876    1   336668899999999999999875

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

Probab=98.39  E-value=1.5e-06  Score=71.97  Aligned_cols=64  Identities=20%  Similarity=0.262  Sum_probs=55.3

Q ss_pred             ceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEE-ECCE-----Ec-CCCCcccccCCCCCCEEEEEEee
Q 012177          119 GKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELI-CDGE-----EL-EDQRLITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       119 Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLi-f~Gk-----~L-eD~~tL~dy~I~~~svI~Lv~rk  184 (469)
                      .......+.++.||.+||++|+...|++  +..|+|. |.|+     +| +|.++|.+|++++|..||++-..
T Consensus        12 ~~~~ekr~~~~~Tv~~lK~kl~~~~G~~--~~~mrL~l~~~~~~~~~~l~~d~~~L~~y~~~dg~~IhVvD~~   82 (84)
T cd01789          12 SFSFEKKYSRGLTIAELKKKLELVVGTP--ASSMRLQLFDGDDKLVSKLDDDDALLGSYPVDDGCRIHVIDVS   82 (84)
T ss_pred             ceeeeEecCCCCcHHHHHHHHHHHHCCC--ccceEEEEEcCCCCeEeecCCCccEeeeccCCCCCEEEEEeCC
Confidence            4455667999999999999999999998  9999995 8888     56 67899999999999999997543

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.

>cd01788 ElonginB Ubiquitin-like domain of Elongin B

Probab=98.35  E-value=1.2e-06  Score=75.91  Aligned_cols=75  Identities=20%  Similarity=0.196  Sum_probs=63.7

Q ss_pred             EEEEE--EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCc-------cCccceeeee
Q 012177           34 ILIFL--SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL-------ADGNVLHLVL  104 (469)
Q Consensus        34 M~I~V--~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI-------~~gstl~Lvl  104 (469)
                      |.+|+  .....++.+++.++.||.+||.+|+.....|+..|+|+-.+..|+ |+.+|+|||+       +..+++-|.+
T Consensus         1 MdvFlmIrR~KTTiF~dakes~tVlelK~~iegI~k~pp~dQrL~kd~qvLe-D~kTL~d~g~t~~~akaq~pA~vgLa~   79 (119)
T cd01788           1 MDVFLMIRRHKTTIFTDAKESTTVYELKRIVEGILKRPPEDQRLYKDDQLLD-DGKTLGDCGFTSQTARPQAPATVGLAF   79 (119)
T ss_pred             CceEEEEEecceEEEeecCCcccHHHHHHHHHHHhcCChhHheeecCceeec-ccccHHHcCccccccccCCCCeEEEEE
Confidence            34454  666778999999999999999999999999999999996667776 9999999999       6688888887


Q ss_pred             ecccc
Q 012177          105 RLSDL  109 (469)
Q Consensus       105 rLsd~  109 (469)
                      |-.++
T Consensus        80 r~~d~   84 (119)
T cd01788          80 RSSDD   84 (119)
T ss_pred             ecCCC
Confidence            75433

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.

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

Probab=98.29  E-value=5.4e-06  Score=72.41  Aligned_cols=76  Identities=25%  Similarity=0.321  Sum_probs=56.2

Q ss_pred             eeeeeeecce-eEEEEeecCchHHHHHHHHHHhcC-----CCCCCCceEEEECCEEcCCCCcccccCCCCCC------EE
Q 012177          111 AITVTTVCGK-VFEFHVERGRNVGYVKQQIAKKGR-----EFVDLKNQELICDGEELEDQRLITDICKRNEA------VI  178 (469)
Q Consensus       111 ~I~Vkt~~Gk-~~~l~V~~~~TV~~LK~kI~~~~g-----ip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~s------vI  178 (469)
                      .|..+..+|. ...+..+++.||++||++|...+.     .|..+.+.||+|.|+.|+|..+|.++.+..+.      ++
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            3444556788 777999999999999999998762     23356899999999999999999999876554      78


Q ss_pred             EEEEeeCC
Q 012177          179 HLLVRKSA  186 (469)
Q Consensus       179 ~Lv~rks~  186 (469)
                      ||++|...
T Consensus        84 Hlvvrp~~   91 (111)
T PF13881_consen   84 HLVVRPNA   91 (111)
T ss_dssp             EEEE-SSS
T ss_pred             EEEecCCC
Confidence            99888654

>cd01788 ElonginB Ubiquitin-like domain of Elongin B

Probab=98.22  E-value=5.1e-06  Score=71.94  Aligned_cols=64  Identities=19%  Similarity=0.152  Sum_probs=57.6

Q ss_pred             eeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCC-------CCCCEEEEEEeeC
Q 012177          120 KVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICK-------RNEAVIHLLVRKS  185 (469)
Q Consensus       120 k~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I-------~~~svI~Lv~rks  185 (469)
                      .++-++.+.+.||.+||++|+.....|  +++|+|+-.+..|+|.+||+||++       ++.+++-|.+|+.
T Consensus        12 TTiF~dakes~tVlelK~~iegI~k~p--p~dQrL~kd~qvLeD~kTL~d~g~t~~~akaq~pA~vgLa~r~~   82 (119)
T cd01788          12 TTIFTDAKESTTVYELKRIVEGILKRP--PEDQRLYKDDQLLDDGKTLGDCGFTSQTARPQAPATVGLAFRSS   82 (119)
T ss_pred             eEEEeecCCcccHHHHHHHHHHHhcCC--hhHheeecCceeecccccHHHcCccccccccCCCCeEEEEEecC
Confidence            355688999999999999999999988  999999987888999999999999       7799999988854

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.

>KOG3829 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.20  E-value=2.8e-06  Score=87.55  Aligned_cols=168  Identities=24%  Similarity=0.281  Sum_probs=102.0

Q ss_pred             HHHHHHHHHHHcCCCCc-cccCCCCcEE---EEEeCCCCeEEEEEecCC----CCCCCcCCCCCCCCCCCCCCccCCCcC
Q 012177          257 RLISSTVDGLERGNEPI-PSSEGSGGAY---FMQDSSGQKYISVFKPMD----EEPMSVNNPRGLPISVDGEGLKKGTRA  328 (469)
Q Consensus       257 ~~~~~~~~~~~~g~~p~-~~~~gs~g~y---~~~~~~g~~~~~vfKP~d----eEp~~~~nP~g~~~~~~~~~~~~~~~~  328 (469)
                      .++..+..++..  .|+ .+..+-+||-   .++-+.++  -|||||+.    ||-.. +   .|      -||-|    
T Consensus       151 ~~~~alL~~l~~--~pI~~v~v~~~GtqLKlll~~~~~~--KavfKPmR~~Rd~~~~~-~---yf------s~~dR----  212 (486)
T KOG3829|consen  151 QSMGALLHALRT--EPITRVSVLGRGTQLKLLLRLSHQQ--KVVFKPMRYPRDEVIDG-M---YY------SGFDR----  212 (486)
T ss_pred             hhHHHHHHHhhc--CcceEEeecCCceEEEEEEEecCCc--eeeeccccCCccccCCC-c---cc------ccccc----
Confidence            566666677654  466 4556666664   34445553  69999983    32221 1   11      12222    


Q ss_pred             CCcchhheeeeecccCCCCcccccccccCCCCCCCeEEEE--ecc-----------ccccCCCC-------CC-------
Q 012177          329 GEGALREVAAYILDHPRDATYSLHDEERGFAGVPPTVMVR--CLH-----------KGFNHPNG-------YK-------  381 (469)
Q Consensus       329 g~~~~rEvaAylld~~~~~~~~~~~~~~g~~~VP~T~~v~--~~~-----------~~f~~~~~-------~~-------  381 (469)
                         ---||||+=||+           .|||..+|||+=+-  ++-           .+|+.+.+       ++       
T Consensus       213 ---HnAEiAAFHLDR-----------iL~FrRappvVGRvvNlttEI~~~a~~~LlqtfFvsp~~N~CF~gKC~YyC~t~  278 (486)
T KOG3829|consen  213 ---HNAEVAAFHLDR-----------VLDFRRAPPVVGRVVNLTTEIYEKAEEELLQTFFVSPAENYCFFGKCDYYCDTE  278 (486)
T ss_pred             ---cchhhhhhhhhh-----------hhcccccCcccceeeeeehHHHHhhHHHHHhheeeccCcceEEeeccccccCCc
Confidence               356999999994           89999999996432  211           24544432       11       


Q ss_pred             ---CCCCCccceeEeeeecCcCCccc-CCC----C--------CC--------------C------hhhhhheeeecEEE
Q 012177          382 ---HDLENVKIGSLQMFVENVGSCEE-MGP----R--------AF--------------P------VDEVHKISVLDIRL  425 (469)
Q Consensus       382 ---~~~~~~k~GSlQ~fv~~~~~~~~-~~~----~--------~f--------------~------~~ev~ki~ilD~~~  425 (469)
                         +..+..+.||+|.|+++...... ..+    +        ..              |      .-++=.||||||+|
T Consensus       279 ~avCg~pdmlEGS~~~fLP~~~~~prk~~r~Pw~RtY~~~k~a~WE~d~~YCd~VK~~~pY~~g~RLlDliD~aIfDyLi  358 (486)
T KOG3829|consen  279 EAVCGDPDMLEGSLIAFLPDESTLPRKHRRSPWRRTYKKDKKAEWEDDMNYCDKVKSIKPYDEGRRLLDLIDMAIFDYLI  358 (486)
T ss_pred             ccccCCcccccceEEEEcCCcccccccccCCccccccccccccccccchHHHHHhcccCccccchhHHHHHHHHHHHHHh
Confidence               22558899999999998443311 000    0        00              0      11577899999999


Q ss_pred             ecCCCCCCcEEEecCCCCceEEEeeecCCccCC
Q 012177          426 ANTDRHAGNILVSKDEGGQIKLVPIDHGYCLPY  458 (469)
Q Consensus       426 ~N~DR~~gN~Lv~~~~~~~~~l~~IDhg~~~p~  458 (469)
                      .|+|||-=--.-.. + +.-.++-+|||-+|-.
T Consensus       359 GN~DRHHYEtF~~f-~-d~s~~ihLDngr~FGr  389 (486)
T KOG3829|consen  359 GNMDRHHYETFEVF-G-DLSFLIHLDNGRAFGR  389 (486)
T ss_pred             cccchhhhhhhhcc-C-CcceEEEeccccccCC
Confidence            99999954222111 2 3355899999998864

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

Probab=98.19  E-value=2.2e-06  Score=96.69  Aligned_cols=74  Identities=22%  Similarity=0.286  Sum_probs=69.5

Q ss_pred             eeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeCCc
Q 012177          111 AITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKSAK  187 (469)
Q Consensus       111 ~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks~k  187 (469)
                      .+.|||++.++.++.|...+||.++|..|.++.+|+  .+.|||+|.|++|.|.+++.+|+| +|.+|||+-|.+..
T Consensus         4 ~v~vktld~r~~t~~ig~q~ti~~~~d~~r~~~ni~--s~~qr~i~~grvl~~~k~vq~~~v-dgk~~hlverppp~   77 (1143)
T KOG4248|consen    4 NVLVKTLDSRTRTFIIGAQMTIKEFKDHIRASVNIP--SEKQRLIYQGRVLQDDKKVQEYNV-DGKVIHLVERPPPQ   77 (1143)
T ss_pred             ceeeeecccceeEEEechHHHHHHHHHHHHHhcccc--cccceeeecceeeccchhhhhccC-CCeEEEeeccCCCC
Confidence            378999999999999999999999999999999998  999999999999999999999999 99999999775443

>PLN02560 enoyl-CoA reductase

Probab=98.18  E-value=3.2e-06  Score=86.20  Aligned_cols=68  Identities=26%  Similarity=0.492  Sum_probs=58.6

Q ss_pred             EEEEE-EeCCeEE---EEEeCCCCcHHHHHHHHHHHhCC-CCcceEEEEc---Ce----ecccCCccccccCccCcccee
Q 012177           34 ILIFL-SVGGSVI---PMRVMESDSIASVKLRIQSYNGF-FVKKQKLVFE---GR----ELARSNSRVRDYGLADGNVLH  101 (469)
Q Consensus        34 M~I~V-~l~G~~~---~l~V~~sdTV~~LK~kIq~~~Gi-p~~~QrLvf~---Gk----~L~~D~~tL~dygI~~gstl~  101 (469)
                      |+|+| ..+|+.+   ++++.++.||++||.+|+++.++ ++++|||.+.   |+    .|. |+.+|++||++++++++
T Consensus         1 M~I~Vk~~~Gk~i~~~~lev~~~aTV~dLK~~Isk~~~~~~~~RqRL~~~~~~gk~~g~~L~-d~ktL~d~gv~~gstLy   79 (308)
T PLN02560          1 MKVTVVSRSGREIIKGGLEVPDSATVADLKKAIHKRKKKYYPSRQRLTLPLPPGKTRPTVLD-DSKSLKDYGLGDGGTVV   79 (308)
T ss_pred             CEEEEEcCCCCeecceeEEcCCCCcHHHHHHHHHHHcCCCChhheEEEEecCCCCcCccccC-CCCCHHhcCCCCCceEE
Confidence            78888 6678876   89999999999999999999986 8999999983   43    676 88899999999999866


Q ss_pred             e
Q 012177          102 L  102 (469)
Q Consensus       102 L  102 (469)
                      +
T Consensus        80 ~   80 (308)
T PLN02560         80 F   80 (308)
T ss_pred             E
Confidence            4

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

Probab=98.14  E-value=2.3e-06  Score=96.42  Aligned_cols=70  Identities=26%  Similarity=0.478  Sum_probs=67.0

Q ss_pred             EEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecc
Q 012177           36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLS  107 (469)
Q Consensus        36 I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLs  107 (469)
                      |.| |++.++.++.|...+||.++|..|.++.+|+.++|||+|+|+.|. |++++++|+| +|.+|||+-|..
T Consensus         5 v~vktld~r~~t~~ig~q~ti~~~~d~~r~~~ni~s~~qr~i~~grvl~-~~k~vq~~~v-dgk~~hlverpp   75 (1143)
T KOG4248|consen    5 VLVKTLDSRTRTFIIGAQMTIKEFKDHIRASVNIPSEKQRLIYQGRVLQ-DDKKVQEYNV-DGKVIHLVERPP   75 (1143)
T ss_pred             eeeeecccceeEEEechHHHHHHHHHHHHHhcccccccceeeecceeec-cchhhhhccC-CCeEEEeeccCC
Confidence            778 899999999999999999999999999999999999999999998 8999999999 999999999853

>PLN02560 enoyl-CoA reductase

Probab=98.14  E-value=4.5e-06  Score=85.13  Aligned_cols=70  Identities=20%  Similarity=0.324  Sum_probs=61.1

Q ss_pred             ceeeeeeecceeE---EEEeecCchHHHHHHHHHHhcCCCCCCCceEEEEC---C----EEcCCCCcccccCCCCCCEEE
Q 012177          110 QAITVTTVCGKVF---EFHVERGRNVGYVKQQIAKKGREFVDLKNQELICD---G----EELEDQRLITDICKRNEAVIH  179 (469)
Q Consensus       110 m~I~Vkt~~Gk~~---~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~---G----k~LeD~~tL~dy~I~~~svI~  179 (469)
                      |.|.|++.+|+.+   +++++++.||++||++|+++.++. ++++|||.+.   |    +.|+|+++|.||+++++++|+
T Consensus         1 M~I~Vk~~~Gk~i~~~~lev~~~aTV~dLK~~Isk~~~~~-~~~RqRL~~~~~~gk~~g~~L~d~ktL~d~gv~~gstLy   79 (308)
T PLN02560          1 MKVTVVSRSGREIIKGGLEVPDSATVADLKKAIHKRKKKY-YPSRQRLTLPLPPGKTRPTVLDDSKSLKDYGLGDGGTVV   79 (308)
T ss_pred             CEEEEEcCCCCeecceeEEcCCCCcHHHHHHHHHHHcCCC-ChhheEEEEecCCCCcCccccCCCCCHHhcCCCCCceEE
Confidence            6788888888887   799999999999999999998862 2899999983   3    478999999999999999988


Q ss_pred             E
Q 012177          180 L  180 (469)
Q Consensus       180 L  180 (469)
                      +
T Consensus        80 ~   80 (308)
T PLN02560         80 F   80 (308)
T ss_pred             E
Confidence            6

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

Probab=98.07  E-value=1.2e-05  Score=64.48  Aligned_cols=71  Identities=25%  Similarity=0.308  Sum_probs=60.6

Q ss_pred             EEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEc----CeecccCCccccccCccCccceeeeee
Q 012177           34 ILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFE----GRELARSNSRVRDYGLADGNVLHLVLR  105 (469)
Q Consensus        34 M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~----Gk~L~~D~~tL~dygI~~gstl~Lvlr  105 (469)
                      ++|+| ...+..+++.|+|..+|..+|++|+...|++- .|||.|+    .++|.++..+|++|||..+..|-|...
T Consensus         1 iqVtV~q~g~~dl~l~vnPy~pI~k~K~kI~~~~~~~g-~qrLsfQepgg~rqlL~s~~sLA~yGiFs~~~i~lleT   76 (80)
T cd01811           1 IQVTVEQTGYSDWILRVNPYSPIRKIKEKIRRSRNCSG-LQRLSFQEPGGERQLLSSRKSLADYGIFSKTNICLLET   76 (80)
T ss_pred             CEEEeeecCCCceEEEeCCcchHHHHHHHHHHhhCccc-ceEEEeecCCcccccccccccHhhhcceeccEEEEEec
Confidence            57888 66678899999999999999999999999985 9999996    345555899999999998887776544

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.

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

Probab=98.01  E-value=1.7e-05  Score=65.95  Aligned_cols=72  Identities=18%  Similarity=0.198  Sum_probs=55.9

Q ss_pred             eeeeeeecc--eeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEEC----C---EEc-CCCCcccccCCCCCCEEEE
Q 012177          111 AITVTTVCG--KVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICD----G---EEL-EDQRLITDICKRNEAVIHL  180 (469)
Q Consensus       111 ~I~Vkt~~G--k~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~----G---k~L-eD~~tL~dy~I~~~svI~L  180 (469)
                      .|+|.....  +.....+.++.||.+||++|+...|++  ++.|+|.+.    +   ..| +|.++|.+|++++|.+||+
T Consensus         3 ~l~It~~~~~~~~~ekr~~~~~Tv~eLK~kl~~~~Gi~--~~~m~L~l~~~~~~~~~~~~~dd~~~L~~y~~~dg~~i~V   80 (87)
T PF14560_consen    3 KLFITSSNSKQRSVEKRFPKSITVSELKQKLEKLTGIP--PSDMRLQLKSDKDDSKIEELDDDDATLGSYGIKDGMRIHV   80 (87)
T ss_dssp             EEEEEESSSSSSEEEEEEETTSBHHHHHHHHHHHHTS---TTTEEEEEE-TSSSSEEEESSGSSSBCCHHT-STTEEEEE
T ss_pred             EEEEEeCCCCCeeEEEEcCCCCCHHHHHHHHHHHhCCC--cccEEEEEEecCCCccccccCCCccEeecCCCCCCCEEEE
Confidence            344544333  477899999999999999999999998  999999985    1   224 5799999999999999998


Q ss_pred             EEee
Q 012177          181 LVRK  184 (469)
Q Consensus       181 v~rk  184 (469)
                      .-..
T Consensus        81 ~D~~   84 (87)
T PF14560_consen   81 VDTN   84 (87)
T ss_dssp             EE-T
T ss_pred             EeCC
Confidence            6543

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

Probab=97.98  E-value=3.9e-05  Score=66.99  Aligned_cols=74  Identities=30%  Similarity=0.417  Sum_probs=54.9

Q ss_pred             CEEEEE-EeCCe-EEEEEeCCCCcHHHHHHHHHHHh-------CCCCcceEEEEcCeecccCCccccccCccCcc-----
Q 012177           33 SILIFL-SVGGS-VIPMRVMESDSIASVKLRIQSYN-------GFFVKKQKLVFEGRELARSNSRVRDYGLADGN-----   98 (469)
Q Consensus        33 ~M~I~V-~l~G~-~~~l~V~~sdTV~~LK~kIq~~~-------Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gs-----   98 (469)
                      .+.|.. ..+|. +.++..++++||++||++|....       -..+...||+|.||.|+ |+.+|+++.+..+.     
T Consensus         2 ~i~lkf~l~~G~d~~~~~~~~~~TV~~lKe~i~~~WP~d~~~~p~s~~~lRLI~~GriL~-d~~tL~~~~~~~~~~~~~~   80 (111)
T PF13881_consen    2 KIELKFRLADGKDIGPFRFDPSTTVADLKERIWAEWPEDWEERPKSPSDLRLIYAGRILE-DNKTLSDCRLPSGETPGGP   80 (111)
T ss_dssp             SEEEEEEETTS-EEEEEEE-TTSBHHHHHHHHHHSSSTTSSSTT-SGGGEEEEETTEEE--SSSBTGGGT--TTSETT--
T ss_pred             eEEEEEEEeCCCcccccccCccChHHHHHHHHHHHCccccccCCCChhhEEEEeCCeecC-CcCcHHHhCCCCCCCCCCC
Confidence            456666 55888 99999999999999999999753       12345679999999998 99999999987655     


Q ss_pred             -ceeeeeecc
Q 012177           99 -VLHLVLRLS  107 (469)
Q Consensus        99 -tl~LvlrLs  107 (469)
                       ++||+++..
T Consensus        81 ~vmHlvvrp~   90 (111)
T PF13881_consen   81 TVMHLVVRPN   90 (111)
T ss_dssp             EEEEEEE-SS
T ss_pred             EEEEEEecCC
Confidence             688888764

>cd00196 UBQ Ubiquitin-like proteins

Probab=97.85  E-value=7.6e-05  Score=54.49  Aligned_cols=64  Identities=27%  Similarity=0.296  Sum_probs=58.1

Q ss_pred             ecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEE
Q 012177          117 VCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLV  182 (469)
Q Consensus       117 ~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~  182 (469)
                      .+|....+.+.+..|+++||++|+++.+.+  ++.+.|+++|..+++...+.+|++.++++|++..
T Consensus         5 ~~~~~~~~~~~~~~tv~~l~~~i~~~~~~~--~~~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~   68 (69)
T cd00196           5 NDGKTVELLVPSGTTVADLKEKLAKKLGLP--PEQQRLLVNGKILPDSLTLEDYGLQDGDELVLVP   68 (69)
T ss_pred             cCCCEEEEEcCCCCcHHHHHHHHHHHHCcC--hHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEe
Confidence            367888899999999999999999999966  9999999999999999888899999999999853

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=97.77  E-value=5.1e-05  Score=62.45  Aligned_cols=73  Identities=19%  Similarity=0.275  Sum_probs=45.1

Q ss_pred             CCCEEEEEEeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEc---Ceec-ccCCccccccCccCccceeee
Q 012177           31 NDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFE---GREL-ARSNSRVRDYGLADGNVLHLV  103 (469)
Q Consensus        31 ~~~M~I~V~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~---Gk~L-~~D~~tL~dygI~~gstl~Lv  103 (469)
                      .++|.|.|....-+..+++++++|+.+||++|++..+++...|.|+.+   ..+| ..++.+|+++||+.|+.|.|.
T Consensus         2 ~~~milRvrS~dG~~Rie~~~~~t~~~L~~kI~~~l~~~~~~~~L~~~~~~~~~l~s~~~~tl~~lglkHGdmlyL~   78 (80)
T PF11543_consen    2 ASSMILRVRSKDGMKRIEVSPSSTLSDLKEKISEQLSIPDSSQSLSKDRNNKEELKSSDSKTLSSLGLKHGDMLYLK   78 (80)
T ss_dssp             ----EEEEE-SSEEEEEEE-TTSBHHHHHHHHHHHS---TTT---BSSGGGGGCSSS-TT-CCCCT---TT-EEE--
T ss_pred             CccEEEEEECCCCCEEEEcCCcccHHHHHHHHHHHcCCCCcceEEEecCCCCcccccCCcCCHHHcCCCCccEEEEe
Confidence            357889996666788999999999999999999999999999999753   3345 346899999999999998764

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=97.72  E-value=0.00012  Score=53.32  Aligned_cols=63  Identities=29%  Similarity=0.494  Sum_probs=57.1

Q ss_pred             CCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeee
Q 012177           41 GGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVL  104 (469)
Q Consensus        41 ~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~Lvl  104 (469)
                      .+....+.+.++.|+.+||.+|.++.|+++..|.|+++|..+. +...+.+|++.+++++++..
T Consensus         6 ~~~~~~~~~~~~~tv~~l~~~i~~~~~~~~~~~~l~~~~~~~~-~~~~~~~~~~~~~~~i~~~~   68 (69)
T cd00196           6 DGKTVELLVPSGTTVADLKEKLAKKLGLPPEQQRLLVNGKILP-DSLTLEDYGLQDGDELVLVP   68 (69)
T ss_pred             CCCEEEEEcCCCCcHHHHHHHHHHHHCcChHHeEEEECCeECC-CCCcHHHcCCCCCCEEEEEe
Confidence            4778889999999999999999999999999999999999998 67777899999999998764

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.

>cd01801 Tsc13_N Ubiquitin-like domain of Tsc13

Probab=97.68  E-value=0.0001  Score=59.85  Aligned_cols=53  Identities=21%  Similarity=0.310  Sum_probs=46.4

Q ss_pred             ecCchHHHHHHHHHHhcCCCCCCCceEEE--ECCEEcCCCCcccccCCCCCCEEEE
Q 012177          127 ERGRNVGYVKQQIAKKGREFVDLKNQELI--CDGEELEDQRLITDICKRNEAVIHL  180 (469)
Q Consensus       127 ~~~~TV~~LK~kI~~~~gip~~~e~QrLi--f~Gk~LeD~~tL~dy~I~~~svI~L  180 (469)
                      .++.||.+||+.|++..+.. ++++|+|.  +.|+.|.|..+|.+|++.++++|++
T Consensus        20 ~~~aTV~dlk~~i~~~~~~~-~~~Rqrl~~~~~g~~L~d~~tL~~~gv~~g~~lyv   74 (77)
T cd01801          20 SGDATIADLKKLIAKSSPQL-TVNRQSLRLEPKGKSLKDDDTLVDLGVGAGATLYV   74 (77)
T ss_pred             CCCccHHHHHHHHHHHcCCC-CcceeEEEeCCCCcccCCcccHhhcCCCCCCEEEE
Confidence            47789999999999987642 38999996  7999999999999999999999886

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=97.65  E-value=0.0001  Score=59.86  Aligned_cols=55  Identities=25%  Similarity=0.397  Sum_probs=46.7

Q ss_pred             EEe-CCCCcHHHHHHHHHHHhC-CCCcceEEE--EcCeecccCCccccccCccCccceee
Q 012177           47 MRV-MESDSIASVKLRIQSYNG-FFVKKQKLV--FEGRELARSNSRVRDYGLADGNVLHL  102 (469)
Q Consensus        47 l~V-~~sdTV~~LK~kIq~~~G-ip~~~QrLv--f~Gk~L~~D~~tL~dygI~~gstl~L  102 (469)
                      +++ .++.||.+||..|++..+ +++++|+|.  +.|+.|. |+.+|.+||+.++++|++
T Consensus        16 ~~~~~~~aTV~dlk~~i~~~~~~~~~~Rqrl~~~~~g~~L~-d~~tL~~~gv~~g~~lyv   74 (77)
T cd01801          16 LKVSSGDATIADLKKLIAKSSPQLTVNRQSLRLEPKGKSLK-DDDTLVDLGVGAGATLYV   74 (77)
T ss_pred             cccCCCCccHHHHHHHHHHHcCCCCcceeEEEeCCCCcccC-CcccHhhcCCCCCCEEEE
Confidence            444 478899999999999875 578999996  7899998 888999999999998764

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.

>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=97.50  E-value=0.00012  Score=60.29  Aligned_cols=70  Identities=17%  Similarity=0.197  Sum_probs=43.3

Q ss_pred             ccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEE---CCEEc--CCCCcccccCCCCCCEEEE
Q 012177          108 DLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELIC---DGEEL--EDQRLITDICKRNEAVIHL  180 (469)
Q Consensus       108 d~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif---~Gk~L--eD~~tL~dy~I~~~svI~L  180 (469)
                      +.|-|-||+.+|- ..+++++++|+.+||++|++..+++  .+.|.|+.   ...+|  .+.++|++++++.|+.|+|
T Consensus         3 ~~milRvrS~dG~-~Rie~~~~~t~~~L~~kI~~~l~~~--~~~~~L~~~~~~~~~l~s~~~~tl~~lglkHGdmlyL   77 (80)
T PF11543_consen    3 SSMILRVRSKDGM-KRIEVSPSSTLSDLKEKISEQLSIP--DSSQSLSKDRNNKEELKSSDSKTLSSLGLKHGDMLYL   77 (80)
T ss_dssp             ---EEEEE-SSEE-EEEEE-TTSBHHHHHHHHHHHS-----TTT---BSSGGGGGCSSS-TT-CCCCT---TT-EEE-
T ss_pred             ccEEEEEECCCCC-EEEEcCCcccHHHHHHHHHHHcCCC--CcceEEEecCCCCcccccCCcCCHHHcCCCCccEEEE
Confidence            4567778887765 6789999999999999999999987  77888864   22345  4689999999999999987

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.

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

Probab=97.36  E-value=0.00072  Score=54.46  Aligned_cols=71  Identities=20%  Similarity=0.156  Sum_probs=60.5

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEE---CCE--EcCCCCcccccCCCCCCEEEEEEe
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELIC---DGE--ELEDQRLITDICKRNEAVIHLLVR  183 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif---~Gk--~LeD~~tL~dy~I~~~svI~Lv~r  183 (469)
                      ++++|+...+..+++.|+|..+|..+|++|....+.+   ..|||.|   +|+  .|.+..+|++|+|=.+..|.|+-.
T Consensus         1 iqVtV~q~g~~dl~l~vnPy~pI~k~K~kI~~~~~~~---g~qrLsfQepgg~rqlL~s~~sLA~yGiFs~~~i~lleT   76 (80)
T cd01811           1 IQVTVEQTGYSDWILRVNPYSPIRKIKEKIRRSRNCS---GLQRLSFQEPGGERQLLSSRKSLADYGIFSKTNICLLET   76 (80)
T ss_pred             CEEEeeecCCCceEEEeCCcchHHHHHHHHHHhhCcc---cceEEEeecCCcccccccccccHhhhcceeccEEEEEec
Confidence            3678888888899999999999999999999999976   6999999   333  378999999999987777777543

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=97.30  E-value=0.00036  Score=70.14  Aligned_cols=66  Identities=14%  Similarity=0.227  Sum_probs=58.8

Q ss_pred             ceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeCC
Q 012177          119 GKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKSA  186 (469)
Q Consensus       119 Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks~  186 (469)
                      ...++++|+.+.+|.+||+.+++..|+|  +++.+++|.|++|.|..++..+.+...+++|+++-+++
T Consensus        13 ~h~l~v~v~~~t~I~~lke~Vak~~gvp--~D~L~viFaGKeLs~~ttv~~cDL~qqs~~hi~~lRP~   78 (446)
T KOG0006|consen   13 SHGLPVEVDSDTSIFQLKEVVAKRQGVP--ADQLRVIFAGKELSNDTTVQNCDLSQQSATHIMLLRPW   78 (446)
T ss_pred             cCceeEEEecCCCHHHHHHHHHHhhCCC--hhheEEEEeccccccCceeecccccccchhhhhccCcc
Confidence            3467799999999999999999999998  99999999999999999999888888899998855444

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

Probab=97.17  E-value=0.00069  Score=68.21  Aligned_cols=69  Identities=20%  Similarity=0.474  Sum_probs=60.0

Q ss_pred             EEEEEEeC--C--eEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeee
Q 012177           34 ILIFLSVG--G--SVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLV  103 (469)
Q Consensus        34 M~I~V~l~--G--~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~Lv  103 (469)
                      |.++|.+.  |  ..++++|+.+.+|.+||+-++.+.|+|+++.+++|.|++|+ |+.+++.+.+..-+.+|.+
T Consensus         1 m~~lvqf~~~~~~h~l~v~v~~~t~I~~lke~Vak~~gvp~D~L~viFaGKeLs-~~ttv~~cDL~qqs~~hi~   73 (446)
T KOG0006|consen    1 MIVLVQFNKTGSSHGLPVEVDSDTSIFQLKEVVAKRQGVPADQLRVIFAGKELS-NDTTVQNCDLSQQSATHIM   73 (446)
T ss_pred             CeEEEEeCCccccCceeEEEecCCCHHHHHHHHHHhhCCChhheEEEEeccccc-cCceeecccccccchhhhh
Confidence            55666443  2  45888999999999999999999999999999999999998 8999998888888888876

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

Probab=96.73  E-value=0.0025  Score=53.73  Aligned_cols=61  Identities=16%  Similarity=0.205  Sum_probs=51.1

Q ss_pred             EEEEEeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEE-cCeecccCCccccccCcc
Q 012177           35 LIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVF-EGRELARSNSRVRDYGLA   95 (469)
Q Consensus        35 ~I~V~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf-~Gk~L~~D~~tL~dygI~   95 (469)
                      -|.|.....++.++..++.||-+||.+++....-|++.|+|+. ...+|.+|..+|+|+|..
T Consensus         4 f~~VrR~kttif~da~es~tV~elK~~l~gi~~~Pvn~qrL~kmd~eqlL~D~ktL~d~gft   65 (110)
T KOG4495|consen    4 FLRVRRHKTTIFTDAKESSTVFELKRKLEGILKRPVNEQRLYKMDTEQLLDDGKTLGDCGFT   65 (110)
T ss_pred             eeeeeecceeEEeecCccccHHHHHHHHHHHHhCCCcchheeecCHHHHhhccchhhhcccc
Confidence            3444666788999999999999999999999999999999997 553555599999999753

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

Probab=96.65  E-value=0.00074  Score=52.87  Aligned_cols=68  Identities=22%  Similarity=0.211  Sum_probs=58.4

Q ss_pred             EEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeee
Q 012177           35 LIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLV  103 (469)
Q Consensus        35 ~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~Lv  103 (469)
                      ++.+ ..-|+...+...++|||.++|..|++++|..+++..|---+.... |.-+|++|.|.+|-.+.|.
T Consensus         3 ev~~nDrLGKKVRvKCn~dDtiGD~KKliaaQtGT~~~kivl~k~~~i~k-d~I~L~dyeihdg~~lely   71 (73)
T KOG3493|consen    3 EVVLNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTRPEKIVLKKWYTIFK-DHITLSDYEIHDGMNLELY   71 (73)
T ss_pred             eehhhhhcCceEEEEeCCcccccCHHHHHHHhhCCChhHhHHHhhhhhhh-cccceeeEEeccCccEEEe
Confidence            4455 556889999999999999999999999999999888875566676 8999999999999888764

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

Probab=96.24  E-value=0.0018  Score=50.71  Aligned_cols=68  Identities=15%  Similarity=0.120  Sum_probs=57.8

Q ss_pred             eeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEE
Q 012177          111 AITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHL  180 (469)
Q Consensus       111 ~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~L  180 (469)
                      .+.++..-|+...+.+.+.+||+++|+.|+...|..  ++...|---+..+.|+-+|+||.|.++-.+.|
T Consensus         3 ev~~nDrLGKKVRvKCn~dDtiGD~KKliaaQtGT~--~~kivl~k~~~i~kd~I~L~dyeihdg~~lel   70 (73)
T KOG3493|consen    3 EVVLNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTR--PEKIVLKKWYTIFKDHITLSDYEIHDGMNLEL   70 (73)
T ss_pred             eehhhhhcCceEEEEeCCcccccCHHHHHHHhhCCC--hhHhHHHhhhhhhhcccceeeEEeccCccEEE
Confidence            344555669999999999999999999999999977  77777776677789999999999998877765

>PF07804 HipA_C: HipA-like C-terminal domain; InterPro: IPR012893 The members of this entry are similar to a region close to the C terminus of the HipA protein expressed by various bacterial species (for example P23874 from SWISSPROT)

Probab=96.02  E-value=0.0015  Score=53.16  Aligned_cols=38  Identities=37%  Similarity=0.538  Sum_probs=28.7

Q ss_pred             hhhhhheeeecEEEecCCCCCCcEEEecCCCCceEEEee
Q 012177          412 VDEVHKISVLDIRLANTDRHAGNILVSKDEGGQIKLVPI  450 (469)
Q Consensus       412 ~~ev~ki~ilD~~~~N~DR~~gN~Lv~~~~~~~~~l~~I  450 (469)
                      +.|+-++.+|+++|.|+|||.+||=+-.+ ++.++|.|+
T Consensus        40 ~~~l~~~~~fn~ligN~D~H~kN~s~l~~-~~~~~LaP~   77 (79)
T PF07804_consen   40 VRELFRRLVFNYLIGNTDRHLKNFSFLYD-GGGWRLAPA   77 (79)
T ss_dssp             HHHHHHHHHHHHHCTBS---CCCSEEEEE-CCEEEE--B
T ss_pred             HHHHHHHHHHHHHHcCCcCCcCCEEEEEc-CCeEEecCC
Confidence            56888999999999999999999988775 577889886

This protein is known to be involved in high-frequency persistence to the lethal effects of inhibition of either DNA or peptidoglycan synthesis []. When expressed alone, it is toxic to bacterial cells [], but it is usually tightly associated with HipB [], and the HipA-HipB complex may be involved in autoregulation of the hip operon. The hip proteins may be involved in cell division control and may interact with cell division genes or their products []. ; PDB: 3AKL_D 3AKJ_B 3AKK_D 2WIU_C 3HZI_A 3DNT_B 3FBR_A 3DNU_A 3DNV_A.

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

Probab=95.95  E-value=0.012  Score=49.71  Aligned_cols=52  Identities=15%  Similarity=0.105  Sum_probs=44.5

Q ss_pred             ceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEE-CC-EEcCCCCcccccCC
Q 012177          119 GKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELIC-DG-EELEDQRLITDICK  172 (469)
Q Consensus       119 Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif-~G-k~LeD~~tL~dy~I  172 (469)
                      ..++.++.+++.||-+||++++....-|  ++.|+|+. .. +.|+|.++|+|++.
T Consensus        11 kttif~da~es~tV~elK~~l~gi~~~P--vn~qrL~kmd~eqlL~D~ktL~d~gf   64 (110)
T KOG4495|consen   11 KTTIFTDAKESSTVFELKRKLEGILKRP--VNEQRLYKMDTEQLLDDGKTLGDCGF   64 (110)
T ss_pred             ceeEEeecCccccHHHHHHHHHHHHhCC--CcchheeecCHHHHhhccchhhhccc
Confidence            3456688999999999999999999887  99999997 44 56899999999953

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

Probab=95.93  E-value=0.014  Score=62.06  Aligned_cols=71  Identities=13%  Similarity=0.236  Sum_probs=63.7

Q ss_pred             EEEEEeCCeEEEEE-eCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeec
Q 012177           35 LIFLSVGGSVIPMR-VMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRL  106 (469)
Q Consensus        35 ~I~V~l~G~~~~l~-V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrL  106 (469)
                      .|.|.-.|+.++++ ++.++|+..+|.++...+|++++.|++...|..+. |+..+...+|+++.+++|+-..
T Consensus         5 ~v~VKW~gk~y~v~~l~~d~t~~vlKaqlf~LTgV~PeRQKv~vKGg~a~-dd~~~~al~iKpn~~lmMmGt~   76 (473)
T KOG1872|consen    5 TVIVKWGGKKYPVETLSTDETPSVLKAQLFALTGVPPERQKVMVKGGLAK-DDVDWGALQIKPNETLMMMGTA   76 (473)
T ss_pred             eEeeeecCccccceeccCCCchHHHHHHHHHhcCCCccceeEEEeccccc-ccccccccccCCCCEEEeeccc
Confidence            35557788999998 89999999999999999999999999999999998 7778888999999999987654

>PF06702 DUF1193: Protein of unknown function (DUF1193); InterPro: IPR009581 This family is baesd on the C terminus of several hypothetical eukaryotic proteins of unknown function

Probab=95.31  E-value=0.0095  Score=57.87  Aligned_cols=42  Identities=19%  Similarity=0.292  Sum_probs=32.8

Q ss_pred             hhhheeeecEEEecCCCCCCcEEEecCCCCceEEEeeecCCccC
Q 012177          414 EVHKISVLDIRLANTDRHAGNILVSKDEGGQIKLVPIDHGYCLP  457 (469)
Q Consensus       414 ev~ki~ilD~~~~N~DR~~gN~Lv~~~~~~~~~l~~IDhg~~~p  457 (469)
                      ++=-++|||++|.|+|||.-|..-+. .++ .-++-+|||-.|-
T Consensus        91 dliDm~IFDFLigN~DRhhye~f~~f-gn~-~~l~~LDNgrgFG  132 (221)
T PF06702_consen   91 DLIDMAIFDFLIGNMDRHHYETFNKF-GNE-GFLLHLDNGRGFG  132 (221)
T ss_pred             HHHHHHHHHHHhcCCcchhhhhhhcc-CCC-ceEEEEeCCcccC
Confidence            56679999999999999999966332 222 3489999999883

Proteins in this entry contain two conserved motifs: DRHHYE and QCC, as well as a number of conserved cysteine residues.

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

Probab=95.30  E-value=0.14  Score=43.67  Aligned_cols=75  Identities=12%  Similarity=0.232  Sum_probs=65.8

Q ss_pred             cceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeC
Q 012177          109 LQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKS  185 (469)
Q Consensus       109 ~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks  185 (469)
                      -+.+.|+--++.++.+.|.++.....|...-+++.|+.  ....|++|+|+.+.+.+|-++...+++++|.++..+.
T Consensus        20 hi~LKV~gqd~~~~~Fkikr~t~LkKLM~aYc~r~Gl~--~~s~RFlFdG~rI~~~~TP~~L~mEd~D~Iev~~~q~   94 (99)
T KOG1769|consen   20 HINLKVKGQDGSVVVFKIKRHTPLKKLMKAYCERQGLS--MNSLRFLFDGQRIRETHTPADLEMEDGDEIEVVQEQT   94 (99)
T ss_pred             eEEEEEecCCCCEEEEEeecCChHHHHHHHHHHHcCCc--cceEEEEECCcCcCCCCChhhhCCcCCcEEEEEeecc
Confidence            34555666677888899999999999999999999988  8999999999999999999999999999999875543

>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=95.09  E-value=0.071  Score=42.26  Aligned_cols=63  Identities=14%  Similarity=0.075  Sum_probs=46.1

Q ss_pred             EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceee
Q 012177           39 SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHL  102 (469)
Q Consensus        39 ~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~L  102 (469)
                      ..+++...+.|.|+.++.++-+...++.|+.+.+-.|.++++.|. -..+++-.|+.+|+.+.|
T Consensus         3 ~~~~rr~~vkvtp~~~l~~VL~eac~k~~l~~~~~~L~h~~k~ld-lslp~R~snL~n~akLeL   65 (65)
T PF11470_consen    3 CYNFRRFKVKVTPNTTLNQVLEEACKKFGLDPSSYDLKHNNKPLD-LSLPFRLSNLPNNAKLEL   65 (65)
T ss_dssp             -TTS-EEEE---TTSBHHHHHHHHHHHTT--GGG-EEEETTEEES-SS-BHHHH---SS-EEEE
T ss_pred             ccCCcEEEEEECCCCCHHHHHHHHHHHcCCCccceEEEECCEEec-cccceeecCCCCCCEEeC
Confidence            457889999999999999999999999999999999999999997 889999999999998865

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.

>PF13019 Telomere_Sde2: Telomere stability and silencing

Probab=94.84  E-value=0.096  Score=48.68  Aligned_cols=76  Identities=18%  Similarity=0.216  Sum_probs=55.7

Q ss_pred             EEEEE-EeCC----eEEEEEeCCCCcHHHHHHHHHHHhCCCCcce-EEEE-cCeecc-cCCccccccCccCc----ccee
Q 012177           34 ILIFL-SVGG----SVIPMRVMESDSIASVKLRIQSYNGFFVKKQ-KLVF-EGRELA-RSNSRVRDYGLADG----NVLH  101 (469)
Q Consensus        34 M~I~V-~l~G----~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~Q-rLvf-~Gk~L~-~D~~tL~dygI~~g----stl~  101 (469)
                      |+|+| +++|    .++.+.+.++.||.+|+.+|....+++...| .|++ .++.|. .++..+..+.-.+.    .+++
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            68999 8888    6899999999999999999999999998885 4555 355653 24555665544333    3566


Q ss_pred             eeeecccc
Q 012177          102 LVLRLSDL  109 (469)
Q Consensus       102 LvlrLsd~  109 (469)
                      |.+++.++
T Consensus        81 l~~rl~GG   88 (162)
T PF13019_consen   81 LSLRLRGG   88 (162)
T ss_pred             EEEeccCC
Confidence            77776543

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

Probab=94.82  E-value=0.058  Score=57.38  Aligned_cols=72  Identities=13%  Similarity=0.126  Sum_probs=63.6

Q ss_pred             eeeeeecceeEEEE-eecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeCC
Q 012177          112 ITVTTVCGKVFEFH-VERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKSA  186 (469)
Q Consensus       112 I~Vkt~~Gk~~~l~-V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks~  186 (469)
                      |.|| -.|+.+.++ ++.++|+..+|+++....|++  |++|++.+.|..+.|+-.+....|+++.+|+|+-...+
T Consensus         6 v~VK-W~gk~y~v~~l~~d~t~~vlKaqlf~LTgV~--PeRQKv~vKGg~a~dd~~~~al~iKpn~~lmMmGt~e~   78 (473)
T KOG1872|consen    6 VIVK-WGGKKYPVETLSTDETPSVLKAQLFALTGVP--PERQKVMVKGGLAKDDVDWGALQIKPNETLMMMGTAEA   78 (473)
T ss_pred             Eeee-ecCccccceeccCCCchHHHHHHHHHhcCCC--ccceeEEEecccccccccccccccCCCCEEEeeccccc
Confidence            4444 568888887 999999999999999999988  99999999999999998888889999999999876554

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

Probab=94.63  E-value=0.22  Score=42.57  Aligned_cols=77  Identities=14%  Similarity=0.339  Sum_probs=67.5

Q ss_pred             CCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeeccc
Q 012177           31 NDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSD  108 (469)
Q Consensus        31 ~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd  108 (469)
                      ++.+.+.| ...+.+..+.|.-+.+...|+..-+++.|+.....|+.|+|+.+. ...|-.+.+..+++.|.++....+
T Consensus        18 ~~hi~LKV~gqd~~~~~Fkikr~t~LkKLM~aYc~r~Gl~~~s~RFlFdG~rI~-~~~TP~~L~mEd~D~Iev~~~q~g   95 (99)
T KOG1769|consen   18 SEHINLKVKGQDGSVVVFKIKRHTPLKKLMKAYCERQGLSMNSLRFLFDGQRIR-ETHTPADLEMEDGDEIEVVQEQTG   95 (99)
T ss_pred             cceEEEEEecCCCCEEEEEeecCChHHHHHHHHHHHcCCccceEEEEECCcCcC-CCCChhhhCCcCCcEEEEEeeccc
Confidence            45666667 566788999999999999999999999999999999999999997 889999999999999988765443

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

Probab=94.57  E-value=0.073  Score=45.49  Aligned_cols=50  Identities=18%  Similarity=0.223  Sum_probs=39.6

Q ss_pred             eEEEEee--cCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCccccc
Q 012177          121 VFEFHVE--RGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDI  170 (469)
Q Consensus       121 ~~~l~V~--~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy  170 (469)
                      .+.+++.  .+.||..||++|.+...-...-..+||+|+|+.|.|...|...
T Consensus        13 Dl~L~I~~~~~~Tv~~LK~lIR~~~p~~~s~~rLRlI~~Gr~L~d~t~l~~~   64 (97)
T PF10302_consen   13 DLPLDIPSPNTTTVAWLKQLIRERLPPEPSRRRLRLIYAGRLLNDHTDLSSE   64 (97)
T ss_pred             CceeecCCCCcccHHHHHHHHHhhcCCCCccccEEeeecCcccCccchhhhh
Confidence            3666666  7889999999999998422236789999999999998777653

They contain a characteristic GFDRL sequence motif.

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

Probab=94.32  E-value=0.11  Score=42.26  Aligned_cols=72  Identities=17%  Similarity=0.146  Sum_probs=49.7

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCC-CCC---ceEEE-ECCEEcCCCCcccccCCCCCCEEEEE
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFV-DLK---NQELI-CDGEELEDQRLITDICKRNEAVIHLL  181 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~-~~e---~QrLi-f~Gk~LeD~~tL~dy~I~~~svI~Lv  181 (469)
                      .+|+|...+|+.+-+.+....+|+.|...|.+..+.+. +..   ..+|. -+|..|.++++|++++|.+|+++.|.
T Consensus         3 ~rVtv~~~~~~~~Dl~lP~~vpv~~li~~l~~~~~~~~~~~~~~~~~~L~~~~g~~L~~~~tL~~~gV~dGd~L~L~   79 (79)
T PF08817_consen    3 CRVTVDAGNGRQVDLALPADVPVAELIPELVELLGLPGDDPPGHGQWVLARAGGRPLDPDQTLADAGVRDGDVLVLR   79 (79)
T ss_dssp             EEEEEE-TT--EEEEEEETTSBTTHHHHHHHHHS---S---TT-E-EEEG-GGTEEEETTSBCGGGT--TT-EEEE-
T ss_pred             EEEEEEcCCCcEEEEEcCCCCcHHHHHHHHHHHhCCccCCCCCcceEEEEecCCcccCCcCcHhHcCCCCCCEEEeC
Confidence            35666655568888999999999999999999887531 122   34566 68999999999999999999999873

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.

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

Probab=94.08  E-value=0.13  Score=41.86  Aligned_cols=68  Identities=22%  Similarity=0.325  Sum_probs=47.7

Q ss_pred             EEEEEEeC-CeEEEEEeCCCCcHHHHHHHHHHHhCCCCcc------eEEE-EcCeecccCCccccccCccCccceee
Q 012177           34 ILIFLSVG-GSVIPMRVMESDSIASVKLRIQSYNGFFVKK------QKLV-FEGRELARSNSRVRDYGLADGNVLHL  102 (469)
Q Consensus        34 M~I~V~l~-G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~------QrLv-f~Gk~L~~D~~tL~dygI~~gstl~L  102 (469)
                      ++|+|... |+.+.+.+..+.+|++|...|.+..+.+...      -+|. -.|..|. ++.+|.++||.+|+++.|
T Consensus         3 ~rVtv~~~~~~~~Dl~lP~~vpv~~li~~l~~~~~~~~~~~~~~~~~~L~~~~g~~L~-~~~tL~~~gV~dGd~L~L   78 (79)
T PF08817_consen    3 CRVTVDAGNGRQVDLALPADVPVAELIPELVELLGLPGDDPPGHGQWVLARAGGRPLD-PDQTLADAGVRDGDVLVL   78 (79)
T ss_dssp             EEEEEE-TT--EEEEEEETTSBTTHHHHHHHHHS---S---TT-E-EEEG-GGTEEEE-TTSBCGGGT--TT-EEEE
T ss_pred             EEEEEEcCCCcEEEEEcCCCCcHHHHHHHHHHHhCCccCCCCCcceEEEEecCCcccC-CcCcHhHcCCCCCCEEEe
Confidence            56677444 5899999999999999999999988764333      2344 5689997 899999999999999876

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.

>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=94.00  E-value=0.18  Score=40.00  Aligned_cols=62  Identities=16%  Similarity=0.041  Sum_probs=45.8

Q ss_pred             ecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEE
Q 012177          117 VCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHL  180 (469)
Q Consensus       117 ~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~L  180 (469)
                      .+++.+++.+.++.++.++-+...+++++.  +++-.|.|+++.|+-...+.-.++.+++.+.|
T Consensus         4 ~~~rr~~vkvtp~~~l~~VL~eac~k~~l~--~~~~~L~h~~k~ldlslp~R~snL~n~akLeL   65 (65)
T PF11470_consen    4 YNFRRFKVKVTPNTTLNQVLEEACKKFGLD--PSSYDLKHNNKPLDLSLPFRLSNLPNNAKLEL   65 (65)
T ss_dssp             TTS-EEEE---TTSBHHHHHHHHHHHTT----GGG-EEEETTEEESSS-BHHHH---SS-EEEE
T ss_pred             cCCcEEEEEECCCCCHHHHHHHHHHHcCCC--ccceEEEECCEEeccccceeecCCCCCCEEeC
Confidence            568899999999999999999999999987  78999999999999888888888999998865

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.

>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=93.66  E-value=0.38  Score=39.01  Aligned_cols=72  Identities=22%  Similarity=0.239  Sum_probs=59.4

Q ss_pred             CCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcc-eEEE--EcCeecccCC-ccccccCccCccceee
Q 012177           31 NDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKK-QKLV--FEGRELARSN-SRVRDYGLADGNVLHL  102 (469)
Q Consensus        31 ~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~-QrLv--f~Gk~L~~D~-~tL~dygI~~gstl~L  102 (469)
                      .+...|-| ..+|+.+......++||.+|..-|......+... -.|+  |-.+.+..++ .+|++.|+...++|++
T Consensus         4 ~~~~~I~vRlpdG~~l~~~F~~~~tl~~l~~~v~~~~~~~~~~~f~L~~~~Pr~~l~~~~~~tl~e~~l~p~~~l~v   80 (82)
T PF00789_consen    4 SDVVRIQVRLPDGSRLQRRFPKSDTLQDLYDFVESQLFSPEESDFELITAFPRRELTDEDSKTLEEAGLLPSATLIV   80 (82)
T ss_dssp             SSEEEEEEEETTSTEEEEEEETTSBHHHHHHHHHHHHHCTTTSSEEEEESSSTEECCSTTTSBTCCCTTSSCEEEEE
T ss_pred             CCEEEEEEECCCCCEEEEEECCcchHHHHHHHHHHhcCCCCCccEEEEeCCCCcCCCccccccHHHhcCCCCeEEEE
Confidence            45677888 5578999999999999999999999987777654 5665  6688888655 7999999999998876

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 ....

>cd00893 PI4Kc_III Phosphoinositide 4-kinase (PI4K), Type III, catalytic domain; The PI4K catalytic domain family is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and RIO kinases

Probab=93.46  E-value=0.04  Score=55.99  Aligned_cols=41  Identities=39%  Similarity=0.618  Sum_probs=34.7

Q ss_pred             hhhheeeecEEEecCCCCCCcEEEecCCCCceEEEeeecCCccCC
Q 012177          414 EVHKISVLDIRLANTDRHAGNILVSKDEGGQIKLVPIDHGYCLPY  458 (469)
Q Consensus       414 ev~ki~ilD~~~~N~DR~~gN~Lv~~~~~~~~~l~~IDhg~~~p~  458 (469)
                      -+.-.+|.=|++.=.|||.||||+..+  |+  ++.||-|++|-.
T Consensus       130 SlA~ySvv~YiLgigDRH~~NILid~~--G~--liHIDFG~ilg~  170 (289)
T cd00893         130 SMAGYSLLCYLLQIKDRHNGNILLDSD--GH--IIHIDFGFILDS  170 (289)
T ss_pred             HHHHHHHHHHHhhccccCCCceEECCC--CC--EEEEehHHhhCc
Confidence            355567788899999999999999864  77  999999999965

PI4Ks catalyze the transfer of the gamma-phosphoryl group from ATP to the 4-hydroxyl of the inositol ring of D-myo-phosphatidylinositol (PtdIns) to generate PtdIns(4)P, the major precursor in the synthesis of other phosphoinositides including PtdIns(4,5)P2, PtdIns(3,4)P2, and PtdIns(3,4,5)P3. There are two types of PI4Ks, types II and III. Type II PI4Ks lack the characteristic catalytic kinase domain present in PI3Ks and type III PI4Ks, and are excluded from this family. Two isoforms of type III PI4K, alpha and beta, exist in most eukaryotes.

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

Probab=93.42  E-value=0.41  Score=38.79  Aligned_cols=71  Identities=15%  Similarity=0.131  Sum_probs=57.4

Q ss_pred             ccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCc-eEEE--ECCEEcCCC--CcccccCCCCCCEEEE
Q 012177          108 DLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKN-QELI--CDGEELEDQ--RLITDICKRNEAVIHL  180 (469)
Q Consensus       108 d~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~-QrLi--f~Gk~LeD~--~tL~dy~I~~~svI~L  180 (469)
                      +...|.||..+|+.+.-....++||.+|.+-|......+  ... -.|+  |--+.+.+.  ++|.|.++...++|++
T Consensus         5 ~~~~I~vRlpdG~~l~~~F~~~~tl~~l~~~v~~~~~~~--~~~~f~L~~~~Pr~~l~~~~~~tl~e~~l~p~~~l~v   80 (82)
T PF00789_consen    5 DVVRIQVRLPDGSRLQRRFPKSDTLQDLYDFVESQLFSP--EESDFELITAFPRRELTDEDSKTLEEAGLLPSATLIV   80 (82)
T ss_dssp             SEEEEEEEETTSTEEEEEEETTSBHHHHHHHHHHHHHCT--TTSSEEEEESSSTEECCSTTTSBTCCCTTSSCEEEEE
T ss_pred             CEEEEEEECCCCCEEEEEECCcchHHHHHHHHHHhcCCC--CCccEEEEeCCCCcCCCccccccHHHhcCCCCeEEEE
Confidence            345678888889999999999999999999998887655  332 5665  677888654  6999999999999886

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 ....

>KOG0013 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.35  E-value=0.1  Score=50.26  Aligned_cols=63  Identities=14%  Similarity=0.251  Sum_probs=57.0

Q ss_pred             EEeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCcccee
Q 012177           38 LSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLH  101 (469)
Q Consensus        38 V~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~  101 (469)
                      ++.+++.+.+.+...||+.++|.+++++.|+.+..|+++|+|..|- +...|..++|..+....
T Consensus       152 lTtT~~d~~lta~~~Dtv~eik~~L~Aaeg~D~~sQrif~Sg~~l~-dkt~LeEc~iekg~rYv  214 (231)
T KOG0013|consen  152 LTTTREDFWLTAPHYDTVGEIKRALRAAEGVDPLSQRIFFSGGVLV-DKTDLEECKIEKGQRYV  214 (231)
T ss_pred             hhhhhhheeecccCcCcHHHHHHHHHHhhccchhhheeeccCCcee-ccccceeeeecCCCEEE
Confidence            3556788999999999999999999999999999999999999998 89999999999996444

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

Probab=93.31  E-value=0.18  Score=43.11  Aligned_cols=46  Identities=17%  Similarity=0.345  Sum_probs=36.5

Q ss_pred             EEEEeC--CCCcHHHHHHHHHHHhC--CCCcceEEEEcCeecccCCccccc
Q 012177           45 IPMRVM--ESDSIASVKLRIQSYNG--FFVKKQKLVFEGRELARSNSRVRD   91 (469)
Q Consensus        45 ~~l~V~--~sdTV~~LK~kIq~~~G--ip~~~QrLvf~Gk~L~~D~~tL~d   91 (469)
                      ++++|.  .+.||..||..|.+...  ..-..+||+|+|+.|. |+..|..
T Consensus        14 l~L~I~~~~~~Tv~~LK~lIR~~~p~~~s~~rLRlI~~Gr~L~-d~t~l~~   63 (97)
T PF10302_consen   14 LPLDIPSPNTTTVAWLKQLIRERLPPEPSRRRLRLIYAGRLLN-DHTDLSS   63 (97)
T ss_pred             ceeecCCCCcccHHHHHHHHHhhcCCCCccccEEeeecCcccC-ccchhhh
Confidence            666776  78999999999999973  3445579999999998 6666554

They contain a characteristic GFDRL sequence motif.

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

Probab=92.74  E-value=0.24  Score=47.62  Aligned_cols=70  Identities=19%  Similarity=0.322  Sum_probs=54.7

Q ss_pred             EEEEEEeCCeE--EEEEeCCCCcHHHHHHHHHHHhCCCCcceEEE-EcC-----eecccCCccccccCccCccceeee
Q 012177           34 ILIFLSVGGSV--IPMRVMESDSIASVKLRIQSYNGFFVKKQKLV-FEG-----RELARSNSRVRDYGLADGNVLHLV  103 (469)
Q Consensus        34 M~I~V~l~G~~--~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLv-f~G-----k~L~~D~~tL~dygI~~gstl~Lv  103 (469)
                      +.++|+.+-..  ..-+..++.||+++|.|++...|.++....|. |.|     -.|++++..|..|+..+|-.||++
T Consensus         2 v~v~Iss~~~~~~~Ekr~~~~ltl~q~K~KLe~~~G~~~~~M~l~l~~~~d~~~~~lsn~d~~lg~~~~~Dg~rihvi   79 (234)
T KOG3206|consen    2 VRVVISSSLNDFRTEKRLSNSLTLAQFKDKLELLTGTEAESMELELYDGDDKKVSALSNEDADLGFYKVEDGLRIHVI   79 (234)
T ss_pred             eEEEEecccccchhhhhcCCcCcHHHHHhhhhhhhCCCccceEEEEEcCCCceeeeccCCcccccccCCCCceEEEEE
Confidence            45666333223  44456789999999999999999999999986 544     468878899999999999888865

>cd05177 PI3Kc_C2_gamma Phosphoinositide 3-kinase (PI3K), class II, gamma isoform, catalytic domain; The PI3K catalytic domain family is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and RIO kinases

Probab=92.48  E-value=0.067  Score=55.82  Aligned_cols=40  Identities=30%  Similarity=0.473  Sum_probs=34.3

Q ss_pred             hhhheeeecEEEecCCCCCCcEEEecCCCCceEEEeeecCCccC
Q 012177          414 EVHKISVLDIRLANTDRHAGNILVSKDEGGQIKLVPIDHGYCLP  457 (469)
Q Consensus       414 ev~ki~ilD~~~~N~DR~~gN~Lv~~~~~~~~~l~~IDhg~~~p  457 (469)
                      .+.-.+|.=|++.=.|||.||||+..+  |+  ++.||-|++|-
T Consensus       194 S~AgysvvtYiLGigDRHn~NILi~~~--G~--~~HIDFG~ilg  233 (354)
T cd05177         194 SCAGWCVVTFILGVCDRHNDNIMLTHS--GH--MFHIDFGKFLG  233 (354)
T ss_pred             HHHHHHHHHHHhcccCcCCCceeEcCC--CC--EEEEehHHhcC
Confidence            355677888999999999999999765  77  99999999994

PI3Ks catalyze the transfer of the gamma-phosphoryl group from ATP to the 3-hydroxyl of the inositol ring of D-myo-phosphatidylinositol (PtdIns) or its derivatives. PI3Ks play an important role in a variety of fundamental cellular processes, including cell motility, the Ras pathway, vesicle trafficking and secretion, immune cell activation and apoptosis. They can be divided into three main classes (I, II, and III), defined by their substrate specificity, regulation, and domain structure. Class II PI3Ks preferentially use PtdIns as a substrate to produce PtdIns(3)P, but can also phosphorylate PtdIns(4)P. They function as monomers and do n

>KOG0013 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.40  E-value=0.26  Score=47.44  Aligned_cols=61  Identities=15%  Similarity=0.088  Sum_probs=55.0

Q ss_pred             cceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEE
Q 012177          118 CGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHL  180 (469)
Q Consensus       118 ~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~L  180 (469)
                      +++.+.+.+...+||.++|.+++.+.++.  +-.|+++|+|..|-|..-|..+.|++++.-.+
T Consensus       155 T~~d~~lta~~~Dtv~eik~~L~Aaeg~D--~~sQrif~Sg~~l~dkt~LeEc~iekg~rYvl  215 (231)
T KOG0013|consen  155 TREDFWLTAPHYDTVGEIKRALRAAEGVD--PLSQRIFFSGGVLVDKTDLEECKIEKGQRYVL  215 (231)
T ss_pred             hhhheeecccCcCcHHHHHHHHHHhhccc--hhhheeeccCCceeccccceeeeecCCCEEEE
Confidence            57788899999999999999999999976  89999999999999999999999999954444

>cd05168 PI4Kc_III_beta Phosphoinositide 4-kinase (PI4K), Type III, beta isoform, catalytic domain; The PI4K catalytic domain family is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and RIO kinases

Probab=92.28  E-value=0.074  Score=54.14  Aligned_cols=41  Identities=37%  Similarity=0.641  Sum_probs=34.9

Q ss_pred             hhhheeeecEEEecCCCCCCcEEEecCCCCceEEEeeecCCccCC
Q 012177          414 EVHKISVLDIRLANTDRHAGNILVSKDEGGQIKLVPIDHGYCLPY  458 (469)
Q Consensus       414 ev~ki~ilD~~~~N~DR~~gN~Lv~~~~~~~~~l~~IDhg~~~p~  458 (469)
                      -+.-.+|.=|++.=.|||.+|||+..+  |+  ++.||=|++|-.
T Consensus       132 S~A~ySvv~YvLGigDRH~~NILi~~~--G~--liHIDFG~~fg~  172 (293)
T cd05168         132 SLAGYSLICYLLQIKDRHNGNILIDND--GH--IIHIDFGFMLSN  172 (293)
T ss_pred             HHHHHHHHHHHhhccccCCCceEEcCC--CC--EEEEehHHhhcc
Confidence            355677788899999999999999875  77  999999999954

PI4Ks catalyze the transfer of the gamma-phosphoryl group from ATP to the 4-hydroxyl of the inositol ring of D-myo-phosphatidylinositol (PtdIns) to generate PtdIns(4)P, the major precursor in the synthesis of other phosphoinositides including PtdIns(4,5)P2, PtdIns(3,4)P2, and PtdIns(3,4,5)P3. Two isoforms of type III PI4K, alpha and beta, exist in most eukaryotes. PI4KIIIbeta (also called Pik1p in yeast) is a 110 kDa protein that is localized to the Golgi and the nucleus. It is required for maintaining the structural integrity of the Golgi complex (GC), and is a key regulator of protein transport from the GC to the plasma membrane. PI4KII

>cd05165 PI3Kc_I Phosphoinositide 3-kinase (PI3K), class I, catalytic domain; The PI3K catalytic domain family is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and RIO kinases

Probab=92.27  E-value=0.07  Score=55.92  Aligned_cols=40  Identities=38%  Similarity=0.473  Sum_probs=34.1

Q ss_pred             hhhheeeecEEEecCCCCCCcEEEecCCCCceEEEeeecCCccC
Q 012177          414 EVHKISVLDIRLANTDRHAGNILVSKDEGGQIKLVPIDHGYCLP  457 (469)
Q Consensus       414 ev~ki~ilD~~~~N~DR~~gN~Lv~~~~~~~~~l~~IDhg~~~p  457 (469)
                      .+.-.+|.=|++.=.|||.||||+..+  |+  ++.||-|++|-
T Consensus       203 S~AgysvvtYiLGigDRH~~NILi~~~--G~--l~HIDFG~ilg  242 (366)
T cd05165         203 SCAGYCVATFVLGIGDRHNDNIMVKET--GQ--LFHIDFGHILG  242 (366)
T ss_pred             HHHHHHHHHHHhhccccCCcceEEcCC--CC--EEEEehHHhhc
Confidence            345567888999999999999999864  77  99999999993

PI3Ks catalyze the transfer of the gamma-phosphoryl group from ATP to the 3-hydroxyl of the inositol ring of D-myo-phosphatidylinositol (PtdIns) or its derivatives. PI3Ks play an important role in a variety of fundamental cellular processes, including cell motility, the Ras pathway, vesicle trafficking and secretion, immune cell activation and apoptosis. They can be divided into three main classes (I, II, and III), defined by their substrate specificity, regulation, and domain structure. Class I PI3Ks are the only enzymes capable of converting PtdIns(4,5)P2 to the critical second messenger PtdIns(3,4,5)P3. In vitro, they can also phosphorylate the substrates P

>cd05174 PI3Kc_IA_delta Phosphoinositide 3-kinase (PI3K), class IA, delta isoform, catalytic domain; The PI3K catalytic domain family is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and RIO kinases

Probab=92.24  E-value=0.074  Score=55.61  Aligned_cols=40  Identities=35%  Similarity=0.472  Sum_probs=33.8

Q ss_pred             hhhheeeecEEEecCCCCCCcEEEecCCCCceEEEeeecCCccC
Q 012177          414 EVHKISVLDIRLANTDRHAGNILVSKDEGGQIKLVPIDHGYCLP  457 (469)
Q Consensus       414 ev~ki~ilD~~~~N~DR~~gN~Lv~~~~~~~~~l~~IDhg~~~p  457 (469)
                      .+.-.+|.=|++.=.|||.||||+..+  |+  ++.||-|++|-
T Consensus       199 S~AgysVvtYiLGIGDRHn~NILi~~~--G~--l~HIDFG~ilg  238 (361)
T cd05174         199 SCAGYCVATYVLGIGDRHSDNIMIRES--GQ--LFHIDFGHFLG  238 (361)
T ss_pred             HHHHHHHHHHHhcccCcCccceeEcCC--CC--EEEEehHHhhc
Confidence            345567788899999999999999764  77  99999999984

PI3Ks catalyze the transfer of the gamma-phosphoryl group from ATP to the 3-hydroxyl of the inositol ring of D-myo-phosphatidylinositol (PtdIns) or its derivatives. PI3Ks can be divided into three main classes (I, II, and III), defined by their substrate specificity, regulation, and domain structure. Class I PI3Ks are the only enzymes capable of converting PtdIns(4,5)P2 to the critical second messenger PtdIns(3,4,5)P3. Class I enzymes are heterodimers and exist in multiple isoforms consisting of one catalytic subunit (out of four isoforms) and one of several regulatory subunits. They are further classified into class IA (alpha, beta and

>cd05175 PI3Kc_IA_alpha Phosphoinositide 3-kinase (PI3K), class IA, alpha isoform, catalytic domain; The PI3K catalytic domain family is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and RIO kinases

Probab=91.97  E-value=0.08  Score=55.38  Aligned_cols=41  Identities=39%  Similarity=0.485  Sum_probs=34.6

Q ss_pred             hhhheeeecEEEecCCCCCCcEEEecCCCCceEEEeeecCCccCC
Q 012177          414 EVHKISVLDIRLANTDRHAGNILVSKDEGGQIKLVPIDHGYCLPY  458 (469)
Q Consensus       414 ev~ki~ilD~~~~N~DR~~gN~Lv~~~~~~~~~l~~IDhg~~~p~  458 (469)
                      .+.--+|.=|++.=.|||.||||+..+  |+  ++.||=|++|-.
T Consensus       202 S~AgYsV~tYiLGIgDRHndNImi~~~--G~--l~HIDFG~iLg~  242 (366)
T cd05175         202 SCAGYCVATFILGIGDRHNSNIMVKDD--GQ--LFHIDFGHFLDH  242 (366)
T ss_pred             HHHHHHHHHHHhcccccCccceeEcCC--CC--EEEEehHHhhcC
Confidence            355567788999999999999999875  77  999999999843

PI3Ks catalyze the transfer of the gamma-phosphoryl group from ATP to the 3-hydroxyl of the inositol ring of D-myo-phosphatidylinositol (PtdIns) or its derivatives. PI3Ks can be divided into three main classes (I, II, and III), defined by their substrate specificity, regulation, and domain structure. Class I PI3Ks are the only enzymes capable of converting PtdIns(4,5)P2 to the critical second messenger PtdIns(3,4,5)P3. Class I enzymes are heterodimers and exist in multiple isoforms consisting of one catalytic subunit (out of four isoforms) and one of several regulatory subunits. They are further classified into class IA (alpha, beta and

>cd05167 PI4Kc_III_alpha Phosphoinositide 4-kinase (PI4K), Type III, alpha isoform, catalytic domain; The PI4K catalytic domain family is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and RIO kinases

Probab=91.90  E-value=0.087  Score=54.09  Aligned_cols=40  Identities=33%  Similarity=0.658  Sum_probs=33.9

Q ss_pred             hhheeeecEEEecCCCCCCcEEEecCCCCceEEEeeecCCccCC
Q 012177          415 VHKISVLDIRLANTDRHAGNILVSKDEGGQIKLVPIDHGYCLPY  458 (469)
Q Consensus       415 v~ki~ilD~~~~N~DR~~gN~Lv~~~~~~~~~l~~IDhg~~~p~  458 (469)
                      +.--+|.=|++.=.|||.||||+..+  |+  ++.||=|++|-.
T Consensus       152 ~Agysv~tYiLgigDRHn~NILid~~--G~--l~HIDFG~il~~  191 (311)
T cd05167         152 MAAYSLISYLLQIKDRHNGNIMIDDD--GH--IIHIDFGFIFEI  191 (311)
T ss_pred             HHHHHHHHHHhhccccCccceEEcCC--CC--EEEEeeHHhhcc
Confidence            45566778888889999999999975  77  999999999943

PI4Ks catalyze the transfer of the gamma-phosphoryl group from ATP to the 4-hydroxyl of the inositol ring of D-myo-phosphatidylinositol (PtdIns) to generate PtdIns(4)P, the major precursor in the synthesis of other phosphoinositides including PtdIns(4,5)P2, PtdIns(3,4)P2, and PtdIns(3,4,5)P3. Two isoforms of type III PI4K, alpha and beta, exist in most eukaryotes. PI4KIIIalpha is a 220 kDa protein found in the plasma membrane and the endoplasmic reticulum (ER). The role of PI4KIIIalpha in the ER remains unclear. In the plasma membrane, it provides PtdIns(4)P, which is then converted by PI5Ks to PtdIns(4,5)P2, an important signaling mole

>cd05166 PI3Kc_II Phosphoinositide 3-kinase (PI3K), class II, catalytic domain; The PI3K catalytic domain family is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and RIO kinases

Probab=91.74  E-value=0.096  Score=54.71  Aligned_cols=40  Identities=33%  Similarity=0.460  Sum_probs=34.3

Q ss_pred             hhhheeeecEEEecCCCCCCcEEEecCCCCceEEEeeecCCccC
Q 012177          414 EVHKISVLDIRLANTDRHAGNILVSKDEGGQIKLVPIDHGYCLP  457 (469)
Q Consensus       414 ev~ki~ilD~~~~N~DR~~gN~Lv~~~~~~~~~l~~IDhg~~~p  457 (469)
                      -+.-.+|.=|++.=.|||.||||+.++  |+  ++-||-|++|-
T Consensus       193 S~A~ysvv~YiLgigDRH~~NILl~~~--G~--l~HIDFG~~lg  232 (353)
T cd05166         193 SCAGCCVATYVLGICDRHNDNIMLTKS--GH--MFHIDFGKFLG  232 (353)
T ss_pred             HHHHHHHHHHHhhccccCCCceEECCC--CC--EEEEeeHHhcc
Confidence            355677888999999999999999864  77  99999999984

PI3Ks catalyze the transfer of the gamma-phosphoryl group from ATP to the 3-hydroxyl of the inositol ring of D-myo-phosphatidylinositol (PtdIns) or its derivatives. PI3Ks play an important role in a variety of fundamental cellular processes, including cell motility, the Ras pathway, vesicle trafficking and secretion, immune cell activation and apoptosis. They can be divided into three main classes (I, II, and III), defined by their substrate specificity, regulation, and domain structure. Class II PI3Ks preferentially use PtdIns as a substrate to produce PtdIns(3)P, but can also phosphorylate PtdIns(4)P. They function as monomers and do not associate with any

>cd05173 PI3Kc_IA_beta Phosphoinositide 3-kinase (PI3K), class IA, beta isoform, catalytic domain; The PI3K catalytic domain family is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and RIO kinases

Probab=91.63  E-value=0.092  Score=54.95  Aligned_cols=40  Identities=40%  Similarity=0.502  Sum_probs=33.8

Q ss_pred             hhhheeeecEEEecCCCCCCcEEEecCCCCceEEEeeecCCccC
Q 012177          414 EVHKISVLDIRLANTDRHAGNILVSKDEGGQIKLVPIDHGYCLP  457 (469)
Q Consensus       414 ev~ki~ilD~~~~N~DR~~gN~Lv~~~~~~~~~l~~IDhg~~~p  457 (469)
                      ...-.+|.=|++.=.|||.||||+..+  |+  ++.||=|++|-
T Consensus       199 S~AgYsvvtYILGIGDRHn~NILi~~~--G~--l~HIDFG~ilg  238 (362)
T cd05173         199 SCAGYCVATYVLGIGDRHSDNIMVRKN--GQ--LFHIDFGHILG  238 (362)
T ss_pred             HHHHHHHHHHHhhccccCCCceEECCC--CC--EEEEehHHhhc
Confidence            345567788889999999999999764  77  99999999984

PI3Ks catalyze the transfer of the gamma-phosphoryl group from ATP to the 3-hydroxyl of the inositol ring of D-myo-phosphatidylinositol (PtdIns) or its derivatives. PI3Ks can be divided into three main classes (I, II, and III), defined by their substrate specificity, regulation, and domain structure. Class I PI3Ks are the only enzymes capable of converting PtdIns(4,5)P2 to the critical second messenger PtdIns(3,4,5)P3. Class I enzymes are heterodimers and exist in multiple isoforms consisting of one catalytic subunit (out of four isoforms) and one of several regulatory subunits. They are further classified into class IA (alpha, beta and de

>cd00891 PI3Kc Phosphoinositide 3-kinase (PI3K), catalytic domain; The PI3K catalytic domain family is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and RIO kinases

Probab=91.43  E-value=0.095  Score=54.72  Aligned_cols=40  Identities=35%  Similarity=0.463  Sum_probs=34.3

Q ss_pred             hhhheeeecEEEecCCCCCCcEEEecCCCCceEEEeeecCCccC
Q 012177          414 EVHKISVLDIRLANTDRHAGNILVSKDEGGQIKLVPIDHGYCLP  457 (469)
Q Consensus       414 ev~ki~ilD~~~~N~DR~~gN~Lv~~~~~~~~~l~~IDhg~~~p  457 (469)
                      -+.-.+|+=|++.=.|||.||||+..+  |+  ++.||-|++|-
T Consensus       194 S~A~ysv~~YiLgigDRH~~NILi~~~--G~--~~HIDFG~ilg  233 (352)
T cd00891         194 SCAGYCVATYVLGIGDRHNDNIMLTKT--GH--LFHIDFGHFLG  233 (352)
T ss_pred             hHHHHHHHHHHccccccCCCceEECCC--CC--EEEEehHHhhc
Confidence            355677888999999999999999864  77  99999999983

PI3Ks catalyze the transfer of the gamma-phosphoryl group from ATP to the 3-hydroxyl of the inositol ring of D-myo-phosphatidylinositol (PtdIns) or its derivatives. PI3Ks play an important role in a variety of fundamental cellular processes, including cell motility, the Ras pathway, vesicle trafficking and secretion, immune cell activation and apoptosis. They can be divided into three main classes (I, II, and III), defined by their substrate specificity, regulation, and domain structure. Class I PI3Ks are the only enzymes capable of converting PtdIns(4,5)P2 to the critical second messenger PtdIns(3,4,5)P3. Class I enzymes are heterodimers and exist in multiple isoforms c

>PF13019 Telomere_Sde2: Telomere stability and silencing

Probab=91.26  E-value=0.8  Score=42.69  Aligned_cols=72  Identities=11%  Similarity=0.175  Sum_probs=51.7

Q ss_pred             ceeeeeeecc----eeEEEEeecCchHHHHHHHHHHhcCCCCCCCc-eEEEE-CCEEc--CCCCcccccCCCCC----CE
Q 012177          110 QAITVTTVCG----KVFEFHVERGRNVGYVKQQIAKKGREFVDLKN-QELIC-DGEEL--EDQRLITDICKRNE----AV  177 (469)
Q Consensus       110 m~I~Vkt~~G----k~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~-QrLif-~Gk~L--eD~~tL~dy~I~~~----sv  177 (469)
                      |+|+|.+++|    .++.+.+..+.||.+|+.+|....+++  ... +.|++ .++.|  .+...++.+.-.+.    -+
T Consensus         1 i~Vlvss~~g~~lp~tl~~~lp~~ttv~dL~~~l~~~~~~~--~~~~~~L~~~~n~~l~~~~~~~~s~l~~~~~~~~~~~   78 (162)
T PF13019_consen    1 INVLVSSFDGLTLPPTLSLSLPSTTTVSDLKDRLSERLPIP--SSSQLYLTTNSNGQLSPSSDIPLSSLLSSSQDSDFIT   78 (162)
T ss_pred             CeEEEecCCCCCCCCeEEeeCCCCCcHHHHHHHHHhhcCCC--ccceeEEEEeCCCeeCCCccccHHhhccCcCCCCceE
Confidence            5789999999    588899999999999999999999977  555 45665 45555  45555666553333    24


Q ss_pred             EEEEEe
Q 012177          178 IHLLVR  183 (469)
Q Consensus       178 I~Lv~r  183 (469)
                      ++|.++
T Consensus        79 l~l~~r   84 (162)
T PF13019_consen   79 LRLSLR   84 (162)
T ss_pred             EEEEEe
Confidence            555544

>cd00896 PI3Kc_III Phosphoinositide 3-kinase (PI3K), class III, catalytic domain; The PI3K catalytic domain family is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and RIO kinases

Probab=91.26  E-value=0.11  Score=54.33  Aligned_cols=42  Identities=38%  Similarity=0.574  Sum_probs=35.3

Q ss_pred             hhhheeeecEEEecCCCCCCcEEEecCCCCceEEEeeecCCccCCC
Q 012177          414 EVHKISVLDIRLANTDRHAGNILVSKDEGGQIKLVPIDHGYCLPYS  459 (469)
Q Consensus       414 ev~ki~ilD~~~~N~DR~~gN~Lv~~~~~~~~~l~~IDhg~~~p~~  459 (469)
                      -+.-.+|.=|++.=.|||.||||+..+  |+  ++.||=|++|-..
T Consensus       193 S~A~ysvv~YiLGigDRH~~NILi~~~--G~--~~HIDFG~ilg~~  234 (350)
T cd00896         193 SCAGYCVITYILGVGDRHLDNLLLTKD--GK--LFHIDFGYILGRD  234 (350)
T ss_pred             HHHHHHHHHHHhcccccCCCcEEEcCC--CC--EEEEEhHHhhCCC
Confidence            455677888999999999999999864  77  9999999999543

PI3Ks catalyze the transfer of the gamma-phosphoryl group from ATP to the 3-hydroxyl of the inositol ring of D-myo-phosphatidylinositol (PtdIns) or its derivatives. PI3Ks play an important role in a variety of fundamental cellular processes, including cell motility, the Ras pathway, vesicle trafficking and secretion, immune cell activation and apoptosis. They can be divided into three main classes (I, II, and III), defined by their substrate specificity, regulation, and domain structure. Class III PI3Ks, also called Vps34 (vacuolar protein sorting 34), contain an N-terminal lipid binding C2 domain, a PI3K homology domain of unknown function, and a C-termin

>cd00895 PI3Kc_C2_beta Phosphoinositide 3-kinase (PI3K), class II, beta isoform, catalytic domain; The PI3K catalytic domain family is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and RIO kinases

Probab=91.21  E-value=0.12  Score=54.04  Aligned_cols=40  Identities=30%  Similarity=0.401  Sum_probs=34.3

Q ss_pred             hhheeeecEEEecCCCCCCcEEEecCCCCceEEEeeecCCccCC
Q 012177          415 VHKISVLDIRLANTDRHAGNILVSKDEGGQIKLVPIDHGYCLPY  458 (469)
Q Consensus       415 v~ki~ilD~~~~N~DR~~gN~Lv~~~~~~~~~l~~IDhg~~~p~  458 (469)
                      +.--+|.=|++.=.|||.||||+..+  |+  ++.||=|+.|-.
T Consensus       195 ~AgYsV~tYiLgIgDRHndNImi~~~--Gh--lfHIDFG~iLg~  234 (354)
T cd00895         195 CAGCCVATYVLGICDRHNDNIMLKTT--GH--MFHIDFGRFLGH  234 (354)
T ss_pred             HHHHHHHHHHccccccCCCceeEcCC--CC--EEEEeeHHhcCC
Confidence            44567888999999999999999876  87  999999998863

PI3Ks catalyze the transfer of the gamma-phosphoryl group from ATP to the 3-hydroxyl of the inositol ring of D-myo-phosphatidylinositol (PtdIns) or its derivatives. PI3Ks play an important role in a variety of fundamental cellular processes, including cell motility, the Ras pathway, vesicle trafficking and secretion, immune cell activation and apoptosis. They can be divided into three main classes (I, II, and III), defined by their substrate specificity, regulation, and domain structure. Class II PI3Ks preferentially use PtdIns as a substrate to produce PtdIns(3)P, but can also phosphorylate PtdIns(4)P. They function as monomers and do not

>smart00166 UBX Domain present in ubiquitin-regulatory proteins

Probab=91.13  E-value=0.91  Score=36.85  Aligned_cols=70  Identities=6%  Similarity=-0.007  Sum_probs=53.6

Q ss_pred             cceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEE--ECCEEcCC---CCcccccCCCCCCEEEE
Q 012177          109 LQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELI--CDGEELED---QRLITDICKRNEAVIHL  180 (469)
Q Consensus       109 ~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLi--f~Gk~LeD---~~tL~dy~I~~~svI~L  180 (469)
                      .-+|.||..+|+.+.-....++|+++|.+-|....+..  ...-.|+  |--+.+.+   +.+|.+.++...+++.|
T Consensus         4 ~~~I~iRlPdG~ri~~~F~~~~tl~~v~~~v~~~~~~~--~~~f~L~t~~Prk~l~~~d~~~tL~e~gL~p~~~l~v   78 (80)
T smart00166        4 QCRLQIRLPDGSRLVRRFPSSDTLRTVYEFVSAALTDG--NDPFTLNSPFPRRTFTKDDYSKTLLELALLPSSTLVL   78 (80)
T ss_pred             eEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHcccCC--CCCEEEEeCCCCcCCccccccCCHHHCCCCCceEEEE
Confidence            35678888899999888999999999999996655533  3445565  56677753   47899999888888775

Present in FAF1 and Shp1p.

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

Probab=91.05  E-value=2.2  Score=41.35  Aligned_cols=113  Identities=17%  Similarity=0.160  Sum_probs=60.6

Q ss_pred             CCCEEEEEE-eC---CeEEEEEeCCCCcHHHHHHHHHHHhCCCCc---ceEEE--EcCee---cccCCccccccCccCcc
Q 012177           31 NDSILIFLS-VG---GSVIPMRVMESDSIASVKLRIQSYNGFFVK---KQKLV--FEGRE---LARSNSRVRDYGLADGN   98 (469)
Q Consensus        31 ~~~M~I~V~-l~---G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~---~QrLv--f~Gk~---L~~D~~tL~dygI~~gs   98 (469)
                      -.+|+|+.. .+   -+.+.+-|..+.||.+|..+++++.+++..   +.||+  ++++.   +. .+.+|...  .+..
T Consensus        18 kk~~kv~w~~~~~~~~~~~~~~vpk~~tV~Dll~~l~~k~~~~~~~~~~lrl~ev~~~ki~~~~~-~d~~i~~l--~~~~   94 (213)
T PF14533_consen   18 KKQFKVTWLNDGLKEEQEYELLVPKTGTVSDLLEELQKKVGFSEEGTGKLRLWEVSNHKIYKILS-EDEPISSL--NDYI   94 (213)
T ss_dssp             B--EEEEEE-TTS-EE-EEEE--BTT-BHHHHHHHHHTT----TT----EEEEEEETTEEEEEE--TTSBGGGS----TT
T ss_pred             ceEEEEEEECCCCcceeEEEEEECCCCCHHHHHHHHHHHcCCCcCCcCcEEEEEeECCEEEeecC-CCCchhhc--cCcc
Confidence            456777763 22   246888899999999999999999998765   33443  45544   54 55666654  2222


Q ss_pred             ceeeeeec------c----ccceeeeee-------ecceeEEEEeecCchHHHHHHHHHHhcCCC
Q 012177           99 VLHLVLRL------S----DLQAITVTT-------VCGKVFEFHVERGRNVGYVKQQIAKKGREF  146 (469)
Q Consensus        99 tl~LvlrL------s----d~m~I~Vkt-------~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip  146 (469)
                      ++.+-.-.      .    +.+.|.|-.       .-|-.|.+.|.+.+|..++|+||+++.|++
T Consensus        95 ~~r~E~ip~ee~~~~~~~~~~~li~V~hf~k~~~~~hGiPF~f~v~~gE~f~~tK~Rl~~rlgv~  159 (213)
T PF14533_consen   95 TLRIEEIPEEELNLDDESEGEKLIPVFHFHKDPSRTHGIPFLFVVKPGETFSDTKERLQKRLGVS  159 (213)
T ss_dssp             EEEEEE--GGGSS--TT--TEEEEEEEEESSSTT-EEEEEEEEEEETT--HHHHHHHHHHHH---
T ss_pred             eeeeecCChHHhhcccccccceEEEEEEEecCccccCCCCEEEEeeCCCcHHHHHHHHHHHhCCC
Confidence            22221111      1    123344322       347788899999999999999999999976

>cd01770 p47_UBX p47-like ubiquitin domain

Probab=91.02  E-value=0.95  Score=37.06  Aligned_cols=69  Identities=19%  Similarity=0.243  Sum_probs=52.8

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEE--ECCEEcCC-CCcccccCCCCCCEEE
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELI--CDGEELED-QRLITDICKRNEAVIH  179 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLi--f~Gk~LeD-~~tL~dy~I~~~svI~  179 (469)
                      -+|.||..+|+.+.-....++||++|.+-|....+.+ ......|.  |-.++|.| +.||.|.++.+.+++.
T Consensus         5 t~iqiRlpdG~r~~~rF~~~~tv~~l~~~v~~~~~~~-~~~~f~L~t~fP~k~l~~~~~Tl~eagL~~s~v~q   76 (79)
T cd01770           5 TSIQIRLADGKRLVQKFNSSHRVSDVRDFIVNARPEF-AARPFTLMTAFPVKELSDESLTLKEANLLNAVIVQ   76 (79)
T ss_pred             eEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHhCCCC-CCCCEEEecCCCCcccCCCCCcHHHCCCcCcEEEE
Confidence            4678888999999989999999999999998875432 13455665  67788854 8899999988655543

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.

>cd01770 p47_UBX p47-like ubiquitin domain

Probab=89.73  E-value=1.5  Score=35.86  Aligned_cols=68  Identities=16%  Similarity=0.235  Sum_probs=52.7

Q ss_pred             CEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCC-CcceEEE--EcCeecccCCccccccCccCccce
Q 012177           33 SILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFF-VKKQKLV--FEGRELARSNSRVRDYGLADGNVL  100 (469)
Q Consensus        33 ~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip-~~~QrLv--f~Gk~L~~D~~tL~dygI~~gstl  100 (469)
                      ..+|-| ..+|+.+......++||.+|.+-|....+-+ .....|.  |-.+.|.+++.+|++.|+.+..++
T Consensus         4 ~t~iqiRlpdG~r~~~rF~~~~tv~~l~~~v~~~~~~~~~~~f~L~t~fP~k~l~~~~~Tl~eagL~~s~v~   75 (79)
T cd01770           4 TTSIQIRLADGKRLVQKFNSSHRVSDVRDFIVNARPEFAARPFTLMTAFPVKELSDESLTLKEANLLNAVIV   75 (79)
T ss_pred             eeEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHhCCCCCCCCEEEecCCCCcccCCCCCcHHHCCCcCcEEE
Confidence            346667 4578999999999999999999999875432 2445565  778999978899999999865443

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.

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

Probab=89.70  E-value=0.49  Score=46.77  Aligned_cols=67  Identities=21%  Similarity=0.265  Sum_probs=47.6

Q ss_pred             EEEEE-EeCC-eEEE-EEeCCCCcHHHHHHHHHHH-hCCCCcceEEE----EcCeecccCCccccccCccCcccee
Q 012177           34 ILIFL-SVGG-SVIP-MRVMESDSIASVKLRIQSY-NGFFVKKQKLV----FEGRELARSNSRVRDYGLADGNVLH  101 (469)
Q Consensus        34 M~I~V-~l~G-~~~~-l~V~~sdTV~~LK~kIq~~-~Gip~~~QrLv----f~Gk~L~~D~~tL~dygI~~gstl~  101 (469)
                      |.|++ ..++ ...+ .+.+..+||.+++++|.++ ..+.+..||+.    -.|+.|. |+++|++|+...+.++.
T Consensus         1 m~It~~srs~~~~~~~~~~s~~~ti~d~~~~~~~~~~k~~~~~~r~tlr~e~kgkpl~-~~s~l~e~~~~s~~~i~   75 (297)
T KOG1639|consen    1 MEITIASRSKGLRIKEKDLSGSETIDDLLKAISAKNLKITPYRIRLTLRVEPKGKPLI-DNSKLQEYGDGSGATIY   75 (297)
T ss_pred             CceeeeccCCCceeeeecCCCCCcHHHHHHHHHHhhhccCccchhheeeccCCCcccc-chhHHHHhccCCCCEEE
Confidence            67788 4443 3444 5677899999999666555 55666555444    3599998 89999999988886554

>COG5417 Uncharacterized small protein [Function unknown]

Probab=89.54  E-value=2  Score=34.97  Aligned_cols=69  Identities=17%  Similarity=0.297  Sum_probs=54.4

Q ss_pred             CEEEEEE---eCCeEEEEEeCCCCcHHHHHHHHHHHhCCCC-----cceEEEEcCeecccCCccccccCccCccceee
Q 012177           33 SILIFLS---VGGSVIPMRVMESDSIASVKLRIQSYNGFFV-----KKQKLVFEGRELARSNSRVRDYGLADGNVLHL  102 (469)
Q Consensus        33 ~M~I~V~---l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~-----~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~L  102 (469)
                      .|+|+|.   -.|.++-+++....+|..|-.-+.+...+..     ++.+..-.++.|. ++..|.+|+|.+|+.+.+
T Consensus         4 ~ikVTvD~t~y~g~~yDLrl~d~~pikklIdivwe~~kis~~~reg~~Ikv~nKa~lls-gd~kL~d~~IadGD~Lei   80 (81)
T COG5417           4 HIKVTVDFTNYNGGTYDLRLPDYLPIKKLIDIVWESLKISIFDREGTQIKVMNKAQLLS-GDDKLIDYQIADGDILEI   80 (81)
T ss_pred             eEEEEEEeEecCCceEEEeccccchHHHHHHHHHHHhhccccccCCCEEEEeccceEec-CCceEEeccccCCCEEEe
Confidence            3667773   3689999999999999999888777655432     3456777899998 889999999999997753

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

Probab=89.22  E-value=0.63  Score=46.06  Aligned_cols=69  Identities=14%  Similarity=0.145  Sum_probs=48.1

Q ss_pred             ceeeeeeecc-eeEE-EEeecCchHHHHHHHHHHhc-CCCCCCCceEEEE----CCEEcCCCCcccccCCCCCCEEEE
Q 012177          110 QAITVTTVCG-KVFE-FHVERGRNVGYVKQQIAKKG-REFVDLKNQELIC----DGEELEDQRLITDICKRNEAVIHL  180 (469)
Q Consensus       110 m~I~Vkt~~G-k~~~-l~V~~~~TV~~LK~kI~~~~-gip~~~e~QrLif----~Gk~LeD~~tL~dy~I~~~svI~L  180 (469)
                      |.|++...++ ...+ .....+.|+.+++++|.++. ++.  +..+|+.+    +|+.|.|+++|.+|+..++++|.+
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 MEITIASRSKGLRIKEKDLSGSETIDDLLKAISAKNLKIT--PYRIRLTLRVEPKGKPLIDNSKLQEYGDGSGATIYV   76 (297)
T ss_pred             CceeeeccCCCceeeeecCCCCCcHHHHHHHHHHhhhccC--ccchhheeeccCCCccccchhHHHHhccCCCCEEEE
Confidence            3455554433 2233 55667889999997776554 444  44444443    899999999999999999988876

>smart00166 UBX Domain present in ubiquitin-regulatory proteins

Probab=88.75  E-value=2.3  Score=34.46  Aligned_cols=71  Identities=18%  Similarity=0.148  Sum_probs=55.0

Q ss_pred             CCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEE--EcCeecccC--CccccccCccCccceee
Q 012177           32 DSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLV--FEGRELARS--NSRVRDYGLADGNVLHL  102 (469)
Q Consensus        32 ~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLv--f~Gk~L~~D--~~tL~dygI~~gstl~L  102 (469)
                      ...+|-| ..+|+.+.-....++||.+|.+-|....+.......|+  |-.+.+.++  +.+|.+.|+...++|.+
T Consensus         3 ~~~~I~iRlPdG~ri~~~F~~~~tl~~v~~~v~~~~~~~~~~f~L~t~~Prk~l~~~d~~~tL~e~gL~p~~~l~v   78 (80)
T smart00166        3 DQCRLQIRLPDGSRLVRRFPSSDTLRTVYEFVSAALTDGNDPFTLNSPFPRRTFTKDDYSKTLLELALLPSSTLVL   78 (80)
T ss_pred             CeEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHcccCCCCCEEEEeCCCCcCCccccccCCHHHCCCCCceEEEE
Confidence            3456777 45789999999999999999999976666665566675  667778744  47899999988877754

Present in FAF1 and Shp1p.

>cd00894 PI3Kc_IB_gamma Phosphoinositide 3-kinase (PI3K), class IB, gamma isoform, catalytic domain; The PI3K catalytic domain family is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and RIO kinases

Probab=88.31  E-value=0.23  Score=52.07  Aligned_cols=39  Identities=33%  Similarity=0.475  Sum_probs=33.4

Q ss_pred             hhheeeecEEEecCCCCCCcEEEecCCCCceEEEeeecCCccC
Q 012177          415 VHKISVLDIRLANTDRHAGNILVSKDEGGQIKLVPIDHGYCLP  457 (469)
Q Consensus       415 v~ki~ilD~~~~N~DR~~gN~Lv~~~~~~~~~l~~IDhg~~~p  457 (469)
                      +.--+|.=|++.=.|||.||||+..+  |+  ++.||-|++|-
T Consensus       204 ~AgYsV~tYiLGIgDRHndNImi~~~--G~--lfHIDFG~ilg  242 (365)
T cd00894         204 CAGYCVATFVLGIGDRHNDNIMITET--GN--LFHIDFGHILG  242 (365)
T ss_pred             hHHHHHHHHhccccCccccceeEcCC--CC--EEEEeeHHhhC
Confidence            44566778999999999999999865  77  99999999994

PI3Ks catalyze the transfer of the gamma-phosphoryl group from ATP to the 3-hydroxyl of the inositol ring of D-myo-phosphatidylinositol (PtdIns) or its derivatives. PI3Ks can be divided into three main classes (I, II, and III), defined by their substrate specificity, regulation, and domain structure. Class I PI3Ks are the only enzymes capable of converting PtdIns(4,5)P2 to the critical second messenger PtdIns(3,4,5)P3. Class I enzymes are heterodimers and exist in multiple isoforms consisting of one catalytic subunit (out of four isoforms) and one of several regulatory subunits. They are further classified into class IA (alpha, beta and

>cd01772 SAKS1_UBX SAKS1-like UBX domain

Probab=88.26  E-value=2.5  Score=34.37  Aligned_cols=68  Identities=9%  Similarity=0.123  Sum_probs=53.4

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEE--ECCEEcCC---CCcccccCCCCCCEEEE
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELI--CDGEELED---QRLITDICKRNEAVIHL  180 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLi--f~Gk~LeD---~~tL~dy~I~~~svI~L  180 (469)
                      -+|.||..+|+.+.-....++|+++|.+-|....+.   .....|+  |--+++.+   +.+|.+.++.+.++|.|
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 TRIQIRLLDGTTLKQTFKAREQLAAVRLFVELNTGN---GGPFTLMTPFPRKVFTEDDMEKPLQELGLVPSAVLIV   77 (79)
T ss_pred             EEEEEECCCCCEEEEEeCCCChHHHHHHHHHHcCCC---CCCEEEEeCCCCeECCcccccCCHHHCCCCCceEEEE
Confidence            457788888998888888999999999999876542   2344555  67788853   58999999998888876

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.

>cd05176 PI3Kc_C2_alpha Phosphoinositide 3-kinase (PI3K), class II, alpha isoform, catalytic domain; The PI3K catalytic domain family is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and RIO kinases

Probab=87.76  E-value=0.25  Score=51.60  Aligned_cols=40  Identities=30%  Similarity=0.416  Sum_probs=34.5

Q ss_pred             hhhheeeecEEEecCCCCCCcEEEecCCCCceEEEeeecCCccC
Q 012177          414 EVHKISVLDIRLANTDRHAGNILVSKDEGGQIKLVPIDHGYCLP  457 (469)
Q Consensus       414 ev~ki~ilD~~~~N~DR~~gN~Lv~~~~~~~~~l~~IDhg~~~p  457 (469)
                      .+.--+|.=|++.=.|||.||||+..+  |+  ++.||=|++|-
T Consensus       193 S~AgYsv~tYiLGIgDRHn~NILi~~~--Gh--l~HIDFG~ilg  232 (353)
T cd05176         193 SCAGCCVATYVLGICDRHNDNIMLRST--GH--MFHIDFGKFLG  232 (353)
T ss_pred             HHHHHHHHhhhccccCcCCcceEEcCC--CC--EEEEeeHHhcC
Confidence            355677889999999999999999765  87  99999999984

PI3Ks catalyze the transfer of the gamma-phosphoryl group from ATP to the 3-hydroxyl of the inositol ring of D-myo-phosphatidylinositol (PtdIns) or its derivatives. PI3Ks play an important role in a variety of fundamental cellular processes, including cell motility, the Ras pathway, vesicle trafficking and secretion, immune cell activation and apoptosis. They can be divided into three main classes (I, II, and III), defined by their substrate specificity, regulation, and domain structure. Class II PI3Ks preferentially use PtdIns as a substrate to produce PtdIns(3)P, but can also phosphorylate PtdIns(4)P. They function as monomers and do n

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

Probab=87.59  E-value=3.9  Score=32.64  Aligned_cols=66  Identities=20%  Similarity=0.166  Sum_probs=50.4

Q ss_pred             eeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEE----CC--EEcCCCCcccccCCCCCCEEEE
Q 012177          114 VTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELIC----DG--EELEDQRLITDICKRNEAVIHL  180 (469)
Q Consensus       114 Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif----~G--k~LeD~~tL~dy~I~~~svI~L  180 (469)
                      |+.++|...+++++++.|+.+|=++|+...++. ..+.--|.|    +|  .-|+..+.|.++.........|
T Consensus         1 V~llD~~~~~~~v~~~~t~~~l~~~v~~~l~l~-e~~~FgL~~~~~~~~~~~wL~~~k~l~~q~~~~~~~~~l   72 (80)
T PF09379_consen    1 VRLLDGTTKTFEVDPKTTGQDLLEQVCDKLGLK-EKEYFGLQYQVDKDGEHHWLDLDKKLKKQLKKNNPPFTL   72 (80)
T ss_dssp             EEESSEEEEEEEEETTSBHHHHHHHHHHHHTTS-SGGGEEEEE-EBTTSSEEEE-SSSBGGGSTBTSSSSEEE
T ss_pred             CCCcCCCcEEEEEcCCCcHHHHHHHHHHHcCCC-CccEEEEEEeecCCCcceeccCcccHHHHcCCCCCCEEE
Confidence            567899999999999999999999999999986 367788888    22  2367778888877653333333

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 ....

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

Probab=86.52  E-value=1.2  Score=36.31  Aligned_cols=57  Identities=25%  Similarity=0.306  Sum_probs=47.2

Q ss_pred             eecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccC-CCCCCEEEEEEe
Q 012177          126 VERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC-KRNEAVIHLLVR  183 (469)
Q Consensus       126 V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~-I~~~svI~Lv~r  183 (469)
                      |.++++|.++++-|....... ....-.|.++|+.|+|...|.++. ++++++|.|+..
T Consensus         1 v~~~d~v~dvrq~L~~~~~t~-~~Tn~~L~~~g~~L~~~~el~~i~~~~~~~~L~lve~   58 (76)
T PF15044_consen    1 VSPTDTVQDVRQVLAESPETC-YLTNFSLEHNGQRLDDFVELSEIEGIKDGCVLELVEE   58 (76)
T ss_pred             CChhhHHHHHHHHHHhCcccc-ceeEEEEEECCCccCCchhhhhhhCCCCCcEEEEEec
Confidence            467899999999999886633 257788999999999999998886 888999998644

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

Probab=86.07  E-value=3.6  Score=34.61  Aligned_cols=66  Identities=26%  Similarity=0.314  Sum_probs=45.7

Q ss_pred             eEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEE----cCee-cccCCccccccCccCccceeeeeecccc
Q 012177           43 SVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVF----EGRE-LARSNSRVRDYGLADGNVLHLVLRLSDL  109 (469)
Q Consensus        43 ~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf----~Gk~-L~~D~~tL~dygI~~gstl~LvlrLsd~  109 (469)
                      ..++...+..|||..++..+.+...| ...-||--    ++.+ |.+.+.||.+.+|..|.+|.+-.|-.|+
T Consensus        14 ~~~t~~FSk~DTI~~v~~~~rklf~i-~~E~RLW~~~~~~~~e~L~~~~~Tv~da~L~~gQ~vliE~rn~DG   84 (88)
T PF14836_consen   14 SVLTKQFSKTDTIGFVEKEMRKLFNI-QEETRLWNKYSENSYELLNNPEITVEDAGLYDGQVVLIEERNEDG   84 (88)
T ss_dssp             EEEEEEE-TTSBHHHHHHHHHHHCT--TS-EEEEEECTTTCEEEE--TTSBTTTTT--TTEEEEEEE--TTS
T ss_pred             cHhHhhccccChHHHHHHHHHHHhCC-CccceehhccCCcchhhhCCCCccHHHccCcCCCEEEEEeeccCC
Confidence            46777889999999999999999999 56667752    2444 5545679999999999998887776654

>cd01767 UBX UBX (ubiquitin regulatory X) domain

Probab=86.00  E-value=3.4  Score=33.15  Aligned_cols=65  Identities=17%  Similarity=0.178  Sum_probs=49.3

Q ss_pred             eeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEE--ECCEEcC---CCCcccccCCCCCCEE
Q 012177          111 AITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELI--CDGEELE---DQRLITDICKRNEAVI  178 (469)
Q Consensus       111 ~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLi--f~Gk~Le---D~~tL~dy~I~~~svI  178 (469)
                      +|.||..+|+.+.-....++||++|.+-|......   ...-.|+  |-.+.+.   .+.+|.+.++.+.+++
T Consensus         4 ~i~iRlpdG~~~~~~F~~~~tl~~l~~fv~~~~~~---~~~f~L~t~~Pr~~~~~~~~~~TL~e~gL~~s~~~   73 (77)
T cd01767           4 KIQIRLPDGKRLEQRFNSTHKLSDVRDFVESNGPP---AEPFTLMTSFPRRVLTDLDYELTLQEAGLVNEVVF   73 (77)
T ss_pred             EEEEEcCCCCEEEEEeCCCCCHHHHHHHHHHcCCC---CCCEEEEeCCCCccCCCCCccCcHHHcCCccceEE
Confidence            57788889998888889999999999999876542   3445555  5667774   4889999998854443

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.

>COG5417 Uncharacterized small protein [Function unknown]

Probab=85.87  E-value=4.1  Score=33.22  Aligned_cols=66  Identities=6%  Similarity=0.079  Sum_probs=55.0

Q ss_pred             eeecceeEEEEeecCchHHHHHHHHHHhcCCCCC-C--CceEEEECCEEcCCCCcccccCCCCCCEEEE
Q 012177          115 TTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVD-L--KNQELICDGEELEDQRLITDICKRNEAVIHL  180 (469)
Q Consensus       115 kt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~-~--e~QrLif~Gk~LeD~~tL~dy~I~~~svI~L  180 (469)
                      +.-+|.++-+.+....+|..+-..+.+...+..+ .  ...++.-.++.|.++..|.||+|.+|+.+.+
T Consensus        12 t~y~g~~yDLrl~d~~pikklIdivwe~~kis~~~reg~~Ikv~nKa~llsgd~kL~d~~IadGD~Lei   80 (81)
T COG5417          12 TNYNGGTYDLRLPDYLPIKKLIDIVWESLKISIFDREGTQIKVMNKAQLLSGDDKLIDYQIADGDILEI   80 (81)
T ss_pred             EecCCceEEEeccccchHHHHHHHHHHHhhccccccCCCEEEEeccceEecCCceEEeccccCCCEEEe
Confidence            4456889999999999999999988888765421 2  4678889999999999999999999999875

>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=85.16  E-value=3.9  Score=34.13  Aligned_cols=61  Identities=20%  Similarity=0.317  Sum_probs=45.1

Q ss_pred             eEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEe
Q 012177          121 VFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVR  183 (469)
Q Consensus       121 ~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~r  183 (469)
                      .+...++-.+++..||..++.+.++.  .+...++..+..|+.+++|.|-|++-..++.+.+.
T Consensus         4 vI~q~mDI~epl~~Lk~lLe~Rl~~~--L~~~~f~LQD~~L~~~k~L~dQcVqgeGlVQlnvQ   64 (88)
T PF11620_consen    4 VIMQHMDIREPLSTLKKLLERRLGIS--LSDYEFWLQDIQLEPHKSLVDQCVQGEGLVQLNVQ   64 (88)
T ss_dssp             EEEEEEESSSBGGGHHHHSHHHH-S----SS-EEEETTEE--TTSBTTTSS----SEEEEEEE
T ss_pred             eEEEEEecCCcHHHHHHHHHHhhCCC--cCCCeEEeccceecCCccHHHhhccccCEEEEEEE
Confidence            34566788899999999999999987  89999999999999999999999999999988655

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.

>cd01774 Faf1_like2_UBX Faf1 ike-2 UBX domain

Probab=85.12  E-value=5.1  Score=33.28  Aligned_cols=70  Identities=11%  Similarity=0.085  Sum_probs=54.3

Q ss_pred             ccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECC--EEcC--------CCCcccccCCCCCCE
Q 012177          108 DLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDG--EELE--------DQRLITDICKRNEAV  177 (469)
Q Consensus       108 d~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~G--k~Le--------D~~tL~dy~I~~~sv  177 (469)
                      +..+|.||..+|+.+.-....++||++|.+=|... +..  ++...|+.+=  +.+.        ...||.+.++.+.++
T Consensus         3 ~~~~I~iRlp~G~Rl~rrF~~~~tl~~l~~fv~~~-~~~--~~~f~L~t~FPrr~~~~~~~~~~~~~~TL~eaGL~~s~~   79 (85)
T cd01774           3 DTVKIVFKLPNGTRVERRFLFTQSLRVIHDFLFSL-KET--PEKFQIVTNFPRRVLPCLPSEGDPPPPTLLEAGLSNSEV   79 (85)
T ss_pred             ceEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHhC-CCC--CCcEEEecCCCCccccccccccCcCCCCHHHcCCCCccE
Confidence            44678888888988888888999999999999654 333  5777887533  6775        367999999998888


Q ss_pred             EEE
Q 012177          178 IHL  180 (469)
Q Consensus       178 I~L  180 (469)
                      |.+
T Consensus        80 L~V   82 (85)
T cd01774          80 LFV   82 (85)
T ss_pred             EEE
Confidence            775

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.

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

Probab=84.98  E-value=0.36  Score=49.55  Aligned_cols=72  Identities=22%  Similarity=0.257  Sum_probs=53.0

Q ss_pred             ceeeeeeecc--eeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCC--CCCEEEEE
Q 012177          110 QAITVTTVCG--KVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKR--NEAVIHLL  181 (469)
Q Consensus       110 m~I~Vkt~~G--k~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~--~~svI~Lv  181 (469)
                      .+++||..+.  +.+.|..+...||++||..+....-...-+.+|||+|.||.|.|...|.|.-++  ...+.||+
T Consensus        10 v~lliks~Nq~y~dl~i~~dl~wtv~~Lk~hls~VyPskpl~~dqrliYsgkllld~qcl~d~lrkq~k~Hv~hlv   85 (391)
T KOG4583|consen   10 VTLLIKSPNQSYKDLSISLDLKWTVGDLKVHLSQVYPSKPLELDQRLIYSGKLLLDHQCLTDWLRKQVKEHVKHLV   85 (391)
T ss_pred             eEEEecCCCccccceeeehhhhhhHHHHhhhHhhcCCCCCchhhHHHHhhccccccchhHHHHHHHHHHHHHHHHh
Confidence            4556666553  466788888999999999999887522126899999999999999999887543  33445553

>KOG0903 consensus Phosphatidylinositol 4-kinase, involved in intracellular trafficking and secretion [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=84.79  E-value=0.65  Score=52.24  Aligned_cols=39  Identities=38%  Similarity=0.665  Sum_probs=31.4

Q ss_pred             heeeecEEEecCCCCCCcEEEecCCCCceEEEeeecCCccCCC
Q 012177          417 KISVLDIRLANTDRHAGNILVSKDEGGQIKLVPIDHGYCLPYS  459 (469)
Q Consensus       417 ki~ilD~~~~N~DR~~gN~Lv~~~~~~~~~l~~IDhg~~~p~~  459 (469)
                      --.+.=|++-=-|||.||||+..+  |+  |+.||-|+-+-.+
T Consensus       689 gYSLvcYlLQvKDRHNGNILiD~E--GH--IIHIDFGFmLsns  727 (847)
T KOG0903|consen  689 GYSLVCYLLQVKDRHNGNILIDEE--GH--IIHIDFGFMLSNS  727 (847)
T ss_pred             HHHHHHHhhhcccccCCceEecCC--CC--EEEEeeeeEecCC
Confidence            344566777788999999999775  77  9999999977655

>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=84.07  E-value=9.6  Score=37.82  Aligned_cols=124  Identities=15%  Similarity=0.229  Sum_probs=80.5

Q ss_pred             CCCCEEEEEE-e--CCeEE----EEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcC------eecccCCccccccCccC
Q 012177           30 SNDSILIFLS-V--GGSVI----PMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEG------RELARSNSRVRDYGLAD   96 (469)
Q Consensus        30 ~~~~M~I~V~-l--~G~~~----~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~G------k~L~~D~~tL~dygI~~   96 (469)
                      ..+.+.||++ .  ..+++    .+-|..+++|.++-..|.+..|+|.+..-++|.-      ..+. ...++....|.+
T Consensus        65 ~~~~iLlFlK~fDp~~q~L~~iGh~~v~~~~~v~~l~~~i~~~~g~p~~t~l~lyEEi~~~~ie~i~-~~~t~~~~el~~  143 (249)
T PF12436_consen   65 PSDDILLFLKYFDPETQTLRYIGHVYVPKNDKVSELVPLINERAGLPPDTPLLLYEEIKPNMIEPID-PNQTFEKAELQD  143 (249)
T ss_dssp             TTTEEEEEEEEEETTTTEEEEEEEEEEETT-BGGGTHHHHHHHHT--TT--EEEEEEEETTEEEE---SSSBHHHTT--T
T ss_pred             CCCcEEEEEEeeCCCCCEEEEEeEEEECCCCCHHHHHHHHHHHcCCCCCCceEEEEEeccceeeEcC-CCCchhhcccCC
Confidence            3678999993 2  22222    2357889999999999999999999988888763      3354 789999999999


Q ss_pred             ccceeeeeecc--------------------ccceeeeee---ecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceE
Q 012177           97 GNVLHLVLRLS--------------------DLQAITVTT---VCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQE  153 (469)
Q Consensus        97 gstl~LvlrLs--------------------d~m~I~Vkt---~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~Qr  153 (469)
                      |+.|-.-...+                    ..+.|.++-   ..+..|.+.+....|-.+|-++|++..++.  |+..|
T Consensus       144 GdIi~fQ~~~~~~~~~~~~~~~v~~Yy~~l~nrv~V~f~~~~~~~~~~F~l~ls~~~tY~~la~~Va~~l~~d--P~~lr  221 (249)
T PF12436_consen  144 GDIICFQRAPSEDLDKSSRYPDVKEYYDFLYNRVEVEFKPKDNPNDPEFTLWLSKKMTYDQLAEKVAEHLNVD--PEHLR  221 (249)
T ss_dssp             TEEEEEEE--GG--GGGSSS-SHHHHHHHHHHEEEEEEEETTSTT---EEEEEETT--HHHHHHHHHHHHTS---GGGEE
T ss_pred             CCEEEEEeccccccccccCCCCHHHHHHHHhCeEEEEEEECCCCCCCCEEEEECCCCCHHHHHHHHHHHHCCC--hHHEE
Confidence            99776544332                    224444433   234589999999999999999999999976  88888


Q ss_pred             EEE
Q 012177          154 LIC  156 (469)
Q Consensus       154 Lif  156 (469)
                      |+-
T Consensus       222 ~~~  224 (249)
T PF12436_consen  222 FFT  224 (249)
T ss_dssp             EE-
T ss_pred             EEE
Confidence            873

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.

>cd00892 PIKKc_ATR ATR (Ataxia telangiectasia and Rad3-related), catalytic domain; The ATR catalytic domain subfamily is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and RIO kinases

Probab=84.01  E-value=0.72  Score=45.49  Aligned_cols=42  Identities=26%  Similarity=0.389  Sum_probs=35.6

Q ss_pred             hhhheeeecEEEecCCCCCCcEEEecCCCCceEEEeeecCCccCC
Q 012177          414 EVHKISVLDIRLANTDRHAGNILVSKDEGGQIKLVPIDHGYCLPY  458 (469)
Q Consensus       414 ev~ki~ilD~~~~N~DR~~gN~Lv~~~~~~~~~l~~IDhg~~~p~  458 (469)
                      .+.-.+++=|++.=.|||.+|||+.+. +|+  ++.||=|.||-.
T Consensus       130 SlA~~s~~~YilgigDRh~~NIli~~~-tG~--~~HIDfg~~~~~  171 (237)
T cd00892         130 STAVMSMVGYILGLGDRHGENILFDSN-TGD--VVHVDFNCLFDK  171 (237)
T ss_pred             HHHHHHHHHHHhccCCCCcccEEEEcC-CCc--EEEEehHhhhcc
Confidence            456678889999999999999999983 377  899999999853

ATR is also referred to as Mei-41 (Drosophila), Esr1/Mec1p (Saccharomyces cerevisiae), Rad3 (Schizosaccharomyces pombe), and FRAP-related protein (human). ATR is a member of the phosphoinositide 3-kinase-related protein kinase (PIKK) subfamily. PIKKs have intrinsic serine/threonine kinase activity and are distinguished from other PKs by their unique catalytic domain, similar to that of lipid PI3K, and their large molecular weight (240-470 kDa). ATR contains a UME domain of unknown function, a FAT (FRAP, ATM and TRRAP) domain, a catalytic domain, and a FATC domain at the C-terminus. Together with its downstream effector kinase, Chk1, ATR plays a central

>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=83.87  E-value=4  Score=34.09  Aligned_cols=60  Identities=12%  Similarity=0.192  Sum_probs=43.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeee
Q 012177           44 VIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVL  104 (469)
Q Consensus        44 ~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~Lvl  104 (469)
                      .+...++=.+++..||..++.+.++..+.-.+++.+..|. ++.+|.+.+++-..++.+.+
T Consensus         4 vI~q~mDI~epl~~Lk~lLe~Rl~~~L~~~~f~LQD~~L~-~~k~L~dQcVqgeGlVQlnv   63 (88)
T PF11620_consen    4 VIMQHMDIREPLSTLKKLLERRLGISLSDYEFWLQDIQLE-PHKSLVDQCVQGEGLVQLNV   63 (88)
T ss_dssp             EEEEEEESSSBGGGHHHHSHHHH-S--SS-EEEETTEE---TTSBTTTSS----SEEEEEE
T ss_pred             eEEEEEecCCcHHHHHHHHHHhhCCCcCCCeEEeccceec-CCccHHHhhccccCEEEEEE
Confidence            4455667788999999999999999999999999999987 89999999999988888654

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.

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

Probab=83.75  E-value=4.1  Score=34.39  Aligned_cols=69  Identities=10%  Similarity=0.212  Sum_probs=57.6

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEE
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHL  180 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~L  180 (469)
                      +.+.|-..+|.++-+.|..+.+-..|-...+...|-.  .+..|+.|+|+.++-++|-.|++..++..|..
T Consensus        25 inLkvv~qd~telfFkiKktT~f~klm~af~~rqGK~--m~slRfL~dG~rI~~dqTP~dldmEdnd~iEa   93 (103)
T COG5227          25 INLKVVDQDGTELFFKIKKTTTFKKLMDAFSRRQGKN--MSSLRFLFDGKRIDLDQTPGDLDMEDNDEIEA   93 (103)
T ss_pred             cceEEecCCCCEEEEEEeccchHHHHHHHHHHHhCcC--cceeEEEEcceecCCCCChhhcCCccchHHHH
Confidence            3444444578888999999999999988888888866  78999999999999999999999888877653

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

Probab=83.70  E-value=1.4  Score=45.70  Aligned_cols=76  Identities=18%  Similarity=0.301  Sum_probs=65.5

Q ss_pred             EEEEE--Ee-CCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccC-CccccccCccCccceeeeeecccc
Q 012177           34 ILIFL--SV-GGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARS-NSRVRDYGLADGNVLHLVLRLSDL  109 (469)
Q Consensus        34 M~I~V--~l-~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D-~~tL~dygI~~gstl~LvlrLsd~  109 (469)
                      |.++|  .+ ..+.+++.|..+-....++..++...|++...--|+|+++++..+ ...+..||+.++.++.+.-+.++.
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~   80 (380)
T KOG0012|consen    1 MSLTVSVALNFEKKFPIPVTTDGELNNLAALCWKDTGIVYDPSDLIYNPRPLVSNESQGLTQIGLKDGDSLALRCKSSDP   80 (380)
T ss_pred             CeEEEEEEecceeeeccccccccchhhHHHHHHHHhCcccchhhcccCCCccccchhhhhhhcccccceeEeccCCCCCC
Confidence            44555  33 457899999999999999999999999999999999999999855 467999999999999988887776

>cd01767 UBX UBX (ubiquitin regulatory X) domain

Probab=83.58  E-value=6.2  Score=31.65  Aligned_cols=64  Identities=17%  Similarity=0.206  Sum_probs=48.6

Q ss_pred             EEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEE--EcCeeccc--CCccccccCccCcc
Q 012177           34 ILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLV--FEGRELAR--SNSRVRDYGLADGN   98 (469)
Q Consensus        34 M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLv--f~Gk~L~~--D~~tL~dygI~~gs   98 (469)
                      .+|-| ..+|+.+.-....++||.+|.+-|.....- .....|+  |-.+.+.+  .+.+|++.|+....
T Consensus         3 t~i~iRlpdG~~~~~~F~~~~tl~~l~~fv~~~~~~-~~~f~L~t~~Pr~~~~~~~~~~TL~e~gL~~s~   71 (77)
T cd01767           3 TKIQIRLPDGKRLEQRFNSTHKLSDVRDFVESNGPP-AEPFTLMTSFPRRVLTDLDYELTLQEAGLVNEV   71 (77)
T ss_pred             EEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHHcCCC-CCCEEEEeCCCCccCCCCCccCcHHHcCCccce
Confidence            35666 457888999999999999999999877543 3445565  56788864  57899999999443

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.

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

Probab=83.34  E-value=3.1  Score=35.08  Aligned_cols=72  Identities=11%  Similarity=0.272  Sum_probs=63.7

Q ss_pred             CCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeee
Q 012177           31 NDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLV  103 (469)
Q Consensus        31 ~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~Lv  103 (469)
                      .+.|.+.| ...+.++.+.|..+.+...|...-.+..|-.-...|+.|+|+.+. -+.+-.|++..++..|..+
T Consensus        22 t~hinLkvv~qd~telfFkiKktT~f~klm~af~~rqGK~m~slRfL~dG~rI~-~dqTP~dldmEdnd~iEav   94 (103)
T COG5227          22 TKHINLKVVDQDGTELFFKIKKTTTFKKLMDAFSRRQGKNMSSLRFLFDGKRID-LDQTPGDLDMEDNDEIEAV   94 (103)
T ss_pred             ccccceEEecCCCCEEEEEEeccchHHHHHHHHHHHhCcCcceeEEEEcceecC-CCCChhhcCCccchHHHHH
Confidence            45577777 678899999999999999999999999999999999999999997 8899999999988877654

>PTZ00303 phosphatidylinositol kinase; Provisional

Probab=83.10  E-value=0.51  Score=53.14  Aligned_cols=42  Identities=26%  Similarity=0.498  Sum_probs=35.4

Q ss_pred             hhhheeeecEEEecCCCCCCcEEEecCCCCceEEEeeecCCccCCC
Q 012177          414 EVHKISVLDIRLANTDRHAGNILVSKDEGGQIKLVPIDHGYCLPYS  459 (469)
Q Consensus       414 ev~ki~ilD~~~~N~DR~~gN~Lv~~~~~~~~~l~~IDhg~~~p~~  459 (469)
                      ...--+|+-|++.=.|||.||||+..+  |+  |+-||-|+.|-.+
T Consensus      1136 S~AGYsViTYILgIgDRHngNILId~d--Gh--LfHIDFGFILg~r 1177 (1374)
T PTZ00303       1136 SAKLFLLLNYIFSIGDRHKGNVLIGTN--GA--LLHIDFRFIFSEK 1177 (1374)
T ss_pred             HHHHHHHHHHHhccCcccCCceeEcCC--CC--EEEEecceeecCc
Confidence            344556788899999999999999987  87  9999999988754

>cd00142 PI3Kc_like Phosphoinositide 3-kinase (PI3K)-like family, catalytic domain; The PI3K-like catalytic domain family is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and RIO kinases

Probab=82.94  E-value=0.82  Score=44.38  Aligned_cols=43  Identities=33%  Similarity=0.476  Sum_probs=36.1

Q ss_pred             hhhheeeecEEEecCCCCCCcEEEecCCCCceEEEeeecCCccCCC
Q 012177          414 EVHKISVLDIRLANTDRHAGNILVSKDEGGQIKLVPIDHGYCLPYS  459 (469)
Q Consensus       414 ev~ki~ilD~~~~N~DR~~gN~Lv~~~~~~~~~l~~IDhg~~~p~~  459 (469)
                      .+--.+++=|++.=.|||.+|||+... +|+  ++-||=|++|-..
T Consensus       119 SlA~~s~~~YilglgDRh~~NIli~~~-~G~--~~hIDfg~~~~~~  161 (219)
T cd00142         119 SLAGYSVAGYILGIGDRHPDNIMIDLD-TGK--LFHIDFGFIFGKR  161 (219)
T ss_pred             HHHHHHHHHHHhccCCCCCccEEEECC-CCe--EEEEeeHHhhCcC
Confidence            466678889999999999999999983 376  8999999999543

Members of the family include PI3K, phosphoinositide 4-kinase (PI4K), PI3K-related protein kinases (PIKKs), and TRansformation/tRanscription domain-Associated Protein (TRRAP). PI3Ks catalyze the transfer of the gamma-phosphoryl group from ATP to the 3-hydroxyl of the inositol ring of D-myo-phosphatidylinositol (PtdIns) or its derivatives, while PI4K catalyze the phosphorylation of the 4-hydroxyl of PtdIns. PIKKs are protein kinases that catalyze the phosphorylation of serine/threonine residues, especially those that are followed by a glutamine. PI3Ks play an important role in a variety of fundamental cellular processes, including cell motility, the

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

Probab=82.66  E-value=2  Score=34.93  Aligned_cols=57  Identities=23%  Similarity=0.371  Sum_probs=43.9

Q ss_pred             eCCCCcHHHHHHHHHHHhC-CCCcceEEEEcCeecccCCcccccc-CccCccceeeeeec
Q 012177           49 VMESDSIASVKLRIQSYNG-FFVKKQKLVFEGRELARSNSRVRDY-GLADGNVLHLVLRL  106 (469)
Q Consensus        49 V~~sdTV~~LK~kIq~~~G-ip~~~QrLvf~Gk~L~~D~~tL~dy-gI~~gstl~LvlrL  106 (469)
                      |.++++|.+|++-+..... .....-.|.++|+.|. +...|++. |++++.++.++...
T Consensus         1 v~~~d~v~dvrq~L~~~~~t~~~Tn~~L~~~g~~L~-~~~el~~i~~~~~~~~L~lve~p   59 (76)
T PF15044_consen    1 VSPTDTVQDVRQVLAESPETCYLTNFSLEHNGQRLD-DFVELSEIEGIKDGCVLELVEEP   59 (76)
T ss_pred             CChhhHHHHHHHHHHhCccccceeEEEEEECCCccC-CchhhhhhhCCCCCcEEEEEecC
Confidence            5788999999999887744 3344567889999996 78888877 57778877776544

>cd01774 Faf1_like2_UBX Faf1 ike-2 UBX domain

Probab=81.93  E-value=7.3  Score=32.34  Aligned_cols=71  Identities=20%  Similarity=0.243  Sum_probs=53.8

Q ss_pred             CCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEE--cCeecc-------cCCccccccCccCccce
Q 012177           31 NDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVF--EGRELA-------RSNSRVRDYGLADGNVL  100 (469)
Q Consensus        31 ~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf--~Gk~L~-------~D~~tL~dygI~~gstl  100 (469)
                      ++..+|-| ..+|+.+.-....++||++|-.-|... +..+....|+.  --+.+.       +.+.||++.||....+|
T Consensus         2 ~~~~~I~iRlp~G~Rl~rrF~~~~tl~~l~~fv~~~-~~~~~~f~L~t~FPrr~~~~~~~~~~~~~~TL~eaGL~~s~~L   80 (85)
T cd01774           2 PDTVKIVFKLPNGTRVERRFLFTQSLRVIHDFLFSL-KETPEKFQIVTNFPRRVLPCLPSEGDPPPPTLLEAGLSNSEVL   80 (85)
T ss_pred             CceEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHhC-CCCCCcEEEecCCCCccccccccccCcCCCCHHHcCCCCccEE
Confidence            35677888 457899999999999999999999754 44556677764  356775       24679999999977766


Q ss_pred             ee
Q 012177          101 HL  102 (469)
Q Consensus       101 ~L  102 (469)
                      .+
T Consensus        81 ~V   82 (85)
T cd01774          81 FV   82 (85)
T ss_pred             EE
Confidence            54

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

>cd01772 SAKS1_UBX SAKS1-like UBX domain

Probab=81.53  E-value=7.1  Score=31.74  Aligned_cols=69  Identities=17%  Similarity=0.289  Sum_probs=52.7

Q ss_pred             CEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEE--EcCeecccC--CccccccCccCccceee
Q 012177           33 SILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLV--FEGRELARS--NSRVRDYGLADGNVLHL  102 (469)
Q Consensus        33 ~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLv--f~Gk~L~~D--~~tL~dygI~~gstl~L  102 (469)
                      ..+|-| ..+|+.+.-....++|+.+|..-|+...+-. ....|+  |-.+.+.++  +.+|.+.|+...++|.|
T Consensus         4 ~~~i~iRlp~G~~~~~~F~~~~tl~~v~~fV~~~~~~~-~~f~L~t~fPrk~~~~~d~~~TL~elgL~Psa~L~v   77 (79)
T cd01772           4 ETRIQIRLLDGTTLKQTFKAREQLAAVRLFVELNTGNG-GPFTLMTPFPRKVFTEDDMEKPLQELGLVPSAVLIV   77 (79)
T ss_pred             EEEEEEECCCCCEEEEEeCCCChHHHHHHHHHHcCCCC-CCEEEEeCCCCeECCcccccCCHHHCCCCCceEEEE
Confidence            356777 4578999999999999999999999765433 345565  668888632  47899999998887765

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.

>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=81.08  E-value=5.9  Score=32.75  Aligned_cols=45  Identities=13%  Similarity=0.143  Sum_probs=38.2

Q ss_pred             EEEEEEeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcC
Q 012177           34 ILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEG   79 (469)
Q Consensus        34 M~I~V~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~G   79 (469)
                      .-|.|.+.+ ++.|+|.++.+..+|.++|.++.++|.+.-+|.|..
T Consensus         3 ~vvKV~f~~-tIaIrvp~~~~y~~L~~ki~~kLkl~~e~i~LsYkd   47 (80)
T cd06406           3 YVVKVHFKY-TVAIQVARGLSYATLLQKISSKLELPAEHITLSYKS   47 (80)
T ss_pred             eEEEEEEEE-EEEEEcCCCCCHHHHHHHHHHHhCCCchhcEEEecc
Confidence            345554455 999999999999999999999999998888998853

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

>KOG0906 consensus Phosphatidylinositol 3-kinase VPS34, involved in signal transduction [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=80.34  E-value=1.5  Score=48.73  Aligned_cols=42  Identities=40%  Similarity=0.590  Sum_probs=37.0

Q ss_pred             hhhheeeecEEEecCCCCCCcEEEecCCCCceEEEeeecCCccCCC
Q 012177          414 EVHKISVLDIRLANTDRHAGNILVSKDEGGQIKLVPIDHGYCLPYS  459 (469)
Q Consensus       414 ev~ki~ilD~~~~N~DR~~gN~Lv~~~~~~~~~l~~IDhg~~~p~~  459 (469)
                      .+.--+|.=|+|.=.|||.||+|+++|  |+  +..||-||.|-..
T Consensus       685 ScaGYsVitYILGvGDRhldNLllT~d--Gk--~FHiDFgyIlGRD  726 (843)
T KOG0906|consen  685 SCAGYSVITYILGVGDRHLDNLLLTKD--GK--LFHIDFGYILGRD  726 (843)
T ss_pred             hhccceeeeeeecccCCCcCceEEccC--Cc--EEEEeeeeeccCC
Confidence            455678899999999999999999998  77  9999999998765

>cd05169 PIKKc_TOR TOR (Target of rapamycin), catalytic domain; The TOR catalytic domain subfamily is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and RIO kinases

Probab=80.04  E-value=1.1  Score=45.14  Aligned_cols=41  Identities=29%  Similarity=0.573  Sum_probs=35.5

Q ss_pred             hhhhheeeecEEEecCCCCCCcEEEecCCCCceEEEeeecCCcc
Q 012177          413 DEVHKISVLDIRLANTDRHAGNILVSKDEGGQIKLVPIDHGYCL  456 (469)
Q Consensus       413 ~ev~ki~ilD~~~~N~DR~~gN~Lv~~~~~~~~~l~~IDhg~~~  456 (469)
                      ..+.-.+++=|++.=.|||.+|||+... +|+  ++.||-|+||
T Consensus       171 ~S~A~~Sv~~YilglgDRH~~NIll~~~-tG~--v~HIDfg~~f  211 (280)
T cd05169         171 RSLAVMSMVGYILGLGDRHPSNIMIDRL-TGK--VIHIDFGDCF  211 (280)
T ss_pred             HHHHHHHHHHhheeccCCCcceEEEEcC-CCC--EEEEecHHHH
Confidence            3567788899999999999999999983 477  8999999887

TOR is a member of the phosphoinositide 3-kinase-related protein kinase (PIKK) subfamily. PIKKs have intrinsic serine/threonine kinase activity and are distinguished from other PKs by their unique catalytic domain, similar to that of lipid PI3K, and their large molecular weight (240-470 kDa). TOR contains a rapamycin binding domain, a catalytic domain, and a FATC (FRAP, ATM and TRRAP, C-terminal) domain at the C-terminus. It is also called FRAP (FK506 binding protein 12-rapamycin associated protein). TOR is a central component of the eukaryotic growth regulatory network. It controls the expression of many genes transcribed by all three RNA polymerases. It associates with

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	469
3u30_A	172	Crystal Structure Of A Linear-Specific Ubiquitin Fa		2e-15
2zvn_A	154	Nemo Cozi Domain Incomplex With Diubiquitin In P212		4e-15
2y5b_B	152	Structure Of Usp21 In Complex With Linear Diubiquit		5e-15
2w9n_A	152	Crystal Structure Of Linear Di-Ubiquitin Length = 1		7e-15
3b08_A	152	Crystal Structure Of The Mouse Hoil1-L-Nzf In Compl		7e-15
2gbk_A	83	Crystal Structure Of The 9-10 Moad Insertion Mutant		2e-06
3jvz_X	81	E2~ubiquitin-Hect Length = 81		4e-06
3ai5_A	307	Crystal Structure Of Yeast Enhanced Green Fluoresce		6e-06
2zcb_A	76	Crystal Structure Of Ubiquitin P37aP38A Length = 76		9e-06
1yx5_B	98	Solution Structure Of S5a Uim-1UBIQUITIN COMPLEX Le		1e-05
3v6c_B	91	Crystal Structure Of Usp2 In Complex With Mutated U		1e-05
3zf7_s	128	High-resolution Cryo-electron Microscopy Structure		1e-05
2k25_A	103	Automated Nmr Structure Of The Ubb By Fapsy Length		1e-05
3nob_A	78	Structure Of K11-Linked Di-Ubiquitin Length = 78		1e-05
3dvg_X	80	Crystal Structure Of K63-Specific Fab Apu.3a8 Bound		1e-05
4ii2_B	83	Crystal Structure Of Ubiquitin Activating Enzyme 1		1e-05
2khw_B	79	Solution Structure Of The Human Polymerase Iota Ubm		1e-05
1zgu_B	76	Solution Structure Of The Human Mms2-Ubiquitin Comp		1e-05
3v6e_B	91	Crystal Structure Of Usp2 And A Mutant Form Of Ubiq		1e-05
3q3f_A	189	Engineering Domain-Swapped Binding Interfaces By Mu		2e-05
2ojr_A	111	Structure Of Ubiquitin Solved By Sad Using The Lant		2e-05
2o6v_D	76	Crystal Structure And Solution Nmr Studies Of Lys48		2e-05
3dvg_Y	79	Crystal Structure Of K63-Specific Fab Apu.3a8 Bound		2e-05
2xk5_B	76	Crystal Structure Of K6-Linked Diubiquitin Length =		2e-05
3olm_D	79	Structure And Function Of A Ubiquitin Binding Site		2e-05
3olm_D	79	Structure And Function Of A Ubiquitin Binding Site		7e-04
4gsw_A	80	Crystal Structure Of Ubiquitin From Entamoeba Histo		2e-05
4hcn_B	98	Crystal Structure Of Burkholderia Pseudomallei Effe		2e-05
3u5g_f	152	The Structure Of The Eukaryotic Ribosome At 3.0 A R		3e-05
3vdz_A	111	Tailoring Encodable Lanthanide-Binding Tags As Mri		3e-05
4ii3_B	96	Crystal Structure Of S. Pombe Ubiquitin Activating		3e-05
4ii3_B	96	Crystal Structure Of S. Pombe Ubiquitin Activating		3e-04
3u5e_m	128	The Structure Of The Eukaryotic Ribosome At 3.0 A R		3e-05
2k6d_B	76	Cin85 Sh3-C Domain In Complex With Ubiquitin Length		3e-05
4a18_K	129	T.Thermophila 60s Ribosomal Subunit In Complex With		3e-05
2jvc_A	82	Nmr Solution Structure Of Ubiquitin Like Protein Le		3e-05
4ap4_C	80	Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex Le		3e-05
1zw7_A	82	Elimination Of The C-Cap In Ubiquitin Structure, Dy		3e-05
3ldz_F	73	Crystal Structure Of Human Stam1 Vhs Domain In Comp		4e-05
1yiw_A	76	X-Ray Crystal Structure Of A Chemically Synthesized		4e-05
1xd3_B	75	Crystal Structure Of Uchl3-Ubvme Complex Length = 7		4e-05
1s1q_B	76	Tsg101(Uev) Domain In Complex With Ubiquitin Length		4e-05
1cmx_B	76	Structural Basis For The Specificity Of Ubiquitin C		4e-05
1aar_A	76	Structure Of A Diubiquitin Conjugate And A Model Fo		4e-05
3rul_A	79	New Strategy To Analyze Structures Of Glycopeptide-		4e-05
2ld9_A	77	Backbone Structure Of Ubiquitin Determined Using Ba		4e-05
3l0w_B	169	Structure Of Split Monoubiquitinated Pcna With Ubiq		4e-05
3l0w_B	169	Structure Of Split Monoubiquitinated Pcna With Ubiq		5e-04
2znv_C	77	Crystal Structure Of Human Amsh-Lp Dub Domain In Co		4e-05
1otr_B	76	Solution Structure Of A Cue-Ubiquitin Complex Lengt		4e-05
3k9o_B	96	The Crystal Structure Of E2-25k And Ubb+1 Complex L		4e-05
2znv_B	76	Crystal Structure Of Human Amsh-Lp Dub Domain In Co		5e-05
2o6v_B	76	Crystal Structure And Solution Nmr Studies Of Lys48		1e-04
3ons_A	72	Crystal Structure Of Human Ubiquitin In A New Cryst		1e-04
2kdi_A	114	Solution Structure Of A UbiquitinUIM FUSION PROTEIN		1e-04
2gbj_A	84	Crystal Structure Of The 9-10 8 Glycine Insertion M		2e-04
1ud7_A	76	Solution Structure Of The Designed Hydrophobic Core		2e-04
2jwz_A	76	Mutations In The Hydrophobic Core Of Ubiquitin Diff		3e-04
1yj1_A	76	X-Ray Crystal Structure Of A Chemically Synthesized		3e-04
2fcs_A	76	X-Ray Crystal Structure Of A Chemically Synthesized		3e-04
1c3t_A	76	Rotamer Strain As A Determinant Of Protein Structur		3e-04
1bt0_A	76	Structure Of Ubiquitin-Like Protein, Rub1 Length =		4e-04
2gbr_A	81	Crystal Structure Of The 35-36 Moad Insertion Mutan		4e-04
3dbh_I	88	Structural Dissection Of A Gating Mechanism Prevent		4e-04
4i6l_B	76	Crystal Structure Of Otub1 In Complex With Ubiquiti		5e-04
1ogw_A	76	Synthetic Ubiquitin With Fluoro-Leu At 50 And 67 Le		6e-04
1sif_A	88	Crystal Structure Of A Multiple Hydrophobic Core Mu		6e-04
3u5c_f	152	The Structure Of The Eukaryotic Ribosome At 3.0 A R		8e-04

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

Iteration: 1
 Score = 80.1 bits (196), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 52/149 (34%), Positives = 81/149 (54%), Gaps = 4/149 (2%)
Query: 36  IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
           IF+ ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +
Sbjct: 23  IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 81
Query: 95  ADGNVLHLVLRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQEL 154
              + LHLVLRL     I V T+ GK     VE    +  VK +I  K  E +    Q L
Sbjct: 82  QKESTLHLVLRLRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRL 139
Query: 155 ICDGEELEDQRLITDICKRNEAVIHLLVR 183
           I  G++LED R ++D   + E+ +HL++R
Sbjct: 140 IFAGKQLEDGRTLSDYNIQKESTLHLVLR 168

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

Iteration: 1
 Score = 79.3 bits (194), Expect = 4e-15,   Method: Composition-based stats.
 Identities = 53/152 (34%), Positives = 83/152 (54%), Gaps = 4/152 (2%)
Query: 33  SILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRD 91
           S+ IF+ ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + D
Sbjct: 2   SMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSD 60
Query: 92  YGLADGNVLHLVLRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKN 151
           Y +   + LHLVLRL     I V T+ GK     VE    +  VK +I  K  E +    
Sbjct: 61  YNIQKESTLHLVLRLRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQ 118
Query: 152 QELICDGEELEDQRLITDICKRNEAVIHLLVR 183
           Q LI  G++LED R ++D   + E+ +HL++R
Sbjct: 119 QRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR 150

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

Iteration: 1
 Score = 79.0 bits (193), Expect = 5e-15,   Method: Composition-based stats.
 Identities = 50/145 (34%), Positives = 78/145 (53%), Gaps = 3/145 (2%)
Query: 39  SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
           ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +   +
Sbjct: 7   TLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNIQKES 65
Query: 99  VLHLVLRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDG 158
            LHLVLRL     I V T+ GK     VE    +  VK +I  K  E +    Q LI  G
Sbjct: 66  TLHLVLRLRGHMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRLIFAG 123
Query: 159 EELEDQRLITDICKRNEAVIHLLVR 183
           ++LED R ++D   + E+ +HL++R
Sbjct: 124 KQLEDGRTLSDYNIQKESTLHLVLR 148

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

Iteration: 1
 Score = 78.6 bits (192), Expect = 7e-15,   Method: Composition-based stats.
 Identities = 50/145 (34%), Positives = 78/145 (53%), Gaps = 3/145 (2%)
Query: 39  SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
           ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +   +
Sbjct: 7   TLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNIQKES 65
Query: 99  VLHLVLRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDG 158
            LHLVLRL     I V T+ GK     VE    +  VK +I  K  E +    Q LI  G
Sbjct: 66  TLHLVLRLRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRLIFAG 123
Query: 159 EELEDQRLITDICKRNEAVIHLLVR 183
           ++LED R ++D   + E+ +HL++R
Sbjct: 124 KQLEDGRTLSDYNIQKESTLHLVLR 148

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

Iteration: 1
 Score = 78.6 bits (192), Expect = 7e-15,   Method: Composition-based stats.
 Identities = 50/145 (34%), Positives = 78/145 (53%), Gaps = 3/145 (2%)
Query: 39  SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
           ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +   +
Sbjct: 7   TLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNIQKES 65
Query: 99  VLHLVLRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDG 158
            LHLVLRL     I V T+ GK     VE    +  VK +I  K  E +    Q LI  G
Sbjct: 66  TLHLVLRLRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRLIFAG 123
Query: 159 EELEDQRLITDICKRNEAVIHLLVR 183
           ++LED R ++D   + E+ +HL++R
Sbjct: 124 KQLEDGRTLSDYNIQKESTLHLVLR 148

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

Iteration: 1
 Score = 50.8 bits (120), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 27/67 (40%), Positives = 40/67 (59%), Gaps = 1/67 (1%)
Query: 40  VGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNV 99
           VGG  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +   + 
Sbjct: 15  VGGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNIQKEST 73
Query: 100 LHLVLRL 106
           LHLVLRL
Sbjct: 74  LHLVLRL 80

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

Iteration: 1
 Score = 49.3 bits (116), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 29/78 (37%), Positives = 46/78 (58%), Gaps = 2/78 (2%)
Query: 30  SNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSR 88
           S  S+ IF+ ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + 
Sbjct: 2   SGGSMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT- 60
Query: 89  VRDYGLADGNVLHLVLRL 106
           + DY +   + LHLVLRL
Sbjct: 61  LSDYNIQKESTLHLVLRL 78

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

Iteration: 1
 Score = 48.9 bits (115), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 28/75 (37%), Positives = 45/75 (60%), Gaps = 2/75 (2%)
Query: 33  SILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRD 91
           S+ IF+ ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + D
Sbjct: 233 SMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSD 291
Query: 92  YGLADGNVLHLVLRL 106
           Y +   + LHLVLRL
Sbjct: 292 YNIQKESTLHLVLRL 306

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

Iteration: 1
 Score = 48.5 bits (114), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 25/68 (36%), Positives = 40/68 (58%), Gaps = 1/68 (1%)
Query: 39  SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
           ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +   +
Sbjct: 7   TLTGKTITLEVEPSDTIENVKAKIQDKEGIAADQQRLIFAGKQLEDGRT-LSDYNIQKES 65
Query: 99  VLHLVLRL 106
            LHLVLRL
Sbjct: 66  TLHLVLRL 73

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

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 27/72 (37%), Positives = 43/72 (59%), Gaps = 2/72 (2%)
Query: 36  IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
           IF+ ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +
Sbjct: 3   IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 61
Query: 95  ADGNVLHLVLRL 106
              + LHLVLRL
Sbjct: 62  QKESTLHLVLRL 73

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

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 28/75 (37%), Positives = 46/75 (61%), Gaps = 2/75 (2%)
Query: 33  SILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRD 91
           S+ IF+ ++ G+ I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + D
Sbjct: 17  SMQIFVNTLTGTHITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSD 75
Query: 92  YGLADGNVLHLVLRL 106
           Y +   + LHLVLRL
Sbjct: 76  YNIQKESTLHLVLRL 90

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

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 25/68 (36%), Positives = 40/68 (58%), Gaps = 1/68 (1%)
Query: 39  SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
           ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +   +
Sbjct: 7   TLTGKTIALEVEASDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEEGRT-LADYNIQKES 65
Query: 99  VLHLVLRL 106
            LHLVLRL
Sbjct: 66  TLHLVLRL 73

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

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 27/75 (36%), Positives = 45/75 (60%), Gaps = 2/75 (2%)
Query: 33  SILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRD 91
           S+ IF+ ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + +
Sbjct: 8   SMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSE 66
Query: 92  YGLADGNVLHLVLRL 106
           Y +   + LHLVLRL
Sbjct: 67  YNIQKESTLHLVLRL 81

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

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 27/72 (37%), Positives = 43/72 (59%), Gaps = 2/72 (2%)
Query: 36  IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
           IF+ ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +
Sbjct: 5   IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 63
Query: 95  ADGNVLHLVLRL 106
              + LHLVLRL
Sbjct: 64  QKESTLHLVLRL 75

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

Iteration: 1
 Score = 47.8 bits (112), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 27/72 (37%), Positives = 43/72 (59%), Gaps = 2/72 (2%)
Query: 36  IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
           IF+ ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +
Sbjct: 6   IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 64
Query: 95  ADGNVLHLVLRL 106
              + LHLVLRL
Sbjct: 65  QKESTLHLVLRL 76

>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 = 47.8 bits (112), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 26/68 (38%), Positives = 40/68 (58%), Gaps = 1/68 (1%)
Query: 39  SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
           ++ G  I + V  SD+I +V+ RIQ   G    +Q+L+F GR+L    + + DY +   +
Sbjct: 14  TLTGRTITLEVESSDTIDNVRARIQDREGIPPDQQRLIFAGRQLEDGRT-LADYNIQRES 72
Query: 99  VLHLVLRL 106
            LHLVLRL
Sbjct: 73  TLHLVLRL 80

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

Iteration: 1
 Score = 47.8 bits (112), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 27/72 (37%), Positives = 43/72 (59%), Gaps = 2/72 (2%)
Query: 36  IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
           IF+ ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +
Sbjct: 6   IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 64
Query: 95  ADGNVLHLVLRL 106
              + LHLVLRL
Sbjct: 65  QKESTLHLVLRL 76

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

Iteration: 1
 Score = 47.8 bits (112), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 26/68 (38%), Positives = 40/68 (58%), Gaps = 1/68 (1%)
Query: 39  SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
           ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F GR+L    + + DY +   +
Sbjct: 7   TLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGRQLEDGRT-LSDYNIQKES 65
Query: 99  VLHLVLRL 106
            LHLVLRL
Sbjct: 66  TLHLVLRL 73

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

Iteration: 1
 Score = 47.8 bits (112), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 28/75 (37%), Positives = 45/75 (60%), Gaps = 2/75 (2%)
Query: 33  SILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRD 91
           S+ IF+ ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + D
Sbjct: 17  SMQIFVNTLSGKHITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSD 75
Query: 92  YGLADGNVLHLVLRL 106
           Y +   + LHLVLRL
Sbjct: 76  YNIQKESTLHLVLRL 90

>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 = 47.4 bits (111), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 31/106 (29%), Positives = 51/106 (48%), Gaps = 13/106 (12%)
Query: 13  EESLNFPGNFTHRPEKLSNDSILIFLS------------VGGSVIPMRVMESDSIASVKL 60
           E  +N+   F +    L +   LI+ +            + G  I + V  SD+I +VK 
Sbjct: 74  EADINYTSGFRNSDRILYSSDWLIYKTTDHYGGQIFVKTLTGKTITLEVEPSDTIENVKA 133
Query: 61  RIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRL 106
           +IQ   G    +Q+L+F G++L    + + DY +   + LHLVLRL
Sbjct: 134 KIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNIQKESTLHLVLRL 178

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

Iteration: 1
 Score = 47.4 bits (111), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 25/68 (36%), Positives = 40/68 (58%), Gaps = 1/68 (1%)
Query: 39  SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
           ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +   +
Sbjct: 42  TLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNIQKES 100
Query: 99  VLHLVLRL 106
            LHLVLRL
Sbjct: 101 TLHLVLRL 108

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

Iteration: 1
 Score = 47.4 bits (111), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 26/68 (38%), Positives = 40/68 (58%), Gaps = 1/68 (1%)
Query: 39  SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
           ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F GR+L    + + DY +   +
Sbjct: 7   TLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGRQLEDGRT-LSDYNIQRES 65
Query: 99  VLHLVLRL 106
            LHLVLRL
Sbjct: 66  TLHLVLRL 73

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

Iteration: 1
 Score = 47.4 bits (111), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 27/72 (37%), Positives = 43/72 (59%), Gaps = 2/72 (2%)
Query: 36  IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
           IF+ ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +
Sbjct: 6   IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 64
Query: 95  ADGNVLHLVLRL 106
              + LHLVLRL
Sbjct: 65  QRESTLHLVLRL 76

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

Iteration: 1
 Score = 47.0 bits (110), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 25/68 (36%), Positives = 41/68 (60%), Gaps = 1/68 (1%)
Query: 39  SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
           ++ G  I + V  SD+I +VK +IQ   G   ++Q+L+F G++L    + + DY +   +
Sbjct: 7   TLTGKTITLEVEPSDTIENVKAKIQDKEGIPPQQQRLIFAGKQLEDGRT-LSDYNIQKES 65
Query: 99  VLHLVLRL 106
            LHLVLRL
Sbjct: 66  TLHLVLRL 73

>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 = 47.0 bits (110), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 27/77 (35%), Positives = 43/77 (55%), Gaps = 1/77 (1%)
Query: 30  SNDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRV 89
           SN   +   ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + +
Sbjct: 1   SNAMQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRT-L 59
Query: 90  RDYGLADGNVLHLVLRL 106
            DY +   + LHLVLRL
Sbjct: 60  SDYNIQKESTLHLVLRL 76

>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 = 42.0 bits (97), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 26/77 (33%), Positives = 40/77 (51%), Gaps = 2/77 (2%)
Query: 107 SDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRL 166
           S+   I V T+ GK     VE    +  VK +I  K  E +    Q LI  G++LED R 
Sbjct: 1   SNAMQIFVKTLTGKTITLEVESSDTIDNVKSKIQDK--EGIPPDQQRLIFAGKQLEDGRT 58
Query: 167 ITDICKRNEAVIHLLVR 183
           ++D   + E+ +HL++R
Sbjct: 59  LSDYNIQKESTLHLVLR 75

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

Iteration: 1
 Score = 47.0 bits (110), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 26/77 (33%), Positives = 43/77 (55%), Gaps = 1/77 (1%)
Query: 30  SNDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRV 89
           SN   +   ++ G  I + V  +DSI ++K +IQ   G    +Q+L+F G++L    + +
Sbjct: 1   SNAMQIFVKTLTGKTITLEVEPNDSIDAIKAKIQEKEGIPPDQQRLIFAGKQLEEGKT-L 59
Query: 90  RDYGLADGNVLHLVLRL 106
            DY +   + LHLVLRL
Sbjct: 60  SDYNIQKESTLHLVLRL 76

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

Iteration: 1
 Score = 47.0 bits (110), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 27/72 (37%), Positives = 43/72 (59%), Gaps = 2/72 (2%)
Query: 36  IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
           IF+ ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +
Sbjct: 25  IFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 83
Query: 95  ADGNVLHLVLRL 106
              + LHLVLRL
Sbjct: 84  QKESTLHLVLRL 95

>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 = 47.0 bits (110), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 27/72 (37%), Positives = 43/72 (59%), Gaps = 2/72 (2%)
Query: 36  IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
           IF+ ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +
Sbjct: 3   IFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 61
Query: 95  ADGNVLHLVLRL 106
              + LHLVLRL
Sbjct: 62  QKESTLHLVLRL 73

>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 = 47.0 bits (110), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 25/68 (36%), Positives = 40/68 (58%), Gaps = 1/68 (1%)
Query: 39  SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
           ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +   +
Sbjct: 42  TLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNIQKES 100
Query: 99  VLHLVLRL 106
            LHLVLRL
Sbjct: 101 TLHLVLRL 108

>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 = 46.6 bits (109), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 27/72 (37%), Positives = 43/72 (59%), Gaps = 2/72 (2%)
Query: 36  IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
           IF+ ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +
Sbjct: 23  IFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 81
Query: 95  ADGNVLHLVLRL 106
              + LHLVLRL
Sbjct: 82  QKESTLHLVLRL 93

>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 = 43.1 bits (100), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 30/82 (36%), Positives = 44/82 (53%), Gaps = 3/82 (3%)
Query: 102 LVLRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEEL 161
           LV R S +Q I V T+ GK     VE    +  VK +I  K  E +    Q LI  G++L
Sbjct: 14  LVPRGSHMQ-IFVKTLTGKTITLEVESSDTIDNVKSKIQDK--EGIPPDQQRLIFAGKQL 70
Query: 162 EDQRLITDICKRNEAVIHLLVR 183
           ED R ++D   + E+ +HL++R
Sbjct: 71  EDGRTLSDYNIQKESTLHLVLR 92

>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 = 46.6 bits (109), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 25/68 (36%), Positives = 40/68 (58%), Gaps = 1/68 (1%)
Query: 39  SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
           ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +   +
Sbjct: 7   TLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNIQKES 65
Query: 99  VLHLVLRL 106
            LHLVLRL
Sbjct: 66  TLHLVLRL 73

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

Iteration: 1
 Score = 46.6 bits (109), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 25/68 (36%), Positives = 40/68 (58%), Gaps = 1/68 (1%)
Query: 39  SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
           ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +   +
Sbjct: 7   TLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNIQKES 65
Query: 99  VLHLVLRL 106
            LHLVLRL
Sbjct: 66  TLHLVLRL 73

>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 = 46.6 bits (109), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 25/68 (36%), Positives = 40/68 (58%), Gaps = 1/68 (1%)
Query: 39  SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
           ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +   +
Sbjct: 7   TLTGKTITLDVEASDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNIQKES 65
Query: 99  VLHLVLRL 106
            LHLVLRL
Sbjct: 66  TLHLVLRL 73

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

Iteration: 1
 Score = 46.6 bits (109), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 27/75 (36%), Positives = 46/75 (61%), Gaps = 2/75 (2%)
Query: 33  SILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRD 91
           S+ IF+ ++ G  I + V  +D++ +VK +I    G    +Q+L+F G++L  SN+ + D
Sbjct: 5   SMQIFVKTLTGKTITIDVDHADTVGAVKAKIYDKEGIPPDQQRLIFGGKQLEDSNA-MSD 63
Query: 92  YGLADGNVLHLVLRL 106
           Y +   + LHLVLRL
Sbjct: 64  YNVQKESTLHLVLRL 78

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

Iteration: 1
 Score = 46.6 bits (109), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 25/68 (36%), Positives = 40/68 (58%), Gaps = 1/68 (1%)
Query: 39  SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
           ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +   +
Sbjct: 11  TLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNIQKES 69
Query: 99  VLHLVLRL 106
            LHLVLRL
Sbjct: 70  TLHLVLRL 77

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

Iteration: 1
 Score = 46.2 bits (108), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 25/68 (36%), Positives = 42/68 (61%), Gaps = 1/68 (1%)
Query: 39  SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
           ++ G+ I + V  SD+I +VK +IQ+  G    +Q+L+F G++L    + + DY +   +
Sbjct: 7   TLTGATITLEVESSDTIDNVKSKIQAAPGIPPDQQELIFAGKQLEDGRT-LSDYNIQKES 65
Query: 99  VLHLVLRL 106
            LHLVLRL
Sbjct: 66  TLHLVLRL 73

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

Iteration: 1
 Score = 46.2 bits (108), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 25/68 (36%), Positives = 40/68 (58%), Gaps = 1/68 (1%)
Query: 39  SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
           ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +   +
Sbjct: 7   TLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNIQKES 65
Query: 99  VLHLVLRL 106
            LHLVLRL
Sbjct: 66  TLHLVLRL 73

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

Iteration: 1
 Score = 46.2 bits (108), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 25/68 (36%), Positives = 40/68 (58%), Gaps = 1/68 (1%)
Query: 39  SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
           ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +   +
Sbjct: 7   TLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNIQKES 65
Query: 99  VLHLVLRL 106
            LHLVLRL
Sbjct: 66  TLHLVLRL 73

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

Iteration: 1
 Score = 46.2 bits (108), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 25/68 (36%), Positives = 40/68 (58%), Gaps = 1/68 (1%)
Query: 39  SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
           ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +   +
Sbjct: 7   TLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNIQKES 65
Query: 99  VLHLVLRL 106
            LHLVLRL
Sbjct: 66  TLHLVLRL 73

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

Iteration: 1
 Score = 46.2 bits (108), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 25/68 (36%), Positives = 40/68 (58%), Gaps = 1/68 (1%)
Query: 39  SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
           ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +   +
Sbjct: 7   TLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNIQKES 65
Query: 99  VLHLVLRL 106
            LHLVLRL
Sbjct: 66  TLHLVLRL 73

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

Iteration: 1
 Score = 46.2 bits (108), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 25/68 (36%), Positives = 40/68 (58%), Gaps = 1/68 (1%)
Query: 39  SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
           ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +   +
Sbjct: 7   TLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNIQKES 65
Query: 99  VLHLVLRL 106
            LHLVLRL
Sbjct: 66  TLHLVLRL 73

>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 = 46.2 bits (108), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 25/68 (36%), Positives = 40/68 (58%), Gaps = 1/68 (1%)
Query: 39  SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
           ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +   +
Sbjct: 7   TLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNIQKES 65
Query: 99  VLHLVLRL 106
            LHLVLRL
Sbjct: 66  TLHLVLRL 73

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

Iteration: 1
 Score = 46.2 bits (108), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 25/68 (36%), Positives = 40/68 (58%), Gaps = 1/68 (1%)
Query: 39  SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
           ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +   +
Sbjct: 7   TLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNIQKES 65
Query: 99  VLHLVLRL 106
            LHLVLRL
Sbjct: 66  TLHLVLRL 73

>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 = 46.2 bits (108), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 25/68 (36%), Positives = 40/68 (58%), Gaps = 1/68 (1%)
Query: 39  SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
           ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +   +
Sbjct: 8   TLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNIQKES 66
Query: 99  VLHLVLRL 106
            LHLVLRL
Sbjct: 67  TLHLVLRL 74

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

Iteration: 1
 Score = 46.2 bits (108), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 25/68 (36%), Positives = 40/68 (58%), Gaps = 1/68 (1%)
Query: 39  SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
           ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +   +
Sbjct: 7   TLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNIQKES 65
Query: 99  VLHLVLRL 106
            LHLVLRL
Sbjct: 66  TLHLVLRL 73

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

Iteration: 1
 Score = 42.4 bits (98), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 2/72 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
           I V T+ GK     VE    +  VK +I  K  E +    Q LI  G++LED R ++D  
Sbjct: 3   IFVKTLTGKTITLEVESSDTIDNVKSKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 172 KRNEAVIHLLVR 183
            + E+ +HL++R
Sbjct: 61  IQKESTLHLVLR 72

>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 = 46.2 bits (108), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 25/68 (36%), Positives = 40/68 (58%), Gaps = 1/68 (1%)
Query: 39  SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
           ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +   +
Sbjct: 7   TLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNIQKES 65
Query: 99  VLHLVLRL 106
            LHLVLRL
Sbjct: 66  TLHLVLRL 73

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

Iteration: 1
 Score = 46.2 bits (108), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 25/68 (36%), Positives = 40/68 (58%), Gaps = 1/68 (1%)
Query: 39  SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
           ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +   +
Sbjct: 7   TLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNIQKES 65
Query: 99  VLHLVLRL 106
            LHLVLRL
Sbjct: 66  TLHLVLRL 73

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

Iteration: 1
 Score = 46.2 bits (108), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 25/68 (36%), Positives = 40/68 (58%), Gaps = 1/68 (1%)
Query: 39  SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
           ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +   +
Sbjct: 8   TLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNIQKES 66
Query: 99  VLHLVLRL 106
            LHLVLRL
Sbjct: 67  TLHLVLRL 74

>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 = 45.8 bits (107), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 25/68 (36%), Positives = 40/68 (58%), Gaps = 1/68 (1%)
Query: 39  SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
           ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +   +
Sbjct: 7   TLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNIQRES 65
Query: 99  VLHLVLRL 106
            LHLVLRL
Sbjct: 66  TLHLVLRL 73

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

Iteration: 1
 Score = 44.7 bits (104), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 25/68 (36%), Positives = 39/68 (57%), Gaps = 1/68 (1%)
Query: 39  SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
           ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G +L    + + DY +   +
Sbjct: 7   TLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGXQLEDGRT-LSDYNIQRES 65
Query: 99  VLHLVLRL 106
            LHLVLRL
Sbjct: 66  TLHLVLRL 73

>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 = 1e-04,   Method: Composition-based stats.
 Identities = 24/67 (35%), Positives = 39/67 (58%), Gaps = 1/67 (1%)
Query: 39  SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
           ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +   +
Sbjct: 7   TLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNIQKES 65
Query: 99  VLHLVLR 105
            LHLVLR
Sbjct: 66  TLHLVLR 72

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

Iteration: 1
 Score = 44.3 bits (103), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 31/98 (31%), Positives = 50/98 (51%), Gaps = 4/98 (4%)
Query: 39  SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
           ++ G  I + V  SD+I +VK +IQ   G    +Q+L++ G++L    + + DY +   +
Sbjct: 16  TLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIWAGKQLEDGRT-LSDYNIQRES 74
Query: 99  VLHLVLRL---SDLQAITVTTVCGKVFEFHVERGRNVG 133
            LHLVLRL   S   A     +  K  E  ++  RN G
Sbjct: 75  TLHLVLRLRGGSMGGAADEEELIRKAIELSLKESRNSG 112

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

Iteration: 1
 Score = 43.9 bits (102), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 24/62 (38%), Positives = 37/62 (59%), Gaps = 1/62 (1%)
Query: 45  IPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVL 104
           I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +   + LHLVL
Sbjct: 21  ITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNIQKESTLHLVL 79
Query: 105 RL 106
           RL
Sbjct: 80  RL 81

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

Iteration: 1
 Score = 43.9 bits (102), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 23/72 (31%), Positives = 42/72 (58%), Gaps = 2/72 (2%)
Query: 36  IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
           +FL ++ G  + + V  SD++ + K +IQ   G    +Q+L+F G++L    + + DY +
Sbjct: 3   VFLKTLTGKTVTIEVEPSDTVENFKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 61
Query: 95  ADGNVLHLVLRL 106
              + +HLVLRL
Sbjct: 62  QKESTIHLVLRL 73

>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 = 3e-04,   Method: Composition-based stats.
 Identities = 24/68 (35%), Positives = 39/68 (57%), Gaps = 1/68 (1%)
Query: 39  SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
           ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +   +
Sbjct: 7   TLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNIQKES 65
Query: 99  VLHLVLRL 106
            LH VLRL
Sbjct: 66  TLHSVLRL 73

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

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 24/68 (35%), Positives = 39/68 (57%), Gaps = 1/68 (1%)
Query: 39  SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
           ++ G  I + V  SD+I +VK +IQ        +Q+L+F G++L    + + DY +   +
Sbjct: 7   TLTGKTITLEVEPSDTIENVKAKIQDKEXIPPDQQRLIFAGKQLEDGRT-LSDYNIQKES 65
Query: 99  VLHLVLRL 106
            LHLVLRL
Sbjct: 66  TLHLVLRL 73

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

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 24/68 (35%), Positives = 39/68 (57%), Gaps = 1/68 (1%)
Query: 39  SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
           ++ G  I + V  SD+I +VK +IQ        +Q+L+F G++L    + + DY +   +
Sbjct: 7   TLTGKTITLEVEPSDTIENVKAKIQDKEQIPPDQQRLIFAGKQLEDGRT-LSDYNIQKES 65
Query: 99  VLHLVLRL 106
            LHLVLRL
Sbjct: 66  TLHLVLRL 73

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

Iteration: 1
 Score = 43.1 bits (100), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 22/72 (30%), Positives = 41/72 (56%), Gaps = 1/72 (1%)
Query: 35  LIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
           L   ++ G  + + +  SD++ ++K +IQ   G    +Q+L+F G++L    + + DY L
Sbjct: 3   LFVKTLTGKTLTVELEPSDTVENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNL 61
Query: 95  ADGNVLHLVLRL 106
              + +HLVLRL
Sbjct: 62  QKESTIHLVLRL 73

>pdb|1BT0|A Chain A, Structure Of Ubiquitin-Like Protein, Rub1 Length = 76

Iteration: 1
 Score = 42.7 bits (99), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 22/68 (32%), Positives = 41/68 (60%), Gaps = 1/68 (1%)
Query: 39  SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
           ++ G  I + +  +D+I  +K R++   G    +Q+L++ G++LA  +   +DY +  G+
Sbjct: 7   TLTGKEIEIDIEPTDTIDRIKERVEEKEGIPPVQQRLIYAGKQLA-DDKTAKDYNIEGGS 65
Query: 99  VLHLVLRL 106
           VLHLVL L
Sbjct: 66  VLHLVLAL 73

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

Iteration: 1
 Score = 42.7 bits (99), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 25/73 (34%), Positives = 41/73 (56%), Gaps = 6/73 (8%)
Query: 39  SVGGSVIPMRVMESDSIASVKLRIQSYNGFFV-----KKQKLVFEGRELARSNSRVRDYG 93
           ++ G  I + V  SD+I +VK +IQ   G +       +Q+L+F G++L    + + DY 
Sbjct: 7   TLTGKTITLEVEPSDTIENVKAKIQDKEGRWALAIPPDQQRLIFAGKQLEDGRT-LSDYN 65
Query: 94  LADGNVLHLVLRL 106
           +   + LHLVLRL
Sbjct: 66  IQKESTLHLVLRL 78

>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 = 42.7 bits (99), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 24/78 (30%), Positives = 46/78 (58%), Gaps = 2/78 (2%)
Query: 30  SNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSR 88
           S  S+LI + ++ G  I + +  +D +  +K R++   G   ++Q+L++ G+++    + 
Sbjct: 9   SGGSMLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTA 68
Query: 89  VRDYGLADGNVLHLVLRL 106
             DY +  G+VLHLVLRL
Sbjct: 69  A-DYKILGGSVLHLVLRL 85

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

Iteration: 1
 Score = 42.7 bits (99), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 27/75 (36%), Positives = 44/75 (58%), Gaps = 2/75 (2%)
Query: 33  SILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRD 91
           S+ IF+ ++ G  I + V  SD+I +VK +IQ   G    +QKL+F  ++L    + + D
Sbjct: 2   SMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQKLLFARKQLEDGRT-LSD 60
Query: 92  YGLADGNVLHLVLRL 106
           Y +   + L+LVLRL
Sbjct: 61  YNIHKESFLYLVLRL 75

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

Iteration: 1
 Score = 42.4 bits (98), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 23/68 (33%), Positives = 38/68 (55%), Gaps = 1/68 (1%)
Query: 39  SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
           ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++     + + DY +   +
Sbjct: 7   TLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQXEDGRT-LSDYNIQKES 65
Query: 99  VLHLVLRL 106
             HLVLRL
Sbjct: 66  TXHLVLRL 73

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

Iteration: 1
 Score = 42.4 bits (98), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 23/72 (31%), Positives = 40/72 (55%), Gaps = 1/72 (1%)
Query: 35  LIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
           L   ++ G    + +  SD+I ++K +IQ   G    +Q+L+F G++L    + + DY +
Sbjct: 12  LFIKTLTGKTFTVEMEPSDTIENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 70
Query: 95  ADGNVLHLVLRL 106
              + LHLVLRL
Sbjct: 71  QKESTLHLVLRL 82

>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 = 42.0 bits (97), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 24/69 (34%), Positives = 40/69 (57%), Gaps = 2/69 (2%)
Query: 36  IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
           IF+ ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +
Sbjct: 3   IFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 61
Query: 95  ADGNVLHLV 103
              + LHLV
Sbjct: 62  QKESTLHLV 70

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	469
3b08_A	152	Polyubiquitin-C, ubiquitin; protein complex, signa	3e-25
3b08_A	152	Polyubiquitin-C, ubiquitin; protein complex, signa	1e-08
3u30_A	172	Ubiquitin, linear DI-ubiquitin; immune system; 2.4	4e-25
3u30_A	172	Ubiquitin, linear DI-ubiquitin; immune system; 2.4	2e-08
3rt3_B	159	Ubiquitin-like protein ISG15; ubiquitin-like domai	6e-25
3rt3_B	159	Ubiquitin-like protein ISG15; ubiquitin-like domai	1e-09
3rt3_B	159	Ubiquitin-like protein ISG15; ubiquitin-like domai	7e-05
2kan_A	94	Uncharacterized protein AR3433A; ubiquitin fold, a	1e-14
2kan_A	94	Uncharacterized protein AR3433A; ubiquitin fold, a	6e-06
2dzi_A	81	Ubiquitin-like protein 4A; GDX, structural genomic	9e-14
2dzi_A	81	Ubiquitin-like protein 4A; GDX, structural genomic	1e-09
3dbh_I	88	NEDD8; cell cycle, activating enzyme, apoptosis, m	1e-13
3dbh_I	88	NEDD8; cell cycle, activating enzyme, apoptosis, m	7e-08
1ndd_A	76	NEDD8, protein (ubiquitin-like protein NEDD8); pro	3e-13
1ndd_A	76	NEDD8, protein (ubiquitin-like protein NEDD8); pro	1e-09
2kdi_A	114	Ubiquitin, vacuolar protein sorting-associated pro	4e-13
2kdi_A	114	Ubiquitin, vacuolar protein sorting-associated pro	5e-07
3q3f_A	189	Ribonuclease/ubiquitin chimeric protein; domain SW	6e-13
3q3f_A	189	Ribonuclease/ubiquitin chimeric protein; domain SW	3e-08
3n3k_B	85	Ubiquitin; hydrolase, protease, thiol protease, DU	7e-13
3n3k_B	85	Ubiquitin; hydrolase, protease, thiol protease, DU	9e-08
1ttn_A	106	DC-UBP, dendritic cell-derived ubiquitin-like prot	1e-12
1ttn_A	106	DC-UBP, dendritic cell-derived ubiquitin-like prot	4e-09
3u5c_F	225	RP14, S2, YS8, 40S ribosomal protein S5; translati	1e-12
3u5c_F	225	RP14, S2, YS8, 40S ribosomal protein S5; translati	2e-08
3mtn_B	85	UBA80, ubcep1, ubiquitin variant UBV.21.4; ubiquit	1e-12
3mtn_B	85	UBA80, ubcep1, ubiquitin variant UBV.21.4; ubiquit	1e-07
4fbj_B	88	NEDD8; effector-HOST target complex, glutamine dea	1e-12
4fbj_B	88	NEDD8; effector-HOST target complex, glutamine dea	3e-09
3l0w_B	169	Monoubiquitinated proliferating cell nuclear antig	2e-12
3l0w_B	169	Monoubiquitinated proliferating cell nuclear antig	2e-06
1sif_A	88	Ubiquitin; hydrophobic mutants, folding, stability	2e-12
1sif_A	88	Ubiquitin; hydrophobic mutants, folding, stability	2e-07
2ojr_A	111	Ubiquitin; lanthide-binding TAG, terbium, TB, SAD	3e-12
2ojr_A	111	Ubiquitin; lanthide-binding TAG, terbium, TB, SAD	6e-07
3b1l_X	76	E3 ubiquitin-protein ligase parkin; proteasome, AL	6e-12
3b1l_X	76	E3 ubiquitin-protein ligase parkin; proteasome, AL	8e-09
3k9o_B	96	Ubiquitin, UBB+1; E2-25K, complex structure, ATP-b	8e-12
3k9o_B	96	Ubiquitin, UBB+1; E2-25K, complex structure, ATP-b	3e-07
1yx5_B	98	Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo s	1e-11
1yx5_B	98	Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo s	5e-07
2hj8_A	88	Interferon-induced 17 kDa protein; HR2873B, human	1e-11
2hj8_A	88	Interferon-induced 17 kDa protein; HR2873B, human	4e-08
2faz_A	78	Ubiquitin-like containing PHD and ring finger DOM	2e-11
2faz_A	78	Ubiquitin-like containing PHD and ring finger DOM	4e-07
1we7_A	115	SF3A1 protein; structural genomics, ubiquitin-like	2e-11
1we7_A	115	SF3A1 protein; structural genomics, ubiquitin-like	1e-05
2kk8_A	84	Uncharacterized protein AT4G05270; solution arabid	2e-11
2kk8_A	84	Uncharacterized protein AT4G05270; solution arabid	6e-06
3a9j_A	76	Ubiquitin; protein complex, cytoplasm, isopeptide	2e-11
3a9j_A	76	Ubiquitin; protein complex, cytoplasm, isopeptide	2e-08
3phx_B	79	Ubiquitin-like protein ISG15; OTU domain, DE-ubiqu	2e-11
3phx_B	79	Ubiquitin-like protein ISG15; OTU domain, DE-ubiqu	6e-08
2l7r_A	93	Ubiquitin-like protein FUBI; structural genomics,	3e-11
2l7r_A	93	Ubiquitin-like protein FUBI; structural genomics,	5e-07
1wh3_A	87	59 kDa 2'-5'-oligoadenylate synthetase like protei	4e-11
1wh3_A	87	59 kDa 2'-5'-oligoadenylate synthetase like protei	4e-08
1wy8_A	89	NP95-like ring finger protein, isoform A; ubiquiti	5e-11
1wy8_A	89	NP95-like ring finger protein, isoform A; ubiquiti	2e-05
3m63_B	101	Ubiquitin domain-containing protein DSK2; armadill	7e-11
3m63_B	101	Ubiquitin domain-containing protein DSK2; armadill	4e-08
2bwf_A	77	Ubiquitin-like protein DSK2; signaling protein, UB	8e-11
2bwf_A	77	Ubiquitin-like protein DSK2; signaling protein, UB	5e-08
2kd0_A	85	LRR repeats and ubiquitin-like domain-containing p	1e-10
1we6_A	111	Splicing factor, putative; structural genomics, ub	1e-10
4eew_A	88	Large proline-rich protein BAG6; ubiquitin-like fo	3e-10
4eew_A	88	Large proline-rich protein BAG6; ubiquitin-like fo	2e-08
4dwf_A	90	HLA-B-associated transcript 3; ubiquitin-like doma	3e-10
4dwf_A	90	HLA-B-associated transcript 3; ubiquitin-like doma	2e-08
1yqb_A	100	Ubiquilin 3; structural genomics consortium, ubiqu	7e-10
1yqb_A	100	Ubiquilin 3; structural genomics consortium, ubiqu	9e-07
1wx8_A	96	Riken cDNA 4931431F19; ubiquitin-like domain, ubiq	1e-09
1wx8_A	96	Riken cDNA 4931431F19; ubiquitin-like domain, ubiq	9e-08
2klc_A	101	Ubiquilin-1; ubiquitin-like, structural genomics,	2e-09
2klc_A	101	Ubiquilin-1; ubiquitin-like, structural genomics,	1e-07
1j8c_A	125	Ubiquitin-like protein hplic-2; ubiquitin-like dom	3e-09
1j8c_A	125	Ubiquitin-like protein hplic-2; ubiquitin-like dom	1e-06
1uel_A	95	HHR23B, UV excision repair protein RAD23 homolog B	3e-09
1uel_A	95	HHR23B, UV excision repair protein RAD23 homolog B	3e-08
2wyq_A	85	HHR23A, UV excision repair protein RAD23 homolog A	5e-09
2wyq_A	85	HHR23A, UV excision repair protein RAD23 homolog A	1e-07
1wx7_A	106	Ubiquilin 3; ubiquitin-like domain, structural gen	5e-09
1wx7_A	106	Ubiquilin 3; ubiquitin-like domain, structural gen	1e-07
3m62_B	106	UV excision repair protein RAD23; armadillo-like r	1e-08
3m62_B	106	UV excision repair protein RAD23; armadillo-like r	6e-07
2xzm_9	189	RPS31E; ribosome, translation; 3.93A {Tetrahymena	3e-08
2xzm_9	189	RPS31E; ribosome, translation; 3.93A {Tetrahymena	5e-08
3ai5_A	307	Yeast enhanced green fluorescent protein, ubiquit;	5e-08
3ai5_A	307	Yeast enhanced green fluorescent protein, ubiquit;	3e-04
3u5e_m	128	60S ribosomal protein L40; translation, ribosome,	7e-08
3u5e_m	128	60S ribosomal protein L40; translation, ribosome,	2e-06
1v5o_A	102	1700011N24RIK protein; hypothetical protein, ubiqu	1e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-04
1oqy_A	368	HHR23A, UV excision repair protein RAD23 homolog A	9e-07
1oqy_A	368	HHR23A, UV excision repair protein RAD23 homolog A	1e-04
1v86_A	95	DNA segment, CHR 7, wayne state university 128, ex	2e-06
1v2y_A	105	3300001G02RIK protein; hypothetical protein, ubiqu	3e-06
1wgd_A	93	Homocysteine-responsive endoplasmic reticulum- res	7e-05
2dzm_A	100	FAS-associated factor 1; ubiquitin-like domain, HF	7e-04
1wia_A	95	Hypothetical ubiquitin-like protein (riken cDNA 20	7e-04
3akj_A	325	CTKA; protein kinase, transferase; 2.00A {Helicoba	9e-04

>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 =  100 bits (250), Expect = 3e-25
 Identities = 52/151 (34%), Positives = 82/151 (54%), Gaps = 4/151 (2%)

Query: 34  ILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDY 92
           + IF+ ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY
Sbjct: 1   MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDY 59

Query: 93  GLADGNVLHLVLRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQ 152
            +   + LHLVLRL     I V T+ GK     VE    +  VK +I  K  E +    Q
Sbjct: 60  NIQKESTLHLVLRLRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQ 117

Query: 153 ELICDGEELEDQRLITDICKRNEAVIHLLVR 183
            LI  G++LED R ++D   + E+ +HL++R
Sbjct: 118 RLIFAGKQLEDGRTLSDYNIQKESTLHLVLR 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 = 53.1 bits (127), Expect = 1e-08
 Identities = 25/65 (38%), Positives = 38/65 (58%), Gaps = 1/65 (1%)

Query: 42  GSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLH 101
           G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +   + LH
Sbjct: 86  GKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNIQKESTLH 144

Query: 102 LVLRL 106
           LVLRL
Sbjct: 145 LVLRL 149

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

 Score =  100 bits (250), Expect = 4e-25
 Identities = 55/170 (32%), Positives = 86/170 (50%), Gaps = 9/170 (5%)

Query: 20  GNFTHRPEKLS-----NDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQ 73
           G+  H     S        + IF+ ++ G  I + V  SD+I +VK +IQ   G    +Q
Sbjct: 2   GSSHHHHHHSSGLVPRGSHMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQ 61

Query: 74  KLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDLQAITVTTVCGKVFEFHVERGRNVG 133
           +L+F G++L    + + DY +   + LHLVLRL     I V T+ GK     VE    + 
Sbjct: 62  RLIFAGKQLEDGRT-LSDYNIQKESTLHLVLRLRGGMQIFVKTLTGKTITLEVEPSDTIE 120

Query: 134 YVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVR 183
            VK +I  K  E +    Q LI  G++LED R ++D   + E+ +HL++R
Sbjct: 121 NVKAKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR 168

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

 Score = 53.1 bits (127), Expect = 2e-08
 Identities = 25/65 (38%), Positives = 38/65 (58%), Gaps = 1/65 (1%)

Query: 42  GSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLH 101
           G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +   + LH
Sbjct: 106 GKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNIQKESTLH 164

Query: 102 LVLRL 106
           LVLRL
Sbjct: 165 LVLRL 169

>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 = 99.6 bits (248), Expect = 6e-25
 Identities = 31/145 (21%), Positives = 64/145 (44%), Gaps = 4/145 (2%)

Query: 41  GGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSR-VRDYGLADGNV 99
            G+   + +  S S++ +K +I    G    +Q+L      +A  +   +   GL  G+ 
Sbjct: 11  AGNEFQVSLSSSMSVSELKAQITQKIGVHAFQQRLAVHPSGVALQDRVPLASQGLGPGST 70

Query: 100 LHLV-LRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDG 158
           + LV  +  +  +I V    G+   + V   + V ++KQQ++    E V      L  +G
Sbjct: 71  VLLVVDKSDEPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGL--EGVQDDLFWLTFEG 128

Query: 159 EELEDQRLITDICKRNEAVIHLLVR 183
           + LEDQ  + +   +  + + + +R
Sbjct: 129 KPLEDQLPLGEYGLKPLSTVFMNLR 153

>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 = 56.1 bits (135), Expect = 1e-09
 Identities = 20/90 (22%), Positives = 38/90 (42%), Gaps = 2/90 (2%)

Query: 18  FPGNFTHRPEKLSNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLV 76
            PG+        S++ + I + +  G      V  + ++A +K ++    G       L 
Sbjct: 66  GPGSTVLLVVDKSDEPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLT 125

Query: 77  FEGRELARSNSRVRDYGLADGNVLHLVLRL 106
           FEG+ L      + +YGL   + + + LRL
Sbjct: 126 FEGKPLEDQLP-LGEYGLKPLSTVFMNLRL 154

>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 = 42.2 bits (99), Expect = 7e-05
 Identities = 21/93 (22%), Positives = 38/93 (40%), Gaps = 4/93 (4%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELI--CDGEELEDQRLITD 169
           +TV  + G  F+  +    +V  +K QI +K    V    Q L     G  L+D+  +  
Sbjct: 5   LTVKMLAGNEFQVSLSSSMSVSELKAQITQK--IGVHAFQQRLAVHPSGVALQDRVPLAS 62

Query: 170 ICKRNEAVIHLLVRKSAKVRAKPVQKDFEVSIE 202
                 + + L+V KS +  +  V+ +   S  
Sbjct: 63  QGLGPGSTVLLVVDKSDEPLSILVRNNKGRSST 95

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

 Score = 68.6 bits (168), Expect = 1e-14
 Identities = 15/82 (18%), Positives = 38/82 (46%)

Query: 24  HRPEKLSNDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELA 83
           H     +   I + +        + V  +++++S+K +I       +K+ +L + G ELA
Sbjct: 6   HHHSHAAVRKIHVTVKFPSKQFTVEVDRTETVSSLKDKIHIVENTPIKRMQLYYSGIELA 65

Query: 84  RSNSRVRDYGLADGNVLHLVLR 105
                + +YG+ + + + + L+
Sbjct: 66  DDYRNLNEYGITEFSEIVVFLK 87

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

 Score = 43.5 bits (103), Expect = 6e-06
 Identities = 18/93 (19%), Positives = 32/93 (34%), Gaps = 4/93 (4%)

Query: 98  NVLHLVLRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICD 157
           +  H          +TV     K F   V+R   V  +K +I     E   +K  +L   
Sbjct: 4   HHHHHSHAAVRKIHVTVKF-PSKQFTVEVDRTETVSSLKDKIHIV--ENTPIKRMQLYYS 60

Query: 158 GEELEDQRLITDICK-RNEAVIHLLVRKSAKVR 189
           G EL D     +       + I + ++   + +
Sbjct: 61  GIELADDYRNLNEYGITEFSEIVVFLKSINRAK 93

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

 Score = 65.4 bits (160), Expect = 9e-14
 Identities = 16/78 (20%), Positives = 42/78 (53%), Gaps = 2/78 (2%)

Query: 30  SNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSR 88
            +  + + + ++ G    ++V E + ++++K  +       V++Q+L+F+G+ LA     
Sbjct: 4   GSSGMQLTVKALQGRECSLQVPEDELVSTLKQLVSEKLNVPVRQQRLLFKGKALADGKR- 62

Query: 89  VRDYGLADGNVLHLVLRL 106
           + DY +   + L+LV++ 
Sbjct: 63  LSDYSIGPNSKLNLVVKP 80

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

 Score = 53.8 bits (130), Expect = 1e-09
 Identities = 17/72 (23%), Positives = 34/72 (47%), Gaps = 2/72 (2%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
           +TV  + G+     V     V  +KQ +++K    V    Q L+  G+ L D + ++D  
Sbjct: 10  LTVKALQGRECSLQVPEDELVSTLKQLVSEKLNVPVR--QQRLLFKGKALADGKRLSDYS 67

Query: 172 KRNEAVIHLLVR 183
               + ++L+V+
Sbjct: 68  IGPNSKLNLVVK 79

>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 = 65.1 bits (159), Expect = 1e-13
 Identities = 25/85 (29%), Positives = 48/85 (56%), Gaps = 2/85 (2%)

Query: 23  THRPEKLSNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRE 81
           + R    S  S+LI + ++ G  I + +  +D +  +K R++   G   ++Q+L++ G++
Sbjct: 2   SRRASVGSGGSMLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQ 61

Query: 82  LARSNSRVRDYGLADGNVLHLVLRL 106
           +    +   DY +  G+VLHLVLRL
Sbjct: 62  MNDEKT-AADYKILGGSVLHLVLRL 85

>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 = 48.9 bits (117), Expect = 7e-08
 Identities = 21/72 (29%), Positives = 39/72 (54%), Gaps = 2/72 (2%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
           I V T+ GK  E  +E    V  +K+++ +K  E +  + Q LI  G+++ D++   D  
Sbjct: 15  IKVKTLTGKEIEIDIEPTDKVERIKERVEEK--EGIPPQQQRLIYSGKQMNDEKTAADYK 72

Query: 172 KRNEAVIHLLVR 183
               +V+HL++R
Sbjct: 73  ILGGSVLHLVLR 84

>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 = 63.8 bits (156), Expect = 3e-13
 Identities = 19/65 (29%), Positives = 37/65 (56%), Gaps = 1/65 (1%)

Query: 42  GSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLH 101
           G  I + +  +D +  +K R++   G   ++Q+L++ G+++    +   DY +  G+VLH
Sbjct: 10  GKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKT-AADYKILGGSVLH 68

Query: 102 LVLRL 106
           LVL L
Sbjct: 69  LVLAL 73

>1ndd_A NEDD8, protein (ubiquitin-like protein NEDD8); proteolysis, signaling protei; 1.60A {Homo sapiens} SCOP: d.15.1.1 PDB: 1r4m_I 1r4n_I* 1xt9_B 2ko3_A 3gzn_I* 2bkr_B 2nvu_I* 3dqv_A 1bt0_A Length = 76

 Score = 53.4 bits (129), Expect = 1e-09
 Identities = 20/72 (27%), Positives = 38/72 (52%), Gaps = 2/72 (2%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
           I V T+ GK  E  +E    V  +K+++ +K  E +  + Q LI  G+++ D++   D  
Sbjct: 3   IKVKTLTGKEIEIDIEPTDKVERIKERVEEK--EGIPPQQQRLIYSGKQMNDEKTAADYK 60

Query: 172 KRNEAVIHLLVR 183
               +V+HL++ 
Sbjct: 61  ILGGSVLHLVLA 72

>2kdi_A Ubiquitin, vacuolar protein sorting-associated protein 27 fusion protein; ubiquitin interacting motif, UIM, protein domain interface; NMR {Saccharomyces cerevisiae} Length = 114

 Score = 64.5 bits (157), Expect = 4e-13
 Identities = 33/107 (30%), Positives = 53/107 (49%), Gaps = 5/107 (4%)

Query: 31  NDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRV 89
           +    IF  ++ G  I + V  SD+I +VK +IQ   G    +Q+L++ G++L    + +
Sbjct: 7   HGEFQIFAKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIWAGKQLEDGRT-L 65

Query: 90  RDYGLADGNVLHLVLRL---SDLQAITVTTVCGKVFEFHVERGRNVG 133
            DY +   + LHLVLRL   S   A     +  K  E  ++  RN G
Sbjct: 66  SDYNIQRESTLHLVLRLRGGSMGGAADEEELIRKAIELSLKESRNSG 112

>2kdi_A Ubiquitin, vacuolar protein sorting-associated protein 27 fusion protein; ubiquitin interacting motif, UIM, protein domain interface; NMR {Saccharomyces cerevisiae} Length = 114

 Score = 47.5 bits (113), Expect = 5e-07
 Identities = 26/84 (30%), Positives = 40/84 (47%), Gaps = 3/84 (3%)

Query: 100 LHLVLRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGE 159
           +H      + Q I   T+ GK     VE    +  VK +I  K     D   Q LI  G+
Sbjct: 1   MHHHHHHGEFQ-IFAKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPD--QQRLIWAGK 57

Query: 160 ELEDQRLITDICKRNEAVIHLLVR 183
           +LED R ++D   + E+ +HL++R
Sbjct: 58  QLEDGRTLSDYNIQRESTLHLVLR 81

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

 Score = 66.5 bits (162), Expect = 6e-13
 Identities = 32/142 (22%), Positives = 57/142 (40%), Gaps = 8/142 (5%)

Query: 42  GSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLH 101
             V P + +  D  ++ + ++   +G   ++  + +             D  L   + L 
Sbjct: 44  ADVAPGKSIGGDIFSNREGKLPGKSGRTWREADINYTSGFRN------SDRILYSSDWLI 97

Query: 102 LVLRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEEL 161
                     I V T+ GK     VE    +  VK +I  K     D   Q LI  G++L
Sbjct: 98  YKTTDHYGGQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQ--QRLIFAGKQL 155

Query: 162 EDQRLITDICKRNEAVIHLLVR 183
           ED R ++D   + E+ +HL++R
Sbjct: 156 EDGRTLSDYNIQKESTLHLVLR 177

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

 Score = 52.7 bits (126), Expect = 3e-08
 Identities = 25/89 (28%), Positives = 44/89 (49%), Gaps = 1/89 (1%)

Query: 18  FPGNFTHRPEKLSNDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVF 77
           +  ++            +   ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F
Sbjct: 91  YSSDWLIYKTTDHYGGQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIF 150

Query: 78  EGRELARSNSRVRDYGLADGNVLHLVLRL 106
            G++L    + + DY +   + LHLVLRL
Sbjct: 151 AGKQLEDGRT-LSDYNIQKESTLHLVLRL 178

>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 = 7e-13
 Identities = 23/75 (30%), Positives = 44/75 (58%), Gaps = 2/75 (2%)

Query: 33  SILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRD 91
            + I + ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + D
Sbjct: 3   HMRIVVKTLMGRTIILEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSD 61

Query: 92  YGLADGNVLHLVLRL 106
           Y + + + L+L+L+L
Sbjct: 62  YNIHNHSALYLLLKL 76

>3n3k_B Ubiquitin; hydrolase, protease, thiol protease, DUB, zinc ribbon, inhibitor, ubiqu acetylation, cytoplasm, isopeptide bond, nucleus; 2.60A {Homo sapiens} Length = 85

 Score = 48.5 bits (116), Expect = 9e-08
 Identities = 23/72 (31%), Positives = 36/72 (50%), Gaps = 2/72 (2%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
           I V T+ G+     VE    +  VK +I  K     D   Q LI  G++LED R ++D  
Sbjct: 6   IVVKTLMGRTIILEVEPSDTIENVKAKIQDKEGIPPD--QQRLIFAGKQLEDGRTLSDYN 63

Query: 172 KRNEAVIHLLVR 183
             N + ++LL++
Sbjct: 64  IHNHSALYLLLK 75

>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 = 63.2 bits (154), Expect = 1e-12
 Identities = 17/97 (17%), Positives = 37/97 (38%), Gaps = 2/97 (2%)

Query: 11  VLEESLNFPGNFTHRPEKLSNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFF 69
           ++EE  +        P   S     + L    G  + + V  +D++  +K R+ +  G  
Sbjct: 1   MIEEKSDIETLDIPEPPPNSGYECQLRLRLSTGKDLKLVVRSTDTVFHMKRRLHAAEGVE 60

Query: 70  VKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRL 106
              Q+  F GR L     +  +  +    V+ +++  
Sbjct: 61  PGSQRWFFSGRPLTDKM-KFEELKIPKDYVVQVIVSQ 96

>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 = 53.2 bits (128), Expect = 4e-09
 Identities = 13/73 (17%), Positives = 31/73 (42%), Gaps = 2/73 (2%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
           + +    GK  +  V     V ++K+++     E V+  +Q     G  L D+    ++ 
Sbjct: 26  LRLRLSTGKDLKLVVRSTDTVFHMKRRLHAA--EGVEPGSQRWFFSGRPLTDKMKFEELK 83

Query: 172 KRNEAVIHLLVRK 184
              + V+ ++V +
Sbjct: 84  IPKDYVVQVIVSQ 96

>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 = 1e-12
 Identities = 5/74 (6%), Positives = 10/74 (13%), Gaps = 2/74 (2%)

Query: 34  ILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDY 92
           +      V        V E   +       +       + +       E           
Sbjct: 1   MSDTEAPVEVQEDFEVVEEFTPVVLATPIPEEVQQAQTEIKLFNKWSFEEVEVKD-ASLV 59

Query: 93  GLADGNVLHLVLRL 106
                     V   
Sbjct: 60  DYVQVRQPIFVAHT 73

>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 = 52.5 bits (126), Expect = 2e-08
 Identities = 6/72 (8%), Positives = 16/72 (22%), Gaps = 2/72 (2%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
            T   V  +     VE    V        +  +   +   +       E  + +  + + 
Sbjct: 3   DTEAPVEVQEDFEVVEEFTPVVLATPIPEEVQQAQTE--IKLFNKWSFEEVEVKDASLVD 60

Query: 172 KRNEAVIHLLVR 183
                    +  
Sbjct: 61  YVQVRQPIFVAH 72

>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 = 62.8 bits (153), Expect = 1e-12
 Identities = 25/75 (33%), Positives = 43/75 (57%), Gaps = 2/75 (2%)

Query: 33  SILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRD 91
            + IF+ ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + D
Sbjct: 3   HMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSD 61

Query: 92  YGLADGNVLHLVLRL 106
           Y +   + L L+LRL
Sbjct: 62  YNIQKWSTLFLLLRL 76

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

 Score = 48.5 bits (116), Expect = 1e-07
 Identities = 24/72 (33%), Positives = 35/72 (48%), Gaps = 2/72 (2%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
           I V T+ GK     VE    +  VK +I  K     D   Q LI  G++LED R ++D  
Sbjct: 6   IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPD--QQRLIFAGKQLEDGRTLSDYN 63

Query: 172 KRNEAVIHLLVR 183
            +  + + LL+R
Sbjct: 64  IQKWSTLFLLLR 75

>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 = 62.4 bits (152), Expect = 1e-12
 Identities = 19/65 (29%), Positives = 37/65 (56%), Gaps = 1/65 (1%)

Query: 42  GSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLH 101
           G  I + +  +D +  +K R++   G   ++Q+L++ G+++    +   DY +  G+VLH
Sbjct: 10  GKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKT-AADYKILGGSVLH 68

Query: 102 LVLRL 106
           LVL L
Sbjct: 69  LVLAL 73

>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 = 52.7 bits (127), Expect = 3e-09
 Identities = 20/72 (27%), Positives = 38/72 (52%), Gaps = 2/72 (2%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
           I V T+ GK  E  +E    V  +K+++ +K  E +  + Q LI  G+++ D++   D  
Sbjct: 3   IKVKTLTGKEIEIDIEPTDKVERIKERVEEK--EGIPPQQQRLIYSGKQMNDEKTAADYK 60

Query: 172 KRNEAVIHLLVR 183
               +V+HL++ 
Sbjct: 61  ILGGSVLHLVLA 72

>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 = 64.2 bits (156), Expect = 2e-12
 Identities = 37/152 (24%), Positives = 63/152 (41%), Gaps = 17/152 (11%)

Query: 42  GSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSR-VRDYGLADGNVL 100
           G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L   + R + DY +   + L
Sbjct: 10  GKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQL--EDGRTLSDYNIQKESTL 67

Query: 101 HLVLRLSDLQAITVTTVCGKV---FEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICD 157
           HLVLRL      T+  V           ++   ++ + +  I  +  + VD     L   
Sbjct: 68  HLVLRLRGGGGETIKFVADGDIGSGSVIIKPFVDMEHPETSIKLEMDQPVD-----LTFG 122

Query: 158 GEELEDQRLITDICKR------NEAVIHLLVR 183
            + L D    + +  R      +EA       
Sbjct: 123 AKYLLDIIKGSSLSDRVGIRLSSEAPALFQFD 154

>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 = 46.9 bits (111), Expect = 2e-06
 Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 2/72 (2%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
           I V T+ GK     VE    +  VK +I  K  E +    Q LI  G++LED R ++D  
Sbjct: 3   IFVKTLTGKTITLEVESSDTIDNVKSKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSDYN 60

Query: 172 KRNEAVIHLLVR 183
            + E+ +HL++R
Sbjct: 61  IQKESTLHLVLR 72

>1sif_A Ubiquitin; hydrophobic mutants, folding, stability, structural protein; 2.18A {Homo sapiens} SCOP: d.15.1.1 Length = 88

 Score = 61.6 bits (150), Expect = 2e-12
 Identities = 23/76 (30%), Positives = 43/76 (56%), Gaps = 2/76 (2%)

Query: 32  DSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVR 90
             + +F+ ++ G    + +  SD+I ++K +IQ   G    +Q+L+F G++L    + + 
Sbjct: 8   QGLQLFIKTLTGKTFTVEMEPSDTIENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LS 66

Query: 91  DYGLADGNVLHLVLRL 106
           DY +   + LHLVLRL
Sbjct: 67  DYNIQKESTLHLVLRL 82

>1sif_A Ubiquitin; hydrophobic mutants, folding, stability, structural protein; 2.18A {Homo sapiens} SCOP: d.15.1.1 Length = 88

 Score = 48.1 bits (115), Expect = 2e-07
 Identities = 23/83 (27%), Positives = 39/83 (46%), Gaps = 2/83 (2%)

Query: 101 HLVLRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEE 160
           H          + + T+ GK F   +E    +  +K +I  K     D   Q LI  G++
Sbjct: 1   HHHHHHLQGLQLFIKTLTGKTFTVEMEPSDTIENLKAKIQDKEGIPPD--QQRLIFAGKQ 58

Query: 161 LEDQRLITDICKRNEAVIHLLVR 183
           LED R ++D   + E+ +HL++R
Sbjct: 59  LEDGRTLSDYNIQKESTLHLVLR 81

>2ojr_A Ubiquitin; lanthide-binding TAG, terbium, TB, SAD phasing, protein binding; 2.60A {Homo sapiens} Length = 111

 Score = 62.2 bits (151), Expect = 3e-12
 Identities = 30/95 (31%), Positives = 49/95 (51%), Gaps = 2/95 (2%)

Query: 13  EESLNFPGNFTHRPEKLSNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVK 71
            + L    N     E     ++ IF+ ++ G  I + V  SD+I +VK +IQ   G    
Sbjct: 15  GDELYIDTNNDGWIEGDELLAMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPD 74

Query: 72  KQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRL 106
           +Q+L+F G++L    + + DY +   + LHLVLRL
Sbjct: 75  QQRLIFAGKQLEDGRT-LSDYNIQKESTLHLVLRL 108

>2ojr_A Ubiquitin; lanthide-binding TAG, terbium, TB, SAD phasing, protein binding; 2.60A {Homo sapiens} Length = 111

 Score = 47.2 bits (112), Expect = 6e-07
 Identities = 24/72 (33%), Positives = 38/72 (52%), Gaps = 2/72 (2%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
           I V T+ GK     VE    +  VK +I    +E +    Q LI  G++LED R ++D  
Sbjct: 38  IFVKTLTGKTITLEVEPSDTIENVKAKIQD--KEGIPPDQQRLIFAGKQLEDGRTLSDYN 95

Query: 172 KRNEAVIHLLVR 183
            + E+ +HL++R
Sbjct: 96  IQKESTLHLVLR 107

>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 = 60.4 bits (147), Expect = 6e-12
 Identities = 15/65 (23%), Positives = 30/65 (46%), Gaps = 1/65 (1%)

Query: 42  GSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLH 101
               P+ V    SI  +K  +    G    + +++F G+EL    + V++  L   +++H
Sbjct: 10  SYGFPVEVDSDTSILQLKEVVAKQQGVPADQLRVIFAGKELPNHLT-VQNCDLEQQSIVH 68

Query: 102 LVLRL 106
           +V R 
Sbjct: 69  IVQRP 73

>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 = 51.1 bits (123), Expect = 8e-09
 Identities = 13/72 (18%), Positives = 33/72 (45%), Gaps = 2/72 (2%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
           + V       F   V+   ++  +K+ +AK+  + V      +I  G+EL +   + +  
Sbjct: 3   VFVRFNSSYGFPVEVDSDTSILQLKEVVAKQ--QGVPADQLRVIFAGKELPNHLTVQNCD 60

Query: 172 KRNEAVIHLLVR 183
              ++++H++ R
Sbjct: 61  LEQQSIVHIVQR 72

>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 = 60.5 bits (147), Expect = 8e-12
 Identities = 27/74 (36%), Positives = 44/74 (59%), Gaps = 2/74 (2%)

Query: 34  ILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDY 92
           + IF+ ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY
Sbjct: 2   MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDY 60

Query: 93  GLADGNVLHLVLRL 106
            +   + LHLVLRL
Sbjct: 61  NIQKESTLHLVLRL 74

>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 = 47.5 bits (113), Expect = 3e-07
 Identities = 29/87 (33%), Positives = 44/87 (50%), Gaps = 4/87 (4%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
           I V T+ GK     VE    +  VK +I  K     D   Q LI  G++LED R ++D  
Sbjct: 4   IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPD--QQRLIFAGKQLEDGRTLSDYN 61

Query: 172 KRNEAVIHLLVRK--SAKVRAKPVQKD 196
            + E+ +HL++R    A +R  P ++D
Sbjct: 62  IQKESTLHLVLRLRGYADLREDPDRQD 88

>1yx5_B Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo sapiens} SCOP: d.15.1.1 PDB: 1yx6_B Length = 98

 Score = 60.2 bits (146), Expect = 1e-11
 Identities = 27/74 (36%), Positives = 44/74 (59%), Gaps = 2/74 (2%)

Query: 34  ILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDY 92
           + IF+ ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY
Sbjct: 1   MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDY 59

Query: 93  GLADGNVLHLVLRL 106
            +   + LHLVLRL
Sbjct: 60  NIQKESTLHLVLRL 73

>1yx5_B Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo sapiens} SCOP: d.15.1.1 PDB: 1yx6_B Length = 98

 Score = 46.7 bits (111), Expect = 5e-07
 Identities = 24/72 (33%), Positives = 38/72 (52%), Gaps = 2/72 (2%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
           I V T+ GK     VE    +  VK +I    +E +    Q LI  G++LED R ++D  
Sbjct: 3   IFVKTLTGKTITLEVEPSDTIENVKAKIQD--KEGIPPDQQRLIFAGKQLEDGRTLSDYN 60

Query: 172 KRNEAVIHLLVR 183
            + E+ +HL++R
Sbjct: 61  IQKESTLHLVLR 72

>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 = 59.7 bits (145), Expect = 1e-11
 Identities = 17/77 (22%), Positives = 34/77 (44%), Gaps = 2/77 (2%)

Query: 31  NDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRV 89
           ++ + I + +  G      V  + ++A +K ++    G       L FEG+ L      +
Sbjct: 2   DEPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLP-L 60

Query: 90  RDYGLADGNVLHLVLRL 106
            +YGL   + + + LRL
Sbjct: 61  GEYGLKPLSTVFMNLRL 77

>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 = 49.7 bits (119), Expect = 4e-08
 Identities = 17/72 (23%), Positives = 33/72 (45%), Gaps = 2/72 (2%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
           I V    G+   + V   + V ++KQQ++    E V      L  +G+ LEDQ  + +  
Sbjct: 7   ILVRNNKGRSSTYEVRLTQTVAHLKQQVSGL--EGVQDDLFWLTFEGKPLEDQLPLGEYG 64

Query: 172 KRNEAVIHLLVR 183
            +  + + + +R
Sbjct: 65  LKPLSTVFMNLR 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 = 58.9 bits (143), Expect = 2e-11
 Identities = 10/64 (15%), Positives = 26/64 (40%), Gaps = 1/64 (1%)

Query: 44  VIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLV 103
                +     +  ++ +IQ         Q+L + G+++      + DY +   + + L+
Sbjct: 16  HTVDSLSRLTKVEELRRKIQELFHVEPGLQRLFYRGKQM-EDGHTLFDYEVRLNDTIQLL 74

Query: 104 LRLS 107
           +R S
Sbjct: 75  VRQS 78

>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 = 46.6 bits (111), Expect = 4e-07
 Identities = 20/76 (26%), Positives = 33/76 (43%), Gaps = 4/76 (5%)

Query: 112 ITVTTVCGK--VFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITD 169
           I V T+ G+       + R   V  ++++I +          Q L   G+++ED   + D
Sbjct: 5   IQVRTMDGRQTHTVDSLSRLTKVEELRRKIQELFHVEPG--LQRLFYRGKQMEDGHTLFD 62

Query: 170 ICKRNEAVIHLLVRKS 185
              R    I LLVR+S
Sbjct: 63  YEVRLNDTIQLLVRQS 78

>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 = 60.2 bits (146), Expect = 2e-11
 Identities = 21/65 (32%), Positives = 35/65 (53%), Gaps = 1/65 (1%)

Query: 42  GSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLH 101
           G  +   +  +D ++ +K++I    G    KQKL +EG  +  SNS +  Y +A G V+H
Sbjct: 45  GQGLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDSNS-LAYYNMASGAVIH 103

Query: 102 LVLRL 106
           L L+ 
Sbjct: 104 LALKE 108

>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 = 43.6 bits (103), Expect = 1e-05
 Identities = 16/84 (19%), Positives = 38/84 (45%), Gaps = 2/84 (2%)

Query: 100 LHLVLRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGE 159
           + + +++ ++Q  T   + G+   F +     V  +K +I +     +    Q+L  +G 
Sbjct: 26  VSIKVQVPNMQDKTEWKLNGQGLVFTLPLTDQVSVIKVKIHEA--TGMPAGKQKLQYEGI 83

Query: 160 ELEDQRLITDICKRNEAVIHLLVR 183
            ++D   +      + AVIHL ++
Sbjct: 84  FIKDSNSLAYYNMASGAVIHLALK 107

>2kk8_A Uncharacterized protein AT4G05270; solution arabidopsis thaliana, uncharacterized putative protein, NESG, structural genomics; NMR {Arabidopsis thaliana} Length = 84

 Score = 58.8 bits (143), Expect = 2e-11
 Identities = 15/80 (18%), Positives = 33/80 (41%), Gaps = 1/80 (1%)

Query: 26  PEKLSNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELAR 84
                +  +   + ++ GS   + V   D++  VK +I+      V KQ L+ +G  + R
Sbjct: 3   HHHHHHSHMKFLVENLNGSSFELEVDYRDTLLVVKQKIERSQHIPVSKQTLIVDGIVILR 62

Query: 85  SNSRVRDYGLADGNVLHLVL 104
            +  V    +   + + L +
Sbjct: 63  EDLTVEQCQIVPTSDIQLEV 82

>2kk8_A Uncharacterized protein AT4G05270; solution arabidopsis thaliana, uncharacterized putative protein, NESG, structural genomics; NMR {Arabidopsis thaliana} Length = 84

 Score = 43.4 bits (103), Expect = 6e-06
 Identities = 18/72 (25%), Positives = 29/72 (40%), Gaps = 3/72 (4%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDG-EELEDQRLITDI 170
             V  + G  FE  V+    +  VKQ+I +   + + +  Q LI DG   L +   +   
Sbjct: 13  FLVENLNGSSFELEVDYRDTLLVVKQKIERS--QHIPVSKQTLIVDGIVILREDLTVEQC 70

Query: 171 CKRNEAVIHLLV 182
                + I L V
Sbjct: 71  QIVPTSDIQLEV 82

>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 = 58.5 bits (142), Expect = 2e-11
 Identities = 27/74 (36%), Positives = 44/74 (59%), Gaps = 2/74 (2%)

Query: 34  ILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDY 92
           + IF+ ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY
Sbjct: 1   MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDY 59

Query: 93  GLADGNVLHLVLRL 106
            +   + LHLVLRL
Sbjct: 60  NIQRESTLHLVLRL 73

>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 = 50.0 bits (120), Expect = 2e-08
 Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 2/72 (2%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
           I V T+ GK     VE    +  VK +I  K  E +    Q LI  G++LED R ++D  
Sbjct: 3   IFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSDYN 60

Query: 172 KRNEAVIHLLVR 183
            + E+ +HL++R
Sbjct: 61  IQRESTLHLVLR 72

>3phx_B Ubiquitin-like protein ISG15; OTU domain, DE-ubiquitinase, DE-isgylase, hydrolase-protein complex; 1.60A {Homo sapiens} Length = 79

 Score = 58.5 bits (142), Expect = 2e-11
 Identities = 17/77 (22%), Positives = 34/77 (44%), Gaps = 2/77 (2%)

Query: 31  NDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRV 89
           ++ + I + +  G      V  + ++A +K ++    G       L FEG+ L      +
Sbjct: 2   DEPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQL-PL 60

Query: 90  RDYGLADGNVLHLVLRL 106
            +YGL   + + + LRL
Sbjct: 61  GEYGLKPLSTVFMNLRL 77

>3phx_B Ubiquitin-like protein ISG15; OTU domain, DE-ubiquitinase, DE-isgylase, hydrolase-protein complex; 1.60A {Homo sapiens} Length = 79

 Score = 48.9 bits (117), Expect = 6e-08
 Identities = 16/72 (22%), Positives = 32/72 (44%), Gaps = 2/72 (2%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
           I V    G+   + V   + V ++KQQ++       D     L  +G+ LEDQ  + +  
Sbjct: 7   ILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDD--LFWLTFEGKPLEDQLPLGEYG 64

Query: 172 KRNEAVIHLLVR 183
            +  + + + +R
Sbjct: 65  LKPLSTVFMNLR 76

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

 Score = 58.6 bits (142), Expect = 3e-11
 Identities = 14/84 (16%), Positives = 32/84 (38%), Gaps = 2/84 (2%)

Query: 23  THRPEKLSNDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGREL 82
            H    +   S+ +F+     +    V   +++A +K  + S  G   + Q ++  G  L
Sbjct: 9   HHSSGLVPRGSMQLFVR-AQELHTFEVTGQETVAQIKAHVASLEGIAPEDQVVLLAGAPL 67

Query: 83  ARSNSRVRDYGLADGNVLHLVLRL 106
               + +   G+     L +  R+
Sbjct: 68  -EDEATLGQCGVEALTTLEVAGRM 90

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

 Score = 46.7 bits (111), Expect = 5e-07
 Identities = 12/72 (16%), Positives = 25/72 (34%), Gaps = 4/72 (5%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
           + V     ++  F V     V  +K  +A       +  +Q ++  G  LED+  +    
Sbjct: 22  LFVRA--QELHTFEVTGQETVAQIKAHVASLEGIAPE--DQVVLLAGAPLEDEATLGQCG 77

Query: 172 KRNEAVIHLLVR 183
                 + +  R
Sbjct: 78  VEALTTLEVAGR 89

>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 = 58.2 bits (141), Expect = 4e-11
 Identities = 18/78 (23%), Positives = 35/78 (44%), Gaps = 2/78 (2%)

Query: 30  SNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSR 88
            +  I +F+ +  G      +  +  I  +K +I+   G   K+Q+L F+G+ L      
Sbjct: 4   GSSGIQVFVKNPDGGSYAYAINPNSFILGLKQQIEDQQGLPKKQQQLEFQGQVLQDWLG- 62

Query: 89  VRDYGLADGNVLHLVLRL 106
           +  YG+ D + L L  + 
Sbjct: 63  LGIYGIQDSDTLILSKKK 80

>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 = 49.7 bits (119), Expect = 4e-08
 Identities = 12/72 (16%), Positives = 27/72 (37%), Gaps = 2/72 (2%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
           + V    G  + + +     +  +KQQI  +         Q+L   G+ L+D   +    
Sbjct: 10  VFVKNPDGGSYAYAINPNSFILGLKQQIEDQQGLPKK--QQQLEFQGQVLQDWLGLGIYG 67

Query: 172 KRNEAVIHLLVR 183
            ++   + L  +
Sbjct: 68  IQDSDTLILSKK 79

>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 = 57.8 bits (140), Expect = 5e-11
 Identities = 12/80 (15%), Positives = 34/80 (42%), Gaps = 4/80 (5%)

Query: 30  SNDSILIF---LSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSN 86
            +  + I    +    +     V    +I  ++ R+ +      + Q+L + G++L    
Sbjct: 4   GSSGMWIQVRTIDGSKTCTIEDVSRKATIEELRERVWALFDVRPECQRLFYRGKQLENGY 63

Query: 87  SRVRDYGLADGNVLHLVLRL 106
           + + DY +   +++ L++R 
Sbjct: 64  T-LFDYDVGLNDIIQLLVRP 82

>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 = 42.0 bits (99), Expect = 2e-05
 Identities = 18/74 (24%), Positives = 31/74 (41%), Gaps = 4/74 (5%)

Query: 112 ITVTTVCGK--VFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITD 169
           I V T+ G        V R   +  +++++       V  + Q L   G++LE+   + D
Sbjct: 10  IQVRTIDGSKTCTIEDVSRKATIEELRERVWAL--FDVRPECQRLFYRGKQLENGYTLFD 67

Query: 170 ICKRNEAVIHLLVR 183
                  +I LLVR
Sbjct: 68  YDVGLNDIIQLLVR 81

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

 Score = 58.1 bits (141), Expect = 7e-11
 Identities = 19/73 (26%), Positives = 33/73 (45%), Gaps = 3/73 (4%)

Query: 34  ILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSR-VRDY 92
           + I +  G     + V    ++   K  I   NG  V  Q+L++ G+ L   + + V  Y
Sbjct: 29  LNIHIKSGQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKIL--KDDQTVESY 86

Query: 93  GLADGNVLHLVLR 105
            + DG+ +HLV  
Sbjct: 87  HIQDGHSVHLVKS 99

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

 Score = 50.0 bits (120), Expect = 4e-08
 Identities = 20/95 (21%), Positives = 40/95 (42%), Gaps = 7/95 (7%)

Query: 91  DYGLADGNVLHLVLRLSDLQAITVTTVCGKV-FEFHVERGRNVGYVKQQIAKKGREFVDL 149
           DY +     L+    +S    + +    G+  +E +V     V   K+ I K     + +
Sbjct: 12  DYDIPTTENLYFQGAMS----LNIHIKSGQDKWEVNVAPESTVLQFKEAINKA--NGIPV 65

Query: 150 KNQELICDGEELEDQRLITDICKRNEAVIHLLVRK 184
            NQ LI  G+ L+D + +     ++   +HL+  +
Sbjct: 66  ANQRLIYSGKILKDDQTVESYHIQDGHSVHLVKSQ 100

>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 = 56.8 bits (138), Expect = 8e-11
 Identities = 20/73 (27%), Positives = 34/73 (46%), Gaps = 1/73 (1%)

Query: 33  SILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDY 92
           S+ I +  G     + V    ++   K  I   NG  V  Q+L++ G+ L + +  V  Y
Sbjct: 4   SLNIHIKSGQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKIL-KDDQTVESY 62

Query: 93  GLADGNVLHLVLR 105
            + DG+ +HLV  
Sbjct: 63  HIQDGHSVHLVKS 75

>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 = 49.1 bits (118), Expect = 5e-08
 Identities = 16/74 (21%), Positives = 33/74 (44%), Gaps = 3/74 (4%)

Query: 112 ITVTTVCGK-VFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDI 170
           + +    G+  +E +V     V   K+ I K     + + NQ LI  G+ L+D + +   
Sbjct: 5   LNIHIKSGQDKWEVNVAPESTVLQFKEAINKA--NGIPVANQRLIYSGKILKDDQTVESY 62

Query: 171 CKRNEAVIHLLVRK 184
             ++   +HL+  +
Sbjct: 63  HIQDGHSVHLVKSQ 76

>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 = 56.9 bits (138), Expect = 1e-10
 Identities = 20/80 (25%), Positives = 38/80 (47%), Gaps = 1/80 (1%)

Query: 24  HRPEKLSNDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELA 83
           H     S+ +I + +  GG  IP+ V    ++  +K ++Q       + QKL+F+G+ L 
Sbjct: 3   HHHHHHSHSTIKLTVKFGGKSIPLSVSPDCTVKDLKSQLQPITNVLPRGQKLIFKGKVLV 62

Query: 84  RSNSRVRDYGLADGNVLHLV 103
              S ++   +  G  L L+
Sbjct: 63  -ETSTLKQSDVGSGAKLMLM 81

>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 = 57.5 bits (139), Expect = 1e-10
 Identities = 18/75 (24%), Positives = 31/75 (41%), Gaps = 2/75 (2%)

Query: 33  SILIFLSVGGSVIPMRVM-ESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRD 91
            +       G  + + V   S+++ S+K +I         KQKL  +   L  + S +  
Sbjct: 31  RVSKPNENDGQFMEITVQSLSENVGSLKEKIAGEIQIPANKQKLSGKAGFLKDNMS-LAH 89

Query: 92  YGLADGNVLHLVLRL 106
           Y +  G +L L LR 
Sbjct: 90  YNVGAGEILTLSLRE 104

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

 Score = 55.8 bits (135), Expect = 3e-10
 Identities = 18/81 (22%), Positives = 36/81 (44%), Gaps = 3/81 (3%)

Query: 26  PEKLSNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELAR 84
                 DS+ + + ++        V    ++   K  I +      +KQ+L+++GR L  
Sbjct: 10  TAVEEPDSLEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQD 69

Query: 85  SNSRVRDYGLADGNVLHLVLR 105
               +++Y +  G V+HLV R
Sbjct: 70  DKK-LQEYNV-GGKVIHLVER 88

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

 Score = 50.8 bits (122), Expect = 2e-08
 Identities = 20/72 (27%), Positives = 31/72 (43%), Gaps = 3/72 (4%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
           + V T+  +   F V    NV   K+ IA      +  + Q LI  G  L+D + + +  
Sbjct: 20  VLVKTLDSQTRTFIVGAQMNVKEFKEHIAAS--VSIPSEKQRLIYQGRVLQDDKKLQE-Y 76

Query: 172 KRNEAVIHLLVR 183
                VIHL+ R
Sbjct: 77  NVGGKVIHLVER 88

>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 = 55.7 bits (135), Expect = 3e-10
 Identities = 18/78 (23%), Positives = 36/78 (46%), Gaps = 3/78 (3%)

Query: 30  SNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSR 88
             DS+ + + ++        V    ++   K  I +      +KQ+L+++GR L      
Sbjct: 2   EPDSLEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKK- 60

Query: 89  VRDYGLADGNVLHLVLRL 106
           +++Y +  G V+HLV R 
Sbjct: 61  LQEYNV-GGKVIHLVERA 77

>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 = 50.7 bits (122), Expect = 2e-08
 Identities = 20/73 (27%), Positives = 31/73 (42%), Gaps = 3/73 (4%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
           + V T+  +   F V    NV   K+ IA      +  + Q LI  G  L+D + + +  
Sbjct: 8   VLVKTLDSQTRTFIVGAQMNVKEFKEHIAAS--VSIPSEKQRLIYQGRVLQDDKKLQE-Y 64

Query: 172 KRNEAVIHLLVRK 184
                VIHL+ R 
Sbjct: 65  NVGGKVIHLVERA 77

>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 = 55.0 bits (133), Expect = 7e-10
 Identities = 17/83 (20%), Positives = 34/83 (40%), Gaps = 1/83 (1%)

Query: 23  THRPEKLSNDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGREL 82
           +    + S   I + +          V ++ +I  +K  I         +  L+F G+ L
Sbjct: 12  SGLVPRGSPHLIKVTVKTPKDKEDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKIL 71

Query: 83  ARSNSRVRDYGLADGNVLHLVLR 105
              +S +   G+ DG  +HLV++
Sbjct: 72  KDPDS-LAQCGVRDGLTVHLVIK 93

>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 = 9e-07
 Identities = 16/76 (21%), Positives = 35/76 (46%), Gaps = 3/76 (3%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
           +TV T   K  +F V     +  +K++I+++           LI  G+ L+D   +    
Sbjct: 25  VTVKTPKDK-EDFSVTDTCTIQQLKEEISQR--FKAHPDQLVLIFAGKILKDPDSLAQCG 81

Query: 172 KRNEAVIHLLVRKSAK 187
            R+   +HL++++  +
Sbjct: 82  VRDGLTVHLVIKRQHR 97

>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 = 53.9 bits (130), Expect = 1e-09
 Identities = 17/80 (21%), Positives = 35/80 (43%), Gaps = 1/80 (1%)

Query: 27  EKLSNDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSN 86
            + S+  I + +          + E+ ++   K +I  Y      +  L+F G+ L R  
Sbjct: 11  REPSSRIIRVSVKTPQDCHEFFLAENSNVRRFKKQISKYLHCNADRLVLIFTGKIL-RDQ 69

Query: 87  SRVRDYGLADGNVLHLVLRL 106
             +   G+ DG+ +H+V+R 
Sbjct: 70  DILSQRGILDGSTVHVVVRS 89

>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 = 48.9 bits (117), Expect = 9e-08
 Identities = 19/79 (24%), Positives = 36/79 (45%), Gaps = 3/79 (3%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
           ++V T      EF +    NV   K+QI+K      +     LI  G+ L DQ +++   
Sbjct: 20  VSVKTPQDC-HEFFLAENSNVRRFKKQISKY--LHCNADRLVLIFTGKILRDQDILSQRG 76

Query: 172 KRNEAVIHLLVRKSAKVRA 190
             + + +H++VR  +   +
Sbjct: 77  ILDGSTVHVVVRSHSGPSS 95

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

 Score = 53.9 bits (130), Expect = 2e-09
 Identities = 15/83 (18%), Positives = 33/83 (39%), Gaps = 1/83 (1%)

Query: 23  THRPEKLSNDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGREL 82
            +   +     + + +          V E+ S+   K  I         +  L+F G+ L
Sbjct: 15  ENLYFQGHPKIMKVTVKTPKEKEEFAVPENSSVQQFKEEISKRFKSHTDQLVLIFAGKIL 74

Query: 83  ARSNSRVRDYGLADGNVLHLVLR 105
              ++ +  +G+ DG  +HLV++
Sbjct: 75  KDQDT-LSQHGIHDGLTVHLVIK 96

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

 Score = 48.9 bits (117), Expect = 1e-07
 Identities = 19/76 (25%), Positives = 35/76 (46%), Gaps = 3/76 (3%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
           +TV T   K  EF V    +V   K++I+K+           LI  G+ L+DQ  ++   
Sbjct: 28  VTVKTPKEK-EEFAVPENSSVQQFKEEISKR--FKSHTDQLVLIFAGKILKDQDTLSQHG 84

Query: 172 KRNEAVIHLLVRKSAK 187
             +   +HL+++   +
Sbjct: 85  IHDGLTVHLVIKTQNR 100

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

 Score = 54.1 bits (130), Expect = 3e-09
 Identities = 16/76 (21%), Positives = 30/76 (39%), Gaps = 1/76 (1%)

Query: 30  SNDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRV 89
               I + +          V E+ S+   K  I         +  L+F G+ L +    +
Sbjct: 29  EPKIIKVTVKTPKEKEEFAVPENSSVQQFKEAISKRFKSQTDQLVLIFAGKIL-KDQDTL 87

Query: 90  RDYGLADGNVLHLVLR 105
             +G+ DG  +HLV++
Sbjct: 88  IQHGIHDGLTVHLVIK 103

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

 Score = 46.8 bits (111), Expect = 1e-06
 Identities = 19/81 (23%), Positives = 34/81 (41%), Gaps = 3/81 (3%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
           +TV T   K  EF V    +V   K+ I+K+           LI  G+ L+DQ  +    
Sbjct: 35  VTVKTPKEK-EEFAVPENSSVQQFKEAISKR--FKSQTDQLVLIFAGKILKDQDTLIQHG 91

Query: 172 KRNEAVIHLLVRKSAKVRAKP 192
             +   +HL++++     +  
Sbjct: 92  IHDGLTVHLVIKRDPNSSSVD 112

>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 = 53.1 bits (128), Expect = 3e-09
 Identities = 17/78 (21%), Positives = 39/78 (50%), Gaps = 1/78 (1%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIA-KKGREFVDLKNQELICDGEELEDQRLITDI 170
           +T+ T+  + F+  ++    V  +K++I  +KG++   +  Q+LI  G+ L D   + + 
Sbjct: 3   VTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALKEY 62

Query: 171 CKRNEAVIHLLVRKSAKV 188
               +  + ++V K   V
Sbjct: 63  KIDEKNFVVVMVTKPKAV 80

>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 = 50.4 bits (121), Expect = 3e-08
 Identities = 13/68 (19%), Positives = 35/68 (51%), Gaps = 4/68 (5%)

Query: 42  GSVIPMRVMESDSIASVKLRIQSYNG---FFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
                + +   +++ ++K +I+S  G   F V  QKL++ G+ L    + +++Y + + N
Sbjct: 10  QQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTA-LKEYKIDEKN 68

Query: 99  VLHLVLRL 106
            + +++  
Sbjct: 69  FVVVMVTK 76

>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 = 52.2 bits (126), Expect = 5e-09
 Identities = 21/74 (28%), Positives = 38/74 (51%), Gaps = 1/74 (1%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIA-KKGREFVDLKNQELICDGEELEDQRLITDI 170
           IT+ T+  + F+  +E    V  +K++I  +KGR+   +  Q+LI  G+ L D   I D 
Sbjct: 8   ITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIRDY 67

Query: 171 CKRNEAVIHLLVRK 184
               +  + ++V K
Sbjct: 68  RIDEKNFVVVMVTK 81

>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 = 48.4 bits (116), Expect = 1e-07
 Identities = 16/77 (20%), Positives = 40/77 (51%), Gaps = 5/77 (6%)

Query: 33  SILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFF---VKKQKLVFEGRELARSNSR 88
           ++ I L ++      +R+   +++  +K +I++  G     V  QKL++ G+ L+     
Sbjct: 5   AVTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVP- 63

Query: 89  VRDYGLADGNVLHLVLR 105
           +RDY + + N + +++ 
Sbjct: 64  IRDYRIDEKNFVVVMVT 80

>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 = 52.8 bits (127), Expect = 5e-09
 Identities = 15/81 (18%), Positives = 30/81 (37%), Gaps = 1/81 (1%)

Query: 26  PEKLSNDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARS 85
                   I + +          V ++ +I  +K  I         +  L+F G+ L + 
Sbjct: 10  APVQDPHLIKVTVKTPKDKEDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKIL-KD 68

Query: 86  NSRVRDYGLADGNVLHLVLRL 106
              +   G+ DG  +HLV++ 
Sbjct: 69  PDSLAQCGVRDGLTVHLVIKR 89

>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 = 48.5 bits (116), Expect = 1e-07
 Identities = 16/83 (19%), Positives = 35/83 (42%), Gaps = 3/83 (3%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
           +TV T   K  +F V     +  +K++I+++           LI  G+ L+D   +    
Sbjct: 20  VTVKTPKDK-EDFSVTDTCTIQQLKEEISQR--FKAHPDQLVLIFAGKILKDPDSLAQCG 76

Query: 172 KRNEAVIHLLVRKSAKVRAKPVQ 194
            R+   +HL++++  +       
Sbjct: 77  VRDGLTVHLVIKRQHRAMGNECP 99

>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 = 51.6 bits (124), Expect = 1e-08
 Identities = 14/64 (21%), Positives = 31/64 (48%), Gaps = 1/64 (1%)

Query: 42  GSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLH 101
              +P+ +  S++I   K ++         + KL++ G+ L  S + V + GL DG+ + 
Sbjct: 11  KEKVPLDLEPSNTILETKTKLAQSISCEESQIKLIYSGKVLQDSKT-VSECGLKDGDQVV 69

Query: 102 LVLR 105
            ++ 
Sbjct: 70  FMVS 73

>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 = 6e-07
 Identities = 11/81 (13%), Positives = 32/81 (39%), Gaps = 2/81 (2%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
           +T      +     +E    +   K ++A+      +    +LI  G+ L+D + +++  
Sbjct: 4   LTFKNFKKEKVPLDLEPSNTILETKTKLAQS--ISCEESQIKLIYSGKVLQDSKTVSECG 61

Query: 172 KRNEAVIHLLVRKSAKVRAKP 192
            ++   +  +V +    + K 
Sbjct: 62  LKDGDQVVFMVSQKKSTKTKV 82

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

 Score = 52.4 bits (125), Expect = 3e-08
 Identities = 15/72 (20%), Positives = 35/72 (48%), Gaps = 7/72 (9%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
           + V T+ G+   + +E+G +V  +K QI++      ++    L+ +G    +  L+TD  
Sbjct: 3   VQVKTLEGETKIYTLEQGTSVLDLKSQISQD--MGFEIDMMTLVNNGFIAPNTELVTD-- 58

Query: 172 KRNEAVIHLLVR 183
              +   +L ++
Sbjct: 59  ---DVTYYLSLK 67

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

 Score = 52.0 bits (124), Expect = 5e-08
 Identities = 15/120 (12%), Positives = 33/120 (27%), Gaps = 7/120 (5%)

Query: 36  IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
           + + ++ G      + +  S+  +K +I    GF +    LV  G              +
Sbjct: 3   VQVKTLEGETKIYTLEQGTSVLDLKSQISQDMGFEIDMMTLVNNGFIAP------NTELV 56

Query: 95  ADGNVLHLVLRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQEL 154
            D    +L L+L   +            +                  +    V L+ +  
Sbjct: 57  TDDVTYYLSLKLLGGKKKKKKKSYTTKKKTKHRHVHTKLGALAFYKLENNGKVSLQQKGC 116

>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 = 53.7 bits (128), Expect = 5e-08
 Identities = 25/86 (29%), Positives = 43/86 (50%), Gaps = 1/86 (1%)

Query: 21  NFTHRPEKLSNDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGR 80
                   ++    +   ++ G  I + V  SD+I +VK +IQ   G    +Q+L+F G+
Sbjct: 222 LEFVTAAGITGSMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGK 281

Query: 81  ELARSNSRVRDYGLADGNVLHLVLRL 106
           +L    + + DY +   + LHLVLRL
Sbjct: 282 QLEDGRT-LSDYNIQKESTLHLVLRL 306

>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 = 42.1 bits (98), Expect = 3e-04
 Identities = 31/148 (20%), Positives = 55/148 (37%), Gaps = 7/148 (4%)

Query: 41  GGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEG-----RELARSNSRVRDYGLA 95
            G  +  ++  +    SV+L         +    ++         + A S          
Sbjct: 160 NGIKVNFKIRHNIEDGSVQLADHYQQNTPIGDGPVLLPDNHYLSTQSALSKDPNEKRDHM 219

Query: 96  DGNVLHLVLRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELI 155
                     ++    I V T+ GK     VE    +  VK +I  K  E +    Q LI
Sbjct: 220 VLLEFVTAAGITGSMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRLI 277

Query: 156 CDGEELEDQRLITDICKRNEAVIHLLVR 183
             G++LED R ++D   + E+ +HL++R
Sbjct: 278 FAGKQLEDGRTLSDYNIQKESTLHLVLR 305

>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 = 50.4 bits (120), Expect = 7e-08
 Identities = 24/64 (37%), Positives = 36/64 (56%), Gaps = 1/64 (1%)

Query: 42  GSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLH 101
           G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L      + DY +   + LH
Sbjct: 10  GKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQL-EDGRTLSDYNIQKESTLH 68

Query: 102 LVLR 105
           LVLR
Sbjct: 69  LVLR 72

>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 = 46.2 bits (109), Expect = 2e-06
 Identities = 23/68 (33%), Positives = 33/68 (48%), Gaps = 2/68 (2%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
           I V T+ GK     VE    +  VK +I  K     D   Q LI  G++LED R ++D  
Sbjct: 3   IFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPD--QQRLIFAGKQLEDGRTLSDYN 60

Query: 172 KRNEAVIH 179
            + E+ +H
Sbjct: 61  IQKESTLH 68

>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 = 48.4 bits (115), Expect = 1e-07
 Identities = 10/66 (15%), Positives = 32/66 (48%)

Query: 41  GGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVL 100
                 ++V     +++ ++  +  +G   ++ ++V+  + L   +  +  YGL DG+++
Sbjct: 20  TEVTFSLQVNPDFELSNFRVLCELESGVPAEEAQIVYMEQLLTDDHCSLGSYGLKDGDMV 79

Query: 101 HLVLRL 106
            L+ + 
Sbjct: 80  VLLQKD 85

>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 = 51.8 bits (123), Expect = 4e-07
 Identities = 57/388 (14%), Positives = 111/388 (28%), Gaps = 116/388 (29%)

Query: 63  QSYNGFFVKKQKLVFEGREL---ARSNSRVRDYGLADG---NVLHL-VLRLSDLQA---- 111
           Q +  + V + +   + R+     R    V   G+  G     + L V     +Q     
Sbjct: 124 QVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVL-GSGKTWVALDVCLSYKVQCKMDF 182

Query: 112 ----ITVTTVC----------------GKVFEFHVERGRNVGYVKQQIAKKGREFVDLKN 151
               + +                       +    +   N+      I  + R  +  K 
Sbjct: 183 KIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKP 242

Query: 152 QE---LICDGEELEDQRLIT--DI-CK-----RNEAVIHLLVRKSAKVRAKPVQKDFEVS 200
            E   L+     +++ +     ++ CK     R + V   L   SA            ++
Sbjct: 243 YENCLLVLL--NVQNAKAWNAFNLSCKILLTTRFKQVTDFL---SAATTTHISLDHHSMT 297

Query: 201 IEATELNEKGADVVGEHQFETLFMGYQIRERKLLQNDLLLEPLIVES---------NFKL 251
           +   E+       +   + + L          L  N   L  +I ES         N+K 
Sbjct: 298 LTPDEVKSLLLKYLD-CRPQDL------PREVLTTNPRRLS-IIAESIRDGLATWDNWKH 349

Query: 252 PLM--IKRLISSTVDGLERGNEPIPSSEGSGGAYFMQDSSGQKYISVFKPMDEEPMSVNN 309
                +  +I S+++ LE        +E      F         +SVF      P S + 
Sbjct: 350 VNCDKLTTIIESSLNVLE-------PAEYR--KMF-------DRLSVF------PPSAH- 386

Query: 310 PRGLPISVDGEGL-----KKGTRAGEGALREVAAYIL--DHPRDATYSLHD---EERGFA 359
              +P  +    L               + ++  Y L    P+++T S+     E +   
Sbjct: 387 ---IPTIL----LSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELK--- 436

Query: 360 GVPPTVMVRCLHK----GFNHPNGYKHD 383
                     LH+     +N P  +  D
Sbjct: 437 --VKLENEYALHRSIVDHYNIPKTFDSD 462

>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 = 43.3 bits (101), Expect = 2e-04
 Identities = 51/371 (13%), Positives = 110/371 (29%), Gaps = 106/371 (28%)

Query: 147 VDLKNQELICDGEE--LEDQ--RLITDICKR---NEAVIHLLVRKSAKVRAKPVQKDFEV 199
              + ++++   E+  +++   + + D+ K     E + H+++ K A      +   F  
Sbjct: 14  HQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRL---FWT 70

Query: 200 SIEATELNEKGADVVGEHQFETLFMGYQIRERKLLQND--LLLEPLIVESNFKLPLMIKR 257
                 L  K  ++V +      F+       ++L+ +   L+ P+  E   + P M+ R
Sbjct: 71  ------LLSKQEEMVQK------FVE------EVLRINYKFLMSPIKTEQ--RQPSMMTR 110

Query: 258 LISSTVDGLERGNEPIPSSEGSGGAYFMQDSSGQKY-ISVFKPMDEEPMSVNNPRGLP-I 315
           +     D L   N+                    KY +S  +P  +   ++   R    +
Sbjct: 111 MYIEQRDRLYNDNQVFA-----------------KYNVSRLQPYLKLRQALLELRPAKNV 153

Query: 316 SVDG-EGLKKGTRAGEGALREVAAYILDHPRDATY--SLHDEERGFAGVPPTVMVR---- 368
            +DG  G  K   A +         +        +  +L          P TV+      
Sbjct: 154 LIDGVLGSGKTWVALD-VCLSYK--VQCKMDFKIFWLNL-----KNCNSPETVLEMLQKL 205

Query: 369 C------LHKGFNHPNGYKHDLENVKIGSLQMFVENVGSCEEMGPRAFPV-DEV-HK--I 418
                       +H +  K  + +++   L+  ++      +       V   V +    
Sbjct: 206 LYQIDPNWTSRSDHSSNIKLRIHSIQ-AELRRLLK-----SKPYENCLLVLLNVQNAKAW 259

Query: 419 SVLDIR---LANTDRHAGNI-LVSKDEGGQIKLVPIDHGY------------------CL 456
           +  ++    L  T R       +S      I L                          L
Sbjct: 260 NAFNLSCKILLTT-RFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDL 318

Query: 457 PYSVCPFSFPL 467
           P  V   + P 
Sbjct: 319 PREVLTTN-PR 328

>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 = 50.0 bits (118), Expect = 9e-07
 Identities = 21/94 (22%), Positives = 42/94 (44%), Gaps = 1/94 (1%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIA-KKGREFVDLKNQELICDGEELEDQRLITDI 170
           IT+ T+  + F+  +E    V  +K++I  +KGR+   +  Q+LI  G+ L D   I D 
Sbjct: 10  ITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIRDY 69

Query: 171 CKRNEAVIHLLVRKSAKVRAKPVQKDFEVSIEAT 204
               +  + ++V K+   +      +   +    
Sbjct: 70  RIDEKNFVVVMVTKTKAGQGTSAPPEASPTAAPE 103

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

 Score = 43.4 bits (101), Expect = 1e-04
 Identities = 18/89 (20%), Positives = 44/89 (49%), Gaps = 5/89 (5%)

Query: 29  LSNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFF---VKKQKLVFEGRELAR 84
           L + ++ I L ++      +R+   +++  +K +I++  G     V  QKL++ G+ L+ 
Sbjct: 3   LGSSAVTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSD 62

Query: 85  SNSRVRDYGLADGNVLHLVLRLSDLQAIT 113
               +RDY + + N + +++  +     T
Sbjct: 63  DVP-IRDYRIDEKNFVVVMVTKTKAGQGT 90

>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 = 45.2 bits (107), Expect = 2e-06
 Identities = 12/78 (15%), Positives = 34/78 (43%), Gaps = 2/78 (2%)

Query: 26  PEKLSNDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARS 85
              +  + + + +    +   ++V    + + +K +I S  G     QK++++G  L   
Sbjct: 10  GGGVGKELVDLKIIWNKTKHDVKVPLDSTGSELKQKIHSITGLPPAMQKVMYKG--LVPE 67

Query: 86  NSRVRDYGLADGNVLHLV 103
           +  +R+  +  G  + +V
Sbjct: 68  DKTLREIKVTSGAKIMVV 85

>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 Length = 105

 Score = 45.0 bits (106), Expect = 3e-06
 Identities = 16/89 (17%), Positives = 38/89 (42%), Gaps = 15/89 (16%)

Query: 35  LIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQK---------------LVFEG 79
           +    + G V+P+ V+++ ++  +K  IQ Y     +++                L   G
Sbjct: 10  VRVCKMDGEVMPVVVVQNATVLDLKKAIQRYVQLKQEREGGVQHISWSYVWRTYHLTSAG 69

Query: 80  RELARSNSRVRDYGLADGNVLHLVLRLSD 108
            +L     ++RDYG+ + + +  + +L  
Sbjct: 70  EKLTEDRKKLRDYGIRNRDEVSFIKKLGQ 98

>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 = 7e-05
 Identities = 20/86 (23%), Positives = 40/86 (46%), Gaps = 6/86 (6%)

Query: 107 SDLQAITVTTVC----GKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELE 162
           S    +T+         +  E   +RG +VG++K  +++   E    ++Q LI  G+ L 
Sbjct: 3   SGSSGVTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLL 62

Query: 163 DQRLITDICKRNEA--VIHLLVRKSA 186
           D + + D+  + E   V+HL+    +
Sbjct: 63  DHQCLRDLLPKQEKRHVLHLVCNVKS 88

>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 = 38.1 bits (88), Expect = 7e-04
 Identities = 10/89 (11%), Positives = 33/89 (37%), Gaps = 1/89 (1%)

Query: 30  SNDSILIF-LSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSR 88
           S+  +L F +      + + + ++ ++  +K  +++     V K  L          ++ 
Sbjct: 5   SSGRMLDFRVEYRDRNVDVVLEDTCTVGEIKQILENELQIPVSKMLLKGWKTGDVEDSTV 64

Query: 89  VRDYGLADGNVLHLVLRLSDLQAITVTTV 117
           ++   L   N L+++       + +    
Sbjct: 65  LKSLHLPKNNSLYVLTPDLPPPSSSSHAG 93

>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 Length = 95

 Score = 38.1 bits (88), Expect = 7e-04
 Identities = 9/58 (15%), Positives = 22/58 (37%), Gaps = 3/58 (5%)

Query: 48  RVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLR 105
                D++ ++K +          + KL+++GR L      +    + +  V+H    
Sbjct: 23  VARPEDTVGTLKSKYFPGQE---SQMKLIYQGRLLQDPARTLSSLNITNNCVIHCHRS 77

>3akj_A CTKA; protein kinase, transferase; 2.00A {Helicobacter pylori} PDB: 3akk_A* 3akl_A* Length = 325

 Score = 40.2 bits (93), Expect = 9e-04
 Identities = 15/41 (36%), Positives = 19/41 (46%), Gaps = 2/41 (4%)

Query: 420 VLDIRLANTDRHAGNI-LVSKDEGGQIKLVPI-DHGYCLPY 458
           V D  L N DRH GN   +      + ++ PI D G CL  
Sbjct: 146 VADTLLGNFDRHNGNWGFLRASNSKEYQIAPIFDCGSCLYP 186

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	469
3u30_A	172	Ubiquitin, linear DI-ubiquitin; immune system; 2.4	99.98
3rt3_B	159	Ubiquitin-like protein ISG15; ubiquitin-like domai	99.97
3b08_A	152	Polyubiquitin-C, ubiquitin; protein complex, signa	99.96
2kdi_A	114	Ubiquitin, vacuolar protein sorting-associated pro	99.7
4eew_A	88	Large proline-rich protein BAG6; ubiquitin-like fo	99.67
3phx_B	79	Ubiquitin-like protein ISG15; OTU domain, DE-ubiqu	99.66
1yx5_B	98	Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo s	99.64
3dbh_I	88	NEDD8; cell cycle, activating enzyme, apoptosis, m	99.64
3plu_A	93	Ubiquitin-like modifier HUB1; ubiquitin-like, HUB-	99.63
4fbj_B	88	NEDD8; effector-HOST target complex, glutamine dea	99.62
3plu_A	93	Ubiquitin-like modifier HUB1; ubiquitin-like, HUB-	99.62
3v6c_B	91	Ubiquitin; structural genomics, structural genomic	99.62
3phx_B	79	Ubiquitin-like protein ISG15; OTU domain, DE-ubiqu	99.62
4hcn_B	98	Polyubiquitin, ubiquitin; ubiquitin/NEDD8 deamidas	99.6
2kk8_A	84	Uncharacterized protein AT4G05270; solution arabid	99.59
2dzi_A	81	Ubiquitin-like protein 4A; GDX, structural genomic	99.59
2uyz_B	79	Small ubiquitin-related modifier 1; sumoylation, c	99.59
2faz_A	78	Ubiquitin-like containing PHD and ring finger DOM	99.58
4dwf_A	90	HLA-B-associated transcript 3; ubiquitin-like doma	99.58
1wh3_A	87	59 kDa 2'-5'-oligoadenylate synthetase like protei	99.58
2faz_A	78	Ubiquitin-like containing PHD and ring finger DOM	99.58
1wy8_A	89	NP95-like ring finger protein, isoform A; ubiquiti	99.58
1ndd_A	76	NEDD8, protein (ubiquitin-like protein NEDD8); pro	99.57
4dwf_A	90	HLA-B-associated transcript 3; ubiquitin-like doma	99.57
2kan_A	94	Uncharacterized protein AR3433A; ubiquitin fold, a	99.57
2kk8_A	84	Uncharacterized protein AT4G05270; solution arabid	99.57
3n3k_B	85	Ubiquitin; hydrolase, protease, thiol protease, DU	99.57
1v2y_A	105	3300001G02RIK protein; hypothetical protein, ubiqu	99.56
1wyw_B	97	Ubiquitin-like protein SMT3C; hydrolase; 2.10A {Ho	99.56
2hj8_A	88	Interferon-induced 17 kDa protein; HR2873B, human	99.56
4eew_A	88	Large proline-rich protein BAG6; ubiquitin-like fo	99.56
3k9o_B	96	Ubiquitin, UBB+1; E2-25K, complex structure, ATP-b	99.56
3mtn_B	85	UBA80, ubcep1, ubiquitin variant UBV.21.4; ubiquit	99.56
3a9j_A	76	Ubiquitin; protein complex, cytoplasm, isopeptide	99.56
4fbj_B	88	NEDD8; effector-HOST target complex, glutamine dea	99.56
3l0w_B	169	Monoubiquitinated proliferating cell nuclear antig	99.56
1uh6_A	100	Ubiquitin-like 5; beta-grAsp fold, structural geno	99.55
1sif_A	88	Ubiquitin; hydrophobic mutants, folding, stability	99.55
2wyq_A	85	HHR23A, UV excision repair protein RAD23 homolog A	99.55
2lxa_A	87	Ubiquitin-like protein MDY2; ubiquitin-like domain	99.54
2l7r_A	93	Ubiquitin-like protein FUBI; structural genomics,	99.54
4a20_A	98	Ubiquitin-like protein MDY2; protein binding, GET-	99.54
3v6c_B	91	Ubiquitin; structural genomics, structural genomic	99.54
1uh6_A	100	Ubiquitin-like 5; beta-grAsp fold, structural geno	99.54
3m62_B	106	UV excision repair protein RAD23; armadillo-like r	99.54
1uel_A	95	HHR23B, UV excision repair protein RAD23 homolog B	99.53
2uyz_B	79	Small ubiquitin-related modifier 1; sumoylation, c	99.53
3q3f_A	189	Ribonuclease/ubiquitin chimeric protein; domain SW	99.53
3vdz_A	111	Ubiquitin-40S ribosomal protein S27A; gadolinium,	99.53
1wgh_A	116	Ubiquitin-like 3, HCG-1 protein; ubiquitin-like fo	99.52
2lxa_A	87	Ubiquitin-like protein MDY2; ubiquitin-like domain	99.52
1ndd_A	76	NEDD8, protein (ubiquitin-like protein NEDD8); pro	99.52
2wyq_A	85	HHR23A, UV excision repair protein RAD23 homolog A	99.52
3dbh_I	88	NEDD8; cell cycle, activating enzyme, apoptosis, m	99.52
1wyw_B	97	Ubiquitin-like protein SMT3C; hydrolase; 2.10A {Ho	99.51
4a20_A	98	Ubiquitin-like protein MDY2; protein binding, GET-	99.51
3k9o_B	96	Ubiquitin, UBB+1; E2-25K, complex structure, ATP-b	99.51
3m63_B	101	Ubiquitin domain-containing protein DSK2; armadill	99.51
2hj8_A	88	Interferon-induced 17 kDa protein; HR2873B, human	99.51
2fnj_B	118	Transcription elongation factor B polypeptide 2; b	99.51
3n3k_B	85	Ubiquitin; hydrolase, protease, thiol protease, DU	99.51
3rt3_B	159	Ubiquitin-like protein ISG15; ubiquitin-like domai	99.51
4ajy_B	118	Transcription elongation factor B polypeptide 2; E	99.5
1wgd_A	93	Homocysteine-responsive endoplasmic reticulum- res	99.5
1sif_A	88	Ubiquitin; hydrophobic mutants, folding, stability	99.5
3a9j_A	76	Ubiquitin; protein complex, cytoplasm, isopeptide	99.5
1wh3_A	87	59 kDa 2'-5'-oligoadenylate synthetase like protei	99.5
2dzi_A	81	Ubiquitin-like protein 4A; GDX, structural genomic	99.5
1wgh_A	116	Ubiquitin-like 3, HCG-1 protein; ubiquitin-like fo	99.5
4hcn_B	98	Polyubiquitin, ubiquitin; ubiquitin/NEDD8 deamidas	99.5
1ttn_A	106	DC-UBP, dendritic cell-derived ubiquitin-like prot	99.5
3b1l_X	76	E3 ubiquitin-protein ligase parkin; proteasome, AL	99.24
1wy8_A	89	NP95-like ring finger protein, isoform A; ubiquiti	99.49
3m62_B	106	UV excision repair protein RAD23; armadillo-like r	99.49
2bwf_A	77	Ubiquitin-like protein DSK2; signaling protein, UB	99.49
3mtn_B	85	UBA80, ubcep1, ubiquitin variant UBV.21.4; ubiquit	99.49
2bwf_A	77	Ubiquitin-like protein DSK2; signaling protein, UB	99.48
2ojr_A	111	Ubiquitin; lanthide-binding TAG, terbium, TB, SAD	99.48
1uel_A	95	HHR23B, UV excision repair protein RAD23 homolog B	99.48
1j8c_A	125	Ubiquitin-like protein hplic-2; ubiquitin-like dom	99.48
1se9_A	126	Ubiquitin family; ubiquitin-like, cell-free, wheat	99.48
1v5o_A	102	1700011N24RIK protein; hypothetical protein, ubiqu	99.48
1ttn_A	106	DC-UBP, dendritic cell-derived ubiquitin-like prot	99.47
1yqb_A	100	Ubiquilin 3; structural genomics consortium, ubiqu	99.47
2kan_A	94	Uncharacterized protein AR3433A; ubiquitin fold, a	99.47
1se9_A	126	Ubiquitin family; ubiquitin-like, cell-free, wheat	99.47
1wx8_A	96	Riken cDNA 4931431F19; ubiquitin-like domain, ubiq	99.47
1we6_A	111	Splicing factor, putative; structural genomics, ub	99.46
2fnj_B	118	Transcription elongation factor B polypeptide 2; b	99.46
2l7r_A	93	Ubiquitin-like protein FUBI; structural genomics,	99.45
2klc_A	101	Ubiquilin-1; ubiquitin-like, structural genomics,	99.45
4ajy_B	118	Transcription elongation factor B polypeptide 2; E	99.45
1v2y_A	105	3300001G02RIK protein; hypothetical protein, ubiqu	99.45
1yqb_A	100	Ubiquilin 3; structural genomics consortium, ubiqu	99.45
1yx5_B	98	Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo s	99.44
3vdz_A	111	Ubiquitin-40S ribosomal protein S27A; gadolinium,	99.44
1wgd_A	93	Homocysteine-responsive endoplasmic reticulum- res	99.44
2klc_A	101	Ubiquilin-1; ubiquitin-like, structural genomics,	99.44
2gow_A	125	HCG-1 protein, ubiquitin-like protein 3; BC059385,	99.43
1wju_A	100	NEDD8 ultimate buster-1; ubiquitin-like domain, st	99.43
2gow_A	125	HCG-1 protein, ubiquitin-like protein 3; BC059385,	99.43
3b1l_X	76	E3 ubiquitin-protein ligase parkin; proteasome, AL	99.15
3u30_A	172	Ubiquitin, linear DI-ubiquitin; immune system; 2.4	99.43
2ojr_A	111	Ubiquitin; lanthide-binding TAG, terbium, TB, SAD	99.43
3l0w_B	169	Monoubiquitinated proliferating cell nuclear antig	99.43
4dbg_A	105	Ranbp-type and C3HC4-type zinc finger-containing;	99.43
1wju_A	100	NEDD8 ultimate buster-1; ubiquitin-like domain, st	99.42
1wx7_A	106	Ubiquilin 3; ubiquitin-like domain, structural gen	99.42
1v5t_A	90	8430435I17RIK protein; hypothetical protein, ubiqu	99.42
1wgg_A	96	Ubiquitin carboxyl-terminal hydrolase 14; ubiquiti	99.42
3u5e_m	128	60S ribosomal protein L40; translation, ribosome,	99.41
2kd0_A	85	LRR repeats and ubiquitin-like domain-containing p	99.41
1wx7_A	106	Ubiquilin 3; ubiquitin-like domain, structural gen	99.41
1wx8_A	96	Riken cDNA 4931431F19; ubiquitin-like domain, ubiq	99.4
1wxv_A	92	BAG-family molecular chaperone regulator-1; struct	99.4
1j8c_A	125	Ubiquitin-like protein hplic-2; ubiquitin-like dom	99.39
1we6_A	111	Splicing factor, putative; structural genomics, ub	99.39
2kdb_A	99	Homocysteine-responsive endoplasmic reticulum- res	99.39
1wia_A	95	Hypothetical ubiquitin-like protein (riken cDNA 20	99.39
1wia_A	95	Hypothetical ubiquitin-like protein (riken cDNA 20	99.39
3u5c_f	152	40S ribosomal protein S31; translation, ribosome,	99.39
2kdi_A	114	Ubiquitin, vacuolar protein sorting-associated pro	99.38
1we7_A	115	SF3A1 protein; structural genomics, ubiquitin-like	99.38
2kdb_A	99	Homocysteine-responsive endoplasmic reticulum- res	99.38
3b08_A	152	Polyubiquitin-C, ubiquitin; protein complex, signa	99.38
1v5o_A	102	1700011N24RIK protein; hypothetical protein, ubiqu	99.37
2dzm_A	100	FAS-associated factor 1; ubiquitin-like domain, HF	99.36
4dbg_A	105	Ranbp-type and C3HC4-type zinc finger-containing;	99.36
3q3f_A	189	Ribonuclease/ubiquitin chimeric protein; domain SW	99.36
3m63_B	101	Ubiquitin domain-containing protein DSK2; armadill	99.35
2kd0_A	85	LRR repeats and ubiquitin-like domain-containing p	99.35
1x1m_A	107	Ubiquitin-like protein SB132; structural genomics,	99.35
1v86_A	95	DNA segment, CHR 7, wayne state university 128, ex	99.34
2kjr_A	95	CG11242; UBL, ubiquitin, ubiquitin-like, structura	99.33
1we7_A	115	SF3A1 protein; structural genomics, ubiquitin-like	99.33
3u5e_m	128	60S ribosomal protein L40; translation, ribosome,	99.33
1wgg_A	96	Ubiquitin carboxyl-terminal hydrolase 14; ubiquiti	99.32
1v5t_A	90	8430435I17RIK protein; hypothetical protein, ubiqu	99.3
2kj6_A	97	Tubulin folding cofactor B; methods development, N	99.29
3u5c_f	152	40S ribosomal protein S31; translation, ribosome,	99.29
1x1m_A	107	Ubiquitin-like protein SB132; structural genomics,	99.29
2xzm_9	189	RPS31E; ribosome, translation; 3.93A {Tetrahymena	99.28
4b6w_A	86	Tubulin-specific chaperone; CAP-Gly, ubiquitin-lik	99.28
1wxv_A	92	BAG-family molecular chaperone regulator-1; struct	99.27
2dzj_A	88	Synaptic glycoprotein SC2; ubiquitin-like fold, st	99.26
2daf_A	118	FLJ35834 protein; hypothetical protein FLJ35834, u	99.26
3ai5_A	307	Yeast enhanced green fluorescent protein, ubiquit;	99.25
2dzm_A	100	FAS-associated factor 1; ubiquitin-like domain, HF	99.23
4b6w_A	86	Tubulin-specific chaperone; CAP-Gly, ubiquitin-lik	99.23
2kjr_A	95	CG11242; UBL, ubiquitin, ubiquitin-like, structura	99.21
2daf_A	118	FLJ35834 protein; hypothetical protein FLJ35834, u	99.21
2dzj_A	88	Synaptic glycoprotein SC2; ubiquitin-like fold, st	99.2
3ai5_A	307	Yeast enhanced green fluorescent protein, ubiquit;	99.19
1wf9_A	107	NPL4 family protein; beta-grAsp fold like domain,	99.18
1v6e_A	95	Cytoskeleton-associated protein 1; tubulin-specifi	99.18
1oqy_A	368	HHR23A, UV excision repair protein RAD23 homolog A	99.18
1v86_A	95	DNA segment, CHR 7, wayne state university 128, ex	99.17
2xzm_9	189	RPS31E; ribosome, translation; 3.93A {Tetrahymena	99.17
1oqy_A	368	HHR23A, UV excision repair protein RAD23 homolog A	99.14
2io1_B	94	Small ubiquitin-related modifier 3 precursor; SUMO	99.14
2kj6_A	97	Tubulin folding cofactor B; methods development, N	99.12
1t0y_A	122	Tubulin folding cofactor B; ubiquitin-like, cytosk	99.11
1wf9_A	107	NPL4 family protein; beta-grAsp fold like domain,	99.08
2io1_B	94	Small ubiquitin-related modifier 3 precursor; SUMO	99.07
1v6e_A	95	Cytoskeleton-associated protein 1; tubulin-specifi	99.03
3shq_A	320	UBLCP1; phosphatase, hydrolase; 1.96A {Drosophila	98.98
2io0_B	91	Small ubiquitin-related modifier 2 precursor; SUMO	98.97
1t0y_A	122	Tubulin folding cofactor B; ubiquitin-like, cytosk	98.95
2io0_B	91	Small ubiquitin-related modifier 2 precursor; SUMO	98.93
2d07_B	93	Ubiquitin-like protein SMT3B; hydrolase; 2.10A {Ho	98.93
1wm3_A	72	Ubiquitin-like protein SMT3B; ubiquitin fold, half	98.92
2kzr_A	86	Ubiquitin thioesterase OTU1; structural genomics,	98.91
2eke_C	106	Ubiquitin-like protein SMT3; UBC9, SUMO binding mo	98.89
2kzr_A	86	Ubiquitin thioesterase OTU1; structural genomics,	98.89
1wm3_A	72	Ubiquitin-like protein SMT3B; ubiquitin fold, half	98.89
3a4r_A	79	Nfatc2-interacting protein; ubiquitin fold, coiled	98.88
1wz0_A	104	Ubiquitin-like protein SMT3B; SUMO-2, ubiquitin-li	98.87
3a4r_A	79	Nfatc2-interacting protein; ubiquitin fold, coiled	98.85
2d07_B	93	Ubiquitin-like protein SMT3B; hydrolase; 2.10A {Ho	98.84
2k8h_A	110	Small ubiquitin protein; SUMO, post-translational	98.84
1wjn_A	97	Tubulin-folding protein TBCE; ubiquitin-like domai	98.8
3shq_A	320	UBLCP1; phosphatase, hydrolase; 1.96A {Drosophila	98.8
2eke_C	106	Ubiquitin-like protein SMT3; UBC9, SUMO binding mo	98.77
1wz0_A	104	Ubiquitin-like protein SMT3B; SUMO-2, ubiquitin-li	98.74
2k8h_A	110	Small ubiquitin protein; SUMO, post-translational	98.69
1wjn_A	97	Tubulin-folding protein TBCE; ubiquitin-like domai	98.61
3kyd_D	115	Small ubiquitin-related modifier 1; SUMO, thioeste	98.33
3pge_A	200	SUMO-modified proliferating cell nuclear antigen;	98.31
3kyd_D	115	Small ubiquitin-related modifier 1; SUMO, thioeste	98.22
3tix_A	207	Ubiquitin-like protein SMT3, RNA-induced transcri	98.15
3pge_A	200	SUMO-modified proliferating cell nuclear antigen;	98.0
3tix_A	207	Ubiquitin-like protein SMT3, RNA-induced transcri	97.88
4efo_A	94	Serine/threonine-protein kinase TBK1; ubiquitin li	97.87
3v7o_A	227	Minor nucleoprotein VP30; ssgcid, seattle structur	97.83
1cja_A	342	Protein (actin-fragmin kinase); transferase; HET:	97.77
2pjh_A	80	Protein NPL4, nuclear protein localization protein	97.68
3goe_A	82	DNA repair protein RAD60; SUMO-like domain, sumoyl	97.65
2pjh_A	80	Protein NPL4, nuclear protein localization protein	97.61
4efo_A	94	Serine/threonine-protein kinase TBK1; ubiquitin li	97.53
3v7o_A	227	Minor nucleoprotein VP30; ssgcid, seattle structur	97.49
3ivf_A	371	Talin-1; FERM domain, cell membrane, cell projecti	97.43
3uf8_A	209	Ubiquitin-like protein SMT3, peptidyl-prolyl CIS-	97.41
3uf8_A	209	Ubiquitin-like protein SMT3, peptidyl-prolyl CIS-	97.34
2jxx_A	97	Nfatc2-interacting protein; nuclear factor of acti	97.3
3goe_A	82	DNA repair protein RAD60; SUMO-like domain, sumoyl	97.27
2jxx_A	97	Nfatc2-interacting protein; nuclear factor of acti	97.06
3ix6_A	360	TS, tsase, thymidylate synthase; niaid, ssgcid, se	97.05
2l76_A	95	Nfatc2-interacting protein; ubiquitin-like domain,	96.93
2l76_A	95	Nfatc2-interacting protein; ubiquitin-like domain,	96.75
3ix6_A	360	TS, tsase, thymidylate synthase; niaid, ssgcid, se	96.67
2al3_A	90	TUG long isoform; TUG UBL1 insulin, endocytosis/ex	96.57
2al3_A	90	TUG long isoform; TUG UBL1 insulin, endocytosis/ex	96.52
4da1_A	389	Protein phosphatase 1K, mitochondrial; metal-ION-a	96.5
2bps_A	81	YUKD protein; ubiquitin-like protein, ubiquitin; 2	96.25
2kc2_A	128	Talin-1, F1; FERM, adhesion, cell membrane, cell p	96.21
4da1_A	389	Protein phosphatase 1K, mitochondrial; metal-ION-a	95.94
3akj_A	325	CTKA; protein kinase, transferase; 2.00A {Helicoba	95.94
2bps_A	81	YUKD protein; ubiquitin-like protein, ubiquitin; 2	95.45
2kc2_A	128	Talin-1, F1; FERM, adhesion, cell membrane, cell p	95.31
2r2o_A	138	Plexin-B1; effector domain, structural genomics, s	95.27
4e71_A	111	Plexin-B2, MM1; transmembrane, signaling, RBD, str	94.81
2dzk_A	109	UBX domain-containing protein 2; ubiquitin-like fo	94.24
3qx1_A	84	FAS-associated factor 1; UBX, protein binding, P97	93.8
3qx1_A	84	FAS-associated factor 1; UBX, protein binding, P97	93.7
4e74_A	117	Plexin-A4; RBD, structural genomics, structural ge	91.85
3h6n_A	127	Plexin-D1; structural genomics consortium, SGC, me	91.11
3jyu_A	231	Ubiquitin carboxyl-terminal hydrolase; domain in u	91.03
1wj4_A	124	KIAA0794 protein; UBX domain, beta-grAsp fold, str	90.97
4a3p_A	217	Ubiquitin carboxyl-terminal hydrolase 15; 1.40A {H	90.81
2dzk_A	109	UBX domain-containing protein 2; ubiquitin-like fo	90.8
1wj4_A	124	KIAA0794 protein; UBX domain, beta-grAsp fold, str	90.4
4e71_A	111	Plexin-B2, MM1; transmembrane, signaling, RBD, str	90.02
2ylm_A	530	Ubiquitin carboxyl-terminal hydrolase 7; UBL; 2.70	88.83
2cr5_A	109	Reproduction 8; UBX domain, D0H8S2298E protein, st	88.78
2juo_A	89	GA-binding protein alpha chain; OST, ubiquitin, tr	88.19
2ylm_A	530	Ubiquitin carboxyl-terminal hydrolase 7; UBL; 2.70	88.04
3h6n_A	127	Plexin-D1; structural genomics consortium, SGC, me	87.61
3ls8_A	614	Phosphatidylinositol 3-kinase catalytic subunit ty	86.77
4e74_A	117	Plexin-A4; RBD, structural genomics, structural ge	86.36
3ivf_A	371	Talin-1; FERM domain, cell membrane, cell projecti	86.28
2r2o_A	138	Plexin-B1; effector domain, structural genomics, s	86.1
2cr5_A	109	Reproduction 8; UBX domain, D0H8S2298E protein, st	85.39
1ryj_A	70	Unknown; beta/alpha protein, structural genomics,	85.24
1s3s_G	127	P47 protein; AAA ATPase, protein-protein complex,	84.99
1oey_A	83	P67-PHOX, neutrophil cytosol factor 2; immune syst	84.73
1s3s_G	127	P47 protein; AAA ATPase, protein-protein complex,	84.51
3jyu_A	231	Ubiquitin carboxyl-terminal hydrolase; domain in u	84.06
3hm6_X	644	Plexin-B1; structural genomics consortium, SGC, me	83.62
3ig3_A	627	Plxna3 protein; plexin intracellular GAP RBD inact	83.45
2x6h_A	696	GH13170P, VPS34, phosphotidylinositol 3 kinase 59F	83.33
2juo_A	89	GA-binding protein alpha chain; OST, ubiquitin, tr	83.17
4a3p_A	217	Ubiquitin carboxyl-terminal hydrolase 15; 1.40A {H	80.94
3hhm_A	1091	Phosphatidylinositol-4,5-bisphosphate 3-kinase cat	80.36

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

Probab=99.98  E-value=7.5e-32  Score=249.23  Aligned_cols=155  Identities=33%  Similarity=0.503  Sum_probs=145.3

Q ss_pred             CCCCCCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeee
Q 012177           27 EKLSNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLR  105 (469)
Q Consensus        27 ~~~~~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~Lvlr  105 (469)
                      ++.+...|+|+| +++|++++++|.+++||.+||.+|++++|+|+++|+|+|+|+.|. |+.+|++|+|+++++|+|+++
T Consensus        14 ~~~~~~~m~i~Vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gip~~~QrL~~~g~~L~-d~~tL~~~~i~~~~~l~l~~~   92 (172)
T 3u30_A           14 LVPRGSHMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLE-DGRTLSDYNIQKESTLHLVLR   92 (172)
T ss_dssp             -----CCEEEEEEETTTEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECC-TTCBTGGGTCCTTCEEEEEEC
T ss_pred             CCCCCCcEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcChHHEEEEECCcccc-ccCCHhHcCCcccceeeeeec
Confidence            334588899999 789999999999999999999999999999999999999999998 899999999999999999999


Q ss_pred             ccccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEee
Q 012177          106 LSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       106 Lsd~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rk  184 (469)
                      +.++|+|+|++.+|+++.++|++++||.+||++|+.++|+|  +++|+|+|+|++|+|+++|.+|+|+++++|||++|.
T Consensus        93 ~~gg~~i~Vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gip--~~~q~L~~~g~~L~D~~tL~~y~i~~g~tl~l~~rl  169 (172)
T 3u30_A           93 LRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIP--PDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRL  169 (172)
T ss_dssp             CCCCEEEEEEESSCCEEEEEECTTCBHHHHHHHHHHHHCCC--GGGCCEEETTEECCTTSBSGGGTCCTTCEEEECC--
T ss_pred             ccccccceeecccCcceeEEecCCCCHHHHHHHHHHHhCCC--ceeEEEEECCccCCCCCcHHHhCCCCCCEEEEEEec
Confidence            99999999999999999999999999999999999999988  999999999999999999999999999999998773

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

Probab=99.97  E-value=2.4e-31  Score=242.28  Aligned_cols=150  Identities=20%  Similarity=0.227  Sum_probs=144.2

Q ss_pred             CEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEE-E-cCeecccCCccccccCccCccceeeeee-ccc
Q 012177           33 SILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLV-F-EGRELARSNSRVRDYGLADGNVLHLVLR-LSD  108 (469)
Q Consensus        33 ~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLv-f-~Gk~L~~D~~tL~dygI~~gstl~Lvlr-Lsd  108 (469)
                      .|+|+| +++|++++++|.+++||.+||++|++++|+|+++|+|+ | +|++|. |+.+|++|+|+++++++|+++ +++
T Consensus         2 ~m~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gip~~~QrL~~~~~g~~L~-d~~tL~~y~i~~~~~l~l~~~~~~~   80 (159)
T 3rt3_B            2 GWDLTVKMLAGNEFQVSLSSSMSVSELKAQITQKIGVHAFQQRLAVHPSGVALQ-DRVPLASQGLGPGSTVLLVVDKSDE   80 (159)
T ss_dssp             -CEEEEEETTSCEEEEECCTTCCHHHHHHHHHHHHCCCGGGEEEEEETTCCBCC-TTSCGGGGTCCTTCEEEEEECCCCC
T ss_pred             ceEEEEEECCCCEEEEEeCCCCcHHHHHHHHHHHhCCCHHHEEEEEcCCCCCCC-CCCCHHHcCCCCCCEEEEEccCCCC
Confidence            489999 78999999999999999999999999999999999999 9 799997 999999999999999999999 699


Q ss_pred             cceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeC
Q 012177          109 LQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKS  185 (469)
Q Consensus       109 ~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks  185 (469)
                      .|+|+|++.+|+++.++|++++||.+||++|++++|+|  +++|+|+|+|+.|+|+++|++|+|+++++|||++|..
T Consensus        81 ~m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip--~~~q~L~~~G~~L~d~~tL~~y~i~~g~~l~l~~rl~  155 (159)
T 3rt3_B           81 PLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQ--DDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNLRLR  155 (159)
T ss_dssp             CEEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHTCC--GGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEECCC
T ss_pred             cEEEEEECCCCCEEEEEeCCCCCHHHHHHHHHHHHCCC--HHHEEEEECCeecCCCCCHHHcCCCCCCEEEEEEecC
Confidence            99999999999999999999999999999999999988  9999999999999999999999999999999998743

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

Probab=99.96  E-value=3.2e-29  Score=225.04  Aligned_cols=149  Identities=34%  Similarity=0.537  Sum_probs=144.3

Q ss_pred             EEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecccccee
Q 012177           34 ILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDLQAI  112 (469)
Q Consensus        34 M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~m~I  112 (469)
                      |+|+| +.+|++++++|.+++||.+||++|+++.|+|+++|+|+|+|+.|. |+.+|++|+|.++++++|+.+..++|+|
T Consensus         1 M~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~gip~~~q~L~~~g~~L~-d~~tL~~~~i~~~~~l~l~~~~~~~~~i   79 (152)
T 3b08_A            1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLE-DGRTLSDYNIQKESTLHLVLRLRGGMQI   79 (152)
T ss_dssp             CEEEEEETTSCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECC-TTSBTGGGTCCTTCEEEEEECCTTCEEE
T ss_pred             CEEEEEeCCCCEEEEEECCCCCHHHHHHHHHHHHCcChHHeEEEECCeECc-CcccHHHhccCCCCeeEEEeecccccce
Confidence            89999 778999999999999999999999999999999999999999997 8999999999999999999999999999


Q ss_pred             eeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeC
Q 012177          113 TVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKS  185 (469)
Q Consensus       113 ~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks  185 (469)
                      +|++.+|+++.+++++++||.+||++|+++.|+|  +++|+|+|+|+.|+|+++|++|+|+++++|+|++|..
T Consensus        80 ~Vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~gi~--~~~qrL~~~g~~L~d~~tL~~~~i~~~~~i~l~~r~~  150 (152)
T 3b08_A           80 FVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIP--PDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLR  150 (152)
T ss_dssp             EEEESSSCEEEEEECTTCBHHHHHHHHHHHHCCC--GGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEECCC
T ss_pred             eeeecCCCEEEEEeCCCCcHHHHHHHHHHHhCcC--hhhEEEEECCEECCCCCCHHHcCCCCCCEEEEEEecC
Confidence            9999999999999999999999999999999988  9999999999999999999999999999999998753

>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=5.2e-18  Score=146.94  Aligned_cols=103  Identities=30%  Similarity=0.488  Sum_probs=98.1

Q ss_pred             CCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecccc
Q 012177           31 NDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDL  109 (469)
Q Consensus        31 ~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~  109 (469)
                      ....+|+| +++|++++++|.+++||.+||.+|+++.|+|+++|+|+|+|+.|. |+.+|++|+|.++++|+|++++.++
T Consensus         7 ~~~~~i~vk~l~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~-D~~tL~~ygI~~gstI~l~~~~~GG   85 (114)
T 2kdi_A            7 HGEFQIFAKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIWAGKQLE-DGRTLSDYNIQRESTLHLVLRLRGG   85 (114)
T ss_dssp             CCCCEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECC-TTCBTTTTTCCSSCEEEEEECCCSS
T ss_pred             CCcEEEEEEeCCCcEEEEEECCCCcHHHHHHHHHHHHCcChHHEEEEECCEECC-CCCcHHHCCCCCCCEEEEEEEcCCC
Confidence            45689999 899999999999999999999999999999999999999999998 8999999999999999999999999


Q ss_pred             ceeeee---eecceeEEEEeecCchHHH
Q 012177          110 QAITVT---TVCGKVFEFHVERGRNVGY  134 (469)
Q Consensus       110 m~I~Vk---t~~Gk~~~l~V~~~~TV~~  134 (469)
                      +.++++   +.+|++++++|++++||+.
T Consensus        86 ~~~~~~~~~~~~g~~~~~~v~~~~~~~~  113 (114)
T 2kdi_A           86 SMGGAADEEELIRKAIELSLKESRNSGG  113 (114)
T ss_dssp             CCCSSCSSSHHHHHHHHSSSHHHHHGGG
T ss_pred             ceeeccccccccCceEEEEeccccccCC
Confidence            999999   7789999999999999874

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

Probab=99.67  E-value=1.7e-16  Score=130.28  Aligned_cols=88  Identities=25%  Similarity=0.282  Sum_probs=71.8

Q ss_pred             CccCccceeeeeeccccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCC
Q 012177           93 GLADGNVLHLVLRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICK  172 (469)
Q Consensus        93 gI~~gstl~LvlrLsd~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I  172 (469)
                      |...++++++.++.+..|+|+||+.+|+++.++|++++||.+||++|+++.++|  +++|+|+|+|+.|+|+.+|++|+|
T Consensus         1 g~~~~~~~~~~~~~~~~m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip--~~~qrLi~~Gk~L~D~~tL~~~~i   78 (88)
T 4eew_A            1 GMEPNDSTSTAVEEPDSLEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIP--SEKQRLIYQGRVLQDDKKLQEYNV   78 (88)
T ss_dssp             --------------CCEEEEEEEETTSCEEEEEEETTCBHHHHHHHHHHHHTCC--GGGEEEEETTEECCTTSBGGGGTC
T ss_pred             CCCCCCceEEeecCCCeEEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHhCCC--HHHEEEEECCEECCCCCcHHHcCC
Confidence            345678899999999999999999999999999999999999999999999988  999999999999999999999999


Q ss_pred             CCCCEEEEEEe
Q 012177          173 RNEAVIHLLVR  183 (469)
Q Consensus       173 ~~~svI~Lv~r  183 (469)
                       ++++|||++|
T Consensus        79 -~g~~i~lv~R   88 (88)
T 4eew_A           79 -GGKVIHLVER   88 (88)
T ss_dssp             -TTEEEEEEEC
T ss_pred             -CCcEEEEEEC
Confidence             8999999876

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

Probab=99.66  E-value=2.4e-16  Score=126.63  Aligned_cols=77  Identities=22%  Similarity=0.366  Sum_probs=72.6

Q ss_pred             CCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeeccc
Q 012177           31 NDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSD  108 (469)
Q Consensus        31 ~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd  108 (469)
                      +..|+|+| +++|++++++|.+++||.+||.+|++++|+|+++|+|+|+|+.|. |+.+|++|+|+++++|+|++++.+
T Consensus         2 ~~~m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~qrL~~~G~~L~-d~~tL~~~~i~~~~~l~l~~rl~G   79 (79)
T 3phx_B            2 DEPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLE-DQLPLGEYGLKPLSTVFMNLRLRG   79 (79)
T ss_dssp             -CCEEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHTCCGGGEEEEETTEECC-TTSBGGGGTCCTTCEEEEEECCBC
T ss_pred             CCCEEEEEEeCCCCEEEEEECCcChHHHHHHHHHhhcCCCHHHEEEEECCEECC-CCCcHHHCCCCCCCEEEEEEecCC
Confidence            35799999 779999999999999999999999999999999999999999998 899999999999999999998864

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

Probab=99.64  E-value=4.8e-16  Score=130.37  Aligned_cols=91  Identities=31%  Similarity=0.509  Sum_probs=72.8

Q ss_pred             EEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecccccee
Q 012177           34 ILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDLQAI  112 (469)
Q Consensus        34 M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~m~I  112 (469)
                      |+|+| +.+|+++.++|.+++||.+||.+|+++.|+|+++|+|+|+|+.|. |+.+|++|+|.++++|+|++++.++.++
T Consensus         1 M~I~Vk~~~g~~~~~~v~~~~TV~~LK~~I~~~~gi~~~~qrL~~~Gk~L~-D~~tL~~~gi~~g~~i~l~~~~~gG~~i   79 (98)
T 1yx5_B            1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLE-DGRTLSDYNIQKESTLHLVLRLRGGRDP   79 (98)
T ss_dssp             CEEEEEETTSCEEEEECCTTCBHHHHHHHHHHHTCCCGGGEEEEETTEECC-TTSBTGGGTCCTTCEEEEEECCCCC---
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcChhhEEEEECCEECC-CCCCHHHcCCCCCCEEEEEEeCCCCCcC
Confidence            89999 778999999999999999999999999999999999999999998 8999999999999999999999999999


Q ss_pred             eeeeecceeEEEE
Q 012177          113 TVTTVCGKVFEFH  125 (469)
Q Consensus       113 ~Vkt~~Gk~~~l~  125 (469)
                      +.+|.+|+.-.++
T Consensus        80 ~~~~v~~~~~~~~   92 (98)
T 1yx5_B           80 NSSSVDKLAAALE   92 (98)
T ss_dssp             -------------
T ss_pred             ccccCCCchhhhh
Confidence            9999998876554

>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=99.64  E-value=5.8e-16  Score=126.52  Aligned_cols=82  Identities=29%  Similarity=0.526  Sum_probs=76.6

Q ss_pred             CCCCCCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeee
Q 012177           27 EKLSNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLR  105 (469)
Q Consensus        27 ~~~~~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~Lvlr  105 (469)
                      ++.+..+|+|+| +++|++++++|.+++||.+||.+|+++.|+|+++|+|+|+|+.|. |+.+|.+|+|+++++|+|+++
T Consensus         6 ~~~~~~~m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~qrL~~~G~~L~-d~~tL~~~~i~~~~~i~l~~r   84 (88)
T 3dbh_I            6 SVGSGGSMLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMN-DEKTAADYKILGGSVLHLVLR   84 (88)
T ss_dssp             CSSCCCCEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCCEEETTEECC-TTSBGGGGTCCTTCEEEECCC
T ss_pred             CCCCCCcEEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHHCcCHHHEEEEECCeECC-CCCcHHHcCCCCCCEEEEEEe
Confidence            444578899999 679999999999999999999999999999999999999999998 899999999999999999999


Q ss_pred             cccc
Q 012177          106 LSDL  109 (469)
Q Consensus       106 Lsd~  109 (469)
                      +.++
T Consensus        85 l~GG   88 (88)
T 3dbh_I           85 LRGG   88 (88)
T ss_dssp             CCCC
T ss_pred             CCCC
Confidence            8764

>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=99.63  E-value=6.4e-16  Score=128.73  Aligned_cols=78  Identities=21%  Similarity=0.181  Sum_probs=70.3

Q ss_pred             eeeeccccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEE
Q 012177          102 LVLRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLL  181 (469)
Q Consensus       102 LvlrLsd~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv  181 (469)
                      |+...+..|+|+||+.+|+++.+++++++||.+||++|++++|+|  +++|+|+|+|+.|+|..+|.||+|+++++|+|.
T Consensus        14 ~~~~~~~mIqI~Vk~~~Gkk~~v~v~p~DTI~~LK~~I~~k~Gip--~~qQrLif~Gk~LkD~~TL~dY~I~dgstLhL~   91 (93)
T 3plu_A           14 LVPRGSHMIEVVVNDRLGKKVRVKCLGEDSVGDFKKVLSLQIGTQ--PNKIVLQKGGSVLKDHISLEDYEVHDQTNLELY   91 (93)
T ss_dssp             ------CEEEEEEECTTSCEEEEEEETTSBHHHHHHHHHHHHTCC--GGGEEEEETTEECCTTSBTGGGTCCTTCEEEEE
T ss_pred             ccCCCCceEEEEEECCCCCEEEEEECCcCHHHHHHHHHHHHhCCC--HHHEEEEeCCEEccCcCCHHHcCCCCCCEEEEE
Confidence            555667789999999999999999999999999999999999998  999999999999999999999999999999985

>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=99.62  E-value=9.6e-16  Score=126.33  Aligned_cols=76  Identities=28%  Similarity=0.544  Sum_probs=71.2

Q ss_pred             EEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeeccccc
Q 012177           34 ILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDLQ  110 (469)
Q Consensus        34 M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~m  110 (469)
                      |+|+| +++|++++++|.+++||.+||++|++++|+|+++|+|+|+|+.|. |+.+|++|+|+++++|+|++++.++.
T Consensus         1 M~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~-D~~tL~~~~i~~g~~l~l~~rl~Gg~   77 (88)
T 4fbj_B            1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMN-DEKTAADYKILGGSVLHLVLALRGGG   77 (88)
T ss_dssp             CEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECC-TTSBTTTTTCCTTCEEEEECBCC---
T ss_pred             CEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHHCcChhHEEEEECCeECC-CCCcHHHcCCCCCCEEEEEEECCCCC
Confidence            89999 789999999999999999999999999999999999999999998 89999999999999999999998875

>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=99.62  E-value=9.5e-16  Score=127.68  Aligned_cols=74  Identities=20%  Similarity=0.235  Sum_probs=69.3

Q ss_pred             CCCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeee
Q 012177           30 SNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVL  104 (469)
Q Consensus        30 ~~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~Lvl  104 (469)
                      .+.-|+|+| ++.|++++++|+++|||.+||++|++++|+|+++|+|+|+|++|. |+.+|++|+|++|++|+|..
T Consensus        18 ~~~mIqI~Vk~~~Gkk~~v~v~p~DTI~~LK~~I~~k~Gip~~qQrLif~Gk~Lk-D~~TL~dY~I~dgstLhL~~   92 (93)
T 3plu_A           18 GSHMIEVVVNDRLGKKVRVKCLGEDSVGDFKKVLSLQIGTQPNKIVLQKGGSVLK-DHISLEDYEVHDQTNLELYY   92 (93)
T ss_dssp             --CEEEEEEECTTSCEEEEEEETTSBHHHHHHHHHHHHTCCGGGEEEEETTEECC-TTSBTGGGTCCTTCEEEEEE
T ss_pred             CCceEEEEEECCCCCEEEEEECCcCHHHHHHHHHHHHhCCCHHHEEEEeCCEEcc-CcCCHHHcCCCCCCEEEEEe
Confidence            367799999 789999999999999999999999999999999999999999998 89999999999999999863

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

Probab=99.62  E-value=1.4e-15  Score=125.75  Aligned_cols=78  Identities=36%  Similarity=0.637  Sum_probs=73.7

Q ss_pred             CCCCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecc
Q 012177           29 LSNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLS  107 (469)
Q Consensus        29 ~~~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLs  107 (469)
                      -+...|+|+| +++|+++.++|.+++||.+||.+|++++|+|+++|+|+|+|+.|. |+.+|.+|||++|++|+|++|++
T Consensus        13 ~~~~~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           13 VPRGSMQIFVNTLTGTHITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLE-DGRTLSDYNIQKESTLHLVLRLR   91 (91)
T ss_dssp             CCCCSEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECC-TTCBTGGGTCCTTCEEEEECCCC
T ss_pred             CCCCeEEEEEEeCCCCEEEEEECCCCCHHHHHHHHHhhhCCChhhEEEEECCeECC-CcCcHHHCCCCCCCEEEEEEecC
Confidence            3478899999 789999999999999999999999999999999999999999998 89999999999999999999864

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

Probab=99.62  E-value=1.5e-15  Score=121.91  Aligned_cols=75  Identities=20%  Similarity=0.171  Sum_probs=72.0

Q ss_pred             ccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEee
Q 012177          108 DLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       108 d~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rk  184 (469)
                      ..|+|+||+.+|+++.++|++++||.+||++|+++.|+|  +++|+|+|+|+.|+|+++|++|+|+++++|||++|.
T Consensus         3 ~~m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip--~~~qrL~~~G~~L~d~~tL~~~~i~~~~~l~l~~rl   77 (79)
T 3phx_B            3 EPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQ--DDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNLRL   77 (79)
T ss_dssp             CCEEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHTCC--GGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEECC
T ss_pred             CCEEEEEEeCCCCEEEEEECCcChHHHHHHHHHhhcCCC--HHHEEEEECCEECCCCCcHHHCCCCCCCEEEEEEec
Confidence            569999999999999999999999999999999999988  999999999999999999999999999999999873

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

Probab=99.60  E-value=1.8e-15  Score=127.10  Aligned_cols=81  Identities=33%  Similarity=0.579  Sum_probs=73.1

Q ss_pred             CCCCCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeec
Q 012177           28 KLSNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRL  106 (469)
Q Consensus        28 ~~~~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrL  106 (469)
                      +..++.|+|+| +.+|+++.++|.+++||.+||++|+++.|+|+++|+|+|+|+.|. |+.+|++|+|+++++|+|++++
T Consensus        17 ~~~~~~m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~-D~~tL~~~~i~~g~~i~l~~rl   95 (98)
T 4hcn_B           17 YFQGRPMQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLE-DGRTLSDYNIQKESTLHLVLRL   95 (98)
T ss_dssp             -----CCEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECC-TTCBSGGGTCCTTEEEEEECBC
T ss_pred             CCCCCeEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHhCCChhHEEEEECCEECC-CCCcHHHCCCCCCCEEEEEEec
Confidence            34588899999 789999999999999999999999999999999999999999998 8999999999999999999998


Q ss_pred             ccc
Q 012177          107 SDL  109 (469)
Q Consensus       107 sd~  109 (469)
                      .++
T Consensus        96 ~GG   98 (98)
T 4hcn_B           96 RGG   98 (98)
T ss_dssp             SCC
T ss_pred             CCC
Confidence            764

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

Probab=99.59  E-value=2.4e-15  Score=123.23  Aligned_cols=75  Identities=20%  Similarity=0.297  Sum_probs=71.2

Q ss_pred             CCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCee-cccCCccccccCccCccceeeeeec
Q 012177           31 NDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRE-LARSNSRVRDYGLADGNVLHLVLRL  106 (469)
Q Consensus        31 ~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~-L~~D~~tL~dygI~~gstl~LvlrL  106 (469)
                      ...|+|+| +++|++++++|.+++||.+||++|++++|+|+++|+|+|+|++ |+ |+.+|++|+|+++++|+|++++
T Consensus         8 ~~~~~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            8 HSHMKFLVENLNGSSFELEVDYRDTLLVVKQKIERSQHIPVSKQTLIVDGIVILR-EDLTVEQCQIVPTSDIQLEVSS   84 (84)
T ss_dssp             CCCEEEEEEETTSCEEEEEECTTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCC-SSSBHHHHTCCTTSCEEEEECC
T ss_pred             cCceEEEEEecCCcEEEEEECCCChHHHHHHHHHHHHCcChHHEEEEECCEEecC-CcCCHHHcCCCCCCEEEEEEcC
Confidence            56799999 8999999999999999999999999999999999999999999 97 8999999999999999998763

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

Probab=99.59  E-value=5.2e-15  Score=118.81  Aligned_cols=78  Identities=22%  Similarity=0.433  Sum_probs=73.1

Q ss_pred             CCCCCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeec
Q 012177           28 KLSNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRL  106 (469)
Q Consensus        28 ~~~~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrL  106 (469)
                      ++++..|+|+| +.+|+++.++|.+++||.+||.+|+++.|+|+++|+|+|+|+.|. |+.+|++|||++|++|+|++++
T Consensus         2 ~~~~~~m~i~vk~~~g~~~~~~v~~~~tV~~LK~~i~~~~~i~~~~qrL~~~gk~L~-d~~tL~~~~i~~g~~i~l~~~~   80 (81)
T 2dzi_A            2 SSGSSGMQLTVKALQGRECSLQVPEDELVSTLKQLVSEKLNVPVRQQRLLFKGKALA-DGKRLSDYSIGPNSKLNLVVKP   80 (81)
T ss_dssp             CCSSSSEEEEEEETTSCEEEEEECSSCBHHHHHHHHHHHTCCCTTTCEEEETTEECC-TTSBGGGGTCCSSBCCEEECCC
T ss_pred             CCCCCcEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcCHHHEEEEECCeECC-CCCcHHHcCCCCCCEEEEEEeC
Confidence            34578899999 778999999999999999999999999999999999999999998 8999999999999999999876

>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=99.59  E-value=1.8e-15  Score=121.50  Aligned_cols=77  Identities=17%  Similarity=0.305  Sum_probs=72.6

Q ss_pred             CCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecccc
Q 012177           32 DSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDL  109 (469)
Q Consensus        32 ~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~  109 (469)
                      +.|+|+| +++|+++.++|.+++||.+||.+|+++.|+|+++|+|+|+|++|. |+.+|++|+|+++++|+|++++.++
T Consensus         2 ~~m~i~vk~~~g~~~~~~v~~~~tv~~lk~~i~~~~gi~~~~qrL~~~G~~L~-d~~tl~~~~i~~~~~i~l~~~~~GG   79 (79)
T 2uyz_B            2 EYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIA-DNHTPKELGMEEEDVIEVYQEQTGG   79 (79)
T ss_dssp             CEEEEEEECTTCCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECC-TTCCHHHHTCCTTEEEEEEECCCC-
T ss_pred             CeEEEEEECCCCCEEEEEECCCChHHHHHHHHHHHHCCCcccEEEEECCEEeC-CCCCHHHcCCCCCCEEEEEEeccCC
Confidence            4699999 789999999999999999999999999999999999999999998 8999999999999999999988764

>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=99.58  E-value=4.3e-15  Score=118.82  Aligned_cols=76  Identities=26%  Similarity=0.253  Sum_probs=71.3

Q ss_pred             ccceeeeeeecceeE-EEE-eecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeC
Q 012177          108 DLQAITVTTVCGKVF-EFH-VERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKS  185 (469)
Q Consensus       108 d~m~I~Vkt~~Gk~~-~l~-V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks  185 (469)
                      +.|+|+|++.+|+++ .++ |++++||.+||++|+++.|+|  +++|+|+|+|+.|+|+++|++|+|+++++|||++|.+
T Consensus         1 g~m~i~Vk~~~g~~~~~l~~v~~~~tv~~lK~~i~~~~gip--~~~qrL~~~g~~L~d~~tL~~~~i~~g~~i~l~~r~~   78 (78)
T 2faz_A            1 GSMWIQVRTMDGRQTHTVDSLSRLTKVEELRRKIQELFHVE--PGLQRLFYRGKQMEDGHTLFDYEVRLNDTIQLLVRQS   78 (78)
T ss_dssp             -CEEEEEEETTSSCEEEEEEECTTCBHHHHHHHHHHHHCCC--GGGEEEEETTEECCTTCBTTTTTCCTTCEEEEEECCC
T ss_pred             CcEEEEEEECCCCEEEEEeccCCCCCHHHHHHHHHHHHCcC--hhhEEEEECCEECCCCCCHHHcCCCCCCEEEEEEeCC
Confidence            468999999999985 899 999999999999999999988  9999999999999999999999999999999998753

>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=99.58  E-value=4.9e-15  Score=121.98  Aligned_cols=77  Identities=23%  Similarity=0.423  Sum_probs=72.0

Q ss_pred             CCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecccc
Q 012177           31 NDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDL  109 (469)
Q Consensus        31 ~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~  109 (469)
                      +..|+|+| +++|+++.++|.+++||.+||.+|++++|+|+++|+|+|+|+.|. |+.+|.+|+| ++++|||+++.+..
T Consensus         3 ~~~m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~qrLi~~Gk~L~-d~~tL~~~~i-~g~~i~l~~~~~~~   80 (90)
T 4dwf_A            3 PDSLEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQ-DDKKLQEYNV-GGKVIHLVERAPPQ   80 (90)
T ss_dssp             CCEEEEEEEETTCCEEEEEEETTCBHHHHHHHHHHHHTCCGGGEEEEETTEECC-TTSBGGGGTC-TTEEEEEEECCCC-
T ss_pred             CcEEEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHhCCCHHHEEEEECCeECC-CCCCHHHcCC-CCcEEEEEecCCCC
Confidence            46899999 789999999999999999999999999999999999999999998 8999999999 89999999987643

>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=99.58  E-value=6.1e-15  Score=120.37  Aligned_cols=80  Identities=23%  Similarity=0.336  Sum_probs=75.3

Q ss_pred             CCCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeeccc
Q 012177           30 SNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSD  108 (469)
Q Consensus        30 ~~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd  108 (469)
                      +...|+|+| +++|+++.++|.+++||.+||++|++++|+|+++|+|+|+|+.|. |+.+|++|+|.++++|+|++++.+
T Consensus         4 ~~~~m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi~~~~qrL~~~Gk~L~-d~~tL~~~~i~~g~~i~l~~~~~G   82 (87)
T 1wh3_A            4 GSSGIQVFVKNPDGGSYAYAINPNSFILGLKQQIEDQQGLPKKQQQLEFQGQVLQ-DWLGLGIYGIQDSDTLILSKKKGS   82 (87)
T ss_dssp             CSSSEEEEEEETTTEEEEEEECSSSBHHHHHHHHHHHTCCCTTTEEEEETTEECC-SSSBHHHHTCCTTEEEEEEECSCC
T ss_pred             CCCCEEEEEEcCCCCEEEEEeCCCChHHHHHHHHHHHhCCChHHEEEEECCEEcc-CCCCHHHCCCCCCCEEEEEEeccC
Confidence            357899999 778999999999999999999999999999999999999999998 899999999999999999999887


Q ss_pred             cc
Q 012177          109 LQ  110 (469)
Q Consensus       109 ~m  110 (469)
                      +.
T Consensus        83 G~   84 (87)
T 1wh3_A           83 GP   84 (87)
T ss_dssp             CS
T ss_pred             CC
Confidence            63

>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=99.58  E-value=5e-15  Score=118.48  Aligned_cols=75  Identities=17%  Similarity=0.327  Sum_probs=69.8

Q ss_pred             CCEEEEE-EeCCeEE-EEE-eCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecc
Q 012177           32 DSILIFL-SVGGSVI-PMR-VMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLS  107 (469)
Q Consensus        32 ~~M~I~V-~l~G~~~-~l~-V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLs  107 (469)
                      ..|+|+| +.+|+++ +++ |.+++||.+||.+|++++|+|+++|+|+|+|+.|. |+.+|++|+|.++++|||+++++
T Consensus         1 g~m~i~Vk~~~g~~~~~l~~v~~~~tv~~lK~~i~~~~gip~~~qrL~~~g~~L~-d~~tL~~~~i~~g~~i~l~~r~~   78 (78)
T 2faz_A            1 GSMWIQVRTMDGRQTHTVDSLSRLTKVEELRRKIQELFHVEPGLQRLFYRGKQME-DGHTLFDYEVRLNDTIQLLVRQS   78 (78)
T ss_dssp             -CEEEEEEETTSSCEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECC-TTCBTTTTTCCTTCEEEEEECCC
T ss_pred             CcEEEEEEECCCCEEEEEeccCCCCCHHHHHHHHHHHHCcChhhEEEEECCEECC-CCCCHHHcCCCCCCEEEEEEeCC
Confidence            3699999 7789885 999 99999999999999999999999999999999998 89999999999999999998763

>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=99.58  E-value=6.6e-15  Score=120.80  Aligned_cols=81  Identities=16%  Similarity=0.326  Sum_probs=75.0

Q ss_pred             CCCCCEEEEE-EeCC-eEEEE-EeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeee
Q 012177           29 LSNDSILIFL-SVGG-SVIPM-RVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLR  105 (469)
Q Consensus        29 ~~~~~M~I~V-~l~G-~~~~l-~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~Lvlr  105 (469)
                      .+...|+|+| ++.| +++++ +|.+++||.+||.+|++++|+|+++|+|+|+|+.|. |+.+|++|+|.++++|||+++
T Consensus         3 ~~~~~m~i~Vk~~~g~~~~~l~~v~~~~tV~~lK~~i~~~~gip~~~qrL~~~gk~L~-d~~tL~~~~i~~g~~i~l~~~   81 (89)
T 1wy8_A            3 SGSSGMWIQVRTIDGSKTCTIEDVSRKATIEELRERVWALFDVRPECQRLFYRGKQLE-NGYTLFDYDVGLNDIIQLLVR   81 (89)
T ss_dssp             CCSSCEEEEEEETTCSCEEEEEEECTTCBHHHHHHHHHHHSCCCTTTEEEEETTEECC-SSSBHHHHTCCTTCEEEEEEC
T ss_pred             CCCCcEEEEEEECCCCceEEEEecCCCCCHHHHHHHHHHHHCcChhhEEEEECCeECC-CCCCHHHCCCCCCCEEEEEEe
Confidence            3468899999 7788 79999 599999999999999999999999999999999998 899999999999999999999


Q ss_pred             ccccc
Q 012177          106 LSDLQ  110 (469)
Q Consensus       106 Lsd~m  110 (469)
                      +.++.
T Consensus        82 ~~gG~   86 (89)
T 1wy8_A           82 PDSGP   86 (89)
T ss_dssp             CCCSS
T ss_pred             CCCCC
Confidence            87763

>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=99.57  E-value=5.1e-15  Score=117.01  Aligned_cols=75  Identities=28%  Similarity=0.556  Sum_probs=70.1

Q ss_pred             EEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecccc
Q 012177           34 ILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDL  109 (469)
Q Consensus        34 M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~  109 (469)
                      |+|+| +.+|+++.++|.+++||.+||.+|+++.|+|++.|+|+|+|+.|. |+.+|++|+|++++++++++++.++
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 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMN-DEKTAADYKILGGSVLHLVLALRGG   76 (76)
T ss_dssp             CEEEEECTTSCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECC-TTSBGGGGTCCTTCEEEEEECCC--
T ss_pred             CEEEEECCCCCEEEEEECCCChHHHHHHHHHHHHCcChHHEEEEECCEECC-CCCcHHHcCCCCCCEEEEEEeCCCC
Confidence            89999 668999999999999999999999999999999999999999997 8999999999999999999988764

>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=99.57  E-value=5.8e-15  Score=121.50  Aligned_cols=78  Identities=27%  Similarity=0.294  Sum_probs=72.3

Q ss_pred             ccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeCCc
Q 012177          108 DLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKSAK  187 (469)
Q Consensus       108 d~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks~k  187 (469)
                      ..|+|+||+.+|+++.++|++++||.+||++|+++.+++  +++|+|+|+|+.|+|+++|.+|+| ++++|||+++....
T Consensus         4 ~~m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip--~~~qrLi~~Gk~L~d~~tL~~~~i-~g~~i~l~~~~~~~   80 (90)
T 4dwf_A            4 DSLEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIP--SEKQRLIYQGRVLQDDKKLQEYNV-GGKVIHLVERAPPQ   80 (90)
T ss_dssp             CEEEEEEEETTCCEEEEEEETTCBHHHHHHHHHHHHTCC--GGGEEEEETTEECCTTSBGGGGTC-TTEEEEEEECCCC-
T ss_pred             cEEEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHhCCC--HHHEEEEECCeECCCCCCHHHcCC-CCcEEEEEecCCCC
Confidence            468999999999999999999999999999999999988  999999999999999999999999 89999999986654


Q ss_pred             c
Q 012177          188 V  188 (469)
Q Consensus       188 v  188 (469)
                      .
T Consensus        81 ~   81 (90)
T 4dwf_A           81 T   81 (90)
T ss_dssp             -
T ss_pred             C
Confidence            3

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

Probab=99.57  E-value=7.8e-15  Score=122.64  Aligned_cols=81  Identities=17%  Similarity=0.301  Sum_probs=74.2

Q ss_pred             CCCCCCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCC-ccccccCccCccceeeee
Q 012177           27 EKLSNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSN-SRVRDYGLADGNVLHLVL  104 (469)
Q Consensus        27 ~~~~~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~-~tL~dygI~~gstl~Lvl  104 (469)
                      +..+...|+|+| ++++ +++++|.+++||.+||.+|++++|+|+++|+|+|.|+.|. |+ .+|++|+|+++++|+|++
T Consensus         9 ~~~~~~~~~I~Vk~~~~-~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~-D~~~tL~~ygI~~gstl~lv~   86 (94)
T 2kan_A            9 SHAAVRKIHVTVKFPSK-QFTVEVDRTETVSSLKDKIHIVENTPIKRMQLYYSGIELA-DDYRNLNEYGITEFSEIVVFL   86 (94)
T ss_dssp             SCSSSCCEEEEEECSSC-EEEEEECTTCBHHHHHHHHHHHSSSCTTTEEEEETTEEEC-CTTSBHHHHTCCTTEEEEEEE
T ss_pred             cccCCCCEEEEEEcCCc-EEEEEECCCCcHHHHHHHHHHHHCcCHHHEEEEECCEECC-CCcccHHHCCCCCCCEEEEEE
Confidence            344578899999 6666 8999999999999999999999999999999999999998 77 999999999999999999


Q ss_pred             ecccc
Q 012177          105 RLSDL  109 (469)
Q Consensus       105 rLsd~  109 (469)
                      ++.++
T Consensus        87 r~~gg   91 (94)
T 2kan_A           87 KSINR   91 (94)
T ss_dssp             CCCSS
T ss_pred             eCCCC
Confidence            98765

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

Probab=99.57  E-value=5e-15  Score=121.29  Aligned_cols=74  Identities=24%  Similarity=0.261  Sum_probs=71.0

Q ss_pred             ccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEE-cCCCCcccccCCCCCCEEEEEEe
Q 012177          108 DLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEE-LEDQRLITDICKRNEAVIHLLVR  183 (469)
Q Consensus       108 d~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~-LeD~~tL~dy~I~~~svI~Lv~r  183 (469)
                      .-|.|+|++.+|+++.++|++++||++||++|+++.|+|  +++|+|+|+|+. |+|+++|++|+|+++++|+|+++
T Consensus         9 ~~~~i~vk~l~g~~~~l~v~~~~TV~~LK~~I~~~~gip--~~~QrLi~~Gk~lL~D~~tL~~y~I~~gs~i~lv~~   83 (84)
T 2kk8_A            9 SHMKFLVENLNGSSFELEVDYRDTLLVVKQKIERSQHIP--VSKQTLIVDGIVILREDLTVEQCQIVPTSDIQLEVS   83 (84)
T ss_dssp             CCEEEEEEETTSCEEEEEECTTSBHHHHHHHHHHHHTCC--GGGEEEEETTEECCCSSSBHHHHTCCTTSCEEEEEC
T ss_pred             CceEEEEEecCCcEEEEEECCCChHHHHHHHHHHHHCcC--hHHEEEEECCEEecCCcCCHHHcCCCCCCEEEEEEc
Confidence            358999999999999999999999999999999999988  999999999999 99999999999999999999876

>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=99.57  E-value=4.7e-15  Score=120.17  Aligned_cols=77  Identities=30%  Similarity=0.506  Sum_probs=70.8

Q ss_pred             CCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecccc
Q 012177           32 DSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDL  109 (469)
Q Consensus        32 ~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~  109 (469)
                      ..|+|+| +.+|++++++|.+++||.+||++|++++++|+++|+|+|+|+.|. |+.+|++|+|+++++|+|++++.++
T Consensus         2 s~m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~~ip~~~qrL~~~g~~L~-d~~tL~~~~i~~~~~i~l~~rl~GG   79 (85)
T 3n3k_B            2 SHMRIVVKTLMGRTIILEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLE-DGRTLSDYNIHNHSALYLLLKLRGG   79 (85)
T ss_dssp             --CEEEEECGGGCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETBEECC-TTCBTTTTTCCTTCEEEEEECCC--
T ss_pred             CeEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCeECC-CCCCHHHCCCCCCCEEEEEEeccCC
Confidence            4699999 678999999999999999999999999999999999999999998 8999999999999999999998765

>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=99.56  E-value=2.4e-15  Score=128.45  Aligned_cols=81  Identities=20%  Similarity=0.431  Sum_probs=74.0

Q ss_pred             CCCCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCc---------------ceEEEEcCeecccCCcccccc
Q 012177           29 LSNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVK---------------KQKLVFEGRELARSNSRVRDY   92 (469)
Q Consensus        29 ~~~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~---------------~QrLvf~Gk~L~~D~~tL~dy   92 (469)
                      ++...|+|+| +++|++++++|.+++||.+||++|+++.++|+.               +|+|+|+|+.|.+|+.+|++|
T Consensus         3 ~~~~~M~I~Vk~l~g~~~~v~V~~~~TV~dLK~~I~~~~~i~~~~q~g~~~isw~~~w~q~~Li~~Gk~L~dD~~tL~dy   82 (105)
T 1v2y_A            3 SGSSGMTVRVCKMDGEVMPVVVVQNATVLDLKKAIQRYVQLKQEREGGVQHISWSYVWRTYHLTSAGEKLTEDRKKLRDY   82 (105)
T ss_dssp             CCCCSEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHHHHHHHTTCCCCCCHHHHHTTEEEESSSCEECCSSSBHHHH
T ss_pred             CCCCcEEEEEEecCCCEEEEEECCCChHHHHHHHHHHHhCCCcccccCcceeeeeecceeEEEEeCCcCccCCcCCHHHc
Confidence            3467799999 899999999999999999999999999999873               579999999998677999999


Q ss_pred             CccCccceeeeeecccc
Q 012177           93 GLADGNVLHLVLRLSDL  109 (469)
Q Consensus        93 gI~~gstl~LvlrLsd~  109 (469)
                      ||+++++||+++++++.
T Consensus        83 gI~~g~~l~lv~~lr~~   99 (105)
T 1v2y_A           83 GIRNRDEVSFIKKLGQK   99 (105)
T ss_dssp             TCCSSEEEEEEECSCSC
T ss_pred             CCCCCCEEEEEehhccC
Confidence            99999999999998764

>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=99.56  E-value=4e-15  Score=124.91  Aligned_cols=79  Identities=16%  Similarity=0.299  Sum_probs=74.3

Q ss_pred             CCCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeeccc
Q 012177           30 SNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSD  108 (469)
Q Consensus        30 ~~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd  108 (469)
                      +...|+|+| +++|++++++|.+++||.+||.+|+++.|+|+.+|+|+|+|++|. |+.+|++|+|+++++|+|++++.+
T Consensus        18 ~~~~m~I~Vk~~~g~~~~l~v~~~~tv~~lK~~i~~~~gip~~~qrLif~Gk~L~-d~~tl~dy~i~~g~~I~l~~~~~G   96 (97)
T 1wyw_B           18 EGEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIA-DNHTPKELGMEEEDVIEVYQEQTG   96 (97)
T ss_dssp             -CCEEEEEEECTTCCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECC-TTCCHHHHTCCTTCEEEEEESSSC
T ss_pred             CCCcEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCChhhEEEEECCeEcC-CCCCHHHCCCCCCCEEEEEEecCC
Confidence            366799999 789999999999999999999999999999999999999999998 899999999999999999999876


Q ss_pred             c
Q 012177          109 L  109 (469)
Q Consensus       109 ~  109 (469)
                      +
T Consensus        97 G   97 (97)
T 1wyw_B           97 G   97 (97)
T ss_dssp             C
T ss_pred             C
Confidence            4

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

Probab=99.56  E-value=3.6e-15  Score=122.78  Aligned_cols=78  Identities=22%  Similarity=0.342  Sum_probs=70.7

Q ss_pred             CCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecccc
Q 012177           31 NDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDL  109 (469)
Q Consensus        31 ~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~  109 (469)
                      +..|+|+| +++|++++++|.+++||.+||.+|++++|+|+++|+|+|+|+.|. |+.+|++|+|+++++|+|++++.++
T Consensus         2 ~~~m~I~Vk~~~g~~~~~~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~-D~~tL~~~~I~~g~~i~l~~~~~gg   80 (88)
T 2hj8_A            2 DEPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLE-DQLPLGEYGLKPLSTVFMNLRLRGG   80 (88)
T ss_dssp             CCEEEEEEEETTSCEEEEEEESSSBHHHHHHHHHHHTCSCTTTEEEESSSSCCC-TTSBHHHHHCSTTCEEEEEEC----
T ss_pred             CccEEEEEECCCCCEEEEEECCCCcHHHHHHHHHHHhCCChhHEEEEECCEECC-CCCcHHHcCCCCCCEEEEEEEcCCC
Confidence            35799999 778999999999999999999999999999999999999999998 8999999999999999999988765

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

Probab=99.56  E-value=8.6e-15  Score=120.01  Aligned_cols=73  Identities=25%  Similarity=0.460  Sum_probs=69.6

Q ss_pred             CCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeee
Q 012177           31 NDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLR  105 (469)
Q Consensus        31 ~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~Lvlr  105 (469)
                      +..|+|+| +++|+++.++|.+++||.+||.+|++++|+|+++|+|+|+|+.|. |+.+|++|+| +|++|||++|
T Consensus        15 ~~~m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~qrLi~~Gk~L~-D~~tL~~~~i-~g~~i~lv~R   88 (88)
T 4eew_A           15 PDSLEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQ-DDKKLQEYNV-GGKVIHLVER   88 (88)
T ss_dssp             CCEEEEEEEETTSCEEEEEEETTCBHHHHHHHHHHHHTCCGGGEEEEETTEECC-TTSBGGGGTC-TTEEEEEEEC
T ss_pred             CCeEEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHhCCCHHHEEEEECCEECC-CCCcHHHcCC-CCcEEEEEEC
Confidence            67799999 778999999999999999999999999999999999999999998 8999999999 8999999875

>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=99.56  E-value=8.7e-15  Score=121.78  Aligned_cols=79  Identities=34%  Similarity=0.623  Sum_probs=72.0

Q ss_pred             CEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeeccccce
Q 012177           33 SILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDLQA  111 (469)
Q Consensus        33 ~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~m~  111 (469)
                      .|+|+| +++|+++.++|.+++||.+||.+|++++|+|++.|+|+|+|+.|. |+.+|++|+|.++++|+|++++.++..
T Consensus         1 gm~i~vk~~~g~~~~~~v~~~~TV~~LK~~i~~~~gip~~~qrL~~~G~~L~-d~~tL~~~~i~~~~~i~l~~r~~gG~~   79 (96)
T 3k9o_B            1 GMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLE-DGRTLSDYNIQKESTLHLVLRLRGYAD   79 (96)
T ss_dssp             -CEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECC-TTSBTGGGTCCTTCEEEEEECCCC---
T ss_pred             CcEEEEEeCCCCEEEEEECCCCCHHHHHHHHHhhhCCChhHEEEEECCEECC-CCCcHHHcCCCCCCEEEEEEEcCCCCc
Confidence            389999 789999999999999999999999999999999999999999998 899999999999999999999998865


Q ss_pred             e
Q 012177          112 I  112 (469)
Q Consensus       112 I  112 (469)
                      .
T Consensus        80 ~   80 (96)
T 3k9o_B           80 L   80 (96)
T ss_dssp             -
T ss_pred             c
Confidence            4

>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=99.56  E-value=8.1e-15  Score=118.60  Aligned_cols=77  Identities=32%  Similarity=0.563  Sum_probs=72.7

Q ss_pred             CCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecccc
Q 012177           32 DSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDL  109 (469)
Q Consensus        32 ~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~  109 (469)
                      ..|+|+| +.+|+++.++|.+++||.+||++|+++.++|+++|+|+|+|+.|. |+.+|++|+|+++++|+|++++.++
T Consensus         2 s~m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~~i~~~~qrL~~~g~~L~-d~~tL~~~~i~~~~~l~l~~r~~GG   79 (85)
T 3mtn_B            2 SHMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLE-DGRTLSDYNIQKWSTLFLLLRLRGG   79 (85)
T ss_dssp             -CEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECC-TTSBTGGGTCCTTCEEEEECCCCCC
T ss_pred             CeEEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHHCcChHHEEEEECCEECC-CCCCHHHcCCCCCCEEEEEEECcCC
Confidence            4699999 778999999999999999999999999999999999999999998 8999999999999999999998765

>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=99.56  E-value=1.1e-14  Score=115.03  Aligned_cols=75  Identities=36%  Similarity=0.621  Sum_probs=71.3

Q ss_pred             EEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecccc
Q 012177           34 ILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDL  109 (469)
Q Consensus        34 M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~  109 (469)
                      |+|+| +.+|+++.++|.+++||.+||.+|+++.|+|+++|+|+|+|+.|. |+.+|++|+|.+++++++++++.++
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 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLE-DGRTLSDYNIQRESTLHLVLRLRGG   76 (76)
T ss_dssp             CEEEEEETTSCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECC-TTCBTGGGTCCTTCEEEEEECCCCC
T ss_pred             CEEEEEcCCCCEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCeECC-CCCcHHHcCCCCCCEEEEEEeCCCC
Confidence            89999 678999999999999999999999999999999999999999998 8999999999999999999998764

>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=99.56  E-value=7.6e-15  Score=120.90  Aligned_cols=75  Identities=25%  Similarity=0.377  Sum_probs=71.0

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeCC
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKSA  186 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks~  186 (469)
                      |+|+|++.+|+++.++|++++||.+||++|+++.++|  +++|+|+|+|+.|+|+.+|++|+|+++++|+|++|...
T Consensus         1 M~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip--~~~qrLi~~Gk~L~D~~tL~~~~i~~g~~l~l~~rl~G   75 (88)
T 4fbj_B            1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIP--PQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLALRG   75 (88)
T ss_dssp             CEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCC--GGGCEEEETTEECCTTSBTTTTTCCTTCEEEEECBCC-
T ss_pred             CEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHHCcC--hhHEEEEECCeECCCCCcHHHcCCCCCCEEEEEEECCC
Confidence            7899999999999999999999999999999999988  99999999999999999999999999999999988443

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

Probab=99.56  E-value=1e-14  Score=134.60  Aligned_cols=98  Identities=31%  Similarity=0.488  Sum_probs=82.5

Q ss_pred             EEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecccccee
Q 012177           34 ILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDLQAI  112 (469)
Q Consensus        34 M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~m~I  112 (469)
                      |+|+| +++|++++++|.+++||.+||.+|++++|+|+++|+|+|+|++|. |+.+|++|+|+++++|||++++.++...
T Consensus         1 MqI~Vk~~~Gk~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~-D~~tL~~y~I~~gstI~Lvlrl~GG~k~   79 (169)
T 3l0w_B            1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLE-DGRTLSDYNIQKESTLHLVLRLRGGGGE   79 (169)
T ss_dssp             CEEEEEETTSCEEEEECCTTCBHHHHHHHHHHHHCCCTTTEEEEETTEECC-TTSBGGGGTCCTTCEEEEEECCCC---C
T ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHHCcCHHHEEEEECCcccc-CcCcHHHcCCCCCCEEEEEEEecccccc
Confidence            89999 889999999999999999999999999999999999999999998 8999999999999999999999998877


Q ss_pred             eeeeec-ce--eEEEEeecCchH
Q 012177          113 TVTTVC-GK--VFEFHVERGRNV  132 (469)
Q Consensus       113 ~Vkt~~-Gk--~~~l~V~~~~TV  132 (469)
                      .|+... |.  +-.+.+.++.++
T Consensus        80 ~vkfs~~Gd~g~~~i~l~~~~~~  102 (169)
T 3l0w_B           80 TIKFVADGDIGSGSVIIKPFVDM  102 (169)
T ss_dssp             CEEEEEECSSCEEEEEECCBCCS
T ss_pred             cccccccCcccceeEEEecCCCC
Confidence            776542 22  233455454444

>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=99.55  E-value=4.4e-15  Score=125.64  Aligned_cols=73  Identities=21%  Similarity=0.176  Sum_probs=68.8

Q ss_pred             CCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeee
Q 012177           31 NDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVL  104 (469)
Q Consensus        31 ~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~Lvl  104 (469)
                      ...|+|+| ++.|++++++|.+++||.+||++|++++|+|+++|+|+|+|++|. |+.+|.+|+|+++++|+|+.
T Consensus        26 ~~mm~I~VKtl~Gk~i~lev~p~dTV~~lK~~Ia~k~Gip~~qQrLi~~Gk~L~-D~~TL~dygI~~gstlhL~~   99 (100)
T 1uh6_A           26 ATMIEVVCNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTRWNKIVLKKWYTIFK-DHVSLGDYEIHDGMNLELYY   99 (100)
T ss_dssp             CCEEEEEEECSSSSCEEEEEETTSBHHHHHHHHHHHHCCCGGGCEEEETTEECC-SSCBHHHHTCCTTEEEEEEC
T ss_pred             CCeEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCHHHEEEEECCEECC-CCCCHHHcCCCCCCEEEEEe
Confidence            34499999 788999999999999999999999999999999999999999997 89999999999999999874

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

Probab=99.55  E-value=9.1e-15  Score=120.44  Aligned_cols=77  Identities=30%  Similarity=0.582  Sum_probs=68.7

Q ss_pred             CCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecccc
Q 012177           32 DSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDL  109 (469)
Q Consensus        32 ~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~  109 (469)
                      ..|+|+| +++|+++.++|.+++||.+||.+|+++.|+|+++|+|+|+|+.|. |+.+|++|+|.++++|+|++++.++
T Consensus         8 ~~~~i~v~~~~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~-D~~tL~~~gi~~g~~i~l~~r~~GG   85 (88)
T 1sif_A            8 QGLQLFIKTLTGKTFTVEMEPSDTIENLKAKIQDKEGIPPDQQRLIFAGKQLE-DGRTLSDYNIQKESTLHLVLRLRGG   85 (88)
T ss_dssp             --CEEEEEETTSCEEEEECCTTSBHHHHHHHHHHHHCCCGGGCEEEETTEECC-TTSBSGGGTCCTTCEEEEEC-----
T ss_pred             cceEEEEEeCCCCEEEEEECCCChHHHHHHHHHHHHCcChhhEEEEECCEECC-CCCcHHHcCCCCCCEEEEEEeCCCC
Confidence            4699999 899999999999999999999999999999999999999999998 8999999999999999999998765

>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=99.55  E-value=1.6e-14  Score=117.21  Aligned_cols=77  Identities=23%  Similarity=0.302  Sum_probs=70.8

Q ss_pred             cccceeeeeeecceeEEEEeecCchHHHHHHHHHHh---cCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEe
Q 012177          107 SDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKK---GREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVR  183 (469)
Q Consensus       107 sd~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~---~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~r  183 (469)
                      +..|+|+|++.+|+.+.++|++++||.+||++|++.   .+++  +++|+|+|+|+.|+|+++|++|+|+++++|+|+.+
T Consensus         3 ~~~m~i~vk~~~g~~~~~~v~~~~TV~~lK~~i~~~~~~~gip--~~~qrLi~~Gk~L~D~~tL~~~~i~~g~~i~l~~~   80 (85)
T 2wyq_A            3 PMAVTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFP--VAGQKLIYAGKILSDDVPIRDYRIDEKNFVVVMVT   80 (85)
T ss_dssp             -CCEEEEEEETTSCEEEEEECTTSBHHHHHHHHHHHHCTTTCC--GGGEEEEETTEECCTTSBGGGGCCCTTSEEEEEEC
T ss_pred             CceEEEEEEECCCCEEEEEECCCCCHHHHHHHHHhhccccCCC--HHHeEEEECCEECcCCCCHHHcCCCCCCEEEEEEc
Confidence            456999999999999999999999999999999998   7887  99999999999999999999999999999999887


Q ss_pred             eC
Q 012177          184 KS  185 (469)
Q Consensus       184 ks  185 (469)
                      ++
T Consensus        81 ~~   82 (85)
T 2wyq_A           81 KT   82 (85)
T ss_dssp             --
T ss_pred             CC
Confidence            65

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

Probab=99.54  E-value=5.9e-15  Score=121.93  Aligned_cols=74  Identities=14%  Similarity=0.324  Sum_probs=69.4

Q ss_pred             ceeeeeeecceeEEEEee--cCchHHHHHHHH-HHhcCCCCCCCceEEEECCEEcCCCCcccccCC-CCCCEEEEEEeeC
Q 012177          110 QAITVTTVCGKVFEFHVE--RGRNVGYVKQQI-AKKGREFVDLKNQELICDGEELEDQRLITDICK-RNEAVIHLLVRKS  185 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~--~~~TV~~LK~kI-~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I-~~~svI~Lv~rks  185 (469)
                      |+|+||+.+|++++++|+  +++||.+||++| +++.|+|  +++|+|+|+|+.|+|+.+|++|+| +++++|+|+.++.
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 VHLTLKKIQAPKFSIEHDFSPSDTILQIKQHLISEEKASH--ISEIKLLLKGKVLHDNLFLSDLKVTPANSTITVMIKPN   79 (87)
T ss_dssp             CEEEEEECSSSCEECCEECCTTCBHHHHHHHHHHTTSCSS--STTEEEEETTEECCTTCBHHHHCCCGGGCEEEEEECCC
T ss_pred             EEEEEEcCCCCEEEEEEcCCCCCcHHHHHHHHHHHhcCCC--hHHEEEEECCEECcCcCCHHHcCCCCCCCEEEEEcCCC
Confidence            789999999999998877  999999999999 9999988  999999999999999999999999 7999999988753

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

Probab=99.54  E-value=9.1e-15  Score=121.80  Aligned_cols=78  Identities=17%  Similarity=0.310  Sum_probs=70.6

Q ss_pred             CCCCEEEEEEeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecccc
Q 012177           30 SNDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDL  109 (469)
Q Consensus        30 ~~~~M~I~V~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~  109 (469)
                      ....|+|+|.. |++++++|.+++||.+||.+|+++.|+|+++|+|+|+|+.|. |+.+|++|+|+++++|+|++++.++
T Consensus        16 ~~~~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           16 PRGSMQLFVRA-QELHTFEVTGQETVAQIKAHVASLEGIAPEDQVVLLAGAPLE-DEATLGQCGVEALTTLEVAGRMLGG   93 (93)
T ss_dssp             ----CEEEEES-SSEEEEECCSSCBHHHHHHHHHHHHTCCGGGCEEEETTEECC-TTSBHHHHTCCSSCEEEEECCCCCC
T ss_pred             CCCcEEEEEEC-CCEEEEEeCCCCcHHHHHHHHHHHhCcChhHEEEEECCEECC-CCCcHHHCCCCCCCEEEEEEecCCC
Confidence            46789999955 899999999999999999999999999999999999999998 8999999999999999999998764

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

Probab=99.54  E-value=1.3e-14  Score=122.50  Aligned_cols=77  Identities=13%  Similarity=0.308  Sum_probs=69.9

Q ss_pred             cccceeeeeeecceeEEEE--eecCchHHHHHHHH-HHhcCCCCCCCceEEEECCEEcCCCCcccccCC-CCCCEEEEEE
Q 012177          107 SDLQAITVTTVCGKVFEFH--VERGRNVGYVKQQI-AKKGREFVDLKNQELICDGEELEDQRLITDICK-RNEAVIHLLV  182 (469)
Q Consensus       107 sd~m~I~Vkt~~Gk~~~l~--V~~~~TV~~LK~kI-~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I-~~~svI~Lv~  182 (469)
                      ...|+|+||+.+|++++++  |++++||.+||++| ++..|++  +++|+|+|+|+.|+|..+|++|+| +++++|+|++
T Consensus        17 ~~~m~I~VKtl~g~~~~i~v~v~~~~TV~~lK~~I~~~~~gip--~~~QrLi~~Gk~L~D~~tL~dy~I~~~g~ti~lmv   94 (98)
T 4a20_A           17 NAAVHLTLKKIQAPKFSIEHDFSPSDTILQIKQHLISEEKASH--ISEIKLLLKGKVLHDNLFLSDLKVTPANSTITVMI   94 (98)
T ss_dssp             -CCEEEEEEECSSSCEEEEEEECTTCBHHHHHHHHHHTTSCSC--GGGEEEEETTEEECTTCBGGGSCCBTTBCEEEEEE
T ss_pred             CCCEEEEEEcCCCCEEEEEEecCCCChHHHHHHHHHHHhcCCC--hhhEEEEECCEECcCcCCHHHcCcCCCCCEEEEEE
Confidence            4569999999999988875  55999999999999 8888887  999999999999999999999999 9999999998


Q ss_pred             eeC
Q 012177          183 RKS  185 (469)
Q Consensus       183 rks  185 (469)
                      +++
T Consensus        95 skp   97 (98)
T 4a20_A           95 KPN   97 (98)
T ss_dssp             CCC
T ss_pred             eCC
Confidence            865

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

Probab=99.54  E-value=1.5e-14  Score=119.59  Aligned_cols=76  Identities=30%  Similarity=0.406  Sum_probs=72.1

Q ss_pred             cccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEee
Q 012177          107 SDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       107 sd~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rk  184 (469)
                      ...|+|+||+.+|+++.++|++++||.+||++|+++.|++  +++|+|+|+|+.|+|+.+|.+|+|+++++|+|++|.
T Consensus        15 ~~~m~i~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip--~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~i~l~~rl   90 (91)
T 3v6c_B           15 RGSMQIFVNTLTGTHITLEVEPSDTIENVKAKIQDKEGIP--PDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRL   90 (91)
T ss_dssp             CCSEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCC--GGGCEEEETTEECCTTCBTGGGTCCTTCEEEEECCC
T ss_pred             CCeEEEEEEeCCCCEEEEEECCCCCHHHHHHHHHhhhCCC--hhhEEEEECCeECCCcCcHHHCCCCCCCEEEEEEec
Confidence            3569999999999999999999999999999999999988  999999999999999999999999999999998773

>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=99.54  E-value=8.3e-15  Score=123.93  Aligned_cols=71  Identities=14%  Similarity=0.102  Sum_probs=68.8

Q ss_pred             cceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEE
Q 012177          109 LQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLL  181 (469)
Q Consensus       109 ~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv  181 (469)
                      .|+|+||+.+|++++++|++++||.+||++|++++|+|  +++|+|+|+|+.|+|+++|++|+|+++++|+|+
T Consensus        28 mm~I~VKtl~Gk~i~lev~p~dTV~~lK~~Ia~k~Gip--~~qQrLi~~Gk~L~D~~TL~dygI~~gstlhL~   98 (100)
T 1uh6_A           28 MIEVVCNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTR--WNKIVLKKWYTIFKDHVSLGDYEIHDGMNLELY   98 (100)
T ss_dssp             EEEEEEECSSSSCEEEEEETTSBHHHHHHHHHHHHCCC--GGGCEEEETTEECCSSCBHHHHTCCTTEEEEEE
T ss_pred             eEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhCCC--HHHEEEEECCEECCCCCCHHHcCCCCCCEEEEE
Confidence            38999999999999999999999999999999999998  999999999999999999999999999999986

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

Probab=99.54  E-value=8.7e-15  Score=124.93  Aligned_cols=77  Identities=13%  Similarity=0.188  Sum_probs=70.3

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeCCcc
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKSAKV  188 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks~kv  188 (469)
                      |+|+||+.+|+++.++|++++||.+||++|+++.|++  +++|+|+|+|+.|+|+++|++|+|+++++|+|+++++...
T Consensus         2 m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip--~~~QrLi~~Gk~L~D~~tL~~~~i~~g~~i~lv~~~~~~~   78 (106)
T 3m62_B            2 VSLTFKNFKKEKVPLDLEPSNTILETKTKLAQSISCE--ESQIKLIYSGKVLQDSKTVSECGLKDGDQVVFMVSQKKST   78 (106)
T ss_dssp             -CEEEECTTCCEEEECCCTTSBHHHHHHHHHHTTTSC--GGGCEEEETTEECCTTSBTTTTTCCTTCEEEEECCC----
T ss_pred             EEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCC--hhhEEEEECCEECCCcCCHHHcCCCCCCEEEEEEcCCCCC
Confidence            7899999999999999999999999999999999988  9999999999999999999999999999999999876543

>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=99.53  E-value=3.2e-14  Score=118.80  Aligned_cols=77  Identities=19%  Similarity=0.315  Sum_probs=71.9

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHh---cCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeCC
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKK---GREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKSA  186 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~---~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks~  186 (469)
                      |+|+|++.+|+.+.++|++++||.+||++|++.   .|++  +++|+|+|+|+.|+|+.+|++|+|+++++|+|++++..
T Consensus         1 M~I~Vk~~~g~~~~~~v~~~~TV~~LK~~I~~~~~~~gip--~~~qrLi~~Gk~L~D~~tL~~ygI~~g~~i~l~~~~~~   78 (95)
T 1uel_A            1 MQVTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFP--VAGQKLIYAGKILNDDTALKEYKIDEKNFVVVMVTKPK   78 (95)
T ss_dssp             CEEEEEETTCCEEEEECCTTSBHHHHHHHHHHHHCTTTCC--TTTEEEEETTEECCTTSBGGGGTCCSSSEEEEEESSCC
T ss_pred             CEEEEEeCCCCEEEEEECCCCHHHHHHHHHHhhcccCCCC--hhhEEEEECCEECCCcCcHHHCCCCCCCEEEEEEeCCC
Confidence            789999999999999999999999999999999   7887  99999999999999999999999999999999988655


Q ss_pred             cc
Q 012177          187 KV  188 (469)
Q Consensus       187 kv  188 (469)
                      ..
T Consensus        79 ~~   80 (95)
T 1uel_A           79 AV   80 (95)
T ss_dssp             CC
T ss_pred             CC
Confidence            43

>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=99.53  E-value=1.4e-14  Score=116.19  Aligned_cols=74  Identities=12%  Similarity=0.228  Sum_probs=71.1

Q ss_pred             cceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEee
Q 012177          109 LQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       109 ~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rk  184 (469)
                      .|+|+|++.+|+++.++|++++||.+||++|+++.|+|  +++|+|+|+|+.|+|+++|++|+++++++|+|+++.
T Consensus         3 ~m~i~vk~~~g~~~~~~v~~~~tv~~lk~~i~~~~gi~--~~~qrL~~~G~~L~d~~tl~~~~i~~~~~i~l~~~~   76 (79)
T 2uyz_B            3 YIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVP--MNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQEQ   76 (79)
T ss_dssp             EEEEEEECTTCCEEEEEEETTSCTHHHHHHHHHHHTCC--GGGEEEEETTEECCTTCCHHHHTCCTTEEEEEEECC
T ss_pred             eEEEEEECCCCCEEEEEECCCChHHHHHHHHHHHHCCC--cccEEEEECCEEeCCCCCHHHcCCCCCCEEEEEEec
Confidence            48899999999999999999999999999999999998  999999999999999999999999999999998874

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

Probab=99.53  E-value=1e-14  Score=136.87  Aligned_cols=84  Identities=32%  Similarity=0.510  Sum_probs=79.9

Q ss_pred             CCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecccc
Q 012177           31 NDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDL  109 (469)
Q Consensus        31 ~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~  109 (469)
                      .-.|+|+| +++|++++++|.+++||.+||++|++++|+|+++|+|+|+|++|. |+.+|++|+|+++++|||++++.++
T Consensus       103 ~~eMqI~VKtl~Gkt~~l~V~~s~TV~~LK~kI~~~~gIp~~~QrLi~~Gk~L~-D~~tL~dygI~~gstI~LvlrlrGG  181 (189)
T 3q3f_A          103 HYGGQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLE-DGRTLSDYNIQKESTLHLVLRLRGG  181 (189)
T ss_dssp             CCCEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCCEEETTEECC-TTCBGGGGTCCTTCEEEECCCCCCC
T ss_pred             ccceeeeeecCCCCEEEEEeCCCCcHHHHHHHHHhccCCCHHHEEEEECCEECC-CCCCHHHCCCCCCCEEEEEEEcCCC
Confidence            34499999 789999999999999999999999999999999999999999998 8999999999999999999999999


Q ss_pred             ceeeee
Q 012177          110 QAITVT  115 (469)
Q Consensus       110 m~I~Vk  115 (469)
                      ..++||
T Consensus       182 ~~~fvk  187 (189)
T 3q3f_A          182 GQTFTK  187 (189)
T ss_dssp             CCCCCC
T ss_pred             CcceEe
Confidence            999886

>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=99.53  E-value=2.3e-14  Score=123.35  Aligned_cols=78  Identities=35%  Similarity=0.576  Sum_probs=73.5

Q ss_pred             CCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecccc
Q 012177           31 NDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDL  109 (469)
Q Consensus        31 ~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~  109 (469)
                      ...|+|+| +++|+++.++|.+++||.+||.+|+++.|+|+.+|+|+|+|+.|. |+.+|++|+|+++++|||++++.++
T Consensus        33 ~~~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           33 LLAMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLE-DGRTLSDYNIQKESTLHLVLRLRGG  111 (111)
T ss_dssp             GGCEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECC-TTSBTTTTTCCTTCEEEEEECCCC-
T ss_pred             CccEEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCChHHEEEEECCEECC-CCCcHHHCCCCCCCEEEEEEecCCC
Confidence            45799999 689999999999999999999999999999999999999999998 8999999999999999999998764

>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=99.52  E-value=3.8e-14  Score=123.08  Aligned_cols=79  Identities=18%  Similarity=0.267  Sum_probs=70.7

Q ss_pred             cccceeeeeeecceeEEEEeecCchHHHHHHHHHH------hcCCCCCCCceEEEECCEEcCCCCcccccCCCCC--CEE
Q 012177          107 SDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAK------KGREFVDLKNQELICDGEELEDQRLITDICKRNE--AVI  178 (469)
Q Consensus       107 sd~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~------~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~--svI  178 (469)
                      .+.|.|+|||++|++++++|++++||.+||++|+.      +++++.++++|||+|+|+.|+|+++|++|+|+.+  ++|
T Consensus        14 ~~~m~I~vKtl~G~t~~lev~~s~TV~~lK~kI~~~~p~dwke~~p~p~~qqrLIy~GK~LeD~~TL~~y~I~~~~~~tl   93 (116)
T 1wgh_A           14 ADMINLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVTLGALKLPFGKTTVM   93 (116)
T ss_dssp             SSSEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHSSSCCSSCCCCCCTTTEEEEETTEEECSSCBTTTTTCCSSCEEEE
T ss_pred             CCeEEEEEEeCCCCEEEEEECCcCHHHHHHHHHHHhcccccccCCCCChHHEEEEECCcCCCCCCcHHHcCCCCCCceEE
Confidence            45699999999999999999999999999999999      6676555999999999999999999999998755  679


Q ss_pred             EEEEeeC
Q 012177          179 HLLVRKS  185 (469)
Q Consensus       179 ~Lv~rks  185 (469)
                      ||++|..
T Consensus        94 hLvlr~~  100 (116)
T 1wgh_A           94 HLVARET  100 (116)
T ss_dssp             EEEECSS
T ss_pred             EEEccCC
Confidence            9988744

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

Probab=99.52  E-value=7.9e-15  Score=121.17  Aligned_cols=72  Identities=15%  Similarity=0.295  Sum_probs=67.4

Q ss_pred             EEEEE-EeCCeEEEEEeC--CCCcHHHHHHHH-HHHhCCCCcceEEEEcCeecccCCccccccCc-cCccceeeeeec
Q 012177           34 ILIFL-SVGGSVIPMRVM--ESDSIASVKLRI-QSYNGFFVKKQKLVFEGRELARSNSRVRDYGL-ADGNVLHLVLRL  106 (469)
Q Consensus        34 M~I~V-~l~G~~~~l~V~--~sdTV~~LK~kI-q~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI-~~gstl~LvlrL  106 (469)
                      |+|+| ++.|++++++|+  +++||.+||++| +++.|+|+++|||+|+|+.|. |+.+|++|+| .++++|+|.++.
T Consensus         2 mqI~VKtl~g~~~~i~v~v~~~~TV~~lK~~I~~~~~gip~~~QrLi~~Gk~L~-D~~tL~~y~I~~~~stl~v~~~~   78 (87)
T 2lxa_A            2 VHLTLKKIQAPKFSIEHDFSPSDTILQIKQHLISEEKASHISEIKLLLKGKVLH-DNLFLSDLKVTPANSTITVMIKP   78 (87)
T ss_dssp             CEEEEEECSSSCEECCEECCTTCBHHHHHHHHHHTTSCSSSTTEEEEETTEECC-TTCBHHHHCCCGGGCEEEEEECC
T ss_pred             EEEEEEcCCCCEEEEEEcCCCCCcHHHHHHHHHHHhcCCChHHEEEEECCEECc-CcCCHHHcCCCCCCCEEEEEcCC
Confidence            89999 899999988866  999999999999 999999999999999999998 8999999999 799999998764

>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=99.52  E-value=3.3e-14  Score=112.27  Aligned_cols=73  Identities=26%  Similarity=0.386  Sum_probs=70.1

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEee
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rk  184 (469)
                      |+|+|++.+|+++.+++++++||.+||++|++..++|  +++|+|+|+|+.|+|+.+|++|+|+++++|++++|.
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 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIP--PQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLAL   73 (76)
T ss_dssp             CEEEEECTTSCEEEEECCTTCBHHHHHHHHHHHHCCC--GGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEECC
T ss_pred             CEEEEECCCCCEEEEEECCCChHHHHHHHHHHHHCcC--hHHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEeC
Confidence            7899999999999999999999999999999999988  999999999999999999999999999999998874

>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=99.52  E-value=4.1e-14  Score=114.79  Aligned_cols=76  Identities=21%  Similarity=0.432  Sum_probs=69.5

Q ss_pred             CCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHH---hCCCCcceEEEEcCeecccCCccccccCccCccceeeeeec
Q 012177           31 NDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSY---NGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRL  106 (469)
Q Consensus        31 ~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~---~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrL  106 (469)
                      +..|+|+| +.+|++++++|.+++||.+||.+|+++   +|+|+++|+|+|+|+.|. |+.+|++|+|+++++|+|+++.
T Consensus         3 ~~~m~i~vk~~~g~~~~~~v~~~~TV~~lK~~i~~~~~~~gip~~~qrLi~~Gk~L~-D~~tL~~~~i~~g~~i~l~~~~   81 (85)
T 2wyq_A            3 PMAVTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILS-DDVPIRDYRIDEKNFVVVMVTK   81 (85)
T ss_dssp             -CCEEEEEEETTSCEEEEEECTTSBHHHHHHHHHHHHCTTTCCGGGEEEEETTEECC-TTSBGGGGCCCTTSEEEEEEC-
T ss_pred             CceEEEEEEECCCCEEEEEECCCCCHHHHHHHHHhhccccCCCHHHeEEEECCEECc-CCCCHHHcCCCCCCEEEEEEcC
Confidence            45799999 778999999999999999999999998   899999999999999998 8999999999999999998764


Q ss_pred             c
Q 012177          107 S  107 (469)
Q Consensus       107 s  107 (469)
                      .
T Consensus        82 ~   82 (85)
T 2wyq_A           82 T   82 (85)
T ss_dssp             -
T ss_pred             C
Confidence            3

>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=99.52  E-value=1.9e-14  Score=117.47  Aligned_cols=75  Identities=27%  Similarity=0.391  Sum_probs=71.6

Q ss_pred             ccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEee
Q 012177          108 DLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       108 d~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rk  184 (469)
                      ..|+|+|++.+|+++.++|++++||.+||++|++..++|  +++|+|+|+|+.|+|+.+|.+|+|+++++|+|++|.
T Consensus        11 ~~m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip--~~~qrL~~~G~~L~d~~tL~~~~i~~~~~i~l~~rl   85 (88)
T 3dbh_I           11 GSMLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIP--PQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLRL   85 (88)
T ss_dssp             CCEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCC--GGGCCEEETTEECCTTSBGGGGTCCTTCEEEECCCC
T ss_pred             CcEEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHHCcC--HHHEEEEECCeECCCCCcHHHcCCCCCCEEEEEEeC
Confidence            458999999999999999999999999999999999988  999999999999999999999999999999998774

>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=99.51  E-value=2.5e-14  Score=120.03  Aligned_cols=76  Identities=12%  Similarity=0.236  Sum_probs=72.6

Q ss_pred             cccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEee
Q 012177          107 SDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       107 sd~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rk  184 (469)
                      +..|+|+|++.+|+++.++|++++||.+||++|+++.|++  +++|+|+|+|+.|+|+++|++|+|+++++|+|+++.
T Consensus        19 ~~~m~I~Vk~~~g~~~~l~v~~~~tv~~lK~~i~~~~gip--~~~qrLif~Gk~L~d~~tl~dy~i~~g~~I~l~~~~   94 (97)
T 1wyw_B           19 GEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVP--MNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQEQ   94 (97)
T ss_dssp             CCEEEEEEECTTCCEEEEEEETTSCTHHHHHHHHHHHTCC--GGGEEEEETTEECCTTCCHHHHTCCTTCEEEEEESS
T ss_pred             CCcEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCC--hhhEEEEECCeEcCCCCCHHHCCCCCCCEEEEEEec
Confidence            4569999999999999999999999999999999999998  999999999999999999999999999999999874

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

Probab=99.51  E-value=2.8e-14  Score=120.39  Aligned_cols=76  Identities=16%  Similarity=0.315  Sum_probs=68.4

Q ss_pred             CCCCEEEEE-EeCCeEEEE--EeCCCCcHHHHHHHH-HHHhCCCCcceEEEEcCeecccCCccccccCc-cCccceeeee
Q 012177           30 SNDSILIFL-SVGGSVIPM--RVMESDSIASVKLRI-QSYNGFFVKKQKLVFEGRELARSNSRVRDYGL-ADGNVLHLVL  104 (469)
Q Consensus        30 ~~~~M~I~V-~l~G~~~~l--~V~~sdTV~~LK~kI-q~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI-~~gstl~Lvl  104 (469)
                      ....|+|+| +++|+++++  +|.+++||.+||++| +++.|+|+++|||+|.|+.|. |+.+|++|+| ++|++|+|++
T Consensus        16 ~~~~m~I~VKtl~g~~~~i~v~v~~~~TV~~lK~~I~~~~~gip~~~QrLi~~Gk~L~-D~~tL~dy~I~~~g~ti~lmv   94 (98)
T 4a20_A           16 DNAAVHLTLKKIQAPKFSIEHDFSPSDTILQIKQHLISEEKASHISEIKLLLKGKVLH-DNLFLSDLKVTPANSTITVMI   94 (98)
T ss_dssp             --CCEEEEEEECSSSCEEEEEEECTTCBHHHHHHHHHHTTSCSCGGGEEEEETTEEEC-TTCBGGGSCCBTTBCEEEEEE
T ss_pred             CCCCEEEEEEcCCCCEEEEEEecCCCChHHHHHHHHHHHhcCCChhhEEEEECCEECc-CcCCHHHcCcCCCCCEEEEEE
Confidence            477899999 889987777  566999999999999 989999999999999999998 8999999999 9999999987


Q ss_pred             ec
Q 012177          105 RL  106 (469)
Q Consensus       105 rL  106 (469)
                      +-
T Consensus        95 sk   96 (98)
T 4a20_A           95 KP   96 (98)
T ss_dssp             CC
T ss_pred             eC
Confidence            63

>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=99.51  E-value=4.3e-14  Score=117.55  Aligned_cols=76  Identities=32%  Similarity=0.418  Sum_probs=71.8

Q ss_pred             cceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeCC
Q 012177          109 LQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKSA  186 (469)
Q Consensus       109 ~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks~  186 (469)
                      +|+|+|++.+|+++.++|++++||.+||++|++..+++  +++|+|+|+|+.|+|+.+|.+|+|+++++|+|+++...
T Consensus         1 gm~i~vk~~~g~~~~~~v~~~~TV~~LK~~i~~~~gip--~~~qrL~~~G~~L~d~~tL~~~~i~~~~~i~l~~r~~g   76 (96)
T 3k9o_B            1 GMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIP--PDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG   76 (96)
T ss_dssp             -CEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCC--GGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEECCCC
T ss_pred             CcEEEEEeCCCCEEEEEECCCCCHHHHHHHHHhhhCCC--hhHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEEcCC
Confidence            48999999999999999999999999999999999988  99999999999999999999999999999999988544

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

Probab=99.51  E-value=8.1e-15  Score=124.18  Aligned_cols=94  Identities=20%  Similarity=0.270  Sum_probs=67.7

Q ss_pred             CccccccCccCccceeeeeeccccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCC
Q 012177           86 NSRVRDYGLADGNVLHLVLRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQR  165 (469)
Q Consensus        86 ~~tL~dygI~~gstl~LvlrLsd~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~  165 (469)
                      ..++++|.|.  +|.++.++-.-.+.|+|++ +|+++.++|++++||.+||++|+++.|++  +++|+|+|+|+.|+|+.
T Consensus         7 ~~~~~~~~~~--~t~~l~l~~~m~i~I~Vk~-~g~~~~l~v~~~~TV~~LK~~I~~~~gip--~~~QrLi~~Gk~L~D~~   81 (101)
T 3m63_B            7 HHPMSDYDIP--TTENLYFQGAMSLNIHIKS-GQDKWEVNVAPESTVLQFKEAINKANGIP--VANQRLIYSGKILKDDQ   81 (101)
T ss_dssp             ------------------------CCEEEEC-SSCCCCBCCCTTSBHHHHHHHHHHHHSCC--STTCCEEETTEECCTTS
T ss_pred             cCCccccCCC--cceeecccCCcEEEEEEEE-CCEEEEEEeCCCCCHHHHHHHHHHHHCcC--hHHEEEEECCEECCCcC
Confidence            3567788874  5566555555557778887 89999999999999999999999999988  99999999999999999


Q ss_pred             cccccCCCCCCEEEEEEee
Q 012177          166 LITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       166 tL~dy~I~~~svI~Lv~rk  184 (469)
                      +|++|+|+++++|+|+.+.
T Consensus        82 tL~~~gI~~g~tI~lv~~~  100 (101)
T 3m63_B           82 TVESYHIQDGHSVHLVKSQ  100 (101)
T ss_dssp             BTTTTTCCTTEEEEECCCC
T ss_pred             cHHHCCCCCCCEEEEEeCC
Confidence            9999999999999997653

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

Probab=99.51  E-value=2.2e-14  Score=118.09  Aligned_cols=77  Identities=19%  Similarity=0.168  Sum_probs=71.2

Q ss_pred             ccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeCC
Q 012177          108 DLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKSA  186 (469)
Q Consensus       108 d~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks~  186 (469)
                      ..|+|+|++.+|+++.++|++++||.+||++|++..|+|  +++|+|+|+|+.|+|+++|++|+|+++++|+|+++...
T Consensus         3 ~~m~I~Vk~~~g~~~~~~v~~~~TV~~LK~~I~~~~gip--~~~qrL~~~Gk~L~D~~tL~~~~I~~g~~i~l~~~~~g   79 (88)
T 2hj8_A            3 EPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQ--DDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNLRLRG   79 (88)
T ss_dssp             CEEEEEEEETTSCEEEEEEESSSBHHHHHHHHHHHTCSC--TTTEEEESSSSCCCTTSBHHHHHCSTTCEEEEEEC---
T ss_pred             ccEEEEEECCCCCEEEEEECCCCcHHHHHHHHHHHhCCC--hhHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEEcCC
Confidence            458999999999999999999999999999999999988  99999999999999999999999999999999987543

>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=99.51  E-value=2.2e-14  Score=124.71  Aligned_cols=74  Identities=18%  Similarity=0.196  Sum_probs=65.8

Q ss_pred             EEEEE-EeCC-eEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCcc-------Cccceeeee
Q 012177           34 ILIFL-SVGG-SVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLA-------DGNVLHLVL  104 (469)
Q Consensus        34 M~I~V-~l~G-~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~-------~gstl~Lvl  104 (469)
                      |++|| ...+ .+++++|.+++||.+||.+|+.++|+|+++|||+|+|++|. |+.+|++|||+       ++++|||++
T Consensus         1 M~mfl~ir~~ktti~lev~~sdTV~~lK~kI~~~egIP~~qQrLi~~Gk~Le-D~~TLsdy~I~~~~a~~q~~stL~L~l   79 (118)
T 2fnj_B            1 MDVFLMIRRHKTTIFTDAKESSTVFELKRIVEGILKRPPEEQRLYKDDQLLD-DGKTLGECGFTSQTARPQAPATVGLAF   79 (118)
T ss_dssp             CEEEEEEEEBTEEEEEEEETTSBHHHHHHHHHHHHCCCGGGEEEEETTEECC-TTSBHHHHTCCTTTSBTTBCEEEEEEE
T ss_pred             CcEEEEEecCCEEEEEEeCCcChHHHHHHHHHHHhCCCHHHeEEEECCeECC-CCCCHHHcCcccccccCCCCCEEEEEe
Confidence            55666 3344 57999999999999999999999999999999999999998 99999999999       799999999


Q ss_pred             ecccc
Q 012177          105 RLSDL  109 (469)
Q Consensus       105 rLsd~  109 (469)
                      | .|+
T Consensus        80 r-~~g   83 (118)
T 2fnj_B           80 R-ADD   83 (118)
T ss_dssp             B-SSS
T ss_pred             c-CCC
Confidence            8 443

>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=99.51  E-value=4.1e-14  Score=114.57  Aligned_cols=75  Identities=29%  Similarity=0.385  Sum_probs=71.1

Q ss_pred             cceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeC
Q 012177          109 LQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKS  185 (469)
Q Consensus       109 ~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks  185 (469)
                      .|+|+|++.+|+++.++|++++||.+||++|+++.++|  +++|+|+|+|+.|+|+.+|++|+|+++++|+|++|..
T Consensus         3 ~m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~~ip--~~~qrL~~~g~~L~d~~tL~~~~i~~~~~i~l~~rl~   77 (85)
T 3n3k_B            3 HMRIVVKTLMGRTIILEVEPSDTIENVKAKIQDKEGIP--PDQQRLIFAGKQLEDGRTLSDYNIHNHSALYLLLKLR   77 (85)
T ss_dssp             -CEEEEECGGGCEEEEECCTTCBHHHHHHHHHHHHCCC--GGGEEEEETBEECCTTCBTTTTTCCTTCEEEEEECCC
T ss_pred             eEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCC--HHHEEEEECCeECCCCCCHHHCCCCCCCEEEEEEecc
Confidence            48999999999999999999999999999999999988  9999999999999999999999999999999998843

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

Probab=99.51  E-value=3.9e-14  Score=128.42  Aligned_cols=79  Identities=22%  Similarity=0.334  Sum_probs=73.4

Q ss_pred             CCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecccc
Q 012177           31 NDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDL  109 (469)
Q Consensus        31 ~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~  109 (469)
                      +..|+|+| +++|++++++|.+++||.+||++|++++|+|+++|+|+|+|+.|. |+.+|++|+|+++++|||+++++++
T Consensus        79 ~~~m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~q~L~~~G~~L~-d~~tL~~y~i~~g~~l~l~~rl~GG  157 (159)
T 3rt3_B           79 DEPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLE-DQLPLGEYGLKPLSTVFMNLRLRGG  157 (159)
T ss_dssp             CCCEEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHTCCGGGEEEEETTEECC-TTSBGGGGTCCTTCEEEEEECCC--
T ss_pred             CCcEEEEEECCCCCEEEEEeCCCCCHHHHHHHHHHHHCCCHHHEEEEECCeecC-CCCCHHHcCCCCCCEEEEEEecCCC
Confidence            67799999 788999999999999999999999999999999999999999998 8999999999999999999999876


Q ss_pred             c
Q 012177          110 Q  110 (469)
Q Consensus       110 m  110 (469)
                      -
T Consensus       158 ~  158 (159)
T 3rt3_B          158 G  158 (159)
T ss_dssp             -
T ss_pred             C
Confidence            3

>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=99.50  E-value=4.5e-14  Score=122.45  Aligned_cols=74  Identities=18%  Similarity=0.213  Sum_probs=67.9

Q ss_pred             EEEEE--EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccC-------ccceeeee
Q 012177           34 ILIFL--SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLAD-------GNVLHLVL  104 (469)
Q Consensus        34 M~I~V--~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~-------gstl~Lvl  104 (469)
                      |.+||  .....++.++|.+++||.+||.+|+.++|+|+++|||+|+|+.|. |+++|++|||++       +++|||++
T Consensus         1 m~vFl~Ikr~ktTI~ldve~sdTV~~lK~kI~~~~giPp~qQrLI~~Gk~Le-D~kTL~dy~I~~~ta~~q~~atl~Lvl   79 (118)
T 4ajy_B            1 MDVFLMIRRHKTTIFTDAKESSTVFELKRIVEGILKRPPDEQRLYKDDQLLD-DGKTLGECGFTSQTARPQAPATVGLAF   79 (118)
T ss_dssp             CEEEEEEEEBTEEEEEEEETTSBHHHHHHHHHHHHCCCGGGEEEEETTEECC-TTSBTTTTTCCGGGSBTTBCEEEEEEE
T ss_pred             CceEEEEecCCEEEEEEcCCCChHHHHHHHHHHHHCCCHHHeEEEeCCeECC-CcCCHHHcCCCcCcccCCCCCEEEEEE
Confidence            56777  445569999999999999999999999999999999999999998 999999999999       99999999


Q ss_pred             eccc
Q 012177          105 RLSD  108 (469)
Q Consensus       105 rLsd  108 (469)
                      |..+
T Consensus        80 r~~~   83 (118)
T 4ajy_B           80 RADD   83 (118)
T ss_dssp             CCSS
T ss_pred             ecCC
Confidence            9744

>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=99.50  E-value=3e-14  Score=118.34  Aligned_cols=78  Identities=18%  Similarity=0.245  Sum_probs=71.7

Q ss_pred             CCCEEEEE-EeCCe--EEEEEeCCCCcHHHHHHHHHHHh--CCCCcceEEEEcCeecccCCcccccc--CccCccceeee
Q 012177           31 NDSILIFL-SVGGS--VIPMRVMESDSIASVKLRIQSYN--GFFVKKQKLVFEGRELARSNSRVRDY--GLADGNVLHLV  103 (469)
Q Consensus        31 ~~~M~I~V-~l~G~--~~~l~V~~sdTV~~LK~kIq~~~--Gip~~~QrLvf~Gk~L~~D~~tL~dy--gI~~gstl~Lv  103 (469)
                      ...|+|+| +.+++  +++++|.+++||.+||++|++++  |+|+++|||+|.|+.|. |+.+|++|  +|+++++|||+
T Consensus         5 ~~~m~i~Vk~~~~~~~~~~v~v~~~~TV~~lK~~I~~~~~~~i~~~~QrLi~~Gk~L~-D~~tL~~~~~~i~~~~~i~lv   83 (93)
T 1wgd_A            5 SSGVTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLL-DHQCLRDLLPKQEKRHVLHLV   83 (93)
T ss_dssp             SCCCEEEEECSSSSCCCEEEECCTTSCHHHHHHHHHHHSTTCCCTTTCEEEETTEECC-SSSCHHHHSCSSSCSEEEEEE
T ss_pred             CcEEEEEEEeCCCCeEEEEEecCCCCcHHHHHHHHHHHhcCCCChHHeEEEECCEECc-CcCCHHHHhcCCCCCCEEEEE
Confidence            56799999 67777  68888889999999999999998  99999999999999998 88999999  99999999999


Q ss_pred             eecccc
Q 012177          104 LRLSDL  109 (469)
Q Consensus       104 lrLsd~  109 (469)
                      +++.++
T Consensus        84 ~~~~gg   89 (93)
T 1wgd_A           84 CNVKSG   89 (93)
T ss_dssp             CCCCCC
T ss_pred             eCCCCC
Confidence            988765

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

Probab=99.50  E-value=4.4e-14  Score=116.33  Aligned_cols=76  Identities=28%  Similarity=0.414  Sum_probs=69.6

Q ss_pred             ccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeC
Q 012177          108 DLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKS  185 (469)
Q Consensus       108 d~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks  185 (469)
                      .+|+|+|++.+|+++.++|++++||.+||++|+++.++|  +++|+|+|+|+.|+|+.+|++|+|+++++|+|+++..
T Consensus         8 ~~~~i~v~~~~G~~~~l~v~~~~TV~~LK~~I~~~~gip--~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~i~l~~r~~   83 (88)
T 1sif_A            8 QGLQLFIKTLTGKTFTVEMEPSDTIENLKAKIQDKEGIP--PDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLR   83 (88)
T ss_dssp             --CEEEEEETTSCEEEEECCTTSBHHHHHHHHHHHHCCC--GGGCEEEETTEECCTTSBSGGGTCCTTCEEEEEC---
T ss_pred             cceEEEEEeCCCCEEEEEECCCChHHHHHHHHHHHHCcC--hhhEEEEECCEECCCCCcHHHcCCCCCCEEEEEEeCC
Confidence            379999999999999999999999999999999999988  9999999999999999999999999999999988743

>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=99.50  E-value=6.7e-14  Score=110.51  Aligned_cols=73  Identities=33%  Similarity=0.452  Sum_probs=70.1

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEee
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rk  184 (469)
                      |+|+|++.+|+++.+++++++||.+||++|++..+++  +++|+|+|+|+.|+|+.+|++|+++++++|+++++.
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 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIP--PDQQRLIFAGKQLEDGRTLSDYNIQRESTLHLVLRL   73 (76)
T ss_dssp             CEEEEEETTSCEEEEECCTTCBHHHHHHHHHHHHCCC--GGGEEEEETTEECCTTCBTGGGTCCTTCEEEEEECC
T ss_pred             CEEEEEcCCCCEEEEEECCCCcHHHHHHHHHHHHCcC--HHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEEeC
Confidence            7899999999999999999999999999999999988  999999999999999999999999999999998874

>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=99.50  E-value=5.9e-14  Score=114.50  Aligned_cols=75  Identities=19%  Similarity=0.131  Sum_probs=71.8

Q ss_pred             ccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEee
Q 012177          108 DLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       108 d~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rk  184 (469)
                      ..|+|+|++.+|+++.++|++++||.+||++|++..+++  +++|+|+|+|+.|+|+++|++|+|+++++|+|+++.
T Consensus         6 ~~m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi~--~~~qrL~~~Gk~L~d~~tL~~~~i~~g~~i~l~~~~   80 (87)
T 1wh3_A            6 SGIQVFVKNPDGGSYAYAINPNSFILGLKQQIEDQQGLP--KKQQQLEFQGQVLQDWLGLGIYGIQDSDTLILSKKK   80 (87)
T ss_dssp             SSEEEEEEETTTEEEEEEECSSSBHHHHHHHHHHHTCCC--TTTEEEEETTEECCSSSBHHHHTCCTTEEEEEEECS
T ss_pred             CCEEEEEEcCCCCEEEEEeCCCChHHHHHHHHHHHhCCC--hHHEEEEECCEEccCCCCHHHCCCCCCCEEEEEEec
Confidence            469999999999999999999999999999999999988  999999999999999999999999999999999874

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

Probab=99.50  E-value=5.1e-14  Score=112.98  Aligned_cols=75  Identities=21%  Similarity=0.322  Sum_probs=71.1

Q ss_pred             ccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEee
Q 012177          108 DLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       108 d~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rk  184 (469)
                      ..|+|+|++.+|+.+.+++++++||++||++|++..+++  +++|+|+|+|+.|+|+++|++|+|+++++|+|+++.
T Consensus         6 ~~m~i~vk~~~g~~~~~~v~~~~tV~~LK~~i~~~~~i~--~~~qrL~~~gk~L~d~~tL~~~~i~~g~~i~l~~~~   80 (81)
T 2dzi_A            6 SGMQLTVKALQGRECSLQVPEDELVSTLKQLVSEKLNVP--VRQQRLLFKGKALADGKRLSDYSIGPNSKLNLVVKP   80 (81)
T ss_dssp             SSEEEEEEETTSCEEEEEECSSCBHHHHHHHHHHHTCCC--TTTCEEEETTEECCTTSBGGGGTCCSSBCCEEECCC
T ss_pred             CcEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcC--HHHEEEEECCeECCCCCcHHHcCCCCCCEEEEEEeC
Confidence            458999999999999999999999999999999999988  999999999999999999999999999999998764

>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=99.50  E-value=8.2e-14  Score=121.01  Aligned_cols=78  Identities=24%  Similarity=0.303  Sum_probs=70.8

Q ss_pred             CCCCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHH------HhCC--CCcceEEEEcCeecccCCccccccCccCc--
Q 012177           29 LSNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQS------YNGF--FVKKQKLVFEGRELARSNSRVRDYGLADG--   97 (469)
Q Consensus        29 ~~~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~------~~Gi--p~~~QrLvf~Gk~L~~D~~tL~dygI~~g--   97 (469)
                      .+.+.|+|+| +++|++++++|.+++||.+||++|++      ++++  ++++|||+|.|++|. |+.+|++|+|+.+  
T Consensus        12 ~~~~~m~I~vKtl~G~t~~lev~~s~TV~~lK~kI~~~~p~dwke~~p~p~~qqrLIy~GK~Le-D~~TL~~y~I~~~~~   90 (116)
T 1wgh_A           12 VPADMINLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLH-GNVTLGALKLPFGKT   90 (116)
T ss_dssp             CCSSSEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHSSSCCSSCCCCCCTTTEEEEETTEEEC-SSCBTTTTTCCSSCE
T ss_pred             CCCCeEEEEEEeCCCCEEEEEECCcCHHHHHHHHHHHhcccccccCCCCChHHEEEEECCcCCC-CCCcHHHcCCCCCCc
Confidence            3578899999 78999999999999999999999999      6675  699999999999998 8999999999765  


Q ss_pred             cceeeeeecc
Q 012177           98 NVLHLVLRLS  107 (469)
Q Consensus        98 stl~LvlrLs  107 (469)
                      .+|||++++.
T Consensus        91 ~tlhLvlr~~  100 (116)
T 1wgh_A           91 TVMHLVARET  100 (116)
T ss_dssp             EEEEEEECSS
T ss_pred             eEEEEEccCC
Confidence            6899998875

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

Probab=99.50  E-value=3.9e-14  Score=118.93  Aligned_cols=76  Identities=32%  Similarity=0.435  Sum_probs=71.4

Q ss_pred             cccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEee
Q 012177          107 SDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       107 sd~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rk  184 (469)
                      ...|+|+||+.+|+++.++|++++||.+||++|+++.++|  +++|+|+|+|+.|+|+.+|++|+|+++++|+|++|.
T Consensus        20 ~~~m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip--~~~qrLi~~Gk~L~D~~tL~~~~i~~g~~i~l~~rl   95 (98)
T 4hcn_B           20 GRPMQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIP--PDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRL   95 (98)
T ss_dssp             --CCEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCC--GGGCEEEETTEECCTTCBSGGGTCCTTEEEEEECBC
T ss_pred             CCeEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHhCCC--hhHEEEEECCEECCCCCcHHHCCCCCCCEEEEEEec
Confidence            4569999999999999999999999999999999999988  999999999999999999999999999999999874

>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=99.50  E-value=4.8e-14  Score=120.21  Aligned_cols=79  Identities=18%  Similarity=0.276  Sum_probs=72.9

Q ss_pred             CCCCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecc
Q 012177           29 LSNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLS  107 (469)
Q Consensus        29 ~~~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLs  107 (469)
                      .+...|+|+| +++|+++.++|.+++||.+||.+|+++.|+++.+|+|+|+|+.|. |+.+|++|+|++|++|||+++..
T Consensus        19 ~~~~~m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~-D~~tL~~ygI~~g~ti~lv~~~~   97 (106)
T 1ttn_A           19 NSGYECQLRLRLSTGKDLKLVVRSTDTVFHMKRRLHAAEGVEPGSQRWFFSGRPLT-DKMKFEELKIPKDYVVQVIVSQP   97 (106)
T ss_dssp             --CCSEEEEEEETTTEEEEEEECTTSHHHHHHHHHHHTTCCCSTTCEEEETTEECC-TTSHHHHCCCSSSCEEEEECCCS
T ss_pred             CCCCeEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHHCcCcccEEEEECCEECC-CCCcHHHcCCCCCCEEEEEEeCC
Confidence            4577899999 778999999999999999999999999999999999999999997 89999999999999999998765


Q ss_pred             c
Q 012177          108 D  108 (469)
Q Consensus       108 d  108 (469)
                      +
T Consensus        98 ~   98 (106)
T 1ttn_A           98 V   98 (106)
T ss_dssp             S
T ss_pred             C
Confidence            3

>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=99.24  E-value=1.8e-15  Score=120.28  Aligned_cols=74  Identities=22%  Similarity=0.410  Sum_probs=71.0

Q ss_pred             EEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeeccc
Q 012177           34 ILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSD  108 (469)
Q Consensus        34 M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd  108 (469)
                      |+|+| +.+|+++.++|.+++||.+||.+|++++|+|+++|+|+|+|+.|. |+.+|++|+|.++++|||++++++
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 MIVFVRFNSSYGFPVEVDSDTSILQLKEVVAKQQGVPADQLRVIFAGKELP-NHLTVQNCDLEQQSIVHIVQRPRR   75 (76)
Confidence            89999 788999999999999999999999999999999999999999998 899999999999999999998875

>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=99.49  E-value=9.6e-14  Score=113.84  Aligned_cols=77  Identities=23%  Similarity=0.233  Sum_probs=71.8

Q ss_pred             ccceeeeeeecc-eeEEE-EeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeC
Q 012177          108 DLQAITVTTVCG-KVFEF-HVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKS  185 (469)
Q Consensus       108 d~m~I~Vkt~~G-k~~~l-~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks  185 (469)
                      ..|+|+|++.+| +++.+ +|++++||.+||++|+++.++|  +++|+|+|+|+.|+|+++|.+|+|+++++|||+++..
T Consensus         6 ~~m~i~Vk~~~g~~~~~l~~v~~~~tV~~lK~~i~~~~gip--~~~qrL~~~gk~L~d~~tL~~~~i~~g~~i~l~~~~~   83 (89)
T 1wy8_A            6 SGMWIQVRTIDGSKTCTIEDVSRKATIEELRERVWALFDVR--PECQRLFYRGKQLENGYTLFDYDVGLNDIIQLLVRPD   83 (89)
T ss_dssp             SCEEEEEEETTCSCEEEEEEECTTCBHHHHHHHHHHHSCCC--TTTEEEEETTEECCSSSBHHHHTCCTTCEEEEEECCC
T ss_pred             CcEEEEEEECCCCceEEEEecCCCCCHHHHHHHHHHHHCcC--hhhEEEEECCeECCCCCCHHHCCCCCCCEEEEEEeCC
Confidence            469999999999 79999 5999999999999999999988  9999999999999999999999999999999998844


Q ss_pred             C
Q 012177          186 A  186 (469)
Q Consensus       186 ~  186 (469)
                      .
T Consensus        84 g   84 (89)
T 1wy8_A           84 S   84 (89)
T ss_dssp             C
T ss_pred             C
Confidence            3

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

Probab=99.49  E-value=2.8e-14  Score=121.78  Aligned_cols=73  Identities=18%  Similarity=0.356  Sum_probs=68.4

Q ss_pred             EEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecc
Q 012177           34 ILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLS  107 (469)
Q Consensus        34 M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLs  107 (469)
                      |+|+| +++|+++.++|.+++||.+||.+|+++.|+|+++|+|+|+|+.|. |+.+|++|||++|++|+|+++..
T Consensus         2 m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~-D~~tL~~~~i~~g~~i~lv~~~~   75 (106)
T 3m62_B            2 VSLTFKNFKKEKVPLDLEPSNTILETKTKLAQSISCEESQIKLIYSGKVLQ-DSKTVSECGLKDGDQVVFMVSQK   75 (106)
T ss_dssp             -CEEEECTTCCEEEECCCTTSBHHHHHHHHHHTTTSCGGGCEEEETTEECC-TTSBTTTTTCCTTCEEEEECCC-
T ss_pred             EEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCChhhEEEEECCEECC-CcCCHHHcCCCCCCEEEEEEcCC
Confidence            88999 679999999999999999999999999999999999999999998 89999999999999999998754

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

Probab=99.49  E-value=1.2e-13  Score=109.73  Aligned_cols=72  Identities=22%  Similarity=0.287  Sum_probs=68.5

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEee
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rk  184 (469)
                      |+|+|++ +|+.+.++++++.||.+||++|++..|++  +++|+|+|+|+.|+|+.+|++|+|+++++|+|+.+.
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-GQDKWEVNVAPESTVLQFKEAINKANGIP--VANQRLIYSGKILKDDQTVESYHIQDGHSVHLVKSQ   76 (77)
T ss_dssp             EEEEEEE-TTEEEEEEECTTCBHHHHHHHHHHHHCCC--GGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEECC
T ss_pred             EEEEEEE-CCEEEEEEECCCCcHHHHHHHHHHHhCCC--HHHEEEEECCeEcCCCCCHHHcCCCCCCEEEEEEcC
Confidence            8899999 99999999999999999999999999988  999999999999999999999999999999997653

>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=99.49  E-value=7.2e-14  Score=112.95  Aligned_cols=75  Identities=31%  Similarity=0.380  Sum_probs=71.4

Q ss_pred             cceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeC
Q 012177          109 LQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKS  185 (469)
Q Consensus       109 ~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks  185 (469)
                      .|+|+|++.+|+++.+++++++||.+||++|+++.++|  +++|+|+|+|+.|+|+.+|++|+|+++++|+|++|..
T Consensus         3 ~m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~~i~--~~~qrL~~~g~~L~d~~tL~~~~i~~~~~l~l~~r~~   77 (85)
T 3mtn_B            3 HMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIP--PDQQRLIFAGKQLEDGRTLSDYNIQKWSTLFLLLRLR   77 (85)
T ss_dssp             CEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCC--GGGCEEEETTEECCTTSBTGGGTCCTTCEEEEECCCC
T ss_pred             eEEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHHCcC--hHHEEEEECCEECCCCCCHHHcCCCCCCEEEEEEECc
Confidence            48899999999999999999999999999999999988  9999999999999999999999999999999998743

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

Probab=99.48  E-value=1.4e-13  Score=109.25  Aligned_cols=71  Identities=27%  Similarity=0.463  Sum_probs=66.8

Q ss_pred             EEEEEEeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeee
Q 012177           34 ILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLR  105 (469)
Q Consensus        34 M~I~V~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~Lvlr  105 (469)
                      |+|+|..+|++++++|.+++||.+||.+|+++.|+|+++|+|+|+|+.|. |+.+|++|||++|++|+|+.+
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 LNIHIKSGQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILK-DDQTVESYHIQDGHSVHLVKS   75 (77)
T ss_dssp             EEEEEEETTEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECC-TTSBTGGGTCCTTCEEEEEEC
T ss_pred             EEEEEEECCEEEEEEECCCCcHHHHHHHHHHHhCCCHHHEEEEECCeEcC-CCCCHHHcCCCCCCEEEEEEc
Confidence            88999339999999999999999999999999999999999999999998 889999999999999998764

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

Probab=99.48  E-value=1.4e-13  Score=118.23  Aligned_cols=78  Identities=35%  Similarity=0.576  Sum_probs=73.2

Q ss_pred             CCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecccc
Q 012177           31 NDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDL  109 (469)
Q Consensus        31 ~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~  109 (469)
                      ...|+|+| +.+|+++.++|.+++||.+||.+|+++.|+|+++|+|+|+|+.|. |+.+|++|+|+++++|+|++++.++
T Consensus        33 ~~~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           33 LLAMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLE-DGRTLSDYNIQKESTLHLVLRLRGG  111 (111)
T ss_dssp             SSCEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHCCCTTTEEEEETTEECC-SSCBTTTTTCCTTCEEEEEECCCC-
T ss_pred             CCeEEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHHHHCcCcccEEEEECCEECC-CCCcHHHcCCCCCCEEEEEEeCCCC
Confidence            46899999 678999999999999999999999999999999999999999998 8999999999999999999998764

>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=99.48  E-value=1e-13  Score=115.68  Aligned_cols=73  Identities=18%  Similarity=0.424  Sum_probs=69.0

Q ss_pred             EEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHH---hCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecc
Q 012177           34 ILIFL-SVGGSVIPMRVMESDSIASVKLRIQSY---NGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLS  107 (469)
Q Consensus        34 M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~---~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLs  107 (469)
                      |+|+| +++|+.++++|.+++||.+||.+|+++   +|+|+++|+|+|+|+.|. |+.+|++|||++|++|+|+++..
T Consensus         1 M~I~Vk~~~g~~~~~~v~~~~TV~~LK~~I~~~~~~~gip~~~qrLi~~Gk~L~-D~~tL~~ygI~~g~~i~l~~~~~   77 (95)
T 1uel_A            1 MQVTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILN-DDTALKEYKIDEKNFVVVMVTKP   77 (95)
T ss_dssp             CEEEEEETTCCEEEEECCTTSBHHHHHHHHHHHHCTTTCCTTTEEEEETTEECC-TTSBGGGGTCCSSSEEEEEESSC
T ss_pred             CEEEEEeCCCCEEEEEECCCCHHHHHHHHHHhhcccCCCChhhEEEEECCEECC-CcCcHHHCCCCCCCEEEEEEeCC
Confidence            89999 778999999999999999999999999   899999999999999997 88999999999999999988754

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

Probab=99.48  E-value=2.4e-13  Score=119.48  Aligned_cols=77  Identities=21%  Similarity=0.245  Sum_probs=69.7

Q ss_pred             CCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecccc
Q 012177           31 NDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDL  109 (469)
Q Consensus        31 ~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~  109 (469)
                      ...|+|+| +. |+++.++|.+++||.+||.+|+++.|+++++|+|+|+|+.|. |+.+|.+|+|+++++|+|++++.++
T Consensus        30 ~~~m~I~Vk~~-g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~-D~~tL~dygI~~gstI~lv~~~~gg  107 (125)
T 1j8c_A           30 PKIIKVTVKTP-KEKEEFAVPENSSVQQFKEAISKRFKSQTDQLVLIFAGKILK-DQDTLIQHGIHDGLTVHLVIKRDPN  107 (125)
T ss_dssp             CCCEEEEEECS-SCEEEEEECTTCCHHHHHHHHHHHHCSCSSSEEEEETTEEES-TTSCGGGTTCSSSEEEEEEEC----
T ss_pred             CCcEEEEEEeC-CeEEEEEECCCCcHHHHHHHHHHHHCcCcceEEEEECCEEcC-CCCCHHHcCCCCCCEEEEEeccCCC
Confidence            56799999 55 999999999999999999999999999999999999999997 8999999999999999999988755

>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=99.48  E-value=8.3e-14  Score=122.40  Aligned_cols=78  Identities=19%  Similarity=0.316  Sum_probs=71.7

Q ss_pred             CCCEEEEE-EeCCeEE-EEEeCCCCcHHHHHHHH-----HHHhCCCC--cceEEEEcCeecccCCccccccCccCc----
Q 012177           31 NDSILIFL-SVGGSVI-PMRVMESDSIASVKLRI-----QSYNGFFV--KKQKLVFEGRELARSNSRVRDYGLADG----   97 (469)
Q Consensus        31 ~~~M~I~V-~l~G~~~-~l~V~~sdTV~~LK~kI-----q~~~Gip~--~~QrLvf~Gk~L~~D~~tL~dygI~~g----   97 (469)
                      .+.|+|+| +++|+.+ ++++++++||.+||++|     +.++|+|+  ++|||+|+|+.|+ |+.+|++|+|+.+    
T Consensus        14 ~~~~~i~~kt~~G~~i~~l~v~psdTV~~lK~kI~~~~p~dkegiP~~~~qQrLIy~GK~Le-D~~TLsdy~I~~~~~~~   92 (126)
T 1se9_A           14 HNQLEIKFRLTDGSDIGPKAFPDATTVSALKETVISEWPREKENGPKTVKEVKLISAGKVLE-NSKTVKDYRSPVSNLAG   92 (126)
T ss_dssp             CCCEEEEEEETTSCEEEEEEECTTCBHHHHHHHHHHHSCTTCSSSCCSGGGEEEEETTEECC-TTSBGGGGSCCTTSCTT
T ss_pred             cccEEEEEEECCCCEEEeeecCccCHHHHHHHHHHhhcccccccCCCChhhEEEEECCeECc-CCCcHHHcCCCcCCccC
Confidence            58999999 8999888 89999999999999999     66788986  8999999999998 9999999999998    


Q ss_pred             --cceeeeeecccc
Q 012177           98 --NVLHLVLRLSDL  109 (469)
Q Consensus        98 --stl~LvlrLsd~  109 (469)
                        .++||++++.++
T Consensus        93 ~v~tmhlVlrl~g~  106 (126)
T 1se9_A           93 AVTTMHVIIQAPVT  106 (126)
T ss_dssp             CCEEEEEEECCCSS
T ss_pred             CcEEEEEEeccCCc
Confidence              789999998865

>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=99.48  E-value=9.6e-14  Score=117.52  Aligned_cols=80  Identities=16%  Similarity=0.292  Sum_probs=71.2

Q ss_pred             CCCCEEEEE-EeCC----eEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeee
Q 012177           30 SNDSILIFL-SVGG----SVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVL  104 (469)
Q Consensus        30 ~~~~M~I~V-~l~G----~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~Lvl  104 (469)
                      +...|+|+| ...+    ++++++|.+++||.+||++|++++|+|+++|+|+|+|+.|.+|+.+|.+|+|+++++|+|+.
T Consensus         4 ~~~~m~I~Vk~~~~~~~~~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~gk~L~D~~~tL~~ygI~~g~~l~l~~   83 (102)
T 1v5o_A            4 GSSGMLITVYCVRRDLTEVTFSLQVNPDFELSNFRVLCELESGVPAEEAQIVYMEQLLTDDHCSLGSYGLKDGDMVVLLQ   83 (102)
T ss_dssp             CSCCEEEEEEECCCCCCCCEEEEEECTTCBHHHHHHHHHHHTCCCGGGBCEEETTEEECCSSSBHHHHTCCTTEEEEECB
T ss_pred             CCCeEEEEEEECCCCcCceEEEEEcCCCCCHHHHHHHHHHHHCcChHHeEEEECCEECCCCcccHHHCCCCCCCEEEEEE
Confidence            356699999 5433    79999999999999999999999999999999999999998443799999999999999999


Q ss_pred             ecccc
Q 012177          105 RLSDL  109 (469)
Q Consensus       105 rLsd~  109 (469)
                      +.+++
T Consensus        84 ~~~gg   88 (102)
T 1v5o_A           84 KDNVG   88 (102)
T ss_dssp             CCCCC
T ss_pred             CCCCC
Confidence            87655

>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=99.47  E-value=1e-13  Score=118.15  Aligned_cols=77  Identities=14%  Similarity=0.159  Sum_probs=72.8

Q ss_pred             ccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeCC
Q 012177          108 DLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKSA  186 (469)
Q Consensus       108 d~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks~  186 (469)
                      ..|+|+||+.+|+++.++|++++||.+||++|+++.|++  +++|+|+|+|+.|+|+++|.+|+|+++++|||+++++.
T Consensus        22 ~~m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip--~~~qrLi~~Gk~L~D~~tL~~ygI~~g~ti~lv~~~~~   98 (106)
T 1ttn_A           22 YECQLRLRLSTGKDLKLVVRSTDTVFHMKRRLHAAEGVE--PGSQRWFFSGRPLTDKMKFEELKIPKDYVVQVIVSQPV   98 (106)
T ss_dssp             CSEEEEEEETTTEEEEEEECTTSHHHHHHHHHHHTTCCC--STTCEEEETTEECCTTSHHHHCCCSSSCEEEEECCCSS
T ss_pred             CeEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHHCcC--cccEEEEECCEECCCCCcHHHcCCCCCCEEEEEEeCCC
Confidence            458999999999999999999999999999999999988  99999999999999999999999999999999887554

>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=99.47  E-value=1.1e-13  Score=117.00  Aligned_cols=78  Identities=21%  Similarity=0.278  Sum_probs=72.0

Q ss_pred             CCCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeeccc
Q 012177           30 SNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSD  108 (469)
Q Consensus        30 ~~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd  108 (469)
                      .++.|+|+| +.+|+ +.++|.+++||.+||++|+++.|+|+++|+|+|+|+.|. |+.+|++|+|+++++|+|++++++
T Consensus        19 ~~~~m~I~Vk~~~g~-~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~-D~~tL~~ygI~~gstI~l~~r~~~   96 (100)
T 1yqb_A           19 SPHLIKVTVKTPKDK-EDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILK-DPDSLAQCGVRDGLTVHLVIKRQH   96 (100)
T ss_dssp             CTTEEEEEEECSSCE-EEEEEETTCBHHHHHHHHHHHHTCCGGGEEEEETTEECC-TTSBHHHHTCCTTCEEEEEECCCC
T ss_pred             CCCeEEEEEEcCCCc-EEEEECCCCcHHHHHHHHHHHHCcChhhEEEEECCEECC-CcCcHHHCCCCCCCEEEEEEcCCC
Confidence            478899999 66776 799999999999999999999999999999999999998 899999999999999999998765


Q ss_pred             c
Q 012177          109 L  109 (469)
Q Consensus       109 ~  109 (469)
                      +
T Consensus        97 ~   97 (100)
T 1yqb_A           97 R   97 (100)
T ss_dssp             S
T ss_pred             C
Confidence            4

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

Probab=99.47  E-value=1.3e-13  Score=115.28  Aligned_cols=76  Identities=21%  Similarity=0.237  Sum_probs=71.3

Q ss_pred             cccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCC-CcccccCCCCCCEEEEEEeeC
Q 012177          107 SDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQ-RLITDICKRNEAVIHLLVRKS  185 (469)
Q Consensus       107 sd~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~-~tL~dy~I~~~svI~Lv~rks  185 (469)
                      ...|+|+||+.+| ++.++|++++||.+||++|+++.|+|  +++|+|+|+|+.|+|+ ++|++|+|+++++|+|+++..
T Consensus        13 ~~~~~I~Vk~~~~-~~~l~v~~~~TV~~LK~~I~~~~gip--~~~QrLi~~Gk~L~D~~~tL~~ygI~~gstl~lv~r~~   89 (94)
T 2kan_A           13 VRKIHVTVKFPSK-QFTVEVDRTETVSSLKDKIHIVENTP--IKRMQLYYSGIELADDYRNLNEYGITEFSEIVVFLKSI   89 (94)
T ss_dssp             SCCEEEEEECSSC-EEEEEECTTCBHHHHHHHHHHHSSSC--TTTEEEEETTEEECCTTSBHHHHTCCTTEEEEEEECCC
T ss_pred             CCCEEEEEEcCCc-EEEEEECCCCcHHHHHHHHHHHHCcC--HHHEEEEECCEECCCCcccHHHCCCCCCCEEEEEEeCC
Confidence            4568999999888 89999999999999999999999988  9999999999999999 999999999999999998854

>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=99.47  E-value=8.4e-14  Score=122.35  Aligned_cols=84  Identities=17%  Similarity=0.244  Sum_probs=71.2

Q ss_pred             eeeeccccceeeeeeecceeE-EEEeecCchHHHHHHHHH-----HhcCCCCCCCceEEEECCEEcCCCCcccccCCCCC
Q 012177          102 LVLRLSDLQAITVTTVCGKVF-EFHVERGRNVGYVKQQIA-----KKGREFVDLKNQELICDGEELEDQRLITDICKRNE  175 (469)
Q Consensus       102 LvlrLsd~m~I~Vkt~~Gk~~-~l~V~~~~TV~~LK~kI~-----~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~  175 (469)
                      |.....+.|.|+|||.+|+.+ .+++++++||.+||++|+     .++++|.++++|||+|+|+.|+|+++|++|+|+.+
T Consensus         9 ~~~~~~~~~~i~~kt~~G~~i~~l~v~psdTV~~lK~kI~~~~p~dkegiP~~~~qQrLIy~GK~LeD~~TLsdy~I~~~   88 (126)
T 1se9_A            9 LEAEVHNQLEIKFRLTDGSDIGPKAFPDATTVSALKETVISEWPREKENGPKTVKEVKLISAGKVLENSKTVKDYRSPVS   88 (126)
T ss_dssp             -CCSSCCCEEEEEEETTSCEEEEEEECTTCBHHHHHHHHHHHSCTTCSSSCCSGGGEEEEETTEECCTTSBGGGGSCCTT
T ss_pred             hhhhhcccEEEEEEECCCCEEEeeecCccCHHHHHHHHHHhhcccccccCCCChhhEEEEECCeECcCCCcHHHcCCCcC
Confidence            333345789999999999988 699999999999999995     45567733489999999999999999999999988


Q ss_pred             ------CEEEEEEeeC
Q 012177          176 ------AVIHLLVRKS  185 (469)
Q Consensus       176 ------svI~Lv~rks  185 (469)
                            +++||++|..
T Consensus        89 ~~~~~v~tmhlVlrl~  104 (126)
T 1se9_A           89 NLAGAVTTMHVIIQAP  104 (126)
T ss_dssp             SCTTCCEEEEEEECCC
T ss_pred             CccCCcEEEEEEeccC
Confidence                  6899998743

>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=99.47  E-value=4.6e-14  Score=117.69  Aligned_cols=79  Identities=20%  Similarity=0.306  Sum_probs=72.8

Q ss_pred             CCCCEEEEEEeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecccc
Q 012177           30 SNDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDL  109 (469)
Q Consensus        30 ~~~~M~I~V~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~  109 (469)
                      +...|+|+|...|+++.++|.+++||.+||.+|++++|+|+++|+|+|.|+.|. |+.+|++|+|+++++|||++++.++
T Consensus        14 ~~~~m~i~Vk~~g~~~~~~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~-D~~tL~~~gi~~g~~i~l~~~~~~g   92 (96)
T 1wx8_A           14 SSRIIRVSVKTPQDCHEFFLAENSNVRRFKKQISKYLHCNADRLVLIFTGKILR-DQDILSQRGILDGSTVHVVVRSHSG   92 (96)
T ss_dssp             CSCEEEEEEECSSSEEEEEEETTCCHHHHHHHHHHHTCSCTTTBCCEETTEECC-TTSCHHHHTCCTTEEEECCBCCSSC
T ss_pred             CCCcEEEEEEECCeEEEEEECCCCCHHHHHHHHHHHhCCCHHHEEEEECCEECC-CcCCHHHCCCCCCCEEEEEEeCCCC
Confidence            367899999434999999999999999999999999999999999999999997 8999999999999999999988754

>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=99.46  E-value=7.5e-14  Score=119.86  Aligned_cols=78  Identities=24%  Similarity=0.281  Sum_probs=73.6

Q ss_pred             CCCEEEEE-Ee---CCeEEEEEeCC-CCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeee
Q 012177           31 NDSILIFL-SV---GGSVIPMRVME-SDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLR  105 (469)
Q Consensus        31 ~~~M~I~V-~l---~G~~~~l~V~~-sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~Lvlr  105 (469)
                      ...|+|+| +.   +|++++++|.+ ++||.+||.+|++.+|+|+++|+|+|+|+.|. |+.+|++|+|+++++|+|+++
T Consensus        25 ~~~i~i~Vk~~~~~~g~~~~l~v~~l~~TV~~LK~~I~~~~gip~~~QrL~~~Gk~L~-D~~tL~~y~I~~g~~l~l~~r  103 (111)
T 1we6_A           25 PGPATIRVSKPNENDGQFMEITVQSLSENVGSLKEKIAGEIQIPANKQKLSGKAGFLK-DNMSLAHYNVGAGEILTLSLR  103 (111)
T ss_dssp             CSCEEEEECCTTCSSSCCEEEEESCSSSBHHHHHHHHHHHTTCCTTTSEEECSSSBCC-TTSBTTTTTCSSSCEEEEECS
T ss_pred             CCcEEEEEEecccCCCcEEEEEecCCCCcHHHHHHHHHHHHCCCHHHeEEEECCEECC-CCCcHHHCCCCCCCEEEEEEE
Confidence            56799999 66   78999999998 99999999999999999999999999999998 899999999999999999999


Q ss_pred             cccc
Q 012177          106 LSDL  109 (469)
Q Consensus       106 Lsd~  109 (469)
                      ++++
T Consensus       104 ~~GG  107 (111)
T 1we6_A          104 ERSG  107 (111)
T ss_dssp             SCCS
T ss_pred             cCCC
Confidence            8876

>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=99.46  E-value=1e-13  Score=120.56  Aligned_cols=72  Identities=15%  Similarity=0.086  Sum_probs=67.0

Q ss_pred             ceeeeeeecce-eEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCC-------CCCEEEEE
Q 012177          110 QAITVTTVCGK-VFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKR-------NEAVIHLL  181 (469)
Q Consensus       110 m~I~Vkt~~Gk-~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~-------~~svI~Lv  181 (469)
                      |.++|++..++ ++.++|++++||.+||++|+.++|+|  +++|||+|+|+.|+|+++|++|+|+       ++++|||+
T Consensus         1 M~mfl~ir~~ktti~lev~~sdTV~~lK~kI~~~egIP--~~qQrLi~~Gk~LeD~~TLsdy~I~~~~a~~q~~stL~L~   78 (118)
T 2fnj_B            1 MDVFLMIRRHKTTIFTDAKESSTVFELKRIVEGILKRP--PEEQRLYKDDQLLDDGKTLGECGFTSQTARPQAPATVGLA   78 (118)
T ss_dssp             CEEEEEEEEBTEEEEEEEETTSBHHHHHHHHHHHHCCC--GGGEEEEETTEECCTTSBHHHHTCCTTTSBTTBCEEEEEE
T ss_pred             CcEEEEEecCCEEEEEEeCCcChHHHHHHHHHHHhCCC--HHHeEEEECCeECCCCCCHHHcCcccccccCCCCCEEEEE
Confidence            56777777775 58899999999999999999999998  9999999999999999999999999       79999999


Q ss_pred             Ee
Q 012177          182 VR  183 (469)
Q Consensus       182 ~r  183 (469)
                      +|
T Consensus        79 lr   80 (118)
T 2fnj_B           79 FR   80 (118)
T ss_dssp             EB
T ss_pred             ec
Confidence            98

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

Probab=99.45  E-value=1.1e-13  Score=115.14  Aligned_cols=74  Identities=16%  Similarity=0.187  Sum_probs=68.3

Q ss_pred             cccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEee
Q 012177          107 SDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       107 sd~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rk  184 (469)
                      ...|+|+|++  |+++.++|++++||.+||++|+++.++|  +++|+|+|+|+.|+|+++|++|+|+++++|+|++|.
T Consensus        17 ~~~m~I~Vk~--g~~~~l~v~~~~TV~~LK~~I~~~~gip--~~~qrLi~~Gk~L~D~~tL~~y~I~~gstI~lv~rl   90 (93)
T 2l7r_A           17 RGSMQLFVRA--QELHTFEVTGQETVAQIKAHVASLEGIA--PEDQVVLLAGAPLEDEATLGQCGVEALTTLEVAGRM   90 (93)
T ss_dssp             ---CEEEEES--SSEEEEECCSSCBHHHHHHHHHHHHTCC--GGGCEEEETTEECCTTSBHHHHTCCSSCEEEEECCC
T ss_pred             CCcEEEEEEC--CCEEEEEeCCCCcHHHHHHHHHHHhCcC--hhHEEEEECCEECCCCCcHHHCCCCCCCEEEEEEec
Confidence            4569999998  8999999999999999999999999988  999999999999999999999999999999998874

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

Probab=99.45  E-value=3.1e-13  Score=114.32  Aligned_cols=77  Identities=19%  Similarity=0.286  Sum_probs=71.4

Q ss_pred             CCCEEEEEEeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeeccc
Q 012177           31 NDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSD  108 (469)
Q Consensus        31 ~~~M~I~V~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd  108 (469)
                      ...|+|+|+..|+++.++|.+++||.+||.+|+++.|+|+++|+|+|+|+.|. |+.+|++|||+++++|+|+++++.
T Consensus        23 ~~~m~I~Vk~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~-D~~tL~~~gI~~g~~I~l~~~~~~   99 (101)
T 2klc_A           23 PKIMKVTVKTPKEKEEFAVPENSSVQQFKEEISKRFKSHTDQLVLIFAGKILK-DQDTLSQHGIHDGLTVHLVIKTQN   99 (101)
T ss_dssp             CCCEEEEEECSSCEEEEEECSCCCHHHHHHHHHHHHTCCGGGEEEEETTEEEC-TTCCTGGGTCCTTCEEEEEECCSS
T ss_pred             CCeEEEEEEeCCcEEEEEECCCCCHHHHHHHHHHHHCcChhhEEEEECCEECC-CcCcHHHcCCCCCCEEEEEEcCCC
Confidence            67899999444899999999999999999999999999999999999999998 899999999999999999987653

>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=99.45  E-value=1.9e-13  Score=118.58  Aligned_cols=74  Identities=15%  Similarity=0.086  Sum_probs=68.3

Q ss_pred             ceeeeeeecce-eEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCC-------CCEEEEE
Q 012177          110 QAITVTTVCGK-VFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRN-------EAVIHLL  181 (469)
Q Consensus       110 m~I~Vkt~~Gk-~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~-------~svI~Lv  181 (469)
                      |.++++...++ ++.+++++++||.+||++|+.++|+|  +++|||+|+|+.|+|++||++|+|++       +++|||+
T Consensus         1 m~vFl~Ikr~ktTI~ldve~sdTV~~lK~kI~~~~giP--p~qQrLI~~Gk~LeD~kTL~dy~I~~~ta~~q~~atl~Lv   78 (118)
T 4ajy_B            1 MDVFLMIRRHKTTIFTDAKESSTVFELKRIVEGILKRP--PDEQRLYKDDQLLDDGKTLGECGFTSQTARPQAPATVGLA   78 (118)
T ss_dssp             CEEEEEEEEBTEEEEEEEETTSBHHHHHHHHHHHHCCC--GGGEEEEETTEECCTTSBTTTTTCCGGGSBTTBCEEEEEE
T ss_pred             CceEEEEecCCEEEEEEcCCCChHHHHHHHHHHHHCCC--HHHeEEEeCCeECCCcCCHHHcCCCcCcccCCCCCEEEEE
Confidence            56778777666 77899999999999999999999998  99999999999999999999999999       9999999


Q ss_pred             EeeC
Q 012177          182 VRKS  185 (469)
Q Consensus       182 ~rks  185 (469)
                      +|..
T Consensus        79 lr~~   82 (118)
T 4ajy_B           79 FRAD   82 (118)
T ss_dssp             ECCS
T ss_pred             EecC
Confidence            9953

>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=99.45  E-value=4.9e-14  Score=120.35  Aligned_cols=79  Identities=20%  Similarity=0.234  Sum_probs=71.8

Q ss_pred             cceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCC---------------CceEEEECCEEcC-CCCcccccCC
Q 012177          109 LQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDL---------------KNQELICDGEELE-DQRLITDICK  172 (469)
Q Consensus       109 ~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~---------------e~QrLif~Gk~Le-D~~tL~dy~I  172 (469)
                      .|+|+|++++|+++.++|++++||.+||++|+++.+++  +               ++|+|+|+|+.|. |.++|.+|+|
T Consensus         7 ~M~I~Vk~l~g~~~~v~V~~~~TV~dLK~~I~~~~~i~--~~~q~g~~~isw~~~w~q~~Li~~Gk~L~dD~~tL~dygI   84 (105)
T 1v2y_A            7 GMTVRVCKMDGEVMPVVVVQNATVLDLKKAIQRYVQLK--QEREGGVQHISWSYVWRTYHLTSAGEKLTEDRKKLRDYGI   84 (105)
T ss_dssp             SEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHHHH--HHHTTCCCCCCHHHHHTTEEEESSSCEECCSSSBHHHHTC
T ss_pred             cEEEEEEecCCCEEEEEECCCChHHHHHHHHHHHhCCC--cccccCcceeeeeecceeEEEEeCCcCccCCcCCHHHcCC
Confidence            49999999999999999999999999999999999876  4               4679999999996 6799999999


Q ss_pred             CCCCEEEEEEeeCCccc
Q 012177          173 RNEAVIHLLVRKSAKVR  189 (469)
Q Consensus       173 ~~~svI~Lv~rks~kv~  189 (469)
                      +++++|||+.+...+.+
T Consensus        85 ~~g~~l~lv~~lr~~~~  101 (105)
T 1v2y_A           85 RNRDEVSFIKKLGQKSG  101 (105)
T ss_dssp             CSSEEEEEEECSCSCCC
T ss_pred             CCCCEEEEEehhccCCC
Confidence            99999999998766643

>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=99.45  E-value=2.4e-13  Score=114.79  Aligned_cols=79  Identities=22%  Similarity=0.325  Sum_probs=72.8

Q ss_pred             ccccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeC
Q 012177          106 LSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKS  185 (469)
Q Consensus       106 Lsd~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks  185 (469)
                      .+..|+|+|++.+|+ +.++|++++||.+||++|++..+++  +++|+|+|+|+.|+|+++|++|+|+++++|+|+++..
T Consensus        19 ~~~~m~I~Vk~~~g~-~~l~v~~~~TV~~LK~~I~~~~gip--~~~QrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~   95 (100)
T 1yqb_A           19 SPHLIKVTVKTPKDK-EDFSVTDTCTIQQLKEEISQRFKAH--PDQLVLIFAGKILKDPDSLAQCGVRDGLTVHLVIKRQ   95 (100)
T ss_dssp             CTTEEEEEEECSSCE-EEEEEETTCBHHHHHHHHHHHHTCC--GGGEEEEETTEECCTTSBHHHHTCCTTCEEEEEECCC
T ss_pred             CCCeEEEEEEcCCCc-EEEEECCCCcHHHHHHHHHHHHCcC--hhhEEEEECCEECCCcCcHHHCCCCCCCEEEEEEcCC
Confidence            356699999999887 7999999999999999999999988  9999999999999999999999999999999998865


Q ss_pred             Cc
Q 012177          186 AK  187 (469)
Q Consensus       186 ~k  187 (469)
                      ..
T Consensus        96 ~~   97 (100)
T 1yqb_A           96 HR   97 (100)
T ss_dssp             CS
T ss_pred             CC
Confidence            43

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

Probab=99.44  E-value=3e-13  Score=113.23  Aligned_cols=74  Identities=32%  Similarity=0.447  Sum_probs=70.9

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeC
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKS  185 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks  185 (469)
                      |+|+|++.+|+++.++|++++||.+||++|++..+++  +++|+|+|+|+.|+|+.+|++|+|+++++|+|+.+..
T Consensus         1 M~I~Vk~~~g~~~~~~v~~~~TV~~LK~~I~~~~gi~--~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~i~l~~~~~   74 (98)
T 1yx5_B            1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIP--PDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLR   74 (98)
T ss_dssp             CEEEEEETTSCEEEEECCTTCBHHHHHHHHHHHTCCC--GGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEECCC
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcC--hhhEEEEECCEECCCCCCHHHcCCCCCCEEEEEEeCC
Confidence            7899999999999999999999999999999999988  9999999999999999999999999999999998854

>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=99.44  E-value=2.3e-13  Score=117.02  Aligned_cols=74  Identities=32%  Similarity=0.442  Sum_probs=71.4

Q ss_pred             cceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEee
Q 012177          109 LQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       109 ~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rk  184 (469)
                      .|+|+|++.+|+++.++|++++||.+||++|+++.++|  +++|+|+|+|+.|+|.++|++|+|+++++|||++|.
T Consensus        35 ~m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~gip--~~~QrLi~~Gk~L~D~~tL~~~gI~~gs~I~l~~rl  108 (111)
T 3vdz_A           35 AMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIP--PDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRL  108 (111)
T ss_dssp             CEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHCCC--GGGEEEEETTEECCTTSBTTTTTCCTTCEEEEEECC
T ss_pred             cEEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCC--hHHEEEEECCEECCCCCcHHHCCCCCCCEEEEEEec
Confidence            58999999999999999999999999999999999988  999999999999999999999999999999999874

>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=99.44  E-value=1.8e-13  Score=113.55  Aligned_cols=75  Identities=24%  Similarity=0.359  Sum_probs=68.5

Q ss_pred             ccceeeeeeecce--eEEEEeecCchHHHHHHHHHHhc--CCCCCCCceEEEECCEEcCCCCccccc--CCCCCCEEEEE
Q 012177          108 DLQAITVTTVCGK--VFEFHVERGRNVGYVKQQIAKKG--REFVDLKNQELICDGEELEDQRLITDI--CKRNEAVIHLL  181 (469)
Q Consensus       108 d~m~I~Vkt~~Gk--~~~l~V~~~~TV~~LK~kI~~~~--gip~~~e~QrLif~Gk~LeD~~tL~dy--~I~~~svI~Lv  181 (469)
                      ..|+|+||+.+|+  ++.+++++++||.+||++|++++  +++  +++|+|+|+|+.|+|+++|++|  +|+++++|||+
T Consensus         6 ~~m~i~Vk~~~~~~~~~~v~v~~~~TV~~lK~~I~~~~~~~i~--~~~QrLi~~Gk~L~D~~tL~~~~~~i~~~~~i~lv   83 (93)
T 1wgd_A            6 SGVTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVYPERPR--PEDQRLIYSGKLLLDHQCLRDLLPKQEKRHVLHLV   83 (93)
T ss_dssp             CCCEEEEECSSSSCCCEEEECCTTSCHHHHHHHHHHHSTTCCC--TTTCEEEETTEECCSSSCHHHHSCSSSCSEEEEEE
T ss_pred             cEEEEEEEeCCCCeEEEEEecCCCCcHHHHHHHHHHHhcCCCC--hHHeEEEECCEECcCcCCHHHHhcCCCCCCEEEEE
Confidence            3589999999988  56677779999999999999998  887  9999999999999999999999  99999999998


Q ss_pred             Eee
Q 012177          182 VRK  184 (469)
Q Consensus       182 ~rk  184 (469)
                      ++.
T Consensus        84 ~~~   86 (93)
T 1wgd_A           84 CNV   86 (93)
T ss_dssp             CCC
T ss_pred             eCC
Confidence            773

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

Probab=99.44  E-value=3.5e-13  Score=113.94  Aligned_cols=78  Identities=23%  Similarity=0.321  Sum_probs=72.1

Q ss_pred             ccccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeC
Q 012177          106 LSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKS  185 (469)
Q Consensus       106 Lsd~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks  185 (469)
                      -...|+|+|++. |+++.++|++++||.+||++|++..|++  +++|+|+|+|+.|+|+.+|.+|+|+++++|+|+.+.+
T Consensus        22 ~~~~m~I~Vk~~-g~~~~l~v~~~~TV~~LK~~I~~~~gip--~~~qrLi~~Gk~L~D~~tL~~~gI~~g~~I~l~~~~~   98 (101)
T 2klc_A           22 HPKIMKVTVKTP-KEKEEFAVPENSSVQQFKEEISKRFKSH--TDQLVLIFAGKILKDQDTLSQHGIHDGLTVHLVIKTQ   98 (101)
T ss_dssp             -CCCEEEEEECS-SCEEEEEECSCCCHHHHHHHHHHHHTCC--GGGEEEEETTEEECTTCCTGGGTCCTTCEEEEEECCS
T ss_pred             CCCeEEEEEEeC-CcEEEEEECCCCCHHHHHHHHHHHHCcC--hhhEEEEECCEECCCcCcHHHcCCCCCCEEEEEEcCC
Confidence            345689999998 8999999999999999999999999988  9999999999999999999999999999999998755


Q ss_pred             C
Q 012177          186 A  186 (469)
Q Consensus       186 ~  186 (469)
                      .
T Consensus        99 ~   99 (101)
T 2klc_A           99 N   99 (101)
T ss_dssp             S
T ss_pred             C
Confidence            4

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

Probab=99.43  E-value=1.4e-13  Score=121.03  Aligned_cols=79  Identities=18%  Similarity=0.262  Sum_probs=70.4

Q ss_pred             cccceeeeeeecceeEEEEeecCchHHHHHHHHHH------hcCCCCCCCceEEEECCEEcCCCCcccccCCCCCC--EE
Q 012177          107 SDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAK------KGREFVDLKNQELICDGEELEDQRLITDICKRNEA--VI  178 (469)
Q Consensus       107 sd~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~------~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~s--vI  178 (469)
                      ...|.|+|||++|++++++|++++||.+||++|++      ++++|.++++|+|+|+|+.|+|+++|++|+|+.++  +|
T Consensus        15 ~~~m~I~vktl~G~~~~lev~~s~TV~~lK~~I~~~~p~dwke~ip~~~~~qrLIy~GK~LeD~~TL~~y~I~~~~~~tl   94 (125)
T 2gow_A           15 ADMINLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVTLGALKLPFGKTTVM   94 (125)
T ss_dssp             TTCEEEEEECTTSCEEEEEECTTSBHHHHHHHHHSSCCCSCCCCTTCCGGGEEEESSSSEEESSCBTGGGCCCTTSEEEE
T ss_pred             CCeEEEEEEeCCCCEEEEEeCCccHHHHHHHHHHHHCCcccccCCCCChHHEEEEECCcCCCCCCcHHHcCCCCCCceEE
Confidence            34588999999999999999999999999999999      67775458999999999999999999999998665  78


Q ss_pred             EEEEeeC
Q 012177          179 HLLVRKS  185 (469)
Q Consensus       179 ~Lv~rks  185 (469)
                      ||++|..
T Consensus        95 hlv~r~~  101 (125)
T 2gow_A           95 HLVARET  101 (125)
T ss_dssp             EEEECSC
T ss_pred             EEEecCC
Confidence            9888743

>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=99.43  E-value=8.1e-14  Score=117.88  Aligned_cols=74  Identities=18%  Similarity=0.192  Sum_probs=65.1

Q ss_pred             CEEEEE-EeC--CeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeeccc
Q 012177           33 SILIFL-SVG--GSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSD  108 (469)
Q Consensus        33 ~M~I~V-~l~--G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd  108 (469)
                      +++|++ .-.  +++++++|.+++||.+||++|++++|+|+++|+|+|+|++|. |+.+|++|+|+++++| +++++++
T Consensus        17 ti~V~~~~~~~~~~~~~lev~~~~TV~~lK~kI~~k~gip~~qQrLI~~GKiL~-D~~TL~~y~I~~gsti-~vl~lrg   93 (100)
T 1wju_A           17 TIEVFLPPRLKKDRKNLLETRLHITGRELRSKIAETFGLQENYIKIVINKKQLQ-LGKTLEEQGVAHNVKA-MVLELKQ   93 (100)
T ss_dssp             EEEEECCTTTCCSSSEEEEEESSSBHHHHHHHHHHHTTCCSTTCEEEETTEECC-TTSBHHHHTCCSSEEE-EEECCCC
T ss_pred             EEEEEecCCCCCCcEEEEEeCCcCHHHHHHHHHHHHHCcCHHHeEEEeCCeECC-CCCcHHHcCCCCCCEE-EEEEECC
Confidence            466665 212  689999999999999999999999999999999999999998 8999999999999999 6666643

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

Probab=99.43  E-value=2.3e-13  Score=119.69  Aligned_cols=77  Identities=25%  Similarity=0.294  Sum_probs=69.9

Q ss_pred             CCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHH------HhCCC--CcceEEEEcCeecccCCccccccCccCcc--c
Q 012177           31 NDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQS------YNGFF--VKKQKLVFEGRELARSNSRVRDYGLADGN--V   99 (469)
Q Consensus        31 ~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~------~~Gip--~~~QrLvf~Gk~L~~D~~tL~dygI~~gs--t   99 (469)
                      ...|+|+| +++|++++++|.+++||.+||++|++      ++|+|  +++|||+|+|+.|. |+.+|++|+|+.++  +
T Consensus        15 ~~~m~I~vktl~G~~~~lev~~s~TV~~lK~~I~~~~p~dwke~ip~~~~~qrLIy~GK~Le-D~~TL~~y~I~~~~~~t   93 (125)
T 2gow_A           15 ADMINLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLH-GNVTLGALKLPFGKTTV   93 (125)
T ss_dssp             TTCEEEEEECTTSCEEEEEECTTSBHHHHHHHHHSSCCCSCCCCTTCCGGGEEEESSSSEEE-SSCBTGGGCCCTTSEEE
T ss_pred             CCeEEEEEEeCCCCEEEEEeCCccHHHHHHHHHHHHCCcccccCCCCChHHEEEEECCcCCC-CCCcHHHcCCCCCCceE
Confidence            56699999 78999999999999999999999999      78884  89999999999998 89999999999665  7


Q ss_pred             eeeeeeccc
Q 012177          100 LHLVLRLSD  108 (469)
Q Consensus       100 l~LvlrLsd  108 (469)
                      +||++++..
T Consensus        94 lhlv~r~~~  102 (125)
T 2gow_A           94 MHLVARETL  102 (125)
T ss_dssp             EEEEECSCC
T ss_pred             EEEEecCCC
Confidence            899998864

>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=99.15  E-value=1.1e-14  Score=115.85  Aligned_cols=73  Identities=16%  Similarity=0.239  Sum_probs=70.1

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEee
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rk  184 (469)
                      |+|+|++.+|+++.+++++++||.+||++|++..|+|  +++|+|+|+|+.|+|+.+|++|+|+++++|||++|.
T Consensus         1 M~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi~--~~~qrL~~~gk~L~d~~tL~~~~i~~g~~i~l~~rl   73 (76)
T 3b1l_X            1 MIVFVRFNSSYGFPVEVDSDTSILQLKEVVAKQQGVP--ADQLRVIFAGKELPNHLTVQNCDLEQQSIVHIVQRP   73 (76)
Confidence            7899999999999999999999999999999999988  999999999999999999999999999999998874

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

Probab=99.43  E-value=2.3e-13  Score=125.17  Aligned_cols=78  Identities=35%  Similarity=0.604  Sum_probs=70.6

Q ss_pred             CCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecccc
Q 012177           31 NDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDL  109 (469)
Q Consensus        31 ~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~  109 (469)
                      ...|+|+| +.+|++++++|.+++||.+||.+|+.++|+|+++|+|+|+|++|. |+.+|.+|+|+++++|||+++++++
T Consensus        94 ~gg~~i~Vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gip~~~q~L~~~g~~L~-D~~tL~~y~i~~g~tl~l~~rlrgG  172 (172)
T 3u30_A           94 RGGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLE-DGRTLSDYNIQKESTLHLVLRLRGG  172 (172)
T ss_dssp             CCCEEEEEEESSCCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCCEEETTEECC-TTSBSGGGTCCTTCEEEECC-----
T ss_pred             cccccceeecccCcceeEEecCCCCHHHHHHHHHHHhCCCceeEEEEECCccCC-CCCcHHHhCCCCCCEEEEEEecCCC
Confidence            56799999 889999999999999999999999999999999999999999998 8999999999999999999998764

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

Probab=99.43  E-value=4.8e-13  Score=114.89  Aligned_cols=75  Identities=32%  Similarity=0.419  Sum_probs=71.6

Q ss_pred             ccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEee
Q 012177          108 DLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       108 d~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rk  184 (469)
                      ..|+|+|++.+|+.+.++|+++.||.+||++|++..+++  +++|+|+|+|+.|+|+++|++|+|+++++|+|++|.
T Consensus        34 ~~m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip--~~~qrLi~~Gk~L~D~~tL~~~gI~~gs~I~l~~rl  108 (111)
T 2ojr_A           34 LAMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIP--PDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRL  108 (111)
T ss_dssp             SCEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHCCC--TTTEEEEETTEECCSSCBTTTTTCCTTCEEEEEECC
T ss_pred             CeEEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHHHHCcC--cccEEEEECCEECCCCCcHHHcCCCCCCEEEEEEeC
Confidence            469999999999999999999999999999999999988  999999999999999999999999999999999874

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

Probab=99.43  E-value=3.5e-13  Score=124.33  Aligned_cols=74  Identities=32%  Similarity=0.456  Sum_probs=71.3

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeC
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKS  185 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks  185 (469)
                      |+|+||+.+|+++.++|++++||.+||++|+++.|+|  +++|+|+|+|+.|+|+++|++|+|+++++|||++|..
T Consensus         1 MqI~Vk~~~Gk~~~l~v~~~~TV~~LK~~I~~~~gip--~~~QrLi~~Gk~L~D~~tL~~y~I~~gstI~Lvlrl~   74 (169)
T 3l0w_B            1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIP--PDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLR   74 (169)
T ss_dssp             CEEEEEETTSCEEEEECCTTCBHHHHHHHHHHHHCCC--TTTEEEEETTEECCTTSBGGGGTCCTTCEEEEEECCC
T ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHHCcC--HHHEEEEECCccccCcCcHHHcCCCCCCEEEEEEEec
Confidence            7899999999999999999999999999999999988  9999999999999999999999999999999998844

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

Probab=99.43  E-value=4.7e-13  Score=114.10  Aligned_cols=74  Identities=19%  Similarity=0.158  Sum_probs=66.7

Q ss_pred             CCCEEEEE-EeC--CeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCc-cCccceeeeee
Q 012177           31 NDSILIFL-SVG--GSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL-ADGNVLHLVLR  105 (469)
Q Consensus        31 ~~~M~I~V-~l~--G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI-~~gstl~Lvlr  105 (469)
                      +-.|+|+| +..  +.+++++|.+++||++||++|++++|+|+.+|||+|+|+.+. |+.+|.+||| ++|+++||++.
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~l~   99 (105)
T 4dbg_A           22 DIRLWVSVEDAQMHTVTIWLTVRPDMTVASLKDMVFLDYGFPPVLQQWVIGQRLAR-DQETLHSHGVRQNGDSAYLYLL   99 (105)
T ss_dssp             CEEEEEEEEESSSCCEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEEEC-TTCBTGGGTCCSTTCEEEEEEC
T ss_pred             cEEEEEEEEccCCCCceEEEEECCcChHHHHHHHHHHHhCCCHHHEEEeccCeEcc-CcCcHHHcCCCCCCCEEEEEEE
Confidence            45678888 655  479999999999999999999999999999999999999776 8999999999 59999999874

>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=99.42  E-value=2.7e-13  Score=114.61  Aligned_cols=73  Identities=10%  Similarity=-0.012  Sum_probs=63.8

Q ss_pred             eeeeeeec----ceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeC
Q 012177          111 AITVTTVC----GKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKS  185 (469)
Q Consensus       111 ~I~Vkt~~----Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks  185 (469)
                      .|.|+..+    ++++.++|++++||.+||++|++++|+|  +++|+|+|+|+.|+|+++|++|+|+++++|+++.-+.
T Consensus        17 ti~V~~~~~~~~~~~~~lev~~~~TV~~lK~kI~~k~gip--~~qQrLI~~GKiL~D~~TL~~y~I~~gsti~vl~lrg   93 (100)
T 1wju_A           17 TIEVFLPPRLKKDRKNLLETRLHITGRELRSKIAETFGLQ--ENYIKIVINKKQLQLGKTLEEQGVAHNVKAMVLELKQ   93 (100)
T ss_dssp             EEEEECCTTTCCSSSEEEEEESSSBHHHHHHHHHHHTTCC--STTCEEEETTEECCTTSBHHHHTCCSSEEEEEECCCC
T ss_pred             EEEEEecCCCCCCcEEEEEeCCcCHHHHHHHHHHHHHCcC--HHHeEEEeCCeECCCCCcHHHcCCCCCCEEEEEEECC
Confidence            34455555    7899999999999999999999999988  9999999999999999999999999999996554333

>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=99.42  E-value=2.7e-13  Score=115.35  Aligned_cols=77  Identities=19%  Similarity=0.272  Sum_probs=71.1

Q ss_pred             CCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecccc
Q 012177           31 NDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDL  109 (469)
Q Consensus        31 ~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~  109 (469)
                      +..|+|+| ...|+ +.++|.+++||.+||.+|++++|+++++|+|+|+|+.|. |+.+|.+|+|+++++|||++++.++
T Consensus        15 ~~~m~I~Vk~~~g~-~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~-D~~tL~~~gi~~g~~i~l~~~~~~~   92 (106)
T 1wx7_A           15 PHLIKVTVKTPKDK-EDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILK-DPDSLAQCGVRDGLTVHLVIKRQHR   92 (106)
T ss_dssp             SSEEEEEEECSSCE-EEEEEETTCCHHHHHHHHHHHHTCCTTTEEEEETTEECC-TTSCHHHHTCCTTEEEEEEECCCCC
T ss_pred             CceEEEEEEeCCCc-EEEEECCCCcHHHHHHHHHHHHCcChhhEEEEECCEECC-CcCcHHHcCCCCCCEEEEEEcCCCC
Confidence            56799999 56665 799999999999999999999999999999999999997 8999999999999999999988654

>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=99.42  E-value=2.8e-13  Score=112.08  Aligned_cols=77  Identities=16%  Similarity=0.331  Sum_probs=71.7

Q ss_pred             CCCCEEEEEEeCCeEEEE-EeCCCCcHHHHHHHHHHHhCCCCcceEEE---EcCeecccCCccccccCccCccceeeeee
Q 012177           30 SNDSILIFLSVGGSVIPM-RVMESDSIASVKLRIQSYNGFFVKKQKLV---FEGRELARSNSRVRDYGLADGNVLHLVLR  105 (469)
Q Consensus        30 ~~~~M~I~V~l~G~~~~l-~V~~sdTV~~LK~kIq~~~Gip~~~QrLv---f~Gk~L~~D~~tL~dygI~~gstl~Lvlr  105 (469)
                      ..+.|+|+|...|+++++ +|.+++||.+||++|++++|+|+++|+|+   |.|+.|. |+.+|++|+|+++++|+|+..
T Consensus         4 ~~~~m~i~Vk~~g~~~~i~~v~~~~TV~~lK~~I~~~~gip~~~QkLi~~k~~Gk~L~-D~~~L~~~~i~~g~~l~l~~~   82 (90)
T 1v5t_A            4 GSSGLPIIVKWGGQEYSVTTLSEDDTVLDLKQFLKTLTGVLPERQKLLGLKVKGKPAE-NDVKLGALKLKPNTKIMMMGT   82 (90)
T ss_dssp             CCCSCCEEEEETTEEEEECSCCSSSBHHHHHHHHHHHTCCCTTTCEEESCEETTEECC-TTSBHHHHTCCTTEEEEEECC
T ss_pred             CCceEEEEEEECCEEEEEEEeCCCCCHHHHHHHHHHHHCcCHHHeEEEeeccCCcCcC-CCCCHHHcCCCCCCEEEEEec
Confidence            467899999778999999 99999999999999999999999999999   9999997 889999999999999999876


Q ss_pred             cc
Q 012177          106 LS  107 (469)
Q Consensus       106 Ls  107 (469)
                      ..
T Consensus        83 ~~   84 (90)
T 1v5t_A           83 RE   84 (90)
T ss_dssp             CS
T ss_pred             Cc
Confidence            54

>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=99.42  E-value=3.2e-13  Score=113.30  Aligned_cols=78  Identities=10%  Similarity=0.166  Sum_probs=71.2

Q ss_pred             CCCCCEEEEEEeCCeEE-EEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecc
Q 012177           29 LSNDSILIFLSVGGSVI-PMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLS  107 (469)
Q Consensus        29 ~~~~~M~I~V~l~G~~~-~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLs  107 (469)
                      +..+.|+|+|...|+++ .++|.+++||.+||.+|++++|+|+++|+|+|.|+.|. |+ +|.+|+|+++++|+|+....
T Consensus         3 ~~~~~m~i~Vk~~g~~~~~l~v~~~~TV~~lK~~I~~~tgip~~~QkLi~~Gk~L~-D~-tL~~~~I~~g~~i~l~~~~~   80 (96)
T 1wgg_A            3 SGSSGYSVTVKWGKEKFEGVELNTDEPPMVFKAQLFALTGVQPARQKVMVKGGTLK-DD-DWGNIKMKNGMTVLMMGSAD   80 (96)
T ss_dssp             SCCCEEEEEEEETTEEEEEEEEESSSCHHHHHHHHHHHTCCCTTTSCCEETTEECC-SS-CCCSCCCCSSCEEECCCCCC
T ss_pred             CCCcEEEEEEEECCEEEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCcCCC-CC-CHHHCCCCCCCEEEEEecch
Confidence            34678999997789999 69999999999999999999999999999999999998 77 99999999999999987655


Q ss_pred             c
Q 012177          108 D  108 (469)
Q Consensus       108 d  108 (469)
                      +
T Consensus        81 ~   81 (96)
T 1wgg_A           81 A   81 (96)
T ss_dssp             C
T ss_pred             h
Confidence            3

>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=99.41  E-value=1.7e-14  Score=127.18  Aligned_cols=75  Identities=36%  Similarity=0.623  Sum_probs=0.0

Q ss_pred             EEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecccc
Q 012177           34 ILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDL  109 (469)
Q Consensus        34 M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~  109 (469)
                      |+|+| +++|++++++|.+++||.+||.+|++.+|+|+++|+|+|+|+.|. |+.+|++|+|.++++|+|++++.++
T Consensus         1 M~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~-D~~tL~~~~I~~gsti~l~~rl~GG   76 (128)
T 3u5e_m            1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLE-DGRTLSDYNIQKESTLHLVLRLRGG   76 (128)
T ss_dssp             -----------------------------------------------------------------------------
T ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCcChHHEEEEECCEECC-CCCchhhhccCCCCEEEEEEEcCCC
Confidence            89999 889999999999999999999999999999999999999999998 8999999999999999999998876

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

Probab=99.41  E-value=8.8e-13  Score=107.99  Aligned_cols=75  Identities=25%  Similarity=0.470  Sum_probs=69.5

Q ss_pred             CCCCEEEEEEeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeee
Q 012177           30 SNDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLR  105 (469)
Q Consensus        30 ~~~~M~I~V~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~Lvlr  105 (469)
                      +..++.+.++++|+++.++|.+++||.+||.+|++++|+|+++|+|+|+|+.|. |+.+|++|+|++|++|+|+.+
T Consensus         9 ~~~~~~~~~~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~-D~~tL~~~gi~~g~~l~l~~s   83 (85)
T 2kd0_A            9 SHSTIKLTVKFGGKSIPLSVSPDCTVKDLKSQLQPITNVLPRGQKLIFKGKVLV-ETSTLKQSDVGSGAKLMLMAS   83 (85)
T ss_dssp             SCCCEEEEEEETTEEEEEEECTTSBHHHHHHHHHHHHCCCTTTCEEEETTEECC-TTCBTTTTTCCTTEEEEEECC
T ss_pred             cCCcEEEEEEECCEEEEEEECCCCcHHHHHHHHHHHHCcChHHEEEEECCeECC-CcCCHHHCCCCCCCEEEEEEe
Confidence            356777777999999999999999999999999999999999999999999997 899999999999999998764

>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=99.41  E-value=6.9e-13  Score=112.86  Aligned_cols=78  Identities=22%  Similarity=0.338  Sum_probs=71.6

Q ss_pred             cccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeCC
Q 012177          107 SDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKSA  186 (469)
Q Consensus       107 sd~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks~  186 (469)
                      ...|+|+|++.+|+ +.++|++++||.+||++|++..+++  +++|+|+|+|+.|+|+++|.+|+|+++++|||+++...
T Consensus        15 ~~~m~I~Vk~~~g~-~~l~v~~~~TV~~LK~~I~~~~gip--~~~qrLi~~Gk~L~D~~tL~~~gi~~g~~i~l~~~~~~   91 (106)
T 1wx7_A           15 PHLIKVTVKTPKDK-EDFSVTDTCTIQQLKEEISQRFKAH--PDQLVLIFAGKILKDPDSLAQCGVRDGLTVHLVIKRQH   91 (106)
T ss_dssp             SSEEEEEEECSSCE-EEEEEETTCCHHHHHHHHHHHHTCC--TTTEEEEETTEECCTTSCHHHHTCCTTEEEEEEECCCC
T ss_pred             CceEEEEEEeCCCc-EEEEECCCCcHHHHHHHHHHHHCcC--hhhEEEEECCEECCCcCcHHHcCCCCCCEEEEEEcCCC
Confidence            34589999998886 7999999999999999999999988  99999999999999999999999999999999988554


Q ss_pred             c
Q 012177          187 K  187 (469)
Q Consensus       187 k  187 (469)
                      .
T Consensus        92 ~   92 (106)
T 1wx7_A           92 R   92 (106)
T ss_dssp             C
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=99.40  E-value=2.8e-13  Score=112.89  Aligned_cols=76  Identities=25%  Similarity=0.321  Sum_probs=71.1

Q ss_pred             ccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeCC
Q 012177          108 DLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKSA  186 (469)
Q Consensus       108 d~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks~  186 (469)
                      ..|+|+|++. |+++.++|++++||.+||++|++..+++  +++|+|+|+|+.|+|+++|.+|+|+++++|||+++...
T Consensus        16 ~~m~i~Vk~~-g~~~~~~v~~~~TV~~LK~~I~~~~gip--~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~i~l~~~~~~   91 (96)
T 1wx8_A           16 RIIRVSVKTP-QDCHEFFLAENSNVRRFKKQISKYLHCN--ADRLVLIFTGKILRDQDILSQRGILDGSTVHVVVRSHS   91 (96)
T ss_dssp             CEEEEEEECS-SSEEEEEEETTCCHHHHHHHHHHHTCSC--TTTBCCEETTEECCTTSCHHHHTCCTTEEEECCBCCSS
T ss_pred             CcEEEEEEEC-CeEEEEEECCCCCHHHHHHHHHHHhCCC--HHHEEEEECCEECCCcCCHHHCCCCCCCEEEEEEeCCC
Confidence            4589999998 9999999999999999999999999988  99999999999999999999999999999999887543

>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=99.40  E-value=8.8e-13  Score=109.13  Aligned_cols=78  Identities=15%  Similarity=0.280  Sum_probs=70.1

Q ss_pred             CCCCEEEEEEeCCeEEEEEeCCC-----CcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeee
Q 012177           30 SNDSILIFLSVGGSVIPMRVMES-----DSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVL  104 (469)
Q Consensus        30 ~~~~M~I~V~l~G~~~~l~V~~s-----dTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~Lvl  104 (469)
                      ....|+|+|+..|+++.++|.++     +||.+||.+|++++|+|+++|+|+|.|+.|.+++.+|++|+|+++++|+|+.
T Consensus         4 ~~~~~~v~Vk~~~~~~~i~v~~~~~~~~~TV~~LK~~i~~~~gip~~~qrL~~~Gk~L~D~~~~L~~~~i~~g~~i~l~~   83 (92)
T 1wxv_A            4 GSSGLTVTVTHSNEKHDLHVTSQQGSSEPVVQDLAQVVEEVIGVPQSFQKLIFKGKSLKEMETPLSALGIQDGCRVMLIG   83 (92)
T ss_dssp             CCSSEEEEEECSSSEEEEEECCCSSSSSCBHHHHHHHHHHHTCCCTTTCEEEETTEEECCSSSBHHHHTCCSSEEEEEES
T ss_pred             CCCeEEEEEEECCEEEEEEECCCcCcccCcHHHHHHHHHHHHCcCHHHEEEEECCeecCCCcccHHHCCCCCCCEEEEEe
Confidence            35689999966789999999995     9999999999999999999999999999998446789999999999999987


Q ss_pred             ecc
Q 012177          105 RLS  107 (469)
Q Consensus       105 rLs  107 (469)
                      +..
T Consensus        84 ~~~   86 (92)
T 1wxv_A           84 KKN   86 (92)
T ss_dssp             CCS
T ss_pred             cCC
Confidence            543

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

Probab=99.39  E-value=8.3e-13  Score=116.08  Aligned_cols=76  Identities=24%  Similarity=0.319  Sum_probs=70.0

Q ss_pred             ccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeCC
Q 012177          108 DLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKSA  186 (469)
Q Consensus       108 d~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks~  186 (469)
                      ..|+|+|++. |+++.++|++++||.+||++|+++.+++  +++|+|+|+|+.|+|+++|.+|+|+++++|+|+.+...
T Consensus        31 ~~m~I~Vk~~-g~~~~l~v~~~~TV~~LK~~I~~~~gip--~~~QrLi~~Gk~L~D~~tL~dygI~~gstI~lv~~~~g  106 (125)
T 1j8c_A           31 KIIKVTVKTP-KEKEEFAVPENSSVQQFKEAISKRFKSQ--TDQLVLIFAGKILKDQDTLIQHGIHDGLTVHLVIKRDP  106 (125)
T ss_dssp             CCEEEEEECS-SCEEEEEECTTCCHHHHHHHHHHHHCSC--SSSEEEEETTEEESTTSCGGGTTCSSSEEEEEEEC---
T ss_pred             CcEEEEEEeC-CeEEEEEECCCCcHHHHHHHHHHHHCcC--cceEEEEECCEEcCCCCCHHHcCCCCCCEEEEEeccCC
Confidence            4689999998 9999999999999999999999999988  99999999999999999999999999999999988543

>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=99.39  E-value=5.1e-13  Score=114.65  Aligned_cols=75  Identities=23%  Similarity=0.261  Sum_probs=71.5

Q ss_pred             cccceeeeeee---cceeEEEEeec-CchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEE
Q 012177          107 SDLQAITVTTV---CGKVFEFHVER-GRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLV  182 (469)
Q Consensus       107 sd~m~I~Vkt~---~Gk~~~l~V~~-~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~  182 (469)
                      .+.|+|+|++.   +|+.+.++|++ ++||.+||++|++..|+|  +++|+|+|+|+.|+|+++|++|+|+++++|+|++
T Consensus        25 ~~~i~i~Vk~~~~~~g~~~~l~v~~l~~TV~~LK~~I~~~~gip--~~~QrL~~~Gk~L~D~~tL~~y~I~~g~~l~l~~  102 (111)
T 1we6_A           25 PGPATIRVSKPNENDGQFMEITVQSLSENVGSLKEKIAGEIQIP--ANKQKLSGKAGFLKDNMSLAHYNVGAGEILTLSL  102 (111)
T ss_dssp             CSCEEEEECCTTCSSSCCEEEEESCSSSBHHHHHHHHHHHTTCC--TTTSEEECSSSBCCTTSBTTTTTCSSSCEEEEEC
T ss_pred             CCcEEEEEEecccCCCcEEEEEecCCCCcHHHHHHHHHHHHCCC--HHHeEEEECCEECCCCCcHHHCCCCCCCEEEEEE
Confidence            46699999998   89999999998 999999999999999988  9999999999999999999999999999999998


Q ss_pred             e
Q 012177          183 R  183 (469)
Q Consensus       183 r  183 (469)
                      +
T Consensus       103 r  103 (111)
T 1we6_A          103 R  103 (111)
T ss_dssp             S
T ss_pred             E
Confidence            7

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

Probab=99.39  E-value=3.3e-13  Score=114.08  Aligned_cols=73  Identities=19%  Similarity=0.216  Sum_probs=65.7

Q ss_pred             ccceeeeeeecce--eEEEEeecCchHHHHHHHHHHh-cCCCCCCCceEEEECCEEcCCCCccccc--CCCCCCEEEEE
Q 012177          108 DLQAITVTTVCGK--VFEFHVERGRNVGYVKQQIAKK-GREFVDLKNQELICDGEELEDQRLITDI--CKRNEAVIHLL  181 (469)
Q Consensus       108 d~m~I~Vkt~~Gk--~~~l~V~~~~TV~~LK~kI~~~-~gip~~~e~QrLif~Gk~LeD~~tL~dy--~I~~~svI~Lv  181 (469)
                      ..|+|+||+.+|+  +++++|++++||.+||++|+++ .|++ |+++|||+|+|+.|+|+++|++|  +|+++++|||+
T Consensus        22 ~~m~I~VK~~~g~~~~i~l~v~~~~TV~~LK~~I~~~~~g~p-p~~~QrLIy~Gk~L~D~~tL~~y~~~I~~~~tihLv   99 (99)
T 2kdb_A           22 HPVTLIIKAPNQKYSDQTISCFLNWTVGKLKTHLSNVYPSKP-LTKDQRLVYSGRLLPDHLQLKDILRKQDEYHMVHLV   99 (99)
T ss_dssp             -CEEEEEECTTSSSCCEEEEECTTSBHHHHHHHHHHHSTTCC-CTTTCCEEETTEEECTTSBTHHHHTTTCSEEEEEEC
T ss_pred             CeEEEEEEcCCCCEEEEEEEcCCCCHHHHHHHHHHHHhcCCC-ChhhEEEEECCEECCCCCCHHHHhcCCCCCCEEEeC
Confidence            4589999999998  6789999999999999999986 4655 36999999999999999999999  99999999984

>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=99.39  E-value=8.3e-13  Score=109.91  Aligned_cols=75  Identities=15%  Similarity=0.205  Sum_probs=69.2

Q ss_pred             CCCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCC-ccccccCccCccceeeeeecc
Q 012177           30 SNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSN-SRVRDYGLADGNVLHLVLRLS  107 (469)
Q Consensus        30 ~~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~-~tL~dygI~~gstl~LvlrLs  107 (469)
                      +...|+|+| +..|+.+.++|.+++||.+||.+|+++.   +++|+|+|.|+.|. |+ .+|++|+|+++++|||+++..
T Consensus         4 ~~~~m~i~Vk~~~g~~~~~~v~~~~TV~~LK~~i~~~~---~~~qrLi~~Gk~L~-D~~~tL~~y~i~~g~~i~l~~~~~   79 (95)
T 1wia_A            4 GSSGINVRLKFLNDTEELAVARPEDTVGTLKSKYFPGQ---ESQMKLIYQGRLLQ-DPARTLSSLNITNNCVIHCHRSPP   79 (95)
T ss_dssp             CCCSEEEEEEETTTEEEEEEECSSSBHHHHHHHHSSST---TTTCEEEETTEECC-CSSCBTTTTTCCTTEEEEEECCCC
T ss_pred             CCCeEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHhhC---cCcEEEEECCEEcc-CCcCCHHHcCCCCCCEEEEEECCC
Confidence            467899999 7889999999999999999999999997   89999999999998 67 999999999999999998764


Q ss_pred             c
Q 012177          108 D  108 (469)
Q Consensus       108 d  108 (469)
                      .
T Consensus        80 ~   80 (95)
T 1wia_A           80 G   80 (95)
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=99.39  E-value=6.5e-13  Score=110.54  Aligned_cols=76  Identities=17%  Similarity=0.146  Sum_probs=69.7

Q ss_pred             ccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCC-CcccccCCCCCCEEEEEEeeCC
Q 012177          108 DLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQ-RLITDICKRNEAVIHLLVRKSA  186 (469)
Q Consensus       108 d~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~-~tL~dy~I~~~svI~Lv~rks~  186 (469)
                      ..|+|+|++.+|+.+.++|++++||.+||++|++..     +++|+|+|+|+.|+|+ ++|.+|+|+++++|||+++++.
T Consensus         6 ~~m~i~Vk~~~g~~~~~~v~~~~TV~~LK~~i~~~~-----~~~qrLi~~Gk~L~D~~~tL~~y~i~~g~~i~l~~~~~~   80 (95)
T 1wia_A            6 SGINVRLKFLNDTEELAVARPEDTVGTLKSKYFPGQ-----ESQMKLIYQGRLLQDPARTLSSLNITNNCVIHCHRSPPG   80 (95)
T ss_dssp             CSEEEEEEETTTEEEEEEECSSSBHHHHHHHHSSST-----TTTCEEEETTEECCCSSCBTTTTTCCTTEEEEEECCCCC
T ss_pred             CeEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHhhC-----cCcEEEEECCEEccCCcCCHHHcCCCCCCEEEEEECCCC
Confidence            458999999999999999999999999999999886     5899999999999999 9999999999999999988655


Q ss_pred             cc
Q 012177          187 KV  188 (469)
Q Consensus       187 kv  188 (469)
                      ..
T Consensus        81 ~~   82 (95)
T 1wia_A           81 AA   82 (95)
T ss_dssp             CC
T ss_pred             CC
Confidence            43

>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=99.39  E-value=3.2e-14  Score=129.21  Aligned_cols=75  Identities=36%  Similarity=0.623  Sum_probs=0.0

Q ss_pred             EEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecccc
Q 012177           34 ILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDL  109 (469)
Q Consensus        34 M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~  109 (469)
                      |+|+| +++|++++++|++++||.+||.+|++++|+|+++|+|+|+|++|. |+.+|++|+|+++++|+|++++.++
T Consensus         1 MqI~VK~l~G~~~~l~V~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~-D~~tL~dygI~~gstL~Lvlrl~GG   76 (152)
T 3u5c_f            1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLE-DGRTLSDYNIQKESTLHLVLRLRGG   76 (152)
T ss_dssp             -----------------------------------------------------------------------------
T ss_pred             CEEEEEeCCCCEEEEEECCCCCHHHHHHHHHHHhCCCHHHEEEEECCEEcc-ccCcHHHcCCCCCCEEEEEeeccCC
Confidence            89999 889999999999999999999999999999999999999999998 8999999999999999999998865

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

Probab=99.38  E-value=1.1e-12  Score=113.46  Aligned_cols=78  Identities=29%  Similarity=0.399  Sum_probs=73.4

Q ss_pred             cccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeCC
Q 012177          107 SDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKSA  186 (469)
Q Consensus       107 sd~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks~  186 (469)
                      .+..+|+|++.+|+++.++|++++||.+||++|++..++|  +++|+|+|+|+.|+|+++|++|+|+++++|+|+++...
T Consensus         7 ~~~~~i~vk~l~G~~~~l~v~~~~TV~~LK~~I~~~~gip--~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~~~~G   84 (114)
T 2kdi_A            7 HGEFQIFAKTLTGKTITLEVESSDTIDNVKSKIQDKEGIP--PDQQRLIWAGKQLEDGRTLSDYNIQRESTLHLVLRLRG   84 (114)
T ss_dssp             CCCCEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCC--GGGEEEEETTEECCTTCBTTTTTCCSSCEEEEEECCCS
T ss_pred             CCcEEEEEEeCCCcEEEEEECCCCcHHHHHHHHHHHHCcC--hHHEEEEECCEECCCCCcHHHCCCCCCCEEEEEEEcCC
Confidence            3567899999999999999999999999999999999988  99999999999999999999999999999999988544

>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=99.38  E-value=9.6e-13  Score=113.68  Aligned_cols=78  Identities=26%  Similarity=0.422  Sum_probs=71.8

Q ss_pred             CCCEEEEEEe-----------CCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccc
Q 012177           31 NDSILIFLSV-----------GGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNV   99 (469)
Q Consensus        31 ~~~M~I~V~l-----------~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gst   99 (469)
                      +..|+|+|+.           +|++++++|.+++||.+||.+|++++|+|+++|+|+|.|+.|. |+.+|++|+|.++++
T Consensus        23 ~~~i~l~V~~p~~~~~~~~~L~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrL~~~Gk~L~-D~~tL~~y~i~~g~~  101 (115)
T 1we7_A           23 KGPVSIKVQVPNMQDKTEWKLNGQGLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIK-DSNSLAYYNMASGAV  101 (115)
T ss_dssp             CSCEEEEEEECCCSSSCSSCCSSEEEEEEECSCSBTHHHHHHHHHHSSCCTTTEEEEETTEEEC-TTSBHHHHTCCSSCE
T ss_pred             CCCEEEEEEcCCCccccccccCCeEEEEEECCCCCHHHHHHHHHHHHCCChHHEEEEECCEECC-CCCCHHHCCCCCCCE
Confidence            4578888832           4789999999999999999999999999999999999999998 899999999999999


Q ss_pred             eeeeeecccc
Q 012177          100 LHLVLRLSDL  109 (469)
Q Consensus       100 l~LvlrLsd~  109 (469)
                      |||++++.++
T Consensus       102 i~lv~rl~GG  111 (115)
T 1we7_A          102 IHLALKERSG  111 (115)
T ss_dssp             EEEEECCCSC
T ss_pred             EEEEEEcCCC
Confidence            9999998876

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

Probab=99.38  E-value=3.5e-13  Score=113.89  Aligned_cols=73  Identities=16%  Similarity=0.291  Sum_probs=63.7

Q ss_pred             CCCCEEEEE-EeCCe--EEEEEeCCCCcHHHHHHHHHHH-hCCC-CcceEEEEcCeecccCCcccccc--CccCccceee
Q 012177           30 SNDSILIFL-SVGGS--VIPMRVMESDSIASVKLRIQSY-NGFF-VKKQKLVFEGRELARSNSRVRDY--GLADGNVLHL  102 (469)
Q Consensus        30 ~~~~M~I~V-~l~G~--~~~l~V~~sdTV~~LK~kIq~~-~Gip-~~~QrLvf~Gk~L~~D~~tL~dy--gI~~gstl~L  102 (469)
                      +...|+|+| +++|+  +++++|.+++||.+||++|+++ .|+| +++|||+|+|+.|. |+.+|++|  +|+++++|||
T Consensus        20 ~~~~m~I~VK~~~g~~~~i~l~v~~~~TV~~LK~~I~~~~~g~pp~~~QrLIy~Gk~L~-D~~tL~~y~~~I~~~~tihL   98 (99)
T 2kdb_A           20 QGHPVTLIIKAPNQKYSDQTISCFLNWTVGKLKTHLSNVYPSKPLTKDQRLVYSGRLLP-DHLQLKDILRKQDEYHMVHL   98 (99)
T ss_dssp             ---CEEEEEECTTSSSCCEEEEECTTSBHHHHHHHHHHHSTTCCCTTTCCEEETTEEEC-TTSBTHHHHTTTCSEEEEEE
T ss_pred             CCCeEEEEEEcCCCCEEEEEEEcCCCCHHHHHHHHHHHHhcCCCChhhEEEEECCEECC-CCCCHHHHhcCCCCCCEEEe
Confidence            367799999 67777  6899999999999999999986 5666 59999999999998 89999999  9999999998


Q ss_pred             e
Q 012177          103 V  103 (469)
Q Consensus       103 v  103 (469)
                      +
T Consensus        99 v   99 (99)
T 2kdb_A           99 V   99 (99)
T ss_dssp             C
T ss_pred             C
Confidence            5

>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=99.38  E-value=1.5e-12  Score=116.13  Aligned_cols=78  Identities=35%  Similarity=0.604  Sum_probs=73.3

Q ss_pred             CCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecccc
Q 012177           31 NDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDL  109 (469)
Q Consensus        31 ~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~  109 (469)
                      ...|+|+| +.+|+++.++|.+++||.+||.+|+++.|+|+++|+|+|+|+.|. |+.+|++|+|+++++|+|+++++++
T Consensus        74 ~~~~~i~Vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~qrL~~~g~~L~-d~~tL~~~~i~~~~~i~l~~r~~GG  152 (152)
T 3b08_A           74 RGGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLE-DGRTLSDYNIQKESTLHLVLRLRGG  152 (152)
T ss_dssp             TTCEEEEEEESSSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECC-TTSBTGGGTCCTTCEEEEEECCCC-
T ss_pred             ccccceeeeecCCCEEEEEeCCCCcHHHHHHHHHHHhCcChhhEEEEECCEECC-CCCCHHHcCCCCCCEEEEEEecCCC
Confidence            45699999 789999999999999999999999999999999999999999998 8999999999999999999998764

>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=99.37  E-value=8.7e-13  Score=111.61  Aligned_cols=78  Identities=13%  Similarity=0.110  Sum_probs=70.2

Q ss_pred             ccceeeeeeecc----eeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCC-CcccccCCCCCCEEEEEE
Q 012177          108 DLQAITVTTVCG----KVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQ-RLITDICKRNEAVIHLLV  182 (469)
Q Consensus       108 d~m~I~Vkt~~G----k~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~-~tL~dy~I~~~svI~Lv~  182 (469)
                      ..|+|+|++.++    +++.++|++++||.+||++|+++.+++  +++|+|+|+|+.|+|+ ++|.+|+|+++++|+|+.
T Consensus         6 ~~m~I~Vk~~~~~~~~~~~~i~v~~~~TV~~LK~~I~~~~gip--~~~qrL~~~gk~L~D~~~tL~~ygI~~g~~l~l~~   83 (102)
T 1v5o_A            6 SGMLITVYCVRRDLTEVTFSLQVNPDFELSNFRVLCELESGVP--AEEAQIVYMEQLLTDDHCSLGSYGLKDGDMVVLLQ   83 (102)
T ss_dssp             CCEEEEEEECCCCCCCCEEEEEECTTCBHHHHHHHHHHHTCCC--GGGBCEEETTEEECCSSSBHHHHTCCTTEEEEECB
T ss_pred             CeEEEEEEECCCCcCceEEEEEcCCCCCHHHHHHHHHHHHCcC--hHHeEEEECCEECCCCcccHHHCCCCCCCEEEEEE
Confidence            458899998754    799999999999999999999999988  9999999999999987 799999999999999987


Q ss_pred             eeCCc
Q 012177          183 RKSAK  187 (469)
Q Consensus       183 rks~k  187 (469)
                      +....
T Consensus        84 ~~~gg   88 (102)
T 1v5o_A           84 KDNVG   88 (102)
T ss_dssp             CCCCC
T ss_pred             CCCCC
Confidence            75443

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

Probab=99.36  E-value=9.2e-13  Score=111.52  Aligned_cols=74  Identities=14%  Similarity=0.141  Sum_probs=67.4

Q ss_pred             CCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEE--cCeecccCCccccccCccCccceeeeeec
Q 012177           31 NDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVF--EGRELARSNSRVRDYGLADGNVLHLVLRL  106 (469)
Q Consensus        31 ~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf--~Gk~L~~D~~tL~dygI~~gstl~LvlrL  106 (469)
                      ...|++++ +.+|++++++|++++||.+||++|++++|||+++|+|+|  .|+ |. |+.+|++|+|+.|++|||++..
T Consensus         6 ~~~m~~~~vk~~Gk~~~v~v~~~~TV~~LK~~I~~~tgIpp~~QkLi~~~~gk-L~-D~~tLs~~~I~~gstL~lvl~~   82 (100)
T 2dzm_A            6 SGRMLDFRVEYRDRNVDVVLEDTCTVGEIKQILENELQIPVSKMLLKGWKTGD-VE-DSTVLKSLHLPKNNSLYVLTPD   82 (100)
T ss_dssp             CCCEEEEEEECSSCEEEEEEETTSBHHHHHHHHHHHHCCCTTTCCEECCSSSC-CC-TTSBHHHHCCCSEEEEEECCSS
T ss_pred             CcceEEEEEEeCCeEEEEEECCCCcHHHHHHHHHHHHCCChhHeEEEccCCCC-CC-CcCCHHHcCCCCCCEEEEEecC
Confidence            34688888 899999999999999999999999999999999999986  566 87 8999999999999999998764

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

Probab=99.36  E-value=2.1e-12  Score=110.11  Aligned_cols=73  Identities=12%  Similarity=-0.039  Sum_probs=67.8

Q ss_pred             ceeeeeeecc--eeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCC-CCCCEEEEEEee
Q 012177          110 QAITVTTVCG--KVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICK-RNEAVIHLLVRK  184 (469)
Q Consensus       110 m~I~Vkt~~G--k~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I-~~~svI~Lv~rk  184 (469)
                      |+|+|++..+  .+++++|++++||.+||++|++++|+|  +++|||+|+|+.++|+++|.+|+| ++|+++||++-.
T Consensus        25 l~v~v~d~~s~~~~i~l~V~ps~TV~~LK~~I~~k~Gip--p~~QRli~ggkll~D~~TL~~ygI~~~G~t~hL~l~~  100 (105)
T 4dbg_A           25 LWVSVEDAQMHTVTIWLTVRPDMTVASLKDMVFLDYGFP--PVLQQWVIGQRLARDQETLHSHGVRQNGDSAYLYLLS  100 (105)
T ss_dssp             EEEEEEESSSCCEEEEEEECTTCBHHHHHHHHHHHHCCC--GGGEEEEETTEEECTTCBTGGGTCCSTTCEEEEEECC
T ss_pred             EEEEEEccCCCCceEEEEECCcChHHHHHHHHHHHhCCC--HHHEEEeccCeEccCcCcHHHcCCCCCCCEEEEEEEe
Confidence            7888998774  789999999999999999999999998  999999999999999999999999 699999998753

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

Probab=99.36  E-value=8e-13  Score=124.04  Aligned_cols=75  Identities=32%  Similarity=0.422  Sum_probs=71.7

Q ss_pred             cceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeC
Q 012177          109 LQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKS  185 (469)
Q Consensus       109 ~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks  185 (469)
                      .|+|+||+.+|+++.++|++++||.+||++|++++++|  +++|+|+|+|+.|+|+.+|++|+|+++++|||+++..
T Consensus       105 eMqI~VKtl~Gkt~~l~V~~s~TV~~LK~kI~~~~gIp--~~~QrLi~~Gk~L~D~~tL~dygI~~gstI~Lvlrlr  179 (189)
T 3q3f_A          105 GGQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIP--PDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLR  179 (189)
T ss_dssp             CEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCC--GGGCCEEETTEECCTTCBGGGGTCCTTCEEEECCCCC
T ss_pred             ceeeeeecCCCCEEEEEeCCCCcHHHHHHHHHhccCCC--HHHEEEEECCEECCCCCCHHHCCCCCCCEEEEEEEcC
Confidence            39999999999999999999999999999999999988  9999999999999999999999999999999998743

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

Probab=99.35  E-value=4.2e-13  Score=113.60  Aligned_cols=73  Identities=27%  Similarity=0.447  Sum_probs=65.8

Q ss_pred             CCEEEEEEeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeee
Q 012177           32 DSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLR  105 (469)
Q Consensus        32 ~~M~I~V~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~Lvlr  105 (469)
                      -.|+|+|..+|+++.++|.+++||.+||++|++++|+|+++|+|+|+|+.|. |+.+|++|||++|++|+|+.+
T Consensus        27 m~i~I~Vk~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~-D~~tL~~~gI~~g~tI~lv~~   99 (101)
T 3m63_B           27 MSLNIHIKSGQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILK-DDQTVESYHIQDGHSVHLVKS   99 (101)
T ss_dssp             --CCEEEECSSCCCCBCCCTTSBHHHHHHHHHHHHSCCSTTCCEEETTEECC-TTSBTTTTTCCTTEEEEECCC
T ss_pred             cEEEEEEEECCEEEEEEeCCCCCHHHHHHHHHHHHCcChHHEEEEECCEECC-CcCcHHHCCCCCCCEEEEEeC
Confidence            3455666448999999999999999999999999999999999999999998 899999999999999999865

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

Probab=99.35  E-value=2.7e-12  Score=105.08  Aligned_cols=72  Identities=18%  Similarity=0.185  Sum_probs=66.8

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEe
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVR  183 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~r  183 (469)
                      ..+++++.+|+++.+++++++||.+||++|++..++|  +++|+|+|+|+.|+|+.+|++|+|+++++|+|+..
T Consensus        12 ~~~~~~~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip--~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~l~l~~s   83 (85)
T 2kd0_A           12 TIKLTVKFGGKSIPLSVSPDCTVKDLKSQLQPITNVL--PRGQKLIFKGKVLVETSTLKQSDVGSGAKLMLMAS   83 (85)
T ss_dssp             CEEEEEEETTEEEEEEECTTSBHHHHHHHHHHHHCCC--TTTCEEEETTEECCTTCBTTTTTCCTTEEEEEECC
T ss_pred             cEEEEEEECCEEEEEEECCCCcHHHHHHHHHHHHCcC--hHHEEEEECCeECCCcCCHHHCCCCCCCEEEEEEe
Confidence            3456777899999999999999999999999999988  99999999999999999999999999999999764

>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=99.35  E-value=2e-12  Score=110.41  Aligned_cols=77  Identities=18%  Similarity=0.161  Sum_probs=69.5

Q ss_pred             ccceeeeeeecc---eeEEEEe--------ec-CchHHHHHHHHHHhc--CCCCCCCc-eEEEECCEEcCCCCcccccCC
Q 012177          108 DLQAITVTTVCG---KVFEFHV--------ER-GRNVGYVKQQIAKKG--REFVDLKN-QELICDGEELEDQRLITDICK  172 (469)
Q Consensus       108 d~m~I~Vkt~~G---k~~~l~V--------~~-~~TV~~LK~kI~~~~--gip~~~e~-QrLif~Gk~LeD~~tL~dy~I  172 (469)
                      ..|+|+||+.++   +++.+++        ++ ++||.+||++|++..  +++  +++ |+|+|+|+.|+|+++|.+|+|
T Consensus        11 ~~~~i~Vk~~~~~~~~~~~l~v~~~~~~~v~~~~~TV~~LK~~i~~~~~~gip--~~~~qrLi~~Gk~L~D~~tL~~y~i   88 (107)
T 1x1m_A           11 SDWHLAVKLADQPLAPKSILQLPETELGEYSLGGYSISFLKQLIAGKLQESVP--DPELIDLIYCGRKLKDDQTLDFYGI   88 (107)
T ss_dssp             CSCCEEEEETTCTTSCCEEECCCCCSSCSSCCCCCBHHHHHHHHHHHCTTTCC--CSSSEEEEETTEECCTTCBHHHHTC
T ss_pred             CceEEEEEeCCCCCccEEEEEecCccccccCcccCCHHHHHHHHHHHhccCCC--hhhcEEEEECCeECCCCCcHHHcCC
Confidence            358899999998   8899994        44 499999999999999  988  899 999999999999999999999


Q ss_pred             CCCCEEEEEEeeCC
Q 012177          173 RNEAVIHLLVRKSA  186 (469)
Q Consensus       173 ~~~svI~Lv~rks~  186 (469)
                      +++++|||+.+...
T Consensus        89 ~~g~~i~lv~~~~~  102 (107)
T 1x1m_A           89 QPGSTVHVLRKSWS  102 (107)
T ss_dssp             CTTCEEEEEESSCC
T ss_pred             CCCCEEEEEeCCCC
Confidence            99999999887554

>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=99.34  E-value=1.6e-12  Score=108.71  Aligned_cols=75  Identities=15%  Similarity=0.197  Sum_probs=69.0

Q ss_pred             CCCCEEEEEEeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeec
Q 012177           30 SNDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRL  106 (469)
Q Consensus        30 ~~~~M~I~V~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrL  106 (469)
                      ....|+|+|+..++++.++|.+++||.+||++|++++|+|+++|+|+|.|+.|. |. +|.+|+|+++++|+|+.+.
T Consensus        14 ~~~~~~i~Vk~~g~~~~i~v~~~~TV~~LK~~I~~~tgip~~~QrL~~~Gk~Ld-d~-tL~~~~i~~g~~i~lv~~~   88 (95)
T 1v86_A           14 GKELVDLKIIWNKTKHDVKVPLDSTGSELKQKIHSITGLPPAMQKVMYKGLVPE-DK-TLREIKVTSGAKIMVVGST   88 (95)
T ss_dssp             CCCCEEEEEEETTEEEEEEECTTSBHHHHHHHHHHHHCSCSTTCCCBSSSBCCS-SS-BHHHHCCCTTEEEEECCSS
T ss_pred             CCceEEEEEEECCEEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCeeCC-cC-cHHHCCCCCCCEEEEEecc
Confidence            467899999888999999999999999999999999999999999999999994 55 9999999999999997653

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

Probab=99.33  E-value=5.3e-12  Score=105.82  Aligned_cols=75  Identities=17%  Similarity=0.239  Sum_probs=65.3

Q ss_pred             CCCCCEEEEEEe-C--CeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEc--Ce---ecccCCccccccCccCccce
Q 012177           29 LSNDSILIFLSV-G--GSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFE--GR---ELARSNSRVRDYGLADGNVL  100 (469)
Q Consensus        29 ~~~~~M~I~V~l-~--G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~--Gk---~L~~D~~tL~dygI~~gstl  100 (469)
                      -+...+.|+|+. .  ++.++++|.+++||++||++|+.++|+|+.+|||+|.  |+   +|.+|+.+|++|+|++|++|
T Consensus        11 ~~~~~v~l~It~s~~~~~~~~~~v~~~~TV~~LK~kI~~~~GiP~~~QrL~~~~~g~~~~~L~~D~~tL~~Y~i~~gsti   90 (95)
T 2kjr_A           11 GKSDFIKVNVSNSHNDAVAFEVKLAKDLTVAQLKTKLEILTGGCAGTMKVQVFKGDTCVSTMDNNDAQLGYYANSDGLRL   90 (95)
T ss_dssp             CCCCEEEEEEEESSCSCEEEEEEEETTCBHHHHHHHHHHHHCSCTTTEEEEEEETTEEEEECCCTTSBHHHHCCSSSCEE
T ss_pred             CCCCeEEEEEEECCCCceEEEEEeCccCHHHHHHHHHHHHHCcCHHHeEEEEecCCcccceeCCCCCCHhHCCcCCCCEE
Confidence            347788999943 3  3589999999999999999999999999999999997  45   56458999999999999999


Q ss_pred             eee
Q 012177          101 HLV  103 (469)
Q Consensus       101 ~Lv  103 (469)
                      +|+
T Consensus        91 hlv   93 (95)
T 2kjr_A           91 HVV   93 (95)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            985

>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=99.33  E-value=3.9e-12  Score=109.86  Aligned_cols=66  Identities=21%  Similarity=0.251  Sum_probs=62.8

Q ss_pred             ecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEee
Q 012177          117 VCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       117 ~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rk  184 (469)
                      ++|+++.++|++++||.+||++|++..|++  +++|+|+|+|+.|+|+++|++|+|+++++|||++|.
T Consensus        43 L~G~~~~l~v~~~~TV~~LK~~I~~~~gip--~~~QrL~~~Gk~L~D~~tL~~y~i~~g~~i~lv~rl  108 (115)
T 1we7_A           43 LNGQGLVFTLPLTDQVSVIKVKIHEATGMP--AGKQKLQYEGIFIKDSNSLAYYNMASGAVIHLALKE  108 (115)
T ss_dssp             CSSEEEEEEECSCSBTHHHHHHHHHHSSCC--TTTEEEEETTEEECTTSBHHHHTCCSSCEEEEEECC
T ss_pred             cCCeEEEEEECCCCCHHHHHHHHHHHHCCC--hHHEEEEECCEECCCCCCHHHCCCCCCCEEEEEEEc
Confidence            368899999999999999999999999988  999999999999999999999999999999999873

>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=99.33  E-value=1.1e-13  Score=121.80  Aligned_cols=74  Identities=32%  Similarity=0.456  Sum_probs=0.0

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeC
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKS  185 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks  185 (469)
                      |+|+|++.+|+++.++|++++||.+||++|++..++|  +++|+|+|+|+.|+|+.+|++|+|+++++|+|+++..
T Consensus         1 M~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~gip--~~~QrLi~~Gk~L~D~~tL~~~~I~~gsti~l~~rl~   74 (128)
T 3u5e_m            1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIP--PDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLR   74 (128)
T ss_dssp             ----------------------------------------------------------------------------
T ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCcC--hHHEEEEECCEECCCCCchhhhccCCCCEEEEEEEcC
Confidence            7899999999999999999999999999999999988  9999999999999999999999999999999998843

>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=99.32  E-value=3.5e-12  Score=106.94  Aligned_cols=74  Identities=15%  Similarity=0.108  Sum_probs=67.9

Q ss_pred             ccceeeeeeecceeE-EEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeC
Q 012177          108 DLQAITVTTVCGKVF-EFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKS  185 (469)
Q Consensus       108 d~m~I~Vkt~~Gk~~-~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks  185 (469)
                      +.|+|+|+. .|+++ .++|++++||.+||++|+++.|++  +++|+|+|+|+.|+|. +|++|+|+++++|+|+....
T Consensus         6 ~~m~i~Vk~-~g~~~~~l~v~~~~TV~~lK~~I~~~tgip--~~~QkLi~~Gk~L~D~-tL~~~~I~~g~~i~l~~~~~   80 (96)
T 1wgg_A            6 SGYSVTVKW-GKEKFEGVELNTDEPPMVFKAQLFALTGVQ--PARQKVMVKGGTLKDD-DWGNIKMKNGMTVLMMGSAD   80 (96)
T ss_dssp             CEEEEEEEE-TTEEEEEEEEESSSCHHHHHHHHHHHTCCC--TTTSCCEETTEECCSS-CCCSCCCCSSCEEECCCCCC
T ss_pred             cEEEEEEEE-CCEEEEEEEECCCCcHHHHHHHHHHHHCcC--HHHeEEEECCcCCCCC-CHHHCCCCCCCEEEEEecch
Confidence            358899994 78999 599999999999999999999988  9999999999999999 99999999999999976654

>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=99.30  E-value=4.6e-12  Score=104.73  Aligned_cols=75  Identities=15%  Similarity=0.169  Sum_probs=69.4

Q ss_pred             ccceeeeeeecceeEEE-EeecCchHHHHHHHHHHhcCCCCCCCceEEE---ECCEEcCCCCcccccCCCCCCEEEEEEe
Q 012177          108 DLQAITVTTVCGKVFEF-HVERGRNVGYVKQQIAKKGREFVDLKNQELI---CDGEELEDQRLITDICKRNEAVIHLLVR  183 (469)
Q Consensus       108 d~m~I~Vkt~~Gk~~~l-~V~~~~TV~~LK~kI~~~~gip~~~e~QrLi---f~Gk~LeD~~tL~dy~I~~~svI~Lv~r  183 (469)
                      ..|+|+|+. .|+++.+ +|++++||.+||++|+++.|+|  +++|+|+   |+|+.|+|+.+|++|+|+++++|+|+..
T Consensus         6 ~~m~i~Vk~-~g~~~~i~~v~~~~TV~~lK~~I~~~~gip--~~~QkLi~~k~~Gk~L~D~~~L~~~~i~~g~~l~l~~~   82 (90)
T 1v5t_A            6 SGLPIIVKW-GGQEYSVTTLSEDDTVLDLKQFLKTLTGVL--PERQKLLGLKVKGKPAENDVKLGALKLKPNTKIMMMGT   82 (90)
T ss_dssp             CSCCEEEEE-TTEEEEECSCCSSSBHHHHHHHHHHHTCCC--TTTCEEESCEETTEECCTTSBHHHHTCCTTEEEEEECC
T ss_pred             ceEEEEEEE-CCEEEEEEEeCCCCCHHHHHHHHHHHHCcC--HHHeEEEeeccCCcCcCCCCCHHHcCCCCCCEEEEEec
Confidence            358899996 7899999 9999999999999999999998  9999999   9999999999999999999999999765


Q ss_pred             eC
Q 012177          184 KS  185 (469)
Q Consensus       184 ks  185 (469)
                      ..
T Consensus        83 ~~   84 (90)
T 1v5t_A           83 RE   84 (90)
T ss_dssp             CS
T ss_pred             Cc
Confidence            44

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

Probab=99.29  E-value=6.7e-12  Score=105.61  Aligned_cols=75  Identities=19%  Similarity=0.221  Sum_probs=65.3

Q ss_pred             CCCCCEEEEEEeC---CeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCe---e---cccCCccccccCccCccc
Q 012177           29 LSNDSILIFLSVG---GSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGR---E---LARSNSRVRDYGLADGNV   99 (469)
Q Consensus        29 ~~~~~M~I~V~l~---G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk---~---L~~D~~tL~dygI~~gst   99 (469)
                      .....+.|+|+.+   +..++++|.+++||++||++|+.++|+|+.+|||+|.|+   .   |.+|+.+|.+|+|++|++
T Consensus        10 ~~~~~v~l~It~s~~~~~~~e~~v~~~~TV~~LK~kIe~~~Gip~~~QrLi~~g~~g~~~~~L~~D~~tL~~Y~I~~g~~   89 (97)
T 2kj6_A           10 HGDDSVHLHITHANLKSFSADARFSPQMSVEAVKEKLWKKCGTSVNSMALELYDDSGSKVAVLSDDSRPLGFFSPFDGFR   89 (97)
T ss_dssp             CCCCCEEEEEEETTSSCCCEEEEECTTCCHHHHHHHHHHHHCCCTTSEEEEEECSSSCBCCCSSGGGSCHHHHCCCSCCE
T ss_pred             CCCceEEEEEEECCCCceEEEEEeCCCChHHHHHHHHHHHHCcCHHHeEEEEecCCCcccceecCCcCCHHHCCCCCCCE
Confidence            3578899999542   347999999999999999999999999999999999884   3   544899999999999999


Q ss_pred             eeee
Q 012177          100 LHLV  103 (469)
Q Consensus       100 l~Lv  103 (469)
                      |||+
T Consensus        90 Ihlv   93 (97)
T 2kj6_A           90 LHII   93 (97)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            9986

>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=99.29  E-value=2.5e-13  Score=123.31  Aligned_cols=72  Identities=33%  Similarity=0.479  Sum_probs=0.0

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEe
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVR  183 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~r  183 (469)
                      |+|+|++.+|+++.++|++++||.+||++|++.+++|  +++|+|+|+|+.|+|+.+|++|+|+++++|+|++|
T Consensus         1 MqI~VK~l~G~~~~l~V~~~~TV~~LK~~I~~~~gip--~~~QrLi~~Gk~L~D~~tL~dygI~~gstL~Lvlr   72 (152)
T 3u5c_f            1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIP--PDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR   72 (152)
T ss_dssp             --------------------------------------------------------------------------
T ss_pred             CEEEEEeCCCCEEEEEECCCCCHHHHHHHHHHHhCCC--HHHEEEEECCEEccccCcHHHcCCCCCCEEEEEee
Confidence            7899999999999999999999999999999999988  99999999999999999999999999999999977

>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=99.29  E-value=4e-12  Score=108.50  Aligned_cols=76  Identities=16%  Similarity=0.180  Sum_probs=68.4

Q ss_pred             CCCEEEEE-EeCC---eEEEEEe--------CC-CCcHHHHHHHHHHHh--CCCCcc-eEEEEcCeecccCCccccccCc
Q 012177           31 NDSILIFL-SVGG---SVIPMRV--------ME-SDSIASVKLRIQSYN--GFFVKK-QKLVFEGRELARSNSRVRDYGL   94 (469)
Q Consensus        31 ~~~M~I~V-~l~G---~~~~l~V--------~~-sdTV~~LK~kIq~~~--Gip~~~-QrLvf~Gk~L~~D~~tL~dygI   94 (469)
                      ...|+|+| ..++   ++++++|        .+ ++||.+||++|++++  |+|+++ |+|+|.|+.|. |+.+|++|+|
T Consensus        10 ~~~~~i~Vk~~~~~~~~~~~l~v~~~~~~~v~~~~~TV~~LK~~i~~~~~~gip~~~~qrLi~~Gk~L~-D~~tL~~y~i   88 (107)
T 1x1m_A           10 LSDWHLAVKLADQPLAPKSILQLPETELGEYSLGGYSISFLKQLIAGKLQESVPDPELIDLIYCGRKLK-DDQTLDFYGI   88 (107)
T ss_dssp             CCSCCEEEEETTCTTSCCEEECCCCCSSCSSCCCCCBHHHHHHHHHHHCTTTCCCSSSEEEEETTEECC-TTCBHHHHTC
T ss_pred             CCceEEEEEeCCCCCccEEEEEecCccccccCcccCCHHHHHHHHHHHhccCCChhhcEEEEECCeECC-CCCcHHHcCC
Confidence            55699999 6677   7999994        44 499999999999999  999999 99999999997 8999999999


Q ss_pred             cCccceeeeeecc
Q 012177           95 ADGNVLHLVLRLS  107 (469)
Q Consensus        95 ~~gstl~LvlrLs  107 (469)
                      +++++|||+++..
T Consensus        89 ~~g~~i~lv~~~~  101 (107)
T 1x1m_A           89 QPGSTVHVLRKSW  101 (107)
T ss_dssp             CTTCEEEEEESSC
T ss_pred             CCCCEEEEEeCCC
Confidence            9999999998764

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

Probab=99.28  E-value=3.2e-13  Score=126.40  Aligned_cols=71  Identities=20%  Similarity=0.215  Sum_probs=0.4

Q ss_pred             EEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeeccccc
Q 012177           34 ILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDLQ  110 (469)
Q Consensus        34 M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~m  110 (469)
                      |+|+| +++|++++|+|++++||.+||.+|++++|+|+++|+|+|+|++|+ |+.+|+     ++++|||++++.++.
T Consensus         1 MqI~VKtL~GktitLeV~~sdTV~~LK~kI~~keGIP~~qQRLIf~GK~Le-D~~TLs-----~~STLhLvlRLrGG~   72 (189)
T 2xzm_9            1 MQVQVKTLEGETKIYTLEQGTSVLDLKSQISQDMGFEIDMMTLVNNGFIAP-NTELVT-----DDVTYYLSLKLLGGK   72 (189)
T ss_dssp             -----------------------------------------------------------------------------C
T ss_pred             CEEEEEcCCCCEEEEEECCcChHHHHHHHHHHHhCcChhHEEEEecCeECC-CCCccc-----CCCEEEEEEecCCCc
Confidence            89999 899999999999999999999999999999999999999999998 888998     899999999998774

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

Probab=99.28  E-value=5.3e-12  Score=103.90  Aligned_cols=71  Identities=18%  Similarity=0.138  Sum_probs=62.6

Q ss_pred             EEEEEE---eCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEE-------cCeecccCCccccccCccCccceeee
Q 012177           34 ILIFLS---VGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVF-------EGRELARSNSRVRDYGLADGNVLHLV  103 (469)
Q Consensus        34 M~I~V~---l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf-------~Gk~L~~D~~tL~dygI~~gstl~Lv  103 (469)
                      ++|.|+   ...+.+.+++++++||.+||++|+.++|+|+.+|||+|       .|+.|. |+.+|++|+|++|++|||+
T Consensus         3 V~v~iths~~~~~~~E~r~~~s~TI~~lK~ki~~~~Gip~~~QrLi~~~~~~~~~g~~l~-d~~tL~~Y~i~~g~~ihlv   81 (86)
T 4b6w_A            3 VKVSLTHSASRMRVPEKRYGLAQTIESIKENVFTHFATPPEYMQLQLIDDRGITIEKNMA-NDKQLGYYQCRDEFVIHVV   81 (86)
T ss_dssp             EEEEEEETTCSCCEEEEEEETTSBHHHHHHHHHTTSCCCGGGEEEEEECTTSCEEESSCC-TTSBGGGGTCCTTCEEEEE
T ss_pred             EEEEEEEcCCCCeEEEEEcCccCcHHHHHHHHHHHHCCCHHHEEEEEecCCCCceeeEcC-CCCCHHHCCCCCCCEEEEE
Confidence            566664   34577899999999999999999999999999999996       588887 8999999999999999997


Q ss_pred             ee
Q 012177          104 LR  105 (469)
Q Consensus       104 lr  105 (469)
                      -+
T Consensus        82 d~   83 (86)
T 4b6w_A           82 DL   83 (86)
T ss_dssp             EC
T ss_pred             eC
Confidence            53

>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=99.27  E-value=9.3e-12  Score=102.90  Aligned_cols=76  Identities=18%  Similarity=0.216  Sum_probs=68.4

Q ss_pred             ccceeeeeeecceeEEEEeecC-----chHHHHHHHHHHhcCCCCCCCceEEEECCEEcCC-CCcccccCCCCCCEEEEE
Q 012177          108 DLQAITVTTVCGKVFEFHVERG-----RNVGYVKQQIAKKGREFVDLKNQELICDGEELED-QRLITDICKRNEAVIHLL  181 (469)
Q Consensus       108 d~m~I~Vkt~~Gk~~~l~V~~~-----~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD-~~tL~dy~I~~~svI~Lv  181 (469)
                      ..|+|+|++ .|+.+.++++++     .||.+||++|++..|+|  +++|+|+|+|+.|+| ..+|.+|+|+++++|+|+
T Consensus         6 ~~~~v~Vk~-~~~~~~i~v~~~~~~~~~TV~~LK~~i~~~~gip--~~~qrL~~~Gk~L~D~~~~L~~~~i~~g~~i~l~   82 (92)
T 1wxv_A            6 SGLTVTVTH-SNEKHDLHVTSQQGSSEPVVQDLAQVVEEVIGVP--QSFQKLIFKGKSLKEMETPLSALGIQDGCRVMLI   82 (92)
T ss_dssp             SSEEEEEEC-SSSEEEEEECCCSSSSSCBHHHHHHHHHHHTCCC--TTTCEEEETTEEECCSSSBHHHHTCCSSEEEEEE
T ss_pred             CeEEEEEEE-CCEEEEEEECCCcCcccCcHHHHHHHHHHHHCcC--HHHEEEEECCeecCCCcccHHHCCCCCCCEEEEE
Confidence            458899998 588899999995     99999999999999988  999999999999998 668999999999999998


Q ss_pred             EeeCC
Q 012177          182 VRKSA  186 (469)
Q Consensus       182 ~rks~  186 (469)
                      .++..
T Consensus        83 ~~~~~   87 (92)
T 1wxv_A           83 GKKNS   87 (92)
T ss_dssp             SCCSC
T ss_pred             ecCCC
Confidence            76543

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

Probab=99.26  E-value=6.9e-12  Score=103.60  Aligned_cols=71  Identities=13%  Similarity=0.180  Sum_probs=63.5

Q ss_pred             CCCEEEEE-EeCCeEE--EE-EeCCCCcHHHHHHHHHHH-hCCCCcceEEEEc--CeecccCCccccccCccCccceee
Q 012177           31 NDSILIFL-SVGGSVI--PM-RVMESDSIASVKLRIQSY-NGFFVKKQKLVFE--GRELARSNSRVRDYGLADGNVLHL  102 (469)
Q Consensus        31 ~~~M~I~V-~l~G~~~--~l-~V~~sdTV~~LK~kIq~~-~Gip~~~QrLvf~--Gk~L~~D~~tL~dygI~~gstl~L  102 (469)
                      ...|+|+| ++.|+.+  ++ +|.+++||.+||++|+++ .|+++++|+|+|.  |+.|. |+.+|++|+|.++++|++
T Consensus         8 ~~~M~I~Vk~~~g~~~~~~l~~v~~~~TV~~lK~~I~~~~~~i~~~~QrL~~~~~Gk~L~-D~~tL~~y~i~~~stl~~   85 (88)
T 2dzj_A            8 MKHYEVEILDAKTREKLCFLDKVEPHATIAEIKNLFTKTHPQWYPARQSLRLDPKGKSLK-DEDVLQKLPVGTTATLYF   85 (88)
T ss_dssp             CCCEEEEEEESSSCCCCEEEEEECSSCBHHHHHHHHHHHCSSSCTTTCCEESSTTSCCCC-TTCBTTTSSCCSEEEEEE
T ss_pred             eEEEEEEEECCCCCEEeeEEeEcCCCCcHHHHHHHHHHHhcCCChHHeEEEecCCCcCcC-CCCCHHHcCCCCCCEEEE
Confidence            44599999 8877664  68 999999999999999994 8999999999987  99997 899999999999999875

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

Probab=99.26  E-value=1.4e-11  Score=106.48  Aligned_cols=86  Identities=10%  Similarity=0.127  Sum_probs=73.8

Q ss_pred             CCCCEEEEEE--eCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecc
Q 012177           30 SNDSILIFLS--VGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLS  107 (469)
Q Consensus        30 ~~~~M~I~V~--l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLs  107 (469)
                      ....|.|.|.  ..++.+++++.++.||.+||++++.+.++|+++|+|+|+|+.|. |+.+|.+|||++|.++||+.+-.
T Consensus        12 ~~~~itvkv~l~~~~~k~tv~v~~d~TV~dLKe~ls~~~~iP~e~qrLIy~GKiLK-D~eTL~~~gIk~g~TIhLvi~s~   90 (118)
T 2daf_A           12 EDSLATVKVVLIPVGQEIVIPFKVDTILKYLKDHFSHLLGIPHSVLQIRYSGKILK-NNETLVQHGVKPQEIVQVEIFST   90 (118)
T ss_dssp             CSSCEEEEEEETTTCCEEEEEECSSSCSHHHHHHHHHHHTCCTTTEEEEETTEEEC-SSCCHHHHSCCSSCEEEEEEEES
T ss_pred             cCccEEEEEEEcCCCcEEEEEeCCCCcHHHHHHHHHhhhCCChHHEEEEECCeEcC-CcchHHHcCCCCCCEEEEEEecC
Confidence            3556777763  35789999999999999999999999999999999999999998 89999999999999999999876


Q ss_pred             ccceeeeee
Q 012177          108 DLQAITVTT  116 (469)
Q Consensus       108 d~m~I~Vkt  116 (469)
                      +.-.-=||.
T Consensus        91 ~p~~~p~~~   99 (118)
T 2daf_A           91 NPDLYPVRR   99 (118)
T ss_dssp             CTTTSCCCC
T ss_pred             CCccCccee
Confidence            554333343

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

Probab=99.25  E-value=1.1e-11  Score=124.23  Aligned_cols=76  Identities=37%  Similarity=0.648  Sum_probs=70.3

Q ss_pred             CCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecc
Q 012177           31 NDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLS  107 (469)
Q Consensus        31 ~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLs  107 (469)
                      ...|+|+| +++|+++.++|.+++||.+||++|++++|+|+++|+|+|+|++|. |+.+|++|+|+++++|+|++|++
T Consensus       231 ~~~MqI~VKtl~Gk~~~leV~~s~TV~dLK~kI~~~~GIp~~~QRLi~~Gk~L~-D~~TLsdygI~~gstL~LvlRLr  307 (307)
T 3ai5_A          231 TGSMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLE-DGRTLSDYNIQKESTLHLVLRLR  307 (307)
T ss_dssp             CCCEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECC-TTSBTGGGTCCTTCEEEEEC---
T ss_pred             CCeEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcChHHEEEEeCCeecC-CCCCHHHcCCCCCCEEEEEEeCC
Confidence            67899999 678999999999999999999999999999999999999999998 89999999999999999998863

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

Probab=99.23  E-value=1.1e-11  Score=104.92  Aligned_cols=75  Identities=13%  Similarity=0.110  Sum_probs=68.2

Q ss_pred             cceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEE--CCEEcCCCCcccccCCCCCCEEEEEEeeCC
Q 012177          109 LQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELIC--DGEELEDQRLITDICKRNEAVIHLLVRKSA  186 (469)
Q Consensus       109 ~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif--~Gk~LeD~~tL~dy~I~~~svI~Lv~rks~  186 (469)
                      .|.+++++..|++++++|++++||++||++|++++|+|  +++|+|++  .|+ |+|+++|++|+|+++++|||++....
T Consensus         8 ~m~~~~vk~~Gk~~~v~v~~~~TV~~LK~~I~~~tgIp--p~~QkLi~~~~gk-L~D~~tLs~~~I~~gstL~lvl~~~~   84 (100)
T 2dzm_A            8 RMLDFRVEYRDRNVDVVLEDTCTVGEIKQILENELQIP--VSKMLLKGWKTGD-VEDSTVLKSLHLPKNNSLYVLTPDLP   84 (100)
T ss_dssp             CEEEEEEECSSCEEEEEEETTSBHHHHHHHHHHHHCCC--TTTCCEECCSSSC-CCTTSBHHHHCCCSEEEEEECCSSSC
T ss_pred             ceEEEEEEeCCeEEEEEECCCCcHHHHHHHHHHHHCCC--hhHeEEEccCCCC-CCCcCCHHHcCCCCCCEEEEEecCCC
Confidence            47788888999999999999999999999999999998  99999996  666 99999999999999999999876444

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

Probab=99.23  E-value=1.1e-11  Score=101.92  Aligned_cols=67  Identities=13%  Similarity=0.072  Sum_probs=60.8

Q ss_pred             ecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEE-------CCEEcCCCCcccccCCCCCCEEEEEEeeC
Q 012177          117 VCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELIC-------DGEELEDQRLITDICKRNEAVIHLLVRKS  185 (469)
Q Consensus       117 ~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif-------~Gk~LeD~~tL~dy~I~~~svI~Lv~rks  185 (469)
                      ...+.+...+++++||++||++|+.++|+|  +++|+|+|       .|+.|+|+++|++|+|++|++|||+.+.+
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 SRMRVPEKRYGLAQTIESIKENVFTHFATP--PEYMQLQLIDDRGITIEKNMANDKQLGYYQCRDEFVIHVVDLQP   85 (86)
T ss_dssp             CSCCEEEEEEETTSBHHHHHHHHHTTSCCC--GGGEEEEEECTTSCEEESSCCTTSBGGGGTCCTTCEEEEEECCC
T ss_pred             CCCeEEEEEcCccCcHHHHHHHHHHHHCCC--HHHEEEEEecCCCCceeeEcCCCCCHHHCCCCCCCEEEEEeCCC
Confidence            345667899999999999999999999998  99999997       48889999999999999999999987654

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

Probab=99.21  E-value=3.3e-11  Score=101.00  Aligned_cols=73  Identities=11%  Similarity=0.176  Sum_probs=63.8

Q ss_pred             cccceeeeeeecc--eeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEEC--CE---Ec-CCCCcccccCCCCCCEE
Q 012177          107 SDLQAITVTTVCG--KVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICD--GE---EL-EDQRLITDICKRNEAVI  178 (469)
Q Consensus       107 sd~m~I~Vkt~~G--k~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~--Gk---~L-eD~~tL~dy~I~~~svI  178 (469)
                      .+.+.|+|+...+  +.+++++++++||++||++|+.++|+|  +++|+|+|.  |+   .| +|+++|++|+|+++++|
T Consensus        13 ~~~v~l~It~s~~~~~~~~~~v~~~~TV~~LK~kI~~~~GiP--~~~QrL~~~~~g~~~~~L~~D~~tL~~Y~i~~gsti   90 (95)
T 2kjr_A           13 SDFIKVNVSNSHNDAVAFEVKLAKDLTVAQLKTKLEILTGGC--AGTMKVQVFKGDTCVSTMDNNDAQLGYYANSDGLRL   90 (95)
T ss_dssp             CCEEEEEEEESSCSCEEEEEEEETTCBHHHHHHHHHHHHCSC--TTTEEEEEEETTEEEEECCCTTSBHHHHCCSSSCEE
T ss_pred             CCeEEEEEEECCCCceEEEEEeCccCHHHHHHHHHHHHHCcC--HHHeEEEEecCCcccceeCCCCCCHhHCCcCCCCEE
Confidence            3456777776554  588999999999999999999999998  999999997  55   55 89999999999999999


Q ss_pred             EEE
Q 012177          179 HLL  181 (469)
Q Consensus       179 ~Lv  181 (469)
                      +|+
T Consensus        91 hlv   93 (95)
T 2kjr_A           91 HVV   93 (95)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            986

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

Probab=99.21  E-value=3.2e-11  Score=104.19  Aligned_cols=73  Identities=8%  Similarity=0.125  Sum_probs=66.7

Q ss_pred             ceeeee-eecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEee
Q 012177          110 QAITVT-TVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       110 m~I~Vk-t~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rk  184 (469)
                      +.|.|+ +..++.+.+.++++.||.+||++++...++|  +++|+|+|+|+.|.|+.||.+|+|+++.+|||+.+.
T Consensus        16 itvkv~l~~~~~k~tv~v~~d~TV~dLKe~ls~~~~iP--~e~qrLIy~GKiLKD~eTL~~~gIk~g~TIhLvi~s   89 (118)
T 2daf_A           16 ATVKVVLIPVGQEIVIPFKVDTILKYLKDHFSHLLGIP--HSVLQIRYSGKILKNNETLVQHGVKPQEIVQVEIFS   89 (118)
T ss_dssp             EEEEEEETTTCCEEEEEECSSSCSHHHHHHHHHHHTCC--TTTEEEEETTEEECSSCCHHHHSCCSSCEEEEEEEE
T ss_pred             EEEEEEEcCCCcEEEEEeCCCCcHHHHHHHHHhhhCCC--hHHEEEEECCeEcCCcchHHHcCCCCCCEEEEEEec
Confidence            455555 4568899999999999999999999999988  999999999999999999999999999999998774

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

Probab=99.20  E-value=1.1e-11  Score=102.45  Aligned_cols=70  Identities=16%  Similarity=0.203  Sum_probs=63.9

Q ss_pred             cceeeeeeecceeE--EE-EeecCchHHHHHHHHHHh-cCCCCCCCceEEEEC--CEEcCCCCcccccCCCCCCEEEE
Q 012177          109 LQAITVTTVCGKVF--EF-HVERGRNVGYVKQQIAKK-GREFVDLKNQELICD--GEELEDQRLITDICKRNEAVIHL  180 (469)
Q Consensus       109 ~m~I~Vkt~~Gk~~--~l-~V~~~~TV~~LK~kI~~~-~gip~~~e~QrLif~--Gk~LeD~~tL~dy~I~~~svI~L  180 (469)
                      .|.|+|++..|+++  .+ +|++++||.+||++|++. .+++  +++|+|+|.  |+.|+|+++|++|+|+++++|++
T Consensus        10 ~M~I~Vk~~~g~~~~~~l~~v~~~~TV~~lK~~I~~~~~~i~--~~~QrL~~~~~Gk~L~D~~tL~~y~i~~~stl~~   85 (88)
T 2dzj_A           10 HYEVEILDAKTREKLCFLDKVEPHATIAEIKNLFTKTHPQWY--PARQSLRLDPKGKSLKDEDVLQKLPVGTTATLYF   85 (88)
T ss_dssp             CEEEEEEESSSCCCCEEEEEECSSCBHHHHHHHHHHHCSSSC--TTTCCEESSTTSCCCCTTCBTTTSSCCSEEEEEE
T ss_pred             EEEEEEECCCCCEEeeEEeEcCCCCcHHHHHHHHHHHhcCCC--hHHeEEEecCCCcCcCCCCCHHHcCCCCCCEEEE
Confidence            38999999998875  48 999999999999999995 7887  999999976  99999999999999999999886

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

Probab=99.19  E-value=4.4e-11  Score=119.89  Aligned_cols=76  Identities=32%  Similarity=0.455  Sum_probs=72.1

Q ss_pred             ccccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEe
Q 012177          106 LSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVR  183 (469)
Q Consensus       106 Lsd~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~r  183 (469)
                      .++.|+|+||+.+|+++.++|++++||.+||++|+++.+++  +++|+|+|+|+.|+|+++|++|+|+++++|+|++|
T Consensus       230 ~~~~MqI~VKtl~Gk~~~leV~~s~TV~dLK~kI~~~~GIp--~~~QRLi~~Gk~L~D~~TLsdygI~~gstL~LvlR  305 (307)
T 3ai5_A          230 ITGSMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIP--PDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR  305 (307)
T ss_dssp             SCCCEEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCC--GGGCEEEETTEECCTTSBTGGGTCCTTCEEEEEC-
T ss_pred             CCCeEEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcC--hHHEEEEeCCeecCCCCCHHHcCCCCCCEEEEEEe
Confidence            46779999999999999999999999999999999999988  99999999999999999999999999999999876

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

Probab=99.18  E-value=2.1e-11  Score=104.13  Aligned_cols=75  Identities=20%  Similarity=0.243  Sum_probs=66.6

Q ss_pred             CCCCEEEEE-EeCCeEEEEEeC-CCCcHHHHHHHHHHHhCCCCcceEEEEcCe-----------ec---ccCCccccccC
Q 012177           30 SNDSILIFL-SVGGSVIPMRVM-ESDSIASVKLRIQSYNGFFVKKQKLVFEGR-----------EL---ARSNSRVRDYG   93 (469)
Q Consensus        30 ~~~~M~I~V-~l~G~~~~l~V~-~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk-----------~L---~~D~~tL~dyg   93 (469)
                      ..+.|+|+| +.+|+. .++|+ +++||.+||++|++++|+|+.+|+|+|.|+           +|   .+|+.+|++||
T Consensus         4 ~~~~M~irvrs~~G~~-~v~v~~~~~Tv~~LK~kI~~~~gip~~~QrL~~~~~~~~~k~~~~~~~l~~~l~d~~tL~~~g   82 (107)
T 1wf9_A            4 GSSGTMLRVRSRDGLE-RVSVDGPHITVSQLKTLIQDQLQIPIHNQTLSTNRNLLLAKSPSDFLAFTDMADPNLRISSLN   82 (107)
T ss_dssp             SCCCEEEEEECSSCEE-EEEECCTTSBHHHHHHHHHHHSCCCTTTCCCBSSGGGGTCCSHHHHTTCCSSCCTTCBGGGTC
T ss_pred             CCCeEEEEEECCCCCE-EEEECCCCCcHHHHHHHHHHHhCcCcccCEEEECCccccccCccccccccccCCCCCCHHHCC
Confidence            355699999 778866 79999 999999999999999999999999999988           44   34899999999


Q ss_pred             ccCccceeeeee
Q 012177           94 LADGNVLHLVLR  105 (469)
Q Consensus        94 I~~gstl~Lvlr  105 (469)
                      |++|++|||...
T Consensus        83 i~~G~~L~l~~~   94 (107)
T 1wf9_A           83 LAHGSMVYLAYE   94 (107)
T ss_dssp             CCTTCEEECCCS
T ss_pred             CCCCCEEEEEeC
Confidence            999999998765

>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=99.18  E-value=5.3e-11  Score=99.26  Aligned_cols=72  Identities=21%  Similarity=0.285  Sum_probs=62.5

Q ss_pred             CEEEEEEeCCe--EEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcC---ee---cccCCccccccCccCccceeeee
Q 012177           33 SILIFLSVGGS--VIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEG---RE---LARSNSRVRDYGLADGNVLHLVL  104 (469)
Q Consensus        33 ~M~I~V~l~G~--~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~G---k~---L~~D~~tL~dygI~~gstl~Lvl  104 (469)
                      .|.|+|+..+.  .++++|.+++||.+||.+|+.++|+|+++|||+|.|   +.   |.+|+.+|.+|+|+++++|||+-
T Consensus         7 ~v~l~I~~~~~~~~~~~~v~~~~TV~~lK~ki~~~~gip~~~qrL~~~~~~g~~~~~l~~D~~tL~~y~i~~g~~l~v~d   86 (95)
T 1v6e_A            7 GVMVFISSSLNSFRSEKRYSRSLTIAEFKCKLELVVGSPASCMELELYGADDKFYSKLDQEDALLGSYPVDDGCRIHVID   86 (95)
T ss_dssp             CEEEEEEETTSSSCEEEEECTTSBHHHHHHHHHHHTCSCTTTCBCEEECSSSCEEEECCCSSSBTTSSSCCTTCEEEEBC
T ss_pred             EEEEEEEECCCCeeEEEEcCccCHHHHHHHHHHHHHCCCHHHeEEEEeCCCCccccccCCCcCCHhHCCCCCCCEEEEEE
Confidence            47788854544  799999999999999999999999999999999986   43   43489999999999999999864

>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=99.18  E-value=2.2e-11  Score=125.09  Aligned_cols=79  Identities=23%  Similarity=0.468  Sum_probs=69.7

Q ss_pred             CCCCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHH---HhCCCCcceEEEEcCeecccCCccccccCccCccce-eee
Q 012177           29 LSNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQS---YNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVL-HLV  103 (469)
Q Consensus        29 ~~~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~---~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl-~Lv  103 (469)
                      .....|+|+| ++.|++++++|.+++||.+||.+|+.   ++|+++++|||+|.|+.|. |+.+|.+|+|+++++| +|+
T Consensus         3 ~~~~~M~I~VKtl~Gk~~~leV~~~~TV~~LK~~I~~~~~~~gip~~~QrLiy~GK~L~-D~~tL~dygI~~gstIv~lv   81 (368)
T 1oqy_A            3 LGSSAVTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILS-DDVPIRDYRIDEKNFVVVMV   81 (368)
T ss_dssp             ---CCCCEEEEETTTEEEEECCCTTCBHHHHHHHHHHHTCSSSCCSTEEEEESSSSEEC-SSSBTTTTCCCTTSCEEEEE
T ss_pred             CCCceEEEEEEeCCCCEEEEEeCCCChHHHHHHHHHHHhCcCCCChhheEEEECCeecC-CcCCHHHcCCCCCCEEEEEE
Confidence            3467899999 78899999999999999999999999   6789999999999999998 8999999999999998 666


Q ss_pred             eeccc
Q 012177          104 LRLSD  108 (469)
Q Consensus       104 lrLsd  108 (469)
                      .+..+
T Consensus        82 ~k~~~   86 (368)
T 1oqy_A           82 TKTKA   86 (368)
T ss_dssp             ECCCS
T ss_pred             ecCCC
Confidence            66543

>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=99.17  E-value=1.4e-11  Score=102.89  Aligned_cols=72  Identities=17%  Similarity=0.104  Sum_probs=65.3

Q ss_pred             cceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEee
Q 012177          109 LQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       109 ~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rk  184 (469)
                      .|+|+|+ ..|+++.++++++.||.+||++|++..++|  +++|+|+|+|+.|+| .+|.+|+|+++++|+|+.++
T Consensus        17 ~~~i~Vk-~~g~~~~i~v~~~~TV~~LK~~I~~~tgip--~~~QrL~~~Gk~Ldd-~tL~~~~i~~g~~i~lv~~~   88 (95)
T 1v86_A           17 LVDLKII-WNKTKHDVKVPLDSTGSELKQKIHSITGLP--PAMQKVMYKGLVPED-KTLREIKVTSGAKIMVVGST   88 (95)
T ss_dssp             CEEEEEE-ETTEEEEEEECTTSBHHHHHHHHHHHHCSC--STTCCCBSSSBCCSS-SBHHHHCCCTTEEEEECCSS
T ss_pred             eEEEEEE-ECCEEEEEEECCCCcHHHHHHHHHHHHCcC--HHHeEEEECCeeCCc-CcHHHCCCCCCCEEEEEecc
Confidence            4778888 578999999999999999999999999988  999999999999955 59999999999999997654

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

Probab=99.17  E-value=2.6e-12  Score=120.27  Aligned_cols=67  Identities=21%  Similarity=0.265  Sum_probs=0.0

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEe
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVR  183 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~r  183 (469)
                      |+|+|+|++|++++++|++++||.+||++|+..+|+|  +++|+|+|+|++|+|+++|+     ++++|||++|
T Consensus         1 MqI~VKtL~GktitLeV~~sdTV~~LK~kI~~keGIP--~~qQRLIf~GK~LeD~~TLs-----~~STLhLvlR   67 (189)
T 2xzm_9            1 MQVQVKTLEGETKIYTLEQGTSVLDLKSQISQDMGFE--IDMMTLVNNGFIAPNTELVT-----DDVTYYLSLK   67 (189)
T ss_dssp             --------------------------------------------------------------------------
T ss_pred             CEEEEEcCCCCEEEEEECCcChHHHHHHHHHHHhCcC--hhHEEEEecCeECCCCCccc-----CCCEEEEEEe
Confidence            7899999999999999999999999999999999998  99999999999999999998     8899999987

>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=99.14  E-value=5.2e-11  Score=122.28  Aligned_cols=74  Identities=22%  Similarity=0.311  Sum_probs=67.9

Q ss_pred             ccceeeeeeecceeEEEEeecCchHHHHHHHHHH---hcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEE-EEEEe
Q 012177          108 DLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAK---KGREFVDLKNQELICDGEELEDQRLITDICKRNEAVI-HLLVR  183 (469)
Q Consensus       108 d~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~---~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI-~Lv~r  183 (469)
                      ..|+|+||+.+|+++.++|++++||.+||++|+.   +.+++  +++|+|+|+|+.|+|+++|.+|+|+++++| +|+.+
T Consensus         6 ~~M~I~VKtl~Gk~~~leV~~~~TV~~LK~~I~~~~~~~gip--~~~QrLiy~GK~L~D~~tL~dygI~~gstIv~lv~k   83 (368)
T 1oqy_A            6 SAVTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFP--VAGQKLIYAGKILSDDVPIRDYRIDEKNFVVVMVTK   83 (368)
T ss_dssp             CCCCEEEEETTTEEEEECCCTTCBHHHHHHHHHHHTCSSSCC--STEEEEESSSSEECSSSBTTTTCCCTTSCEEEEEEC
T ss_pred             ceEEEEEEeCCCCEEEEEeCCCChHHHHHHHHHHHhCcCCCC--hhheEEEECCeecCCcCCHHHcCCCCCCEEEEEEec
Confidence            3589999999999999999999999999999999   56787  999999999999999999999999999999 55544

>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=99.14  E-value=9.1e-11  Score=98.10  Aligned_cols=79  Identities=13%  Similarity=0.288  Sum_probs=73.7

Q ss_pred             CCCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeeccc
Q 012177           30 SNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSD  108 (469)
Q Consensus        30 ~~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd  108 (469)
                      ..+.|+|+| +.+|+.+.+.|.+++++..|+.+++++.|+++.+|||+|+|++|. ++.|+++|++.++++|++++++.+
T Consensus         4 ~~~~i~ikVk~~~g~~i~~~v~~~t~l~kl~~~y~~~~gi~~~~~rf~FdG~~l~-~~~Tp~dl~medgD~Idv~~~~~G   82 (94)
T 2io1_B            4 MNDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPIN-ETDTPAQLEMEDEDTIDVFQQQTG   82 (94)
T ss_dssp             --CEEEEEEECTTSCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECC-TTCCTTTTTCCTTCEEEEEECCEE
T ss_pred             CCCeEEEEEECCCCCEEEEEECCCCHHHHHHHHHHHHhCCCcccEEEEECCEEcC-CCCCHHHcCCCCCCEEEEEEeccC
Confidence            367799999 778999999999999999999999999999999999999999998 899999999999999999999877


Q ss_pred             c
Q 012177          109 L  109 (469)
Q Consensus       109 ~  109 (469)
                      +
T Consensus        83 G   83 (94)
T 2io1_B           83 G   83 (94)
T ss_dssp             S
T ss_pred             C
Confidence            6

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

Probab=99.12  E-value=9.5e-11  Score=98.57  Aligned_cols=72  Identities=14%  Similarity=0.087  Sum_probs=61.6

Q ss_pred             ceeeeeeec--ceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCE---E----cCCCCcccccCCCCCCEEEE
Q 012177          110 QAITVTTVC--GKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGE---E----LEDQRLITDICKRNEAVIHL  180 (469)
Q Consensus       110 m~I~Vkt~~--Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk---~----LeD~~tL~dy~I~~~svI~L  180 (469)
                      +.+.|+...  ++.+++++++++||++||++|+.++|+|  +++|+|+|.|+   .    ++|.++|.+|+|+++++|||
T Consensus        15 v~l~It~s~~~~~~~e~~v~~~~TV~~LK~kIe~~~Gip--~~~QrLi~~g~~g~~~~~L~~D~~tL~~Y~I~~g~~Ihl   92 (97)
T 2kj6_A           15 VHLHITHANLKSFSADARFSPQMSVEAVKEKLWKKCGTS--VNSMALELYDDSGSKVAVLSDDSRPLGFFSPFDGFRLHI   92 (97)
T ss_dssp             EEEEEEETTSSCCCEEEEECTTCCHHHHHHHHHHHHCCC--TTSEEEEEECSSSCBCCCSSGGGSCHHHHCCCSCCEEEE
T ss_pred             EEEEEEECCCCceEEEEEeCCCChHHHHHHHHHHHHCcC--HHHeEEEEecCCCcccceecCCcCCHHHCCCCCCCEEEE
Confidence            455565433  3578899999999999999999999998  99999999883   3    48999999999999999999


Q ss_pred             EEe
Q 012177          181 LVR  183 (469)
Q Consensus       181 v~r  183 (469)
                      +-.
T Consensus        93 vd~   95 (97)
T 2kj6_A           93 IDL   95 (97)
T ss_dssp             EEC
T ss_pred             EeC
Confidence            754

>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=99.11  E-value=1.9e-10  Score=100.39  Aligned_cols=75  Identities=16%  Similarity=0.247  Sum_probs=64.2

Q ss_pred             CCCEEEEEEeCCe--EEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcC---e---ecccCCccccccCccCccceee
Q 012177           31 NDSILIFLSVGGS--VIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEG---R---ELARSNSRVRDYGLADGNVLHL  102 (469)
Q Consensus        31 ~~~M~I~V~l~G~--~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~G---k---~L~~D~~tL~dygI~~gstl~L  102 (469)
                      +..|.|+|+..+.  .+++++.+++||++||.+|+.++|+|+.+|||+|.|   +   +|.+|+.+|.+|||++|++|||
T Consensus         4 ~~~v~l~V~~~~~~~~~e~~v~~~~TV~~lK~ki~~~~Gip~~~qrL~~~g~~~~~~~~l~~D~~tL~~y~i~~g~~ihv   83 (122)
T 1t0y_A            4 TEVYDLEITTNATDFPMEKKYPAGMSLNDLKKKLELVVGTTVDSMRIQLFDGDDQLKGELTDGAKSLKDLGVRDGYRIHA   83 (122)
T ss_dssp             CCEEEEEEEESSCCSCEEEEEETTSBHHHHHHHHHHHHCCCTTTEEEEEECSSSSEEEECCCCSSBTTTTTCCSSEEEEE
T ss_pred             CCEEEEEEEECCCCccEEEEeCCCCcHHHHHHHHHHHhCCCHHHeEEEEecCCCccccccCCCcCCHHHCCCCCCCEEEE
Confidence            3467888854444  689999999999999999999999999999999987   4   4444899999999999999998


Q ss_pred             eee
Q 012177          103 VLR  105 (469)
Q Consensus       103 vlr  105 (469)
                      +..
T Consensus        84 vd~   86 (122)
T 1t0y_A           84 VDV   86 (122)
T ss_dssp             EEC
T ss_pred             EeC
Confidence            863

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

Probab=99.08  E-value=7.4e-11  Score=100.68  Aligned_cols=74  Identities=15%  Similarity=0.127  Sum_probs=67.0

Q ss_pred             ceeeeeeecceeEEEEee-cCchHHHHHHHHHHhcCCCCCCCceEEEECCE-----------E----cCCCCcccccCCC
Q 012177          110 QAITVTTVCGKVFEFHVE-RGRNVGYVKQQIAKKGREFVDLKNQELICDGE-----------E----LEDQRLITDICKR  173 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~-~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk-----------~----LeD~~tL~dy~I~  173 (469)
                      |.|.||+.+|+. .++|+ +++||.+||++|+++++++  +++|+|+|.|+           .    ++|+++|.+|+|+
T Consensus         8 M~irvrs~~G~~-~v~v~~~~~Tv~~LK~kI~~~~gip--~~~QrL~~~~~~~~~k~~~~~~~l~~~l~d~~tL~~~gi~   84 (107)
T 1wf9_A            8 TMLRVRSRDGLE-RVSVDGPHITVSQLKTLIQDQLQIP--IHNQTLSTNRNLLLAKSPSDFLAFTDMADPNLRISSLNLA   84 (107)
T ss_dssp             EEEEEECSSCEE-EEEECCTTSBHHHHHHHHHHHSCCC--TTTCCCBSSGGGGTCCSHHHHTTCCSSCCTTCBGGGTCCC
T ss_pred             EEEEEECCCCCE-EEEECCCCCcHHHHHHHHHHHhCcC--cccCEEEECCccccccCccccccccccCCCCCCHHHCCCC
Confidence            889999999976 79999 9999999999999999988  99999999888           4    5899999999999


Q ss_pred             CCCEEEEEEeeCC
Q 012177          174 NEAVIHLLVRKSA  186 (469)
Q Consensus       174 ~~svI~Lv~rks~  186 (469)
                      ++++|||+.....
T Consensus        85 ~G~~L~l~~~~~~   97 (107)
T 1wf9_A           85 HGSMVYLAYEGER   97 (107)
T ss_dssp             TTCEEECCCSSCC
T ss_pred             CCCEEEEEeCCCC
Confidence            9999999766443

>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=99.07  E-value=4.1e-10  Score=94.13  Aligned_cols=77  Identities=13%  Similarity=0.267  Sum_probs=72.0

Q ss_pred             ccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeCC
Q 012177          108 DLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKSA  186 (469)
Q Consensus       108 d~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks~  186 (469)
                      +.|+|.|++.+|+++.++|.+++++..|++.++++.|++  +++++|+|+|++|++.+|+++|+++++++|+++++...
T Consensus         6 ~~i~ikVk~~~g~~i~~~v~~~t~l~kl~~~y~~~~gi~--~~~~rf~FdG~~l~~~~Tp~dl~medgD~Idv~~~~~G   82 (94)
T 2io1_B            6 DHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLS--MRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQQQTG   82 (94)
T ss_dssp             CEEEEEEECTTSCEEEEEEETTSCTHHHHHHHHHHHTCC--GGGEEEEETTEECCTTCCTTTTTCCTTCEEEEEECCEE
T ss_pred             CeEEEEEECCCCCEEEEEECCCCHHHHHHHHHHHHhCCC--cccEEEEECCEEcCCCCCHHHcCCCCCCEEEEEEeccC
Confidence            458899999999999999999999999999999999988  89999999999999999999999999999999887443

>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=99.03  E-value=3.5e-10  Score=94.27  Aligned_cols=74  Identities=12%  Similarity=0.033  Sum_probs=61.8

Q ss_pred             ceeeeeeecc-eeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECC---EE----cCCCCcccccCCCCCCEEEEE
Q 012177          110 QAITVTTVCG-KVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDG---EE----LEDQRLITDICKRNEAVIHLL  181 (469)
Q Consensus       110 m~I~Vkt~~G-k~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~G---k~----LeD~~tL~dy~I~~~svI~Lv  181 (469)
                      +.|.|+.... ..+.+++++++||++||++|+.++|+|  +++|+|+|.|   +.    ++|+++|.+|+|+++++|||+
T Consensus         8 v~l~I~~~~~~~~~~~~v~~~~TV~~lK~ki~~~~gip--~~~qrL~~~~~~g~~~~~l~~D~~tL~~y~i~~g~~l~v~   85 (95)
T 1v6e_A            8 VMVFISSSLNSFRSEKRYSRSLTIAEFKCKLELVVGSP--ASCMELELYGADDKFYSKLDQEDALLGSYPVDDGCRIHVI   85 (95)
T ss_dssp             EEEEEEETTSSSCEEEEECTTSBHHHHHHHHHHHTCSC--TTTCBCEEECSSSCEEEECCCSSSBTTSSSCCTTCEEEEB
T ss_pred             EEEEEEECCCCeeEEEEcCccCHHHHHHHHHHHHHCCC--HHHeEEEEeCCCCccccccCCCcCCHhHCCCCCCCEEEEE
Confidence            4555655433 268899999999999999999999998  9999999986   43    589999999999999999997


Q ss_pred             EeeC
Q 012177          182 VRKS  185 (469)
Q Consensus       182 ~rks  185 (469)
                      ...+
T Consensus        86 d~~P   89 (95)
T 1v6e_A           86 DHSG   89 (95)
T ss_dssp             CCSC
T ss_pred             ECCc
Confidence            5433

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

Probab=98.98  E-value=5.5e-10  Score=112.81  Aligned_cols=77  Identities=17%  Similarity=0.308  Sum_probs=68.9

Q ss_pred             CCCEEEEEEeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEE---EcCeecccCCccccccCccCccceeeeeecc
Q 012177           31 NDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLV---FEGRELARSNSRVRDYGLADGNVLHLVLRLS  107 (469)
Q Consensus        31 ~~~M~I~V~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLv---f~Gk~L~~D~~tL~dygI~~gstl~LvlrLs  107 (469)
                      .+.|.|+|+.+|++++++|.+++||.+||++|++++|+|+++|+|+   |.|++|. |+.+|++|+|++|++|+|+....
T Consensus         3 ~~~i~i~Vk~~g~~~~v~v~~~~Tv~~lK~~I~~~tgVpp~~QkLi~~k~~Gk~l~-D~~~L~~~~ik~g~~l~L~gs~~   81 (320)
T 3shq_A            3 VKEVVVIVKWSGKEYPVDLTDQDTVEVLRHEIFRKTQVRPERQKLLNLKYKGKTAA-DNVKISALELKPNFKLMMVGSTE   81 (320)
T ss_dssp             -CEEEEEEEETTEEEEEEEETTSBHHHHHHHHHHHHCCCGGGCEETTCBSSSSBCC-TTSBTTSSCCC--CEEEEECCCC
T ss_pred             CceEEEEEEECCEEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEeecccCCcccC-ccccHHHcCCCCCCEEEEEccch
Confidence            4678999988999999999999999999999999999999999999   8999998 89999999999999999987765


Q ss_pred             c
Q 012177          108 D  108 (469)
Q Consensus       108 d  108 (469)
                      +
T Consensus        82 ~   82 (320)
T 3shq_A           82 A   82 (320)
T ss_dssp             -
T ss_pred             h
Confidence            4

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

Probab=98.97  E-value=1.4e-09  Score=90.33  Aligned_cols=78  Identities=13%  Similarity=0.298  Sum_probs=73.0

Q ss_pred             CCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecccc
Q 012177           31 NDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDL  109 (469)
Q Consensus        31 ~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~  109 (469)
                      .+.|+|.| +.+|+.+.+.|.+++++..|+.+.+++.|+++.+++|+|+|++|. ++.|.++|++.+|++|++++++.++
T Consensus         3 ~~~i~ikVk~~~g~~v~~~vk~~t~l~kl~~~y~~~~gi~~~~~rf~FdG~~l~-~~~Tp~dl~medgD~Idv~~~q~gg   81 (91)
T 2io0_B            3 NDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPIN-ETDTPAQLEMEDEDTIDVFQQQTGG   81 (91)
T ss_dssp             -CEEEEEEECTTSCEEEEEEETTSCTHHHHHHHHHHTTCCSTTEEEEETTEECC-TTCCTTTTTCCTTEEEEEEECCCCC
T ss_pred             CCeEEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCCCcccEEEEECCEEcC-CCCCHHHcCCCCCCEEEEEEeccCC
Confidence            46799999 678999999999999999999999999999999999999999998 8999999999999999999988765

>1t0y_A Tubulin folding cofactor B; ubiquitin-like, cytoskeleton, microtubule, CESG, structural genomics, protein structure initiative, PSI; NMR {Caenorhabditis elegans} SCOP: d.15.1.1

Probab=98.95  E-value=1.6e-09  Score=94.46  Aligned_cols=76  Identities=13%  Similarity=0.154  Sum_probs=63.9

Q ss_pred             ccceeeeeeecce-eEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECC---E---E-cCCCCcccccCCCCCCEEE
Q 012177          108 DLQAITVTTVCGK-VFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDG---E---E-LEDQRLITDICKRNEAVIH  179 (469)
Q Consensus       108 d~m~I~Vkt~~Gk-~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~G---k---~-LeD~~tL~dy~I~~~svI~  179 (469)
                      +.+.|.|+...+. .+.++++++.||++||++|+...|+|  +++|+|+|.|   +   . ++|.++|.+|+|+++++||
T Consensus         5 ~~v~l~V~~~~~~~~~e~~v~~~~TV~~lK~ki~~~~Gip--~~~qrL~~~g~~~~~~~~l~~D~~tL~~y~i~~g~~ih   82 (122)
T 1t0y_A            5 EVYDLEITTNATDFPMEKKYPAGMSLNDLKKKLELVVGTT--VDSMRIQLFDGDDQLKGELTDGAKSLKDLGVRDGYRIH   82 (122)
T ss_dssp             CEEEEEEEESSCCSCEEEEEETTSBHHHHHHHHHHHHCCC--TTTEEEEEECSSSSEEEECCCCSSBTTTTTCCSSEEEE
T ss_pred             CEEEEEEEECCCCccEEEEeCCCCcHHHHHHHHHHHhCCC--HHHeEEEEecCCCccccccCCCcCCHHHCCCCCCCEEE
Confidence            3466677654442 68899999999999999999999998  9999999977   3   3 4899999999999999999


Q ss_pred             EEEeeC
Q 012177          180 LLVRKS  185 (469)
Q Consensus       180 Lv~rks  185 (469)
                      |+...+
T Consensus        83 vvd~~p   88 (122)
T 1t0y_A           83 AVDVTG   88 (122)
T ss_dssp             EEECTT
T ss_pred             EEeCCC
Confidence            987543

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

Probab=98.93  E-value=3.5e-09  Score=87.94  Aligned_cols=77  Identities=13%  Similarity=0.267  Sum_probs=72.0

Q ss_pred             ccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeCC
Q 012177          108 DLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKSA  186 (469)
Q Consensus       108 d~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks~  186 (469)
                      +.|.|.|++.+|+.+.+.|.+++++..|++..+++.|++  +++++|+|+|+.|.+..|.++|+++++++|+++.++..
T Consensus         4 ~~i~ikVk~~~g~~v~~~vk~~t~l~kl~~~y~~~~gi~--~~~~rf~FdG~~l~~~~Tp~dl~medgD~Idv~~~q~g   80 (91)
T 2io0_B            4 DHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLS--MRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQQQTG   80 (91)
T ss_dssp             CEEEEEEECTTSCEEEEEEETTSCTHHHHHHHHHHTTCC--STTEEEEETTEECCTTCCTTTTTCCTTEEEEEEECCCC
T ss_pred             CeEEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCCC--cccEEEEECCEEcCCCCCHHHcCCCCCCEEEEEEeccC
Confidence            457899999999999999999999999999999999988  89999999999999999999999999999999877543

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

Probab=98.93  E-value=2.7e-09  Score=88.85  Aligned_cols=79  Identities=13%  Similarity=0.298  Sum_probs=71.5

Q ss_pred             CCCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeeccc
Q 012177           30 SNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSD  108 (469)
Q Consensus        30 ~~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd  108 (469)
                      +.+.|+|.| ..+|+.+.+.|.+++++..|+...+++.|+++.+++|+|+|+.|. ++.|..+|++.++++|++++++.+
T Consensus        14 ~~~~i~ikV~~~~g~~i~~~v~~~t~l~kl~~~y~~~~gi~~~~~rf~fdG~~l~-~~~Tp~dl~medgD~Idv~~~q~G   92 (93)
T 2d07_B           14 NNDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPIN-ETDTPAQLEMEDEDTIDVFQQQTG   92 (93)
T ss_dssp             -CCEEEEEEECTTSCEEEEEEETTSCHHHHHHHHHHHHTCCGGGEEEEETTEECC-TTCCTTTTTCCTTEEEEEEECC--
T ss_pred             CCCeEEEEEECCCCCEEEEEEccCCHHHHHHHHHHHHhCCCccceEEEECCEEcC-CCCCHHHcCCCCCCEEEEEeeccC
Confidence            367899999 678999999999999999999999999999999999999999998 899999999999999999988765


Q ss_pred             c
Q 012177          109 L  109 (469)
Q Consensus       109 ~  109 (469)
                      +
T Consensus        93 G   93 (93)
T 2d07_B           93 G   93 (93)
T ss_dssp             -
T ss_pred             C
Confidence            3

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

Probab=98.92  E-value=2.9e-09  Score=84.35  Aligned_cols=70  Identities=13%  Similarity=0.264  Sum_probs=67.1

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEE
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLL  181 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv  181 (469)
                      |.|.|++.+|+.+.+.|.+++++..|++..+++.|++  +++++|+|+|+.|.+..|.++|+++++++|+++
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 INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLS--MRQIRFRFDGQPINETDTPAQLEMEDEDTIDVF   71 (72)
T ss_dssp             EEEEEECTTSCEEEEEECTTSCTHHHHHHHHHHHTCC--TTTCEEEETTEECCTTCCTTTTTCCTTEEEEEE
T ss_pred             EEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCCC--cceEEEEECCEEcCCCCCHHHcCCCCCCEEEEE
Confidence            6788999999999999999999999999999999988  899999999999999999999999999999985

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

Probab=98.91  E-value=1e-09  Score=89.66  Aligned_cols=71  Identities=13%  Similarity=0.205  Sum_probs=61.5

Q ss_pred             EEEEE-EeCCeEEEEE-eCCCCcHHHHHHHHHHHhCCCCcceEEEEc--Ceecc--cCCccccccCccCccceeeeee
Q 012177           34 ILIFL-SVGGSVIPMR-VMESDSIASVKLRIQSYNGFFVKKQKLVFE--GRELA--RSNSRVRDYGLADGNVLHLVLR  105 (469)
Q Consensus        34 M~I~V-~l~G~~~~l~-V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~--Gk~L~--~D~~tL~dygI~~gstl~Lvlr  105 (469)
                      |+|+| +.+|+. .++ +.+++||.+||.+|++++|+++.+|+|+|+  ++.|.  +++.+|++|||.+|++|++.-.
T Consensus         1 m~i~vr~~~G~~-~v~~l~~~~Tv~~Lk~~I~~~~gi~~~~qrL~~~~p~k~l~l~~~~~tL~~~gl~~g~~l~v~~~   77 (86)
T 2kzr_A            1 WRVRCKAKGGTH-LLQGLSSRTRLRELQGQIAAITGIAPGSQRILVGYPPECLDLSDRDITLGDLPIQSGDMLIVEED   77 (86)
T ss_dssp             CCEEEEETTEEE-EECSCCTTCBHHHHHHHHHHHTCCCTTTCCCEESSCCCCCCCCCSSCBTTTSSCCTTCEEECCCC
T ss_pred             CEEEEEcCCCCE-EeeecCCCCCHHHHHHHHHHHhCCCccceEEEeCCCCcccccCCCCCCHHHcCCCCCCEEEEEeC
Confidence            78999 667755 477 999999999999999999999999999987  47873  3678999999999999998654

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

Probab=98.89  E-value=7.5e-09  Score=88.34  Aligned_cols=79  Identities=10%  Similarity=0.209  Sum_probs=71.9

Q ss_pred             CCCCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecc
Q 012177           29 LSNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLS  107 (469)
Q Consensus        29 ~~~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLs  107 (469)
                      ...+.|+|.| + +|+.+.+.|..++++..|+.+.+++.|+++.+++|+|+|++|. ++.|..+|++.++++|++++++.
T Consensus        27 ~~~~~I~IkV~~-~g~~i~fkIk~tt~l~kL~~ay~ek~gi~~~~~rF~FdG~rl~-~~~Tp~dl~medgD~Idv~~~q~  104 (106)
T 2eke_C           27 KPETHINLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQ-ADQTPEDLDMEDNDIIEAHREQI  104 (106)
T ss_dssp             CCCSEEEEEEEC-SSCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECC-TTCCTTTTTCCTTEEEEEEECC-
T ss_pred             CCCCeEEEEEec-CCcEEEEEeCCCCHHHHHHHHHHHHhCCCcccEEEEECCeEcC-CCCCHHHcCCCCCCEEEEEeecc
Confidence            3467899999 7 9999999999999999999999999999999999999999998 89999999999999999998876


Q ss_pred             cc
Q 012177          108 DL  109 (469)
Q Consensus       108 d~  109 (469)
                      ++
T Consensus       105 GG  106 (106)
T 2eke_C          105 GG  106 (106)
T ss_dssp             --
T ss_pred             cC
Confidence            53

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

Probab=98.89  E-value=1.4e-09  Score=88.92  Aligned_cols=71  Identities=11%  Similarity=0.098  Sum_probs=62.8

Q ss_pred             ceeeeeeecceeEEEE-eecCchHHHHHHHHHHhcCCCCCCCceEEEEC--CEEcC---CCCcccccCCCCCCEEEEEEe
Q 012177          110 QAITVTTVCGKVFEFH-VERGRNVGYVKQQIAKKGREFVDLKNQELICD--GEELE---DQRLITDICKRNEAVIHLLVR  183 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~-V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~--Gk~Le---D~~tL~dy~I~~~svI~Lv~r  183 (469)
                      |+|.||+.+|+.. ++ ++++.||.+||++|+++.+++  +++|+|+|+  ++.|+   |+.+|++|+|.++++|+|...
T Consensus         1 m~i~vr~~~G~~~-v~~l~~~~Tv~~Lk~~I~~~~gi~--~~~qrL~~~~p~k~l~l~~~~~tL~~~gl~~g~~l~v~~~   77 (86)
T 2kzr_A            1 WRVRCKAKGGTHL-LQGLSSRTRLRELQGQIAAITGIA--PGSQRILVGYPPECLDLSDRDITLGDLPIQSGDMLIVEED   77 (86)
T ss_dssp             CCEEEEETTEEEE-ECSCCTTCBHHHHHHHHHHHTCCC--TTTCCCEESSCCCCCCCCCSSCBTTTSSCCTTCEEECCCC
T ss_pred             CEEEEEcCCCCEE-eeecCCCCCHHHHHHHHHHHhCCC--ccceEEEeCCCCcccccCCCCCCHHHcCCCCCCEEEEEeC
Confidence            7899999999754 77 999999999999999999988  899999997  47774   789999999999999998533

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

Probab=98.89  E-value=4.1e-09  Score=83.44  Aligned_cols=70  Identities=11%  Similarity=0.313  Sum_probs=66.4

Q ss_pred             CEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeee
Q 012177           33 SILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLV  103 (469)
Q Consensus        33 ~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~Lv  103 (469)
                      .|+|.| +.+|+.+.+.|.+++++..|+.+.+++.|+++.+|+|+|+|+.|. ++.|.++|++.+|++|++.
T Consensus         1 ~i~lkV~~~~g~~v~~~v~~~t~l~kl~~~y~~~~gi~~~~~rf~fdG~~l~-~~~Tp~~l~medgD~Idv~   71 (72)
T 1wm3_A            1 HINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPIN-ETDTPAQLEMEDEDTIDVF   71 (72)
T ss_dssp             CEEEEEECTTSCEEEEEECTTSCTHHHHHHHHHHHTCCTTTCEEEETTEECC-TTCCTTTTTCCTTEEEEEE
T ss_pred             CEEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCCCcceEEEEECCEEcC-CCCCHHHcCCCCCCEEEEE
Confidence            378999 678999999999999999999999999999999999999999998 8899999999999999985

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

Probab=98.88  E-value=5.4e-09  Score=84.39  Aligned_cols=74  Identities=14%  Similarity=0.292  Sum_probs=69.0

Q ss_pred             CCCCCEEEEE-EeCCe-EEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeee
Q 012177           29 LSNDSILIFL-SVGGS-VIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLV  103 (469)
Q Consensus        29 ~~~~~M~I~V-~l~G~-~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~Lv  103 (469)
                      ..++.|+|.| ..+|+ .+.+.|.+++++..|+...+++.|+++.+|+|+|+|++|. ++.|..+|++.+|++|++.
T Consensus         3 ~~~~~i~ikV~~~~g~~~i~~~i~~~t~l~kl~~~y~~~~gi~~~~~rf~fdG~~l~-~~~Tp~~l~medgD~Idv~   78 (79)
T 3a4r_A            3 LGSQELRLRVQGKEKHQMLEISLSPDSPLKVLMSHYEEAMGLSGHKLSFFFDGTKLS-GKELPADLGLESGDLIEVW   78 (79)
T ss_dssp             TCCCCEEEEEECSSTTCEEEEEECTTSCHHHHHHHHHHHHTCTTCCCEEEETTEECC-SCCCHHHHTCCTTCEEEEE
T ss_pred             CCCCEEEEEEEeCCCCEEEEEEECCCChHHHHHHHHHHHhCCCcccEEEEECCEEcC-CCCCHHHcCCCCCCEEEEe
Confidence            3567899999 77885 8999999999999999999999999999999999999998 8999999999999999874

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

Probab=98.87  E-value=4e-09  Score=89.76  Aligned_cols=79  Identities=13%  Similarity=0.300  Sum_probs=74.0

Q ss_pred             CCCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeeccc
Q 012177           30 SNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSD  108 (469)
Q Consensus        30 ~~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd  108 (469)
                      ..+.|+|.| ..+|+.+.+.|.+++++..|+.+.+++.|+++.+++|+|+|++|. ++.|..+|++.++++|++++++.+
T Consensus        21 ~~~~I~IkVk~~~g~~i~~kVk~~t~l~kL~~~y~ek~gi~~~~~rf~FdG~~l~-~~~Tp~dl~medgD~Idv~~~q~G   99 (104)
T 1wz0_A           21 NNDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPIN-ETDTPAQLEMEDEDTIDVFQQQTS   99 (104)
T ss_dssp             CSCCEEEEEECSSSCEEEEEECTTSCHHHHHHHHHHHHTCCTTTSCEESSSSBCC-TTSCTTTTTCCTTEEEEECCCCCC
T ss_pred             CCCeEEEEEECCCCCEEEEEEcCCChHHHHHHHHHHHhCCCcceEEEEECCEEcC-CCCCHHHcCCCCCCEEEEEEeccC
Confidence            367899999 778999999999999999999999999999999999999999998 899999999999999999988766


Q ss_pred             c
Q 012177          109 L  109 (469)
Q Consensus       109 ~  109 (469)
                      +
T Consensus       100 G  100 (104)
T 1wz0_A          100 G  100 (104)
T ss_dssp             C
T ss_pred             C
Confidence            5

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

Probab=98.85  E-value=8e-09  Score=83.37  Aligned_cols=73  Identities=12%  Similarity=0.124  Sum_probs=68.4

Q ss_pred             cccceeeeeeecce-eEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEE
Q 012177          107 SDLQAITVTTVCGK-VFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLL  181 (469)
Q Consensus       107 sd~m~I~Vkt~~Gk-~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv  181 (469)
                      ++.|.|.|++.+|+ .+.+.|.+++++..|++..+++.|++  +++++|+|+|+.|.+..|..+|+++++++|++.
T Consensus         5 ~~~i~ikV~~~~g~~~i~~~i~~~t~l~kl~~~y~~~~gi~--~~~~rf~fdG~~l~~~~Tp~~l~medgD~Idv~   78 (79)
T 3a4r_A            5 SQELRLRVQGKEKHQMLEISLSPDSPLKVLMSHYEEAMGLS--GHKLSFFFDGTKLSGKELPADLGLESGDLIEVW   78 (79)
T ss_dssp             CCCEEEEEECSSTTCEEEEEECTTSCHHHHHHHHHHHHTCT--TCCCEEEETTEECCSCCCHHHHTCCTTCEEEEE
T ss_pred             CCEEEEEEEeCCCCEEEEEEECCCChHHHHHHHHHHHhCCC--cccEEEEECCEEcCCCCCHHHcCCCCCCEEEEe
Confidence            45688999999996 89999999999999999999999988  899999999999999999999999999999974

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

Probab=98.84  E-value=9.1e-09  Score=85.68  Aligned_cols=76  Identities=13%  Similarity=0.266  Sum_probs=70.9

Q ss_pred             cccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEee
Q 012177          107 SDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       107 sd~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rk  184 (469)
                      ...|.|.|++.+|+.+.+.|.+++++..|++..+++.|++  +++++|+|+|+.|.+..|..+|+++++++|+++++.
T Consensus        15 ~~~i~ikV~~~~g~~i~~~v~~~t~l~kl~~~y~~~~gi~--~~~~rf~fdG~~l~~~~Tp~dl~medgD~Idv~~~q   90 (93)
T 2d07_B           15 NDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLS--MRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQQQ   90 (93)
T ss_dssp             CCEEEEEEECTTSCEEEEEEETTSCHHHHHHHHHHHHTCC--GGGEEEEETTEECCTTCCTTTTTCCTTEEEEEEECC
T ss_pred             CCeEEEEEECCCCCEEEEEEccCCHHHHHHHHHHHHhCCC--ccceEEEECCEEcCCCCCHHHcCCCCCCEEEEEeec
Confidence            3457888999999999999999999999999999999988  899999999999999999999999999999998764

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

Probab=98.84  E-value=4.2e-09  Score=90.48  Aligned_cols=80  Identities=10%  Similarity=0.245  Sum_probs=74.6

Q ss_pred             CCCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeeccc
Q 012177           30 SNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSD  108 (469)
Q Consensus        30 ~~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd  108 (469)
                      +...|+|.| +.+|+.+.+.|.+++++..|+...+++.|+++.+|+|+|+|++|. ++.|..+|++.++++|++++.+.+
T Consensus        23 ~~~~I~IkVk~~~g~~i~fkVk~~t~l~kL~~ay~ek~gi~~~~~rfiFdG~~L~-~~~Tp~dl~mEDgD~Idv~~~q~G  101 (110)
T 2k8h_A           23 ETALVAVKVVNADGAEMFFRIKSRTALKKLIDTYCKKQGISRNSVRFLFDGTPID-ETKTPEELGMEDDDVIDAMVEQTG  101 (110)
T ss_dssp             CCCCEEEEEEETTSCCEEEEECTTSSHHHHHHHHHHHHTCCSSSCEEESSSCBCC-SSSHHHHHHCSSEEEEEEECCCCC
T ss_pred             CCCeEEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCCCcccEEEEECCEEcC-CCCCHHHcCCCCCCEEEEEEcccC
Confidence            367899999 788999999999999999999999999999999999999999998 899999999999999999998877


Q ss_pred             cc
Q 012177          109 LQ  110 (469)
Q Consensus       109 ~m  110 (469)
                      ++
T Consensus       102 g~  103 (110)
T 2k8h_A          102 GL  103 (110)
T ss_dssp             C-
T ss_pred             cc
Confidence            64

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

Probab=98.80  E-value=9.7e-09  Score=85.74  Aligned_cols=75  Identities=15%  Similarity=0.189  Sum_probs=64.7

Q ss_pred             CCCEEEEEE----eCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcC-------eecccCCccccccCccCccc
Q 012177           31 NDSILIFLS----VGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEG-------RELARSNSRVRDYGLADGNV   99 (469)
Q Consensus        31 ~~~M~I~V~----l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~G-------k~L~~D~~tL~dygI~~gst   99 (469)
                      ...+.|+|+    .+|+.+...+.++.||.+||.+|+..+|+|+.+|+|+|.+       ..|.+|..+|.+|+|.+|++
T Consensus         7 ~~~v~l~I~~~~~~~~~~~e~~l~~~~TV~~LK~~i~~~~gip~~~q~L~~~~~~~~~~~~~L~~d~~~L~~y~i~~G~~   86 (97)
T 1wjn_A            7 GQLLTLKIKCSNQPERQILEKQLPDSMTVQKVKGLLSRLLKVPVSELLLSYESSKMPGREIELENDLQPLQFYSVENGDC   86 (97)
T ss_dssp             SCEEEEEEEESSCSSSCCEEEEEETTSBHHHHHHHHHTTTTCCTTTCEEEEECTTSCSCEEECCCSSSBSGGGTCCTTCE
T ss_pred             CccEEEEEEecCCCCCcEEEEECCCCCCHHHHHHHHHHHHCCChhHeEEEEEcCCCCceeeccCCCcccHhhcCCCCCCE
Confidence            455777774    4678999999999999999999999999999999999873       33777889999999999999


Q ss_pred             eeeeee
Q 012177          100 LHLVLR  105 (469)
Q Consensus       100 l~Lvlr  105 (469)
                      ||+...
T Consensus        87 I~V~d~   92 (97)
T 1wjn_A           87 LLVRWS   92 (97)
T ss_dssp             EEEECC
T ss_pred             EEEEec
Confidence            998753

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

Probab=98.80  E-value=4.5e-09  Score=106.09  Aligned_cols=76  Identities=16%  Similarity=0.220  Sum_probs=66.5

Q ss_pred             cceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEE---ECCEEcCCCCcccccCCCCCCEEEEEEeeC
Q 012177          109 LQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELI---CDGEELEDQRLITDICKRNEAVIHLLVRKS  185 (469)
Q Consensus       109 ~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLi---f~Gk~LeD~~tL~dy~I~~~svI~Lv~rks  185 (469)
                      .+.|.|+ .+|+++.++|++++||.+||++|++++|+|  +++|+|+   |+|+.|+|+.+|++|+|++|++|+|+....
T Consensus         5 ~i~i~Vk-~~g~~~~v~v~~~~Tv~~lK~~I~~~tgVp--p~~QkLi~~k~~Gk~l~D~~~L~~~~ik~g~~l~L~gs~~   81 (320)
T 3shq_A            5 EVVVIVK-WSGKEYPVDLTDQDTVEVLRHEIFRKTQVR--PERQKLLNLKYKGKTAADNVKISALELKPNFKLMMVGSTE   81 (320)
T ss_dssp             EEEEEEE-ETTEEEEEEEETTSBHHHHHHHHHHHHCCC--GGGCEETTCBSSSSBCCTTSBTTSSCCC--CEEEEECCCC
T ss_pred             eEEEEEE-ECCEEEEEEECCCCcHHHHHHHHHHHHCcC--HHHeEEeecccCCcccCccccHHHcCCCCCCEEEEEccch
Confidence            3678888 489999999999999999999999999998  9999999   899999999999999999999999986655


Q ss_pred             Cc
Q 012177          186 AK  187 (469)
Q Consensus       186 ~k  187 (469)
                      +.
T Consensus        82 ~~   83 (320)
T 3shq_A           82 AD   83 (320)
T ss_dssp             --
T ss_pred             hh
Confidence            43

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

Probab=98.77  E-value=2e-08  Score=85.74  Aligned_cols=75  Identities=11%  Similarity=0.201  Sum_probs=70.5

Q ss_pred             cccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEee
Q 012177          107 SDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       107 sd~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rk  184 (469)
                      ...|.|.|++ +|+.+.+.|.+++++..|++..+++.|++  +.+++|+|+|+.|.+..|..+|+++++++|++++++
T Consensus        29 ~~~I~IkV~~-~g~~i~fkIk~tt~l~kL~~ay~ek~gi~--~~~~rF~FdG~rl~~~~Tp~dl~medgD~Idv~~~q  103 (106)
T 2eke_C           29 ETHINLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKE--MDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHREQ  103 (106)
T ss_dssp             CSEEEEEEEC-SSCEEEEEEETTSCTHHHHHHHHHHHTCC--GGGEEEEETTEECCTTCCTTTTTCCTTEEEEEEECC
T ss_pred             CCeEEEEEec-CCcEEEEEeCCCCHHHHHHHHHHHHhCCC--cccEEEEECCeEcCCCCCHHHcCCCCCCEEEEEeec
Confidence            3558899999 99999999999999999999999999988  899999999999999999999999999999998764

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

Probab=98.74  E-value=1.3e-08  Score=86.64  Aligned_cols=77  Identities=13%  Similarity=0.269  Sum_probs=71.5

Q ss_pred             cccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeC
Q 012177          107 SDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKS  185 (469)
Q Consensus       107 sd~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks  185 (469)
                      .+.|.|.|++.+|+.+.+.|.+++++..|++..+++.|++  +++++|+|+|+.|.+..|..+|+++++++|++++++.
T Consensus        22 ~~~I~IkVk~~~g~~i~~kVk~~t~l~kL~~~y~ek~gi~--~~~~rf~FdG~~l~~~~Tp~dl~medgD~Idv~~~q~   98 (104)
T 1wz0_A           22 NDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLS--MRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQQQT   98 (104)
T ss_dssp             SCCEEEEEECSSSCEEEEEECTTSCHHHHHHHHHHHHTCC--TTTSCEESSSSBCCTTSCTTTTTCCTTEEEEECCCCC
T ss_pred             CCeEEEEEECCCCCEEEEEEcCCChHHHHHHHHHHHhCCC--cceEEEEECCEEcCCCCCHHHcCCCCCCEEEEEEecc
Confidence            3458889999999999999999999999999999999988  8999999999999999999999999999999987643

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

Probab=98.69  E-value=1.4e-08  Score=87.16  Aligned_cols=78  Identities=15%  Similarity=0.275  Sum_probs=72.4

Q ss_pred             cccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeCC
Q 012177          107 SDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKSA  186 (469)
Q Consensus       107 sd~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks~  186 (469)
                      ...|.|.|++.+|+.+.+.|.+++++..|++..+++.+++  +++++|+|+|+.|.+..|..+|+++++++|++++....
T Consensus        24 ~~~I~IkVk~~~g~~i~fkVk~~t~l~kL~~ay~ek~gi~--~~~~rfiFdG~~L~~~~Tp~dl~mEDgD~Idv~~~q~G  101 (110)
T 2k8h_A           24 TALVAVKVVNADGAEMFFRIKSRTALKKLIDTYCKKQGIS--RNSVRFLFDGTPIDETKTPEELGMEDDDVIDAMVEQTG  101 (110)
T ss_dssp             CCCEEEEEEETTSCCEEEEECTTSSHHHHHHHHHHHHTCC--SSSCEEESSSCBCCSSSHHHHHHCSSEEEEEEECCCCC
T ss_pred             CCeEEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCCC--cccEEEEECCEEcCCCCCHHHcCCCCCCEEEEEEcccC
Confidence            4558899999999999999999999999999999999988  89999999999999999999999999999999876543

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

Probab=98.61  E-value=9.8e-08  Score=79.58  Aligned_cols=74  Identities=14%  Similarity=0.090  Sum_probs=61.9

Q ss_pred             cceeeeee---ecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECC-------EEc-CCCCcccccCCCCCCE
Q 012177          109 LQAITVTT---VCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDG-------EEL-EDQRLITDICKRNEAV  177 (469)
Q Consensus       109 ~m~I~Vkt---~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~G-------k~L-eD~~tL~dy~I~~~sv  177 (469)
                      .+.|.|+.   .+|+.+...+.++.||++||.+|+...|+|  +..|+|+|.+       ..| +|.++|.+|++++|++
T Consensus         9 ~v~l~I~~~~~~~~~~~e~~l~~~~TV~~LK~~i~~~~gip--~~~q~L~~~~~~~~~~~~~L~~d~~~L~~y~i~~G~~   86 (97)
T 1wjn_A            9 LLTLKIKCSNQPERQILEKQLPDSMTVQKVKGLLSRLLKVP--VSELLLSYESSKMPGREIELENDLQPLQFYSVENGDC   86 (97)
T ss_dssp             EEEEEEEESSCSSSCCEEEEEETTSBHHHHHHHHHTTTTCC--TTTCEEEEECTTSCSCEEECCCSSSBSGGGTCCTTCE
T ss_pred             cEEEEEEecCCCCCcEEEEECCCCCCHHHHHHHHHHHHCCC--hhHeEEEEEcCCCCceeeccCCCcccHhhcCCCCCCE
Confidence            34555553   467888999999999999999999999998  9999999873       235 6789999999999999


Q ss_pred             EEEEEee
Q 012177          178 IHLLVRK  184 (469)
Q Consensus       178 I~Lv~rk  184 (469)
                      ||+....
T Consensus        87 I~V~d~~   93 (97)
T 1wjn_A           87 LLVRWSG   93 (97)
T ss_dssp             EEEECCS
T ss_pred             EEEEecC
Confidence            9997643

>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=98.33  E-value=2e-06  Score=74.19  Aligned_cols=75  Identities=12%  Similarity=0.237  Sum_probs=69.7

Q ss_pred             ccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEee
Q 012177          108 DLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       108 d~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rk  184 (469)
                      +.+.|.|++.+|+.+.+.|.+++++..|++..+++.|++  +.+++++|+|+.|.+..|..+++++++++|+++..+
T Consensus        39 ~~I~LKV~~qdg~ev~fkIk~tt~L~KLm~aY~er~Gl~--~~~irFlFDG~rI~~~~TP~dL~MEDgD~IdV~~~Q  113 (115)
T 3kyd_D           39 EYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVP--MNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQEQ  113 (115)
T ss_dssp             CEEEEEEECTTSCEEEEEEETTSCTHHHHHHHHHHHTCC--TTSEEEEETTEECCTTCCTTTTTCCTTCEEEEEECC
T ss_pred             CeEEEEEEcCCCCEEEEEEccCChHHHHHHHHHHHhCCC--hhhEEEEECCeECCCCCCHHHcCCCCCCEEEEEeec
Confidence            457788888889999999999999999999999999987  999999999999999999999999999999998764

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

Probab=98.31  E-value=4.5e-06  Score=78.70  Aligned_cols=79  Identities=11%  Similarity=0.213  Sum_probs=73.7

Q ss_pred             CCCCEEEEEEeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecccc
Q 012177           30 SNDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDL  109 (469)
Q Consensus        30 ~~~~M~I~V~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~  109 (469)
                      +.+.|+|.|..+|+.+.+.|..++++..|+...+++.|++..++|++|+|++|. ++.|.+++++.+|++|++++.+.++
T Consensus        26 ~~~~I~LkV~~~g~~v~fkIk~~t~l~kL~~ay~er~Gi~~~~~RF~FdG~rI~-~~~TP~dL~MEdgD~Idv~~~q~gg  104 (200)
T 3pge_A           26 PETHINLKVSDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQ-ADQTPEDLDMEDNDIIEAHREQIGG  104 (200)
T ss_dssp             CCCCEEEEEECSSCEEEEEECTTSCTHHHHHHHHHHHSSCGGGEEEEETTEECC-TTCCTTTTTCCTTEEEEEEECCSCC
T ss_pred             CCCeEEEEEecCCCEEEEEEecCCHHHHHHHHHHHHhCCChhhEEEEECCEEcC-CCCCHHHcCCCCCCEEEEEeccCcC
Confidence            467899999668999999999999999999999999999999999999999998 8999999999999999999997543

>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=98.22  E-value=3.2e-06  Score=72.96  Aligned_cols=74  Identities=18%  Similarity=0.338  Sum_probs=68.5

Q ss_pred             CCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeee
Q 012177           31 NDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLR  105 (469)
Q Consensus        31 ~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~Lvlr  105 (469)
                      .+.|+|.| ..+|+.+.+.|..++++..|+...+++.|+++.+++++|+|+.|. ++.|..++++.++++|++.+.
T Consensus        38 ~~~I~LKV~~qdg~ev~fkIk~tt~L~KLm~aY~er~Gl~~~~irFlFDG~rI~-~~~TP~dL~MEDgD~IdV~~~  112 (115)
T 3kyd_D           38 GEYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIA-DNHTPKELGMEEEDVIEVYQE  112 (115)
T ss_dssp             -CEEEEEEECTTSCEEEEEEETTSCTHHHHHHHHHHHTCCTTSEEEEETTEECC-TTCCTTTTTCCTTCEEEEEEC
T ss_pred             CCeEEEEEEcCCCCEEEEEEccCChHHHHHHHHHHHhCCChhhEEEEECCeECC-CCCCHHHcCCCCCCEEEEEee
Confidence            46788888 678899999999999999999999999999999999999999998 899999999999999998764

>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=98.15  E-value=3.9e-06  Score=78.18  Aligned_cols=79  Identities=13%  Similarity=0.207  Sum_probs=74.1

Q ss_pred             CCCEEEEEEeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeeccccc
Q 012177           31 NDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDLQ  110 (469)
Q Consensus        31 ~~~M~I~V~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~m  110 (469)
                      .+.|.|.|..+|+.+.+.|..++++..|+...+++.|+++.+++++|+|+.|. ++.|..++++.++++|++++...++.
T Consensus        55 ~e~InLKVk~dG~eV~FKIKrtTpL~KLmeAYcERqGL~~~sIRFLFDGqRI~-~ddTPeDLdMEDGDtIDV~leQ~GG~  133 (207)
T 3tix_A           55 ETHINLKVSDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLTFLYDGIEIQ-ADQTPEDLDMEDNDIIEAHREQIGGL  133 (207)
T ss_dssp             CCEEEEEEECSSCEEEEEEETTSCTHHHHHHHHHHTTCCGGGSCEEETTEECC-SSCCTTTTTCCTTEEEEECCCCCTTG
T ss_pred             CCcEEEEEecCCCEEEEEEccCChHHHHHHHHHHHhCCCcccEEEEECCeecC-CCCCHHHcCCCCCCEEEEEEeccCCC
Confidence            56789999668999999999999999999999999999999999999999998 89999999999999999999987764

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

Probab=98.00  E-value=1.5e-05  Score=75.05  Aligned_cols=77  Identities=10%  Similarity=0.178  Sum_probs=70.1

Q ss_pred             cccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeCC
Q 012177          107 SDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKSA  186 (469)
Q Consensus       107 sd~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks~  186 (469)
                      .+-+.|.|+ .+|+.+.+.|.+++++..|++..+++.|++  +.++|++|+|+.|.+..|..++++.++++|+++..+-.
T Consensus        27 ~~~I~LkV~-~~g~~v~fkIk~~t~l~kL~~ay~er~Gi~--~~~~RF~FdG~rI~~~~TP~dL~MEdgD~Idv~~~q~g  103 (200)
T 3pge_A           27 ETHINLKVS-DGSSEIFFKIKKTTPLRRLMEAFAKRQGKE--MDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHREQIG  103 (200)
T ss_dssp             CCCEEEEEE-CSSCEEEEEECTTSCTHHHHHHHHHHHSSC--GGGEEEEETTEECCTTCCTTTTTCCTTEEEEEEECCSC
T ss_pred             CCeEEEEEe-cCCCEEEEEEecCCHHHHHHHHHHHHhCCC--hhhEEEEECCEEcCCCCCHHHcCCCCCCEEEEEeccCc
Confidence            445777786 489999999999999999999999999988  99999999999999999999999999999999877544

>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=97.88  E-value=2e-05  Score=73.51  Aligned_cols=79  Identities=11%  Similarity=0.188  Sum_probs=71.0

Q ss_pred             cccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeCC
Q 012177          107 SDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKSA  186 (469)
Q Consensus       107 sd~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks~  186 (469)
                      .+.+.|.|+ .+|+.+.+.|.+++++..|++..+++.|++  +.+++++|+|+.|.+..|..++++.++++|+++..+..
T Consensus        55 ~e~InLKVk-~dG~eV~FKIKrtTpL~KLmeAYcERqGL~--~~sIRFLFDGqRI~~ddTPeDLdMEDGDtIDV~leQ~G  131 (207)
T 3tix_A           55 ETHINLKVS-DGSSEIFFKIKKTTPLRRLMEAFAKRQGKE--MDSLTFLYDGIEIQADQTPEDLDMEDNDIIEAHREQIG  131 (207)
T ss_dssp             CCEEEEEEE-CSSCEEEEEEETTSCTHHHHHHHHHHTTCC--GGGSCEEETTEECCSSCCTTTTTCCTTEEEEECCCCCT
T ss_pred             CCcEEEEEe-cCCCEEEEEEccCChHHHHHHHHHHHhCCC--cccEEEEECCeecCCCCCHHHcCCCCCCEEEEEEeccC
Confidence            345677776 489999999999999999999999999988  89999999999999999999999999999999887655


Q ss_pred             cc
Q 012177          187 KV  188 (469)
Q Consensus       187 kv  188 (469)
                      ..
T Consensus       132 G~  133 (207)
T 3tix_A          132 GL  133 (207)
T ss_dssp             TG
T ss_pred             CC
Confidence            43

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

Probab=97.87  E-value=2.2e-05  Score=65.28  Aligned_cols=60  Identities=13%  Similarity=0.232  Sum_probs=47.7

Q ss_pred             EEEEE-E-eCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeeccc-CCccccccC
Q 012177           34 ILIFL-S-VGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELAR-SNSRVRDYG   93 (469)
Q Consensus        34 M~I~V-~-l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~-D~~tL~dyg   93 (469)
                      .-|+| . ..+..+.+.|.+.+||..+|++|++++|||+.+|+|+|.|+.|.= .+.+...|.
T Consensus        13 kvvHVf~~~~a~~h~v~I~~~etv~~~ke~V~eqTgIp~~~Q~LL~eg~~l~l~p~~~a~~~p   75 (94)
T 4efo_A           13 MVIHVFSLQQMTAHKIYIHSYNTATIFHELVYKQTKIISSNQELIYEGRRLVLEPGRLAQHFP   75 (94)
T ss_dssp             EEEEEEETTTTEEEEEEEETTCBHHHHHHHHHHHHCCCGGGEEEEETTEEECCCTTCBGGGSC
T ss_pred             eeEEEEEcccceEEEEEeccchHHHHHHHHHHHHhCCCHHHHHHHhCCCccccCCCCccccCC
Confidence            34555 3 357899999999999999999999999999999999999977651 334444443

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

Probab=97.83  E-value=2.3e-06  Score=80.73  Aligned_cols=81  Identities=11%  Similarity=0.192  Sum_probs=1.1

Q ss_pred             CCCCCEEEEEEeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeeccc
Q 012177           29 LSNDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSD  108 (469)
Q Consensus        29 ~~~~~M~I~V~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd  108 (469)
                      -+.+.|.|.|..+|+.+.+.|..++++..|+...+++.|+++.++|++|+|+.|. ++.|.+++++.+|++|++++...+
T Consensus        17 ~p~e~InLKV~qdGseV~FKIKrtTpL~KLM~AYcERqGLs~~siRFLFDGqRI~-dddTPadL~MEDGDtIDV~leQ~G   95 (227)
T 3v7o_A           17 KPETHINLKVSDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQ-ADQTPEDLDMEDNDIIEAHREQIG   95 (227)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CCCCeEEEEEeCCCCEEEEEEccCChHHHHHHHHHHHhCCCccceEEEECCEecC-CCCCHHHcCCCCCCEEEEEecccC
Confidence            3477899999668999999999999999999999999999999999999999998 899999999999999999988776


Q ss_pred             cc
Q 012177          109 LQ  110 (469)
Q Consensus       109 ~m  110 (469)
                      +.
T Consensus        96 G~   97 (227)
T 3v7o_A           96 GL   97 (227)
T ss_dssp             CC
T ss_pred             Cc
Confidence            64

>1cja_A Protein (actin-fragmin kinase); transferase; HET: AMP; 2.90A {Physarum polycephalum} SCOP: d.144.1.3

Probab=97.77  E-value=5.9e-06  Score=83.48  Aligned_cols=138  Identities=19%  Similarity=0.212  Sum_probs=87.9

Q ss_pred             cccCCCCcEEEEEeCCCCeEEEEEecCCCCCCCcCCCCCCCCCCCCCCccCCCcCCCcchhheeeeecccCCCCcccccc
Q 012177          274 PSSEGSGGAYFMQDSSGQKYISVFKPMDEEPMSVNNPRGLPISVDGEGLKKGTRAGEGALREVAAYILDHPRDATYSLHD  353 (469)
Q Consensus       274 ~~~~gs~g~y~~~~~~g~~~~~vfKP~deEp~~~~nP~g~~~~~~~~~~~~~~~~g~~~~rEvaAylld~~~~~~~~~~~  353 (469)
                      ++..|++|.|||... +  ...|.|+..                        +     -..|+=||.|-.          
T Consensus        76 ~s~~Gstgvff~~td-~--~~~VVK~s~------------------------~-----l~~E~l~s~LA~----------  113 (342)
T 1cja_A           76 RSEKGTEGLFFVETE-S--GVFIVKRST------------------------N-----IESETFCSLLCM----------  113 (342)
T ss_dssp             ECCSTTSCEEEEEES-S--CEEEEECCT------------------------T-----HHHHHHHHHHHH----------
T ss_pred             eccCCCCCeEEEEeC-C--CEEEEeCcH------------------------H-----HHHHHHHHHHHH----------
Confidence            678999999999983 3  388889661                        1     378888888883          


Q ss_pred             cccCCCCCCCeEEEEeccccc---------cCCCCCCCCCCCc-cceeEeeeecCcCCcccCC----CCCCChh---hhh
Q 012177          354 EERGFAGVPPTVMVRCLHKGF---------NHPNGYKHDLENV-KIGSLQMFVENVGSCEEMG----PRAFPVD---EVH  416 (469)
Q Consensus       354 ~~~g~~~VP~T~~v~~~~~~f---------~~~~~~~~~~~~~-k~GSlQ~fv~~~~~~~~~~----~~~f~~~---ev~  416 (469)
                       .+|. -+|...+++...+.|         ....+..-..+.. ...=++.|+++..-. ++.    ...|..+   ++-
T Consensus       114 -~LGl-piP~~Riv~~~~~E~~e~~~~L~~~~~~~~~l~~l~~~~~~l~meyv~G~~L~-e~~~~~~~~~f~~~~~k~LG  190 (342)
T 1cja_A          114 -RLGL-HAPKVRVVSSNSEEGTNMLECLAAIDKSFRVITTLANQANILLMELVRGITLN-KLTTTSAPEVLTKSTMQQLG  190 (342)
T ss_dssp             -HHTC-CCCCEEEEESSSHHHHHHHHHHHHHCSSSCHHHHHTTCSEEEEEECCCEEEST-TCCSSSHHHHSCHHHHHHHH
T ss_pred             -HhCC-CCCCeeEEeeCcHHHHHHHHHHHHhhhhhHHHHHhhcccceehhhhcCCCccc-cchhhhhhhhcCHHHHHhhc
Confidence             7887 579999998774321         0110000000000 112357777753311 111    1224443   345


Q ss_pred             heeeecEEEecCCCC---------CCcEEEecCCCCceEEEeeecCCccCCC
Q 012177          417 KISVLDIRLANTDRH---------AGNILVSKDEGGQIKLVPIDHGYCLPYS  459 (469)
Q Consensus       417 ki~ilD~~~~N~DR~---------~gN~Lv~~~~~~~~~l~~IDhg~~~p~~  459 (469)
                      ||.+||+.++|.||-         .+|||+..+ ++  ++++|||+.||-..
T Consensus       191 ~Ii~FDi~InN~DR~Pl~W~n~GN~~NIL~~~~-n~--~~~~IDhn~af~~~  239 (342)
T 1cja_A          191 SLMALDVIVNNSDRLPIAWTNEGNLDNIMLSER-GA--TVVPIDSKIIPLDA  239 (342)
T ss_dssp             HHHHHHHHHTCCSSSCSSSCSCCCGGGEEEESB-TT--CEEECSCCCCCCCS
T ss_pred             hhheehhhhcCCccCcccccCCCChhheEEeCC-CC--eEEEEcCCccccCC
Confidence            799999999999997         346788775 23  69999999999765

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

Probab=97.68  E-value=2.9e-05  Score=62.64  Aligned_cols=71  Identities=15%  Similarity=0.234  Sum_probs=59.2

Q ss_pred             CCEEEEEEeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCee-----cccCCccccccCccCccceeee
Q 012177           32 DSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRE-----LARSNSRVRDYGLADGNVLHLV  103 (469)
Q Consensus        32 ~~M~I~V~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~-----L~~D~~tL~dygI~~gstl~Lv  103 (469)
                      +.|.|.|....-++.+++++++|+.+|+.+|+++.++++..|.++++-.+     +. .+.+|++.||+.|++|.+.
T Consensus         3 ~~m~lRvrs~~G~~Ri~v~~~~t~~~L~~~I~~~~~i~~~~~~l~~~~~p~~~l~~~-~~~~l~~lgl~hGd~l~l~   78 (80)
T 2pjh_A            3 ESIIIRVQSPDGVKRITATKRETAATFLKKVAKEFGFQNNGFSVYINRNKTGEITAS-SSKSLHLLKIKHGDLLFLF   78 (80)
T ss_dssp             CCCCCEEECSSEEEECCCCSSCCHHHHHHHHHHHTCCCTTTCCCCCSCCGGGGSSSC-CCCTTTTTCCCTTCCEEC-
T ss_pred             CcEEEEEECCCCCEEEEcCCcChHHHHHHHHHHHcCCCCCcceEEecCCCCCcccCC-CCCCHHHcCCCCCCEEEEe
Confidence            45888885555688899999999999999999999999999888765444     33 6789999999999999875

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

Probab=97.65  E-value=0.00028  Score=56.40  Aligned_cols=71  Identities=8%  Similarity=0.113  Sum_probs=63.6

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCC-ceEEEECCEEcCCCCcccccCCCCCCEEEEEE
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLK-NQELICDGEELEDQRLITDICKRNEAVIHLLV  182 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e-~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~  182 (469)
                      +.+.+++.....+.+.|.++.+|..|-+.-+++.+++  ++ ..+|.|.|..|+.+.++.||.+.+++.|.+++
T Consensus        10 ~~~~~~~~~~~dl~f~I~~~t~v~kLi~ayc~~~~I~--~~~~IrllFDGdRLdp~~tp~DlemeD~D~IDvmL   81 (82)
T 3goe_A           10 ITLLLRSSKSEDLRLSIPVDFTVKDLIKRYCTEVKIS--FHERIRLEFEGEWLDPNDQVQSTELEDEDQVSVVL   81 (82)
T ss_dssp             EEEEEEESSSCCEEEEEETTSBHHHHHHHHHHHHTCC--CCTTCEEEETTEECCTTSBGGGSSCCTTCEEEEEC
T ss_pred             HHHhhhccCCCCeEEEecCCCCHHHHHHHHHHHcCCC--cCceEEEEEcCcccCccCChhhhCCcCCceeeeee
Confidence            4556666666789999999999999999999999998  66 99999999999999999999999999998864

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

Probab=97.61  E-value=3.2e-05  Score=62.37  Aligned_cols=71  Identities=10%  Similarity=0.087  Sum_probs=58.2

Q ss_pred             ccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEE-----cCCCCcccccCCCCCCEEEEE
Q 012177          108 DLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEE-----LEDQRLITDICKRNEAVIHLL  181 (469)
Q Consensus       108 d~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~-----LeD~~tL~dy~I~~~svI~Lv  181 (469)
                      ..|.|.||+.+| ++.+++++++|+.+|+++|++..+++  .+.|.|+++-..     +.++.+|+++++++|+.|++.
T Consensus         3 ~~m~lRvrs~~G-~~Ri~v~~~~t~~~L~~~I~~~~~i~--~~~~~l~~~~~p~~~l~~~~~~~l~~lgl~hGd~l~l~   78 (80)
T 2pjh_A            3 ESIIIRVQSPDG-VKRITATKRETAATFLKKVAKEFGFQ--NNGFSVYINRNKTGEITASSSKSLHLLKIKHGDLLFLF   78 (80)
T ss_dssp             CCCCCEEECSSE-EEECCCCSSCCHHHHHHHHHHHTCCC--TTTCCCCCSCCGGGGSSSCCCCTTTTTCCCTTCCEEC-
T ss_pred             CcEEEEEECCCC-CEEEEcCCcChHHHHHHHHHHHcCCC--CCcceEEecCCCCCcccCCCCCCHHHcCCCCCCEEEEe
Confidence            347788888887 56788999999999999999999987  677777765443     347889999999999999863

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

Probab=97.53  E-value=0.00029  Score=58.51  Aligned_cols=64  Identities=20%  Similarity=0.231  Sum_probs=50.8

Q ss_pred             ecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEc--CCCCcccccC-CCCCCEEEEEE
Q 012177          117 VCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEEL--EDQRLITDIC-KRNEAVIHLLV  182 (469)
Q Consensus       117 ~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~L--eD~~tL~dy~-I~~~svI~Lv~  182 (469)
                      ..+..+.+.+++.+||..+|++|++++|++  +++|+|+|+|+.|  +..+.-..|. -..+..|.|+-
T Consensus        21 ~~a~~h~v~I~~~etv~~~ke~V~eqTgIp--~~~Q~LL~eg~~l~l~p~~~a~~~p~Tt~~~Pl~L~s   87 (94)
T 4efo_A           21 QQMTAHKIYIHSYNTATIFHELVYKQTKII--SSNQELIYEGRRLVLEPGRLAQHFPKTTEENPIFVVS   87 (94)
T ss_dssp             TTTEEEEEEEETTCBHHHHHHHHHHHHCCC--GGGEEEEETTEEECCCTTCBGGGSCCCBTTBCEEEEE
T ss_pred             ccceEEEEEeccchHHHHHHHHHHHHhCCC--HHHHHHHhCCCccccCCCCccccCCCCCCCCCEEEEe
Confidence            357788999999999999999999999998  9999999999876  4455555665 34555665543

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

Probab=97.49  E-value=1.5e-05  Score=75.29  Aligned_cols=81  Identities=10%  Similarity=0.174  Sum_probs=0.4

Q ss_pred             eeccccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEe
Q 012177          104 LRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVR  183 (469)
Q Consensus       104 lrLsd~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~r  183 (469)
                      +...+.|.|.| +.+|+.+.+.|.++++...|++..+++.|++  ++++|++|+|+.|.+..|..+++++++++|+++..
T Consensus        16 ~~p~e~InLKV-~qdGseV~FKIKrtTpL~KLM~AYcERqGLs--~~siRFLFDGqRI~dddTPadL~MEDGDtIDV~le   92 (227)
T 3v7o_A           16 VKPETHINLKV-SDGSSEIFFKIKKTTPLRRLMEAFAKRQGKE--MDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHRE   92 (227)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CCCCCeEEEEE-eCCCCEEEEEEccCChHHHHHHHHHHHhCCC--ccceEEEECCEecCCCCCHHHcCCCCCCEEEEEec
Confidence            33456688888 7799999999999999999999999999988  89999999999999999999999999999999877


Q ss_pred             eCCc
Q 012177          184 KSAK  187 (469)
Q Consensus       184 ks~k  187 (469)
                      +...
T Consensus        93 Q~GG   96 (227)
T 3v7o_A           93 QIGG   96 (227)
T ss_dssp             ---C
T ss_pred             ccCC
Confidence            5554

>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=97.43  E-value=0.0059  Score=62.03  Aligned_cols=120  Identities=15%  Similarity=0.147  Sum_probs=95.9

Q ss_pred             CEEEEEEeCCeEEEEEeCCCCcHHHHHHHHHHHhC----CCCcceEEEEc------CeecccCCccccccCccCccceee
Q 012177           33 SILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNG----FFVKKQKLVFE------GRELARSNSRVRDYGLADGNVLHL  102 (469)
Q Consensus        33 ~M~I~V~l~G~~~~l~V~~sdTV~~LK~kIq~~~G----ip~~~QrLvf~------Gk~L~~D~~tL~dygI~~gstl~L  102 (469)
                      ++.+.|.+.+.+-+|..+++.||.++-.+|.++..    .+..+--|+..      |+=|. ++++|..|+++++..+..
T Consensus         3 ~~~~~~~~~~~~~~~~f~~~~~v~~~~~~i~e~~~~~~~~~~~~y~l~~~~~~~~~~~Wl~-~~~~l~~y~~~~~~~l~~   81 (371)
T 3ivf_A            3 ALSLKISIGNVVKTMQFEPSTMVYDACRMIRERIPEALAGPPNDFGLFLSDDDPKKGIWLE-AGKALDYYMLRNGDTMEY   81 (371)
T ss_dssp             CEEEEEEETTEEEEEEECTTCBHHHHHHHHHTTCGGGGSSCGGGEEEEECCSSGGGCEECC-TTSBGGGGTCCTTCEEEE
T ss_pred             cEEEEEEecceeEEEEECCCCCHHHHHHHHHHhcccccCCCHHHCeEeccCCCCCcCEecc-CCCCHHHhCCCCCceeec
Confidence            34555545588999999999999999999988853    24555567662      34476 678999999999998876


Q ss_pred             eeeccccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEEC
Q 012177          103 VLRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICD  157 (469)
Q Consensus       103 vlrLsd~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~  157 (469)
                      ..   ..+.+.|..++|....+.++.+.|+.++=+.|+...|+. ..+.-.|++.
T Consensus        82 ~~---~~~~~~V~l~dg~~~~~~vd~~tt~~el~~~v~~~l~L~-e~~~FgL~~~  132 (371)
T 3ivf_A           82 RK---KQRPLKIRMLDGTVKTIMVDDSKTVTDMLMTICARIGIT-NHDEYSLVRE  132 (371)
T ss_dssp             EE---CEEEEEEECTTSCEEEEEEETTSBHHHHHHHHHHHTTCS-CGGGEEEECC
T ss_pred             cC---ceeEEEEECcCCCEEEEEECCCCCHHHHHHHHHHHcCCC-CccccEEEEE
Confidence            54   346788889999999999999999999999999999976 3666777764

>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=97.41  E-value=0.00061  Score=64.45  Aligned_cols=94  Identities=15%  Similarity=0.233  Sum_probs=79.5

Q ss_pred             CCCCCCEEEEEEeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecc
Q 012177           28 KLSNDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLS  107 (469)
Q Consensus        28 ~~~~~~M~I~V~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLs  107 (469)
                      ..+.+.|.|.|.-+++.+.+.|..++++..|+...+++.|++..+++++|.|+.+. ++.+..+..+.++++|.+.....
T Consensus        16 ~~~~~~i~ikv~~~~~~v~~~i~~~~~l~kl~~~y~~~~g~~~~~~~f~fdG~~i~-~~~Tpk~L~~ed~d~I~~~~eq~   94 (209)
T 3uf8_A           16 VKPETHINLKVSDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQ-ADQTPEDLDMEDNDIIEAHREQI   94 (209)
T ss_dssp             --CCSEEEEEEECSSCEEEEEEETTSCTHHHHHHHHHHHTCCGGGCEEEETTEECC-TTCCTTTTTCCTTEEEEEECSCT
T ss_pred             eCCCCcEEEEEEcCCCEEEEEEeeCCHHHHHHHHHHHhhCCChheEEEEECCEecc-CCCChHHhhhcccccchhhcccc
Confidence            44688999999448889999999999999999999999999999999999999998 89999999999999999998887


Q ss_pred             ccceeeeeeecceeEE
Q 012177          108 DLQAITVTTVCGKVFE  123 (469)
Q Consensus       108 d~m~I~Vkt~~Gk~~~  123 (469)
                      ++.. ++.+.+|-.+.
T Consensus        95 Gg~t-~~~~~sGl~~~  109 (209)
T 3uf8_A           95 GGST-VVTTESGLKYE  109 (209)
T ss_dssp             TCCC-CEECTTSCEEE
T ss_pred             cccc-ccCCCCceEEE
Confidence            7653 33445554433

>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=97.34  E-value=0.00086  Score=63.39  Aligned_cols=82  Identities=10%  Similarity=0.176  Sum_probs=71.0

Q ss_pred             eeeccccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEE
Q 012177          103 VLRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLV  182 (469)
Q Consensus       103 vlrLsd~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~  182 (469)
                      ++...+.+.|.|+. +|+.+.+.+.++++...|++..+++.|++  +.+++++|+|+.+.+..+..+....++++|.+..
T Consensus        15 ~~~~~~~i~ikv~~-~~~~v~~~i~~~~~l~kl~~~y~~~~g~~--~~~~~f~fdG~~i~~~~Tpk~L~~ed~d~I~~~~   91 (209)
T 3uf8_A           15 EVKPETHINLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKE--MDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHR   91 (209)
T ss_dssp             ---CCSEEEEEEEC-SSCEEEEEEETTSCTHHHHHHHHHHHTCC--GGGCEEEETTEECCTTCCTTTTTCCTTEEEEEEC
T ss_pred             eeCCCCcEEEEEEc-CCCEEEEEEeeCCHHHHHHHHHHHhhCCC--hheEEEEECCEeccCCCChHHhhhcccccchhhc
Confidence            34445667788876 78888999999999999999999999988  9999999999999999999999999999999987


Q ss_pred             eeCCc
Q 012177          183 RKSAK  187 (469)
Q Consensus       183 rks~k  187 (469)
                      .+...
T Consensus        92 eq~Gg   96 (209)
T 3uf8_A           92 EQIGG   96 (209)
T ss_dssp             SCTTC
T ss_pred             ccccc
Confidence            65543

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

Probab=97.30  E-value=0.00089  Score=55.94  Aligned_cols=73  Identities=14%  Similarity=0.154  Sum_probs=65.1

Q ss_pred             cccceeeeeeecce-eEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEE
Q 012177          107 SDLQAITVTTVCGK-VFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLL  181 (469)
Q Consensus       107 sd~m~I~Vkt~~Gk-~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv  181 (469)
                      .+.+.|.|+..+|+ .+.+.|.++++...|...-+++.++.  +...+++|+|+.|....|..++.++++++|.+.
T Consensus        23 ~~~I~LkV~~~dg~~~v~fkIk~~t~l~kLm~aY~~~~g~~--~~~vrF~FDG~rI~~~~TP~dLdMEDgD~IDv~   96 (97)
T 2jxx_A           23 SQQLQLRVQGKEKHQTLEVSLSRDSPLKTLMSHYEEAMGLS--GRKLSFFFDGTKLSGRELPADLGMESGDLIEVW   96 (97)
T ss_dssp             CSEEEEEEEESSSSCEEEEEEETTSCHHHHHHHHHHHTTCS--SSCCEEEETTEECCSCSCHHHHTCCTTEEEEEE
T ss_pred             CCeEEEEEEcCCCCEEEEEEECCCChHHHHHHHHHHHHCCC--cccEEEEECCEEcCCCCCHHHcCCCCCCEEEEe
Confidence            34466777777784 78999999999999999999999987  889999999999999999999999999999874

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

Probab=97.27  E-value=0.0012  Score=52.70  Aligned_cols=64  Identities=19%  Similarity=0.231  Sum_probs=58.3

Q ss_pred             eCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCc-ceEEEEcCeecccCCccccccCccCccceeeee
Q 012177           40 VGGSVIPMRVMESDSIASVKLRIQSYNGFFVK-KQKLVFEGRELARSNSRVRDYGLADGNVLHLVL  104 (469)
Q Consensus        40 l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~-~QrLvf~Gk~L~~D~~tL~dygI~~gstl~Lvl  104 (469)
                      ....-+.+.|.++.+|.+|-..-..+.||+++ ..+|.|.|..|. .+.++++|++.+++.|.+++
T Consensus        17 ~~~~dl~f~I~~~t~v~kLi~ayc~~~~I~~~~~IrllFDGdRLd-p~~tp~DlemeD~D~IDvmL   81 (82)
T 3goe_A           17 SKSEDLRLSIPVDFTVKDLIKRYCTEVKISFHERIRLEFEGEWLD-PNDQVQSTELEDEDQVSVVL   81 (82)
T ss_dssp             SSSCCEEEEEETTSBHHHHHHHHHHHHTCCCCTTCEEEETTEECC-TTSBGGGSSCCTTCEEEEEC
T ss_pred             cCCCCeEEEecCCCCHHHHHHHHHHHcCCCcCceEEEEEcCcccC-ccCChhhhCCcCCceeeeee
Confidence            33456888999999999999999999999999 899999999997 99999999999999998765

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

Probab=97.06  E-value=0.0021  Score=53.62  Aligned_cols=73  Identities=11%  Similarity=0.293  Sum_probs=65.8

Q ss_pred             CCCCEEEEE-EeCC-eEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeee
Q 012177           30 SNDSILIFL-SVGG-SVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLV  103 (469)
Q Consensus        30 ~~~~M~I~V-~l~G-~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~Lv  103 (469)
                      ..+.|.|.| ...| +.+.+.|..+.++..|...-+++.|+++..-+++|+|..|. .+.|..+.++.++++|.+.
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 TSQQLQLRVQGKEKHQTLEVSLSRDSPLKTLMSHYEEAMGLSGRKLSFFFDGTKLS-GRELPADLGMESGDLIEVW   96 (97)
T ss_dssp             SCSEEEEEEEESSSSCEEEEEEETTSCHHHHHHHHHHHTTCSSSCCEEEETTEECC-SCSCHHHHTCCTTEEEEEE
T ss_pred             CCCeEEEEEEcCCCCEEEEEEECCCChHHHHHHHHHHHHCCCcccEEEEECCEEcC-CCCCHHHcCCCCCCEEEEe
Confidence            367788888 5677 48999999999999999999999999999999999999998 8899999999999998764

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

Probab=97.05  E-value=7.2e-05  Score=76.23  Aligned_cols=84  Identities=11%  Similarity=0.191  Sum_probs=3.0

Q ss_pred             CCCCEEEEEEeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecccc
Q 012177           30 SNDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDL  109 (469)
Q Consensus        30 ~~~~M~I~V~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~  109 (469)
                      +.+.|.|.|..+|+.+.+.|..++++..|+...+++.|+++.+++++|+|+.|. ++.|.+++++.+|++|++.....++
T Consensus        18 ~~~~I~LKV~~~g~~v~FkIk~~t~l~kLm~aY~~r~G~~~~~~rFlFdG~rI~-~~~TP~~L~MEDgD~Idv~~~Q~g~   96 (360)
T 3ix6_A           18 PETHINLKVSDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQ-ADQTPEDLDMEDNDIIEAHREQIGG   96 (360)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CCCeEEEEEecCCcEEEEEEecCChHHHHHHHHHHHhCCCcceEEEEECCeECC-CCCChHHcCCCccchhhhhhccCch
Confidence            467788888337889999999999999999999999999999999999999998 8999999999999999999999888


Q ss_pred             ceeee
Q 012177          110 QAITV  114 (469)
Q Consensus       110 m~I~V  114 (469)
                      |..+.
T Consensus        97 ~~~Yl  101 (360)
T 3ix6_A           97 MRTYL  101 (360)
T ss_dssp             CHHHH
T ss_pred             HHHHH
Confidence            76653

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

Probab=96.93  E-value=0.0036  Score=51.90  Aligned_cols=73  Identities=11%  Similarity=0.052  Sum_probs=66.7

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeC
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKS  185 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks  185 (469)
                      +.|.|+ .+|..+.+.+.+++....|.+..+++.|+.  +...++.|+|..+.+..|-.+++.+++++|..++.+|
T Consensus        22 IniKV~-~~g~ev~FkIK~tt~l~KL~~aYc~r~gv~--~~sirFlfDG~rI~~~~TP~~L~meD~DiID~~~~~~   94 (95)
T 2l76_A           22 FPLKIR-CRADLVRLPLRMSEPLQSVVDHMATHLGVS--PSRILLLFGETELSPTATPRTLKLGVADIIDCVVLTS   94 (95)
T ss_dssp             EEEEEE-CSSSEEEEEECSSSCTHHHHHHHHHHHTSC--GGGEEEEETTEECCTTSCHHHHTCCSSCEEEEEECCC
T ss_pred             EEEEEE-cCCcEEEEEEecCChHHHHHHHHHhhcCCC--hhhEEEEECCcCCCCCCCHhHcCCCCCCEEEEEEecC
Confidence            666677 478899999999999999999999999988  9999999999999999999999999999999887655

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

Probab=96.75  E-value=0.0095  Score=49.39  Aligned_cols=75  Identities=15%  Similarity=0.208  Sum_probs=69.2

Q ss_pred             CCCCEEEEEEeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeee
Q 012177           30 SNDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLR  105 (469)
Q Consensus        30 ~~~~M~I~V~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~Lvlr  105 (469)
                      ..+.|.|.|...|....+.|..++....|...-+++.|+.+..-++.|.|..+. ++.|-.+.++.++++|.+++-
T Consensus        18 ~~~~IniKV~~~g~ev~FkIK~tt~l~KL~~aYc~r~gv~~~sirFlfDG~rI~-~~~TP~~L~meD~DiID~~~~   92 (95)
T 2l76_A           18 TPRLFPLKIRCRADLVRLPLRMSEPLQSVVDHMATHLGVSPSRILLLFGETELS-PTATPRTLKLGVADIIDCVVL   92 (95)
T ss_dssp             CCCCEEEEEECSSSEEEEEECSSSCTHHHHHHHHHHHTSCGGGEEEEETTEECC-TTSCHHHHTCCSSCEEEEEEC
T ss_pred             CCCeEEEEEEcCCcEEEEEEecCChHHHHHHHHHhhcCCChhhEEEEECCcCCC-CCCCHhHcCCCCCCEEEEEEe
Confidence            467799999667899999999999999999999999999999999999999998 899999999999999988753

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

Probab=96.67  E-value=0.00028  Score=71.93  Aligned_cols=81  Identities=10%  Similarity=0.185  Sum_probs=0.0

Q ss_pred             eeccccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEe
Q 012177          104 LRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVR  183 (469)
Q Consensus       104 lrLsd~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~r  183 (469)
                      +...+.+.|.|++ +|+.+.+.|.++++...|++..+++.|++  +++++++|+|+.|.+..|.++++++++++|+++..
T Consensus        16 ~~~~~~I~LKV~~-~g~~v~FkIk~~t~l~kLm~aY~~r~G~~--~~~~rFlFdG~rI~~~~TP~~L~MEDgD~Idv~~~   92 (360)
T 3ix6_A           16 VKPETHINLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKE--MDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHRE   92 (360)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CCCCCeEEEEEec-CCcEEEEEEecCChHHHHHHHHHHHhCCC--cceEEEEECCeECCCCCChHHcCCCccchhhhhhc
Confidence            3345667788886 68889999999999999999999999987  89999999999999999999999999999999877


Q ss_pred             eCCc
Q 012177          184 KSAK  187 (469)
Q Consensus       184 ks~k  187 (469)
                      +...
T Consensus        93 Q~g~   96 (360)
T 3ix6_A           93 QIGG   96 (360)
T ss_dssp             ----
T ss_pred             cCch
Confidence            5543

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

Probab=96.57  E-value=0.0063  Score=50.01  Aligned_cols=75  Identities=12%  Similarity=0.013  Sum_probs=66.5

Q ss_pred             cccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEe
Q 012177          107 SDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVR  183 (469)
Q Consensus       107 sd~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~r  183 (469)
                      .++|.++|-..+++..++.|.++.++.++-+.-.+++|+.  +++..|.|+++.|+-...+.-.++.+++.+.|+-.
T Consensus         7 ~~~m~v~Vl~~n~rr~~VKvtp~t~L~~VL~eaC~K~gl~--~~~~~Lkh~~k~lDLSlpfRlsgLpnnAkLELv~~   81 (90)
T 2al3_A            7 GGGSAVSVLAPNGRRHTVKVTPSTVLLQVLEDTCRRQDFN--PSEYDLKFQRTVLDLSLQWRFANLPNNAKLEMVPV   81 (90)
T ss_dssp             ---CCEEEECTTSCEEEECCCTTSBHHHHHHHHHHHTTCC--GGGCEEEETTEEESSSCBHHHHCCCSSCEEEEECS
T ss_pred             CCccEEEEEcCCCcEEEEEECCCCCHHHHHHHHHHHhCCC--hhhCeEEeCCEeccccceeEecCCCCCCEEEEEEc
Confidence            4578899988999999999999999999999999999987  89999999999998888888889999999999654

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

Probab=96.52  E-value=0.0042  Score=51.04  Aligned_cols=75  Identities=16%  Similarity=0.102  Sum_probs=66.2

Q ss_pred             CCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeec
Q 012177           31 NDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRL  106 (469)
Q Consensus        31 ~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrL  106 (469)
                      ...|.|.| ..+++..++.|.|+.|+.+|-+.-.++.|+.+++-.|.|+++.|+ -..+++-.||.+++++.|+.+-
T Consensus         7 ~~~m~v~Vl~~n~rr~~VKvtp~t~L~~VL~eaC~K~gl~~~~~~Lkh~~k~lD-LSlpfRlsgLpnnAkLELv~~s   82 (90)
T 2al3_A            7 GGGSAVSVLAPNGRRHTVKVTPSTVLLQVLEDTCRRQDFNPSEYDLKFQRTVLD-LSLQWRFANLPNNAKLEMVPVS   82 (90)
T ss_dssp             ---CCEEEECTTSCEEEECCCTTSBHHHHHHHHHHHTTCCGGGCEEEETTEEES-SSCBHHHHCCCSSCEEEEECSS
T ss_pred             CCccEEEEEcCCCcEEEEEECCCCCHHHHHHHHHHHhCCChhhCeEEeCCEecc-ccceeEecCCCCCCEEEEEEcc
Confidence            55678888 678999999999999999999999999999999889999999996 8889999999999999987643

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

Probab=96.50  E-value=0.00042  Score=71.18  Aligned_cols=84  Identities=11%  Similarity=0.207  Sum_probs=0.0

Q ss_pred             CCCEEEEEEeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeeccccc
Q 012177           31 NDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDLQ  110 (469)
Q Consensus        31 ~~~M~I~V~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~m  110 (469)
                      .+.|.|.|.-.++.+.+.|..++++..|+...+++.|++..+++++|+|+.|. ++.|.+++++.+|++|.+.+...++.
T Consensus        28 ~~~i~lkv~~~~~~~~~~i~~~~~~~~l~~~y~~~~g~~~~~~~f~f~G~~i~-~~~Tp~~l~med~d~i~~~~~q~gg~  106 (389)
T 4da1_A           28 ETHINLKVSDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQ-ADQAPEDLDMEDNDIIEAHREQIGGE  106 (389)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CCcEEEEEecCCcEEEEEECCCChHHHHHHHHHHHhCCCcceEEEEECCEEcC-CCCCHHHcCCCCCCEeeeeecccccc
Confidence            56677888327889999999999999999999999999999999999999998 89999999999999999988877766


Q ss_pred             eeeee
Q 012177          111 AITVT  115 (469)
Q Consensus       111 ~I~Vk  115 (469)
                      .+.++
T Consensus       107 n~~~~  111 (389)
T 4da1_A          107 NLYFQ  111 (389)
T ss_dssp             -----
T ss_pred             cccee
Confidence            55543

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

Probab=96.25  E-value=0.0093  Score=48.12  Aligned_cols=70  Identities=17%  Similarity=0.288  Sum_probs=58.4

Q ss_pred             CCEEEEEEe---CCeEEEEEeCCCCcHHHHHHHHHHHhCCCCc-----ceEEEEcCeecccCCccccccCccCccceee
Q 012177           32 DSILIFLSV---GGSVIPMRVMESDSIASVKLRIQSYNGFFVK-----KQKLVFEGRELARSNSRVRDYGLADGNVLHL  102 (469)
Q Consensus        32 ~~M~I~V~l---~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~-----~QrLvf~Gk~L~~D~~tL~dygI~~gstl~L  102 (469)
                      ..|.|++.+   .++++-+++....||..|+..+.+..++...     +-|+.-.+..|. ++..|+||+|.+|+.+.+
T Consensus         3 ~yI~ITidl~~y~~~~~DLRIP~~~tvK~Li~~l~ea~~l~~~~~~~~~irv~NK~~~L~-~~~~L~d~~ItnGD~Lei   80 (81)
T 2bps_A            3 SYIDITIDLKHYNGSVFDLRLSDYHPVKKVIDIAWQAQSVSMPPREGHWIRVVNKDKVFS-GECKLSDCGITNGDRLEI   80 (81)
T ss_dssp             CEEEEEEECTTTTCCEEEEEEETTSBTTHHHHHHHHHSCCCSCCCTTCEEEEGGGTEEEE-TTSBTGGGTCCTTCEEEE
T ss_pred             cEEEEEEEeeccCCceEEEECCCchhHHHHHHHHHHHhCCCcCCCCCCEEEEecCCEEEc-CCCEEeeCCcCCCCEEEE
Confidence            456777765   7899999999999999999999999988752     235556688888 899999999999998764

>2kc2_A Talin-1, F1; FERM, adhesion, cell membrane, cell projection, cytoplasm, cytoskeleton, membrane, phosphoprotein, structural protein; NMR {Mus musculus}

Probab=96.21  E-value=0.0054  Score=53.68  Aligned_cols=69  Identities=13%  Similarity=0.126  Sum_probs=57.0

Q ss_pred             eeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEE----------------------------------
Q 012177          111 AITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELIC----------------------------------  156 (469)
Q Consensus       111 ~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif----------------------------------  156 (469)
                      .+.|++++|...++.|+.+.+|..++..|+.+.|+.. .++-.|..                                  
T Consensus        13 ~LkV~llDg~~ktl~VD~S~~V~~lv~~Ic~kigI~n-~~ey~L~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~k~kL   91 (128)
T 2kc2_A           13 PLKIRMLDGTVKTIMVDDSKTVTDMLMTICARIGITN-HDEYSLVRELMEEKKDEGTGTLRKDKTLLRDEKKMEKLKQKL   91 (128)
T ss_dssp             EEEEECTTSCEEEEEEEECSSHHHHHHHHHHHHTCCC-CSSEEEEEECCCCCCCCCSSCCSSSSSCSCCSCCSCSSCCSC
T ss_pred             cEEEEcCCCCEEEEEeCCCcCHHHHHHHHHHHhCCCC-cccccccccccccccccCchhhccccccccchhHHHHHHHHh
Confidence            6889999999999999999999999999999999872 33333332                                  


Q ss_pred             ----CCEEcCCCCcccccCCCCCCEEEE
Q 012177          157 ----DGEELEDQRLITDICKRNEAVIHL  180 (469)
Q Consensus       157 ----~Gk~LeD~~tL~dy~I~~~svI~L  180 (469)
                          ++..|++.++|.+++|.++++|.|
T Consensus        92 ~~dd~~~WLD~srtL~EQGI~e~~tllL  119 (128)
T 2kc2_A           92 HTDDELNWLDHGRTLREQGVEEHETLLL  119 (128)
T ss_dssp             CCSSSEEEECSSSCHHHHTCCTTSEEEE
T ss_pred             cccCCCCcccCCCcHHHcCCCCCCEEEE
Confidence                225678899999999999999665

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

Probab=95.94  E-value=0.0012  Score=67.73  Aligned_cols=76  Identities=11%  Similarity=0.191  Sum_probs=0.0

Q ss_pred             cccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeC
Q 012177          107 SDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKS  185 (469)
Q Consensus       107 sd~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks  185 (469)
                      .+.+.|.|++ +|..+.+.|.++++...|++..+++.|++  +.+++++|+|+.|.+..|..+++++++++|+++..+.
T Consensus        28 ~~~i~lkv~~-~~~~~~~~i~~~~~~~~l~~~y~~~~g~~--~~~~~f~f~G~~i~~~~Tp~~l~med~d~i~~~~~q~  103 (389)
T 4da1_A           28 ETHINLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKE--MDSLRFLYDGIRIQADQAPEDLDMEDNDIIEAHREQI  103 (389)
T ss_dssp             -------------------------------------------------------------------------------
T ss_pred             CCcEEEEEec-CCcEEEEEECCCChHHHHHHHHHHHhCCC--cceEEEEECCEEcCCCCCHHHcCCCCCCEeeeeeccc
Confidence            3456777776 78888899999999999999999999988  9999999999999999999999999999999986644

>3akj_A CTKA; protein kinase, transferase; 2.00A {Helicobacter pylori} PDB: 3akk_A* 3akl_A*

Probab=95.94  E-value=0.001  Score=67.02  Aligned_cols=46  Identities=30%  Similarity=0.387  Sum_probs=36.4

Q ss_pred             hhhhheeeecEEEecCCCCCCcEEEecCCC-CceEEEe-eecCCccCC
Q 012177          413 DEVHKISVLDIRLANTDRHAGNILVSKDEG-GQIKLVP-IDHGYCLPY  458 (469)
Q Consensus       413 ~ev~ki~ilD~~~~N~DR~~gN~Lv~~~~~-~~~~l~~-IDhg~~~p~  458 (469)
                      +++-++.+||++|+|+|||++||=+-.+.+ |.+.|.| .|||.++..
T Consensus       139 ~~~~~~~vfn~LIgN~D~H~kN~s~l~~~~tg~~~LAP~YD~~~s~~~  186 (325)
T 3akj_A          139 CFFWDMFVADTLLGNFDRHNGNWGFLRASNSKEYQIAPIFDCGSCLYP  186 (325)
T ss_dssp             HHHHHHHHHHHHHTCSCCCGGGCEEEEESSSSCEEECCBCCCTTSSCT
T ss_pred             HHHHHHHHhhHhhcCCCCCCcCeEEEEECCCCCEEecCcccccccccc
Confidence            457799999999999999999984444333 6688888 599987754

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

Probab=95.45  E-value=0.034  Score=44.78  Aligned_cols=64  Identities=11%  Similarity=0.082  Sum_probs=55.6

Q ss_pred             ecceeEEEEeecCchHHHHHHHHHHhcCCCCCC---CceEEEECCEEcCCCCcccccCCCCCCEEEE
Q 012177          117 VCGKVFEFHVERGRNVGYVKQQIAKKGREFVDL---KNQELICDGEELEDQRLITDICKRNEAVIHL  180 (469)
Q Consensus       117 ~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~---e~QrLif~Gk~LeD~~tL~dy~I~~~svI~L  180 (469)
                      -.++++-+++....||..|++.+.+..++..+.   ...++.-.+..|.+.++|+||.|.+|+.|.+
T Consensus        14 y~~~~~DLRIP~~~tvK~Li~~l~ea~~l~~~~~~~~~irv~NK~~~L~~~~~L~d~~ItnGD~Lei   80 (81)
T 2bps_A           14 YNGSVFDLRLSDYHPVKKVIDIAWQAQSVSMPPREGHWIRVVNKDKVFSGECKLSDCGITNGDRLEI   80 (81)
T ss_dssp             TTCCEEEEEEETTSBTTHHHHHHHHHSCCCSCCCTTCEEEEGGGTEEEETTSBTGGGTCCTTCEEEE
T ss_pred             cCCceEEEECCCchhHHHHHHHHHHHhCCCcCCCCCCEEEEecCCEEEcCCCEEeeCCcCCCCEEEE
Confidence            368899999999999999999999999976422   3567778999999999999999999999875

>2kc2_A Talin-1, F1; FERM, adhesion, cell membrane, cell projection, cytoplasm, cytoskeleton, membrane, phosphoprotein, structural protein; NMR {Mus musculus}

Probab=95.31  E-value=0.012  Score=51.40  Aligned_cols=70  Identities=23%  Similarity=0.271  Sum_probs=55.6

Q ss_pred             EEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCc-------------------------------------ceEEE
Q 012177           35 LIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVK-------------------------------------KQKLV   76 (469)
Q Consensus        35 ~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~-------------------------------------~QrLv   76 (469)
                      .+.| .++|...++.|+.+.||.+++..|+.+.||+..                                     +|+|-
T Consensus        13 ~LkV~llDg~~ktl~VD~S~~V~~lv~~Ic~kigI~n~~ey~L~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~k~kL~   92 (128)
T 2kc2_A           13 PLKIRMLDGTVKTIMVDDSKTVTDMLMTICARIGITNHDEYSLVRELMEEKKDEGTGTLRKDKTLLRDEKKMEKLKQKLH   92 (128)
T ss_dssp             EEEEECTTSCEEEEEEEECSSHHHHHHHHHHHHTCCCCSSEEEEEECCCCCCCCCSSCCSSSSSCSCCSCCSCSSCCSCC
T ss_pred             cEEEEcCCCCEEEEEeCCCcCHHHHHHHHHHHhCCCCcccccccccccccccccCchhhccccccccchhHHHHHHHHhc
Confidence            5677 568999999999999999999999999999855                                     34442


Q ss_pred             E--cCeecccCCccccccCccCccceeeeee
Q 012177           77 F--EGRELARSNSRVRDYGLADGNVLHLVLR  105 (469)
Q Consensus        77 f--~Gk~L~~D~~tL~dygI~~gstl~Lvlr  105 (469)
                      .  .+.-|. +..+|.++||.+++++.|.-+
T Consensus        93 ~dd~~~WLD-~srtL~EQGI~e~~tllLRrK  122 (128)
T 2kc2_A           93 TDDELNWLD-HGRTLREQGVEEHETLLLRRK  122 (128)
T ss_dssp             CSSSEEEEC-SSSCHHHHTCCTTSEEEEEES
T ss_pred             ccCCCCccc-CCCcHHHcCCCCCCEEEEEEE
Confidence            2  123454 789999999999999877644

>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=95.27  E-value=0.046  Score=48.21  Aligned_cols=79  Identities=18%  Similarity=0.358  Sum_probs=54.1

Q ss_pred             CCCCEEEEE-EeC------CeEEEEEeCCCCcHHHHHHHHHHH--hCCCCcc------eEEEE----cCee-cccCC---
Q 012177           30 SNDSILIFL-SVG------GSVIPMRVMESDSIASVKLRIQSY--NGFFVKK------QKLVF----EGRE-LARSN---   86 (469)
Q Consensus        30 ~~~~M~I~V-~l~------G~~~~l~V~~sdTV~~LK~kIq~~--~Gip~~~------QrLvf----~Gk~-L~~D~---   86 (469)
                      ..++|.|+| ...      ...+++.|...|||.++|+||-+.  .|+|..+      .-|-+    .|+. |.|.+   
T Consensus        21 ey~~ltl~v~~~~~~~~~~~~~i~VkVLdCDTItQvKeKiLDavYk~~PySqRP~~~d~dLEwr~g~~g~liL~D~D~tS  100 (138)
T 2r2o_A           21 EYRPLTLNALLAVGPGAGEAQGVPVKVLDCDTISQAKEKMLDQLYKGVPLTQRPDPRTLDVEWRSGVAGHLILSDEDVTS  100 (138)
T ss_dssp             -CCEEEEEEEEC-------CCCEEEEEETTCBHHHHHHHHHHHHTTTSCGGGCCCGGGEEEEEECSSSCEEEECSSSTTC
T ss_pred             eeEEEEEEEEccCCcccccCCceeEEEeccccHHHHHHHHHHHHHcCCccccCCCccceeEEEecCCcCceEeeccCCcc
Confidence            367788887 321      357999999999999999999877  5665433      24444    1332 54211   


Q ss_pred             ---------ccccccCccCccceeeeeeccc
Q 012177           87 ---------SRVRDYGLADGNVLHLVLRLSD  108 (469)
Q Consensus        87 ---------~tL~dygI~~gstl~LvlrLsd  108 (469)
                               .||+.|+|.+|+++-|+.+.+.
T Consensus       101 ~~~~~wkrLNTL~HY~V~Dga~l~l~~~~~~  131 (138)
T 2r2o_A          101 EVQGLWRRLNTLQHYKVPDGATVALVPCLTK  131 (138)
T ss_dssp             CEETTEEECCBHHHHTCCTTCEEEEEEC---
T ss_pred             cccCCceeecchhccCCCCCCEEEEEECCCc
Confidence                     2799999999999999887654

>4e71_A Plexin-B2, MM1; transmembrane, signaling, RBD, structural genomics consortium, SGC, signaling protein; 2.26A {Homo sapiens}

Probab=94.81  E-value=0.06  Score=45.86  Aligned_cols=75  Identities=23%  Similarity=0.335  Sum_probs=51.3

Q ss_pred             CCCEEEEEE-e--CCeEEEEEeCCCCcHHHHHHHHHHH--hCCCCc------ceEEEEc----CeecccCC---------
Q 012177           31 NDSILIFLS-V--GGSVIPMRVMESDSIASVKLRIQSY--NGFFVK------KQKLVFE----GRELARSN---------   86 (469)
Q Consensus        31 ~~~M~I~V~-l--~G~~~~l~V~~sdTV~~LK~kIq~~--~Gip~~------~QrLvf~----Gk~L~~D~---------   86 (469)
                      .++|.++|. .  .+..+++.|...|||.++|+||-..  .|+|..      ...|-+.    |+.|.+.+         
T Consensus         9 ~~~ltl~v~~~~~~~~~i~vkVLdCDTItQvKeKiLd~vyk~~pyS~rP~~~~~dLEwr~g~~~~iL~D~D~ts~~~~~w   88 (111)
T 4e71_A            9 YAPLTVSVIVQDEGVDAIPVKVLNCDTISQVKEKIIDQVYRGQPCSCWPRPDSVVLEWRPGSTAQILSDLDLTSQREGRW   88 (111)
T ss_dssp             CCEEEEEEEETTSCCCCEEEEEETTCBHHHHHHHHHHHHTC---------CCSEEEEEC--CCCEECCSSCTTSCC---C
T ss_pred             eEEEEEEEEecCCCCCceeeeeeccCcHHHHHHHHHHHHHcCCccccCCCCCceeeEEecCCCCccccccCccceecCcc
Confidence            566777773 2  3467999999999999999999876  555544      3446652    55565322         


Q ss_pred             ---ccccccCccCccceeeeee
Q 012177           87 ---SRVRDYGLADGNVLHLVLR  105 (469)
Q Consensus        87 ---~tL~dygI~~gstl~Lvlr  105 (469)
                         .||+.|+|.+|+++-|+.+
T Consensus        89 krLNTL~HY~V~dgatl~l~~~  110 (111)
T 4e71_A           89 KRVNTLMHYNVRDGATLILSKV  110 (111)
T ss_dssp             CCCCBHHHHTCCTTCEEEEEEC
T ss_pred             eEecchhhcCCCCCCEEEEEeC
Confidence               3688999999999988754

>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=94.24  E-value=0.25  Score=41.69  Aligned_cols=78  Identities=17%  Similarity=0.125  Sum_probs=62.6

Q ss_pred             CCCCCCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEE--EcCeecc--cCCccccccCccCcccee
Q 012177           27 EKLSNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLV--FEGRELA--RSNSRVRDYGLADGNVLH  101 (469)
Q Consensus        27 ~~~~~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLv--f~Gk~L~--~D~~tL~dygI~~gstl~  101 (469)
                      ........+|-| ..+|+.+.-....++||.+|..-|....+.+.....|+  |-.+.+.  +.+.+|++.|+....+|.
T Consensus         7 ~~~~~~~t~IqIRlpdG~rl~~rF~~~~tl~~v~~fV~~~~~~~~~~f~L~t~fPrk~l~~~d~~~TL~elgL~psa~L~   86 (109)
T 2dzk_A            7 GRDRSTIARIQFRLPDGSSFTNQFPSDAPLEEARQFAAQTVGNTYGNFSLATMFPRREFTREDYKRRLLDLELAPSASVV   86 (109)
T ss_dssp             CCCCSCCEEEEEECSSSCEEEEEECTTSBHHHHHHHHHHHHTTSSCSCEEECSSSCCBCCTTTTTSBTGGGTCSSEEEEE
T ss_pred             CCCCCCcEEEEEECCCCCEEEEEeCCCCCHHHHHHHHHhccCCCCCceEEEcCCCCcCCcccccCCCHHHCCCCCceEEE
Confidence            333456788888 45789999999999999999999999988776667776  5677786  356899999999988887


Q ss_pred             eee
Q 012177          102 LVL  104 (469)
Q Consensus       102 Lvl  104 (469)
                      +..
T Consensus        87 v~~   89 (109)
T 2dzk_A           87 LLP   89 (109)
T ss_dssp             EEC
T ss_pred             EEE
Confidence            654

>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=93.80  E-value=0.24  Score=39.45  Aligned_cols=73  Identities=21%  Similarity=0.267  Sum_probs=59.0

Q ss_pred             CCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEE--EcCeecc--cCCccccccCccCccceeeee
Q 012177           31 NDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLV--FEGRELA--RSNSRVRDYGLADGNVLHLVL  104 (469)
Q Consensus        31 ~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLv--f~Gk~L~--~D~~tL~dygI~~gstl~Lvl  104 (469)
                      ....+|-| ..+|+.+.-....++||.+|..-|.. .+.+.....|+  |-.+.+.  +.+.+|++.|+...++|.+..
T Consensus         5 ~~~~~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            5 EPVSKLRIRTPSGEFLERRFLASNKLQIVFDFVAS-KGFPWDEYKLLSTFPRRDVTQLDPNKSLLEVKLFPQETLFLEA   82 (84)
T ss_dssp             CCEEEEEEECTTSCEEEEEEETTSBHHHHHHHHHH-TTCCTTTEEEECSSSCCBGGGSCTTSBTTTTTCCSEEEEEEEE
T ss_pred             CCeEEEEEECCCCCEEEEEeCCCCCHHHHHHHHHH-cCCCCCCeEEEeCCCCCCCcCCCCCCCHHHCCCCCCCEEEEEe
Confidence            44567777 44788888899999999999999998 67777778887  5578885  467899999999999887753

>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=93.70  E-value=0.17  Score=40.41  Aligned_cols=69  Identities=10%  Similarity=0.128  Sum_probs=55.4

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEE--ECCEEc---CCCCcccccCCCCCCEEEEE
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELI--CDGEEL---EDQRLITDICKRNEAVIHLL  181 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLi--f~Gk~L---eD~~tL~dy~I~~~svI~Lv  181 (469)
                      .+|.||..+|+.+.-....++||.+|.+-|.. .+..  .....|+  |-.+.|   +..++|.+.++.+.++|.+-
T Consensus         8 ~~i~iRlpdG~r~~~~F~~~~tl~~v~~fv~~-~~~~--~~~f~L~t~fPrk~l~~~d~~~TL~e~gL~p~a~L~ve   81 (84)
T 3qx1_A            8 SKLRIRTPSGEFLERRFLASNKLQIVFDFVAS-KGFP--WDEYKLLSTFPRRDVTQLDPNKSLLEVKLFPQETLFLE   81 (84)
T ss_dssp             EEEEEECTTSCEEEEEEETTSBHHHHHHHHHH-TTCC--TTTEEEECSSSCCBGGGSCTTSBTTTTTCCSEEEEEEE
T ss_pred             EEEEEECCCCCEEEEEeCCCCCHHHHHHHHHH-cCCC--CCCeEEEeCCCCCCCcCCCCCCCHHHCCCCCCCEEEEE
Confidence            46777888888888788899999999999988 4444  6777888  557888   34789999999999998873

>4e74_A Plexin-A4; RBD, structural genomics, structural genomics consor SGC, signaling protein; 1.58A {Homo sapiens} PDB: 3q3j_A*

Probab=91.85  E-value=0.45  Score=40.83  Aligned_cols=76  Identities=22%  Similarity=0.427  Sum_probs=52.9

Q ss_pred             CCCEEEEE-Ee---CCeEEEEEeCCCCcHHHHHHHHHHH--hCCCCc------ceEEEE-cC---e-ecccCC-------
Q 012177           31 NDSILIFL-SV---GGSVIPMRVMESDSIASVKLRIQSY--NGFFVK------KQKLVF-EG---R-ELARSN-------   86 (469)
Q Consensus        31 ~~~M~I~V-~l---~G~~~~l~V~~sdTV~~LK~kIq~~--~Gip~~------~QrLvf-~G---k-~L~~D~-------   86 (469)
                      .++|.++| ..   ....+++.|...|||.++|+||-..  .|+|..      ...|-+ .|   + .|.+.+       
T Consensus        11 ~~~ltl~v~~~~~~~~~~i~VkVLdCDTItQvKeKiLd~vyk~~p~S~rP~~~~~dLEwr~g~~~~~iL~D~D~ts~~~~   90 (117)
T 4e74_A           11 YKTLVLSCVSPDNANSPEVPVKILNCDTITQVKEKILDAIFKNVPCSHRPKAADMDLEWRQGSGARMILQDEDITTKIEN   90 (117)
T ss_dssp             CCEEEEEECCC----CCCEEEEEETTSBHHHHHHHHHHHHTTTSCGGGSCCGGGEEEEEECTTSCEEEECSSSTTCCC--
T ss_pred             cEEEEEEEEccCCCCCCceEeeeecCCchHHHHHHHHHHHhcCCCcccCCCCCceeEEEecCCCCceEeecCCCccEecC
Confidence            55677777 32   2356899999999999999999876  566644      445665 23   3 244211       


Q ss_pred             -----ccccccCccCccceeeeeec
Q 012177           87 -----SRVRDYGLADGNVLHLVLRL  106 (469)
Q Consensus        87 -----~tL~dygI~~gstl~LvlrL  106 (469)
                           .||++|+|.+|+++-|+.+-
T Consensus        91 ~wkrLNTL~HY~V~dgatl~l~~~~  115 (117)
T 4e74_A           91 DWKRLNTLAHYQVPDGSVVALVSKQ  115 (117)
T ss_dssp             -CCCCCBHHHHTCCTTCEEEEEECC
T ss_pred             cceEeccccccCCCCCCEEEEEeCC
Confidence                 36889999999999987653

>3h6n_A Plexin-D1; structural genomics consortium, SGC, membrane, transmembrane, receptor, alternative splicing, cell membrane, glycoprotein, polymorphism; 2.00A {Homo sapiens}

Probab=91.11  E-value=0.64  Score=40.34  Aligned_cols=66  Identities=18%  Similarity=0.283  Sum_probs=48.0

Q ss_pred             CeEEEEEeCCCCcHHHHHHHHHHH--hCCCC------cceEEEE-c---Cee-cccCC------------ccccccCccC
Q 012177           42 GSVIPMRVMESDSIASVKLRIQSY--NGFFV------KKQKLVF-E---GRE-LARSN------------SRVRDYGLAD   96 (469)
Q Consensus        42 G~~~~l~V~~sdTV~~LK~kIq~~--~Gip~------~~QrLvf-~---Gk~-L~~D~------------~tL~dygI~~   96 (469)
                      +..+++.|...|||.++|+||-+.  .++|.      +...|-+ .   |+. |.+.+            .||+.|+|.+
T Consensus        16 ~~~i~VkVLdCDTItQvKeKiLd~vyk~~p~S~rP~~~~~dLEwr~g~~~~~iL~D~D~ts~~~~~~krLNTL~HY~V~d   95 (127)
T 3h6n_A           16 MDSLSVRAMDTDTLTQVKEKILEAFCKNVPYSQWPRAEDVDLEWFASSTQSYILRDLDDTSVVEDGRKKLNTLAHYKIPE   95 (127)
T ss_dssp             CCCEEEEEETTSBHHHHHHHHHHHHSTTSCGGGSCCGGGEEEEEECSSSCEEECCSSSTTSCEETTEECCCBTTTTTCCT
T ss_pred             CCceeeeeeccCchhhhhHHHHHHHhccCCcccCCCCcccceEEecCCCCceEeecCCCcceecCceeEeccccccCCCC
Confidence            456899999999999999999876  45554      4556765 2   332 54211            3689999999


Q ss_pred             ccceeeeeecc
Q 012177           97 GNVLHLVLRLS  107 (469)
Q Consensus        97 gstl~LvlrLs  107 (469)
                      |+++-|+.+.+
T Consensus        96 gatv~l~~~~~  106 (127)
T 3h6n_A           96 GASLAMSLIDK  106 (127)
T ss_dssp             TCEEEEEECC-
T ss_pred             CCEEEEEEccc
Confidence            99999886643

>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=91.03  E-value=0.68  Score=44.00  Aligned_cols=66  Identities=20%  Similarity=0.288  Sum_probs=54.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHhCCCCc-ceEEEE-c----CeecccCCccccccCccCccceeeeeecccc
Q 012177           44 VIPMRVMESDSIASVKLRIQSYNGFFVK-KQKLVF-E----GRELARSNSRVRDYGLADGNVLHLVLRLSDL  109 (469)
Q Consensus        44 ~~~l~V~~sdTV~~LK~kIq~~~Gip~~-~QrLvf-~----Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~  109 (469)
                      .+++.++..+||.+|++++.+..+++.+ +-||-. .    ...|.+.+.+|.+++|.++..|.+-++..|+
T Consensus       153 ~~~~~~Sk~~ti~~l~~~~~~~~~i~~~~~~RLW~~~~~~~~~~L~~~~~tl~d~~L~~~Q~illE~r~~dg  224 (231)
T 3jyu_A          153 VLSCHFSKADTIATIEKEMRKLFNIPAERETRLWNKYMSNTYEQLSKLDNTIQDAGLYQGQVLVIEPQNEDG  224 (231)
T ss_dssp             EEEEEECTTCBHHHHHHHHHHHTTCCTTSCEEEEECSSSSSCEECCCTTSBTTTTTCCTTEEEEEEECCTTS
T ss_pred             eEEEEecccCcHHHHHHHHHHHhCCCCCCeEEEEEecCCCCHhhhcCCCCCHHHhCCCCCCEEEEEEecCCC
Confidence            4567789999999999999999999987 578864 3    3456645689999999999999988887665

>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=90.97  E-value=0.83  Score=39.35  Aligned_cols=72  Identities=17%  Similarity=0.282  Sum_probs=59.1

Q ss_pred             CCCEEEEEE-eCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEE--EcCeec--ccCCccccccCccCccceeee
Q 012177           31 NDSILIFLS-VGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLV--FEGREL--ARSNSRVRDYGLADGNVLHLV  103 (469)
Q Consensus        31 ~~~M~I~V~-l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLv--f~Gk~L--~~D~~tL~dygI~~gstl~Lv  103 (469)
                      ....+|-|. .+|+.+.-....++||.+|..-|... +.+.....|+  |-.+.|  .+.+.+|.+.|+....+|.+.
T Consensus        41 ~~~t~IqIRlPdG~rl~~rF~~~~tl~~V~~fV~~~-~~~~~~F~L~t~fPrk~l~~~d~~~TL~e~gL~psa~Liv~  117 (124)
T 1wj4_A           41 GPKAQLMLRYPDGKREQITLPEQAKLLALVKHVQSK-GYPNERFELLTNFPRRKLSHLDYDITLQEAGLCPQETVFVQ  117 (124)
T ss_dssp             SCEEEEEEECTTSCEEEEEEETTSCHHHHHHHHHHH-HCCTTTEEEECSSSCCEETSSCSSSCTTTTTCCSSBCCEEE
T ss_pred             CCcEEEEEECCCCCEEEEEeCCCCCHHHHHHHHHhc-CCCCCCeEEecCCCCcCCccCCCCCCHHHCCCCCceEEEEE
Confidence            556788884 47888999999999999999999887 7776777777  568888  445789999999988877664

>4a3p_A Ubiquitin carboxyl-terminal hydrolase 15; 1.40A {Homo sapiens} PDB: 4a3o_A 3pv1_A 3ppa_A* 3t9l_A 3lmn_A

Probab=90.81  E-value=1  Score=42.39  Aligned_cols=66  Identities=23%  Similarity=0.285  Sum_probs=53.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHhCCCCc-ceEEEE-c----CeecccCCccccccCccCccceeeeeecccc
Q 012177           44 VIPMRVMESDSIASVKLRIQSYNGFFVK-KQKLVF-E----GRELARSNSRVRDYGLADGNVLHLVLRLSDL  109 (469)
Q Consensus        44 ~~~l~V~~sdTV~~LK~kIq~~~Gip~~-~QrLvf-~----Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~  109 (469)
                      ..++.++..+||.+|++++.+..+++.+ +-||-. .    ...|.+.+.+|.+++|.++..|.+-++..|+
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            4677889999999999999999999986 577752 2    3446644679999999999999888876654

>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=90.80  E-value=0.61  Score=39.21  Aligned_cols=72  Identities=19%  Similarity=0.159  Sum_probs=57.2

Q ss_pred             cceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEE--ECCEEcC--C-CCcccccCCCCCCEEEEEE
Q 012177          109 LQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELI--CDGEELE--D-QRLITDICKRNEAVIHLLV  182 (469)
Q Consensus       109 ~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLi--f~Gk~Le--D-~~tL~dy~I~~~svI~Lv~  182 (469)
                      ..+|.||..+|+.+.-....++||.+|.+-|....+.+  .....|+  |--+++.  | .++|.|.++.+.++|.+..
T Consensus        13 ~t~IqIRlpdG~rl~~rF~~~~tl~~v~~fV~~~~~~~--~~~f~L~t~fPrk~l~~~d~~~TL~elgL~psa~L~v~~   89 (109)
T 2dzk_A           13 IARIQFRLPDGSSFTNQFPSDAPLEEARQFAAQTVGNT--YGNFSLATMFPRREFTREDYKRRLLDLELAPSASVVLLP   89 (109)
T ss_dssp             CEEEEEECSSSCEEEEEECTTSBHHHHHHHHHHHHTTS--SCSCEEECSSSCCBCCTTTTTSBTGGGTCSSEEEEEEEC
T ss_pred             cEEEEEECCCCCEEEEEeCCCCCHHHHHHHHHhccCCC--CCceEEEcCCCCcCCcccccCCCHHHCCCCCceEEEEEE
Confidence            35677888888888888889999999999999886544  4556666  5677775  3 7899999999988888743

>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=90.40  E-value=0.69  Score=39.87  Aligned_cols=71  Identities=10%  Similarity=0.042  Sum_probs=57.6

Q ss_pred             ccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEE--ECCEEc--CC-CCcccccCCCCCCEEEEE
Q 012177          108 DLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELI--CDGEEL--ED-QRLITDICKRNEAVIHLL  181 (469)
Q Consensus       108 d~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLi--f~Gk~L--eD-~~tL~dy~I~~~svI~Lv  181 (469)
                      +..+|.||..+|+.+.-....++||.+|.+-|... +..  .....|+  |-.+.|  +| ..+|.+.++.+.++|.|.
T Consensus        42 ~~t~IqIRlPdG~rl~~rF~~~~tl~~V~~fV~~~-~~~--~~~F~L~t~fPrk~l~~~d~~~TL~e~gL~psa~Liv~  117 (124)
T 1wj4_A           42 PKAQLMLRYPDGKREQITLPEQAKLLALVKHVQSK-GYP--NERFELLTNFPRRKLSHLDYDITLQEAGLCPQETVFVQ  117 (124)
T ss_dssp             CEEEEEEECTTSCEEEEEEETTSCHHHHHHHHHHH-HCC--TTTEEEECSSSCCEETSSCSSSCTTTTTCCSSBCCEEE
T ss_pred             CcEEEEEECCCCCEEEEEeCCCCCHHHHHHHHHhc-CCC--CCCeEEecCCCCcCCccCCCCCCHHHCCCCCceEEEEE
Confidence            45678888889998888889999999999999887 544  5667777  568888  34 799999999888888774

>4e71_A Plexin-B2, MM1; transmembrane, signaling, RBD, structural genomics consortium, SGC, signaling protein; 2.26A {Homo sapiens}

Probab=90.02  E-value=1.2  Score=37.89  Aligned_cols=65  Identities=15%  Similarity=0.080  Sum_probs=46.6

Q ss_pred             ceeEEEEeecCchHHHHHHHHHHhc--CCCC----CCCceEEEE----CCEEcCCC-------------CcccccCCCCC
Q 012177          119 GKVFEFHVERGRNVGYVKQQIAKKG--REFV----DLKNQELIC----DGEELEDQ-------------RLITDICKRNE  175 (469)
Q Consensus       119 Gk~~~l~V~~~~TV~~LK~kI~~~~--gip~----~~e~QrLif----~Gk~LeD~-------------~tL~dy~I~~~  175 (469)
                      +..+.+.|-..+||..+|+||....  |.|.    .+++..|-+    .|+.|.|.             +||..|.|.+|
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            4567788889999999999997663  3332    246777776    35566552             68899999999


Q ss_pred             CEEEEEEe
Q 012177          176 AVIHLLVR  183 (469)
Q Consensus       176 svI~Lv~r  183 (469)
                      +++.|+-+
T Consensus       103 atl~l~~~  110 (111)
T 4e71_A          103 ATLILSKV  110 (111)
T ss_dssp             CEEEEEEC
T ss_pred             CEEEEEeC
Confidence            99988643

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

Probab=88.83  E-value=1.9  Score=45.99  Aligned_cols=135  Identities=8%  Similarity=0.060  Sum_probs=88.6

Q ss_pred             EEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEc-Cee-------ccc----CCccccccCc-cCccceeeeeec-----
Q 012177           45 IPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFE-GRE-------LAR----SNSRVRDYGL-ADGNVLHLVLRL-----  106 (469)
Q Consensus        45 ~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~-Gk~-------L~~----D~~tL~dygI-~~gstl~LvlrL-----  106 (469)
                      .+++|..+.|+.+||++|++..|+++++|||-.= .++       +.+    .+.++.++.- .+.-.+.|.+..     
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            3578999999999999999999999999998531 111       110    1112222211 112233332211     


Q ss_pred             ----------cccceeeeeeec--ceeEE----EEeecCchHHHHHHHHHHhcCCCCCCCceEEEEC------CEEcC-C
Q 012177          107 ----------SDLQAITVTTVC--GKVFE----FHVERGRNVGYVKQQIAKKGREFVDLKNQELICD------GEELE-D  163 (469)
Q Consensus       107 ----------sd~m~I~Vkt~~--Gk~~~----l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~------Gk~Le-D  163 (469)
                                .+-+-|++|-.+  .+++.    +.|..+.+|.++-..|.+..|+|  ++.--.+|.      -..|+ .
T Consensus       118 ~~~~l~~~~~~~~iLlFlK~yDp~~q~L~~~G~~~v~~~~kv~~l~~~i~~~~g~p--~dt~l~lyEEi~~~~ie~l~~~  195 (530)
T 2ylm_A          118 SGATLPKFDKDHDVMLFLKMYDPKTRSLNYCGHIYTPISCKIRDLLPVMCDRAGFI--QDTSLILYEEVKPNLTERIQDY  195 (530)
T ss_dssp             TTCCCCCCCTTTEEEEEEEEEETTTTEEEEEEEEEEETTCBGGGTHHHHHHHHTCC--TTCCEEEEEEEETTEEEECCCS
T ss_pred             ccccCCCCCCCCcEEEEEEeeCCCCCEEEEEEEEEECCCCCHHHHHHHHHHHcCCC--CCCceEEEEecCCCceeEcccc
Confidence                      112667777644  23333    67899999999999999999988  555555553      34467 5


Q ss_pred             CCccccc--CCCCCCEEEEE
Q 012177          164 QRLITDI--CKRNEAVIHLL  181 (469)
Q Consensus       164 ~~tL~dy--~I~~~svI~Lv  181 (469)
                      ..++.+.  .+.+|++|-.=
T Consensus       196 ~~t~~~~~~eL~~GdII~fQ  215 (530)
T 2ylm_A          196 DVSLDKALDELMDGDIIVFQ  215 (530)
T ss_dssp             SSBHHHHSTTCCTTEEEEEE
T ss_pred             cccHHHHHhcccCCCEEEEE
Confidence            7899999  89999997653

>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=88.78  E-value=1.3  Score=37.04  Aligned_cols=73  Identities=21%  Similarity=0.292  Sum_probs=58.1

Q ss_pred             CCCEEEEEE-eCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEE--EcCeecc-cCCccccccCccCccceeeee
Q 012177           31 NDSILIFLS-VGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLV--FEGRELA-RSNSRVRDYGLADGNVLHLVL  104 (469)
Q Consensus        31 ~~~M~I~V~-l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLv--f~Gk~L~-~D~~tL~dygI~~gstl~Lvl  104 (469)
                      ....+|-|. .+|+.+.-....++||.+|..-|... +.......|+  |-.+.|. +.+.+|++.||....+|.+..
T Consensus        21 ~~~~~IqiRlpdG~r~~rrF~~~~tl~~v~~fv~~~-~~~~~~f~L~t~fPrk~l~~d~~~TL~e~gL~p~a~L~Ve~   97 (109)
T 2cr5_A           21 EEVVTVALRCPNGRVLRRRFFKSWNSQVLLDWMMKV-GYHKSLYRLSTSFPRRALEVEGGSSLEDIGITVDTVLNVEE   97 (109)
T ss_dssp             SSEEEEEEECTTSCEEEEEEESSSBTHHHHHHHHHH-TCCTTTEEEECSSSCCBCCCCSSCBHHHHTCSSCEEEEEEE
T ss_pred             CCcEEEEEECCCCCEEEEEeCCCCCHHHHHHHHHhc-CCCCCCeEEEeCCCCcCCCCCCCCCHHHcCCCCCeEEEEEe
Confidence            456888884 47888888999999999999999965 5555666676  5688886 457899999999988887654

>2juo_A GA-binding protein alpha chain; OST, ubiquitin, transcription factor, ensemble, DNA-binding, nucleus, transcription regulation; NMR {Mus musculus}

Probab=88.19  E-value=2.2  Score=34.45  Aligned_cols=60  Identities=15%  Similarity=0.255  Sum_probs=53.8

Q ss_pred             EEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEe
Q 012177          122 FEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVR  183 (469)
Q Consensus       122 ~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~r  183 (469)
                      +.-.++-.+++..||+.++.+.++.  .+...+...+..|+++++|.|-|++-...+.+.+.
T Consensus         5 i~qhmDI~epL~~Lk~LLe~Rl~i~--L~~y~f~LQd~~L~~~k~LvdQcVqgeGlVQinvq   64 (89)
T 2juo_A            5 VSQAIDINEPIGNLKKLLEPRLQCS--LDAHEICLQDIQLDPDRSLFDQGVKTDGTVQLSVQ   64 (89)
T ss_dssp             EEEEEESSSBGGGHHHHSHHHHCSC--CSSCEEEETTEECCTTSBTTTSSCCCCSEEEEEEE
T ss_pred             hhhhccccCcHHHHHHHHHHHhcCC--cccCeEEeeccccCCCccHHHhhcccccEEEEEEE
Confidence            4456778899999999999999987  89999999999999999999999999999988665

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

Probab=88.04  E-value=2.9  Score=44.56  Aligned_cols=115  Identities=10%  Similarity=0.020  Sum_probs=74.8

Q ss_pred             CCCEEEEEEeC---CeEEEEEeCCCCcHHHHHHHHHHHhCCC---CcceEEE--EcCee---cccCCccccccCccCccc
Q 012177           31 NDSILIFLSVG---GSVIPMRVMESDSIASVKLRIQSYNGFF---VKKQKLV--FEGRE---LARSNSRVRDYGLADGNV   99 (469)
Q Consensus        31 ~~~M~I~V~l~---G~~~~l~V~~sdTV~~LK~kIq~~~Gip---~~~QrLv--f~Gk~---L~~D~~tL~dygI~~gst   99 (469)
                      .+.|+|+....   -..+.+-|..+.||.+|-..++++.+++   ..+.||+  ++++.   +. ++.+|....=....+
T Consensus       337 ~r~~kv~w~~~~~~~~~~~l~vpK~gtV~Dll~~l~k~~~~~~~~~~~lRl~ev~~~ki~ki~~-~~~~i~~i~d~~~~~  415 (530)
T 2ylm_A          337 RRSFKCIWLNSQFREEEITLYPDKHGCVRDLLEECKKAVELGEKASGKLRLLEIVSYKIIGVHQ-EDELLECLSPATSRT  415 (530)
T ss_dssp             BCCEEEEEECTTSCEEEEEECCBTTCBHHHHHHHHHTTCCCCTTCCCCEEEEEEETTEEEEEEC-TTSBGGGSCCCTTCE
T ss_pred             CceEEEEEECCCCceEEEEEEcCCCCCHHHHHHHHHHhcCCCcCCcccEEEEEEECCEEEEecC-CCcccccccccccce
Confidence            56788876322   2366777778999999999999999987   3556664  66653   44 555665432111222


Q ss_pred             eeeeeecc--------ccceeeeee-------ecceeEEEEeecCchHHHHHHHHHHhcCCC
Q 012177          100 LHLVLRLS--------DLQAITVTT-------VCGKVFEFHVERGRNVGYVKQQIAKKGREF  146 (469)
Q Consensus       100 l~LvlrLs--------d~m~I~Vkt-------~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip  146 (469)
                      +.+..-..        +.+.|.|--       .-|..|.+.|.+.+|..++|+||+++.|++
T Consensus       416 ~rieeip~ee~~~~~~~~~li~V~hf~k~~~~~~G~PF~~~v~~gEt~~~~k~Rl~~rlgv~  477 (530)
T 2ylm_A          416 FRIEEIPLDQVDIDKENEMLVTVAHFHKEVFGTFGIPFLLRIHQGEHFREVMKRIQSLLDIQ  477 (530)
T ss_dssp             EEEEECCGGGSSCCTTTEEEEEEEEESSSTTCEEEEEEEEEEETTCCHHHHHHHHHHHHCCC
T ss_pred             EEEEECCHHHhccCCCCcEEEEEEEeccCcccccCCCeEEEecCCCcHHHHHHHHHHHhCCC
Confidence            32211111        122233311       358899999999999999999999999976

>3h6n_A Plexin-D1; structural genomics consortium, SGC, membrane, transmembrane, receptor, alternative splicing, cell membrane, glycoprotein, polymorphism; 2.00A {Homo sapiens}

Probab=87.61  E-value=2.4  Score=36.74  Aligned_cols=67  Identities=10%  Similarity=0.014  Sum_probs=49.5

Q ss_pred             cceeEEEEeecCchHHHHHHHHHHhc--CCCC----CCCceEEEE----CCEE-cCCC-------------CcccccCCC
Q 012177          118 CGKVFEFHVERGRNVGYVKQQIAKKG--REFV----DLKNQELIC----DGEE-LEDQ-------------RLITDICKR  173 (469)
Q Consensus       118 ~Gk~~~l~V~~~~TV~~LK~kI~~~~--gip~----~~e~QrLif----~Gk~-LeD~-------------~tL~dy~I~  173 (469)
                      .+..+.+.|-..+||.++|+||....  +.|.    .+++..|-+    .|+. |.|.             .||..|.|.
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            34567788889999999999997764  3332    257778877    3443 6542             688999999


Q ss_pred             CCCEEEEEEee
Q 012177          174 NEAVIHLLVRK  184 (469)
Q Consensus       174 ~~svI~Lv~rk  184 (469)
                      +|+++.|..+.
T Consensus        95 dgatv~l~~~~  105 (127)
T 3h6n_A           95 EGASLAMSLID  105 (127)
T ss_dssp             TTCEEEEEECC
T ss_pred             CCCEEEEEEcc
Confidence            99999997653

>3ls8_A Phosphatidylinositol 3-kinase catalytic subunit type 3; alpha/beta protein, PIK3C3, compound 15E, structural genomics, SGC stockholm; HET: AJZ; 2.25A {Homo sapiens} PDB: 3ihy_A

Probab=86.77  E-value=0.3  Score=53.08  Aligned_cols=41  Identities=37%  Similarity=0.545  Sum_probs=34.5

Q ss_pred             hhhheeeecEEEecCCCCCCcEEEecCCCCceEEEeeecCCccCC
Q 012177          414 EVHKISVLDIRLANTDRHAGNILVSKDEGGQIKLVPIDHGYCLPY  458 (469)
Q Consensus       414 ev~ki~ilD~~~~N~DR~~gN~Lv~~~~~~~~~l~~IDhg~~~p~  458 (469)
                      .+.-.+|.=|++.=.|||.+|||+..+  |+  ++.||=|+||-.
T Consensus       463 S~A~ySvv~YILGigDRH~~NILld~t--G~--v~HIDFG~~f~~  503 (614)
T 3ls8_A          463 SCAGYCVITYILGVGDRHLDNLLLTKT--GK--LFHIDFGYILGR  503 (614)
T ss_dssp             HHHHHHHHHHHHTCCCCCTTSEEECTT--SC--EEECCCSSCTTC
T ss_pred             HHHHHhHhheeeeccCCCCcceeEcCC--CC--EeeeehHHhhcc
Confidence            355677888899999999999999754  77  999999999954

>4e74_A Plexin-A4; RBD, structural genomics, structural genomics consor SGC, signaling protein; 1.58A {Homo sapiens} PDB: 3q3j_A*

Probab=86.36  E-value=2  Score=36.81  Aligned_cols=67  Identities=12%  Similarity=0.136  Sum_probs=48.1

Q ss_pred             ceeEEEEeecCchHHHHHHHHHHhc--CCCC----CCCceEEEE----CCE-EcCCC-------------CcccccCCCC
Q 012177          119 GKVFEFHVERGRNVGYVKQQIAKKG--REFV----DLKNQELIC----DGE-ELEDQ-------------RLITDICKRN  174 (469)
Q Consensus       119 Gk~~~l~V~~~~TV~~LK~kI~~~~--gip~----~~e~QrLif----~Gk-~LeD~-------------~tL~dy~I~~  174 (469)
                      ...+.+.|-..+||..+|+||....  |.|.    .+++..|-+    .|+ .|.|.             .||..|+|.+
T Consensus        26 ~~~i~VkVLdCDTItQvKeKiLd~vyk~~p~S~rP~~~~~dLEwr~g~~~~~iL~D~D~ts~~~~~wkrLNTL~HY~V~d  105 (117)
T 4e74_A           26 SPEVPVKILNCDTITQVKEKILDAIFKNVPCSHRPKAADMDLEWRQGSGARMILQDEDITTKIENDWKRLNTLAHYQVPD  105 (117)
T ss_dssp             CCCEEEEEETTSBHHHHHHHHHHHHTTTSCGGGSCCGGGEEEEEECTTSCEEEECSSSTTCCC---CCCCCBHHHHTCCT
T ss_pred             CCceEeeeecCCchHHHHHHHHHHHhcCCCcccCCCCCceeEEEecCCCCceEeecCCCccEecCcceEeccccccCCCC
Confidence            3457788888999999999997663  3432    246677776    223 24442             6889999999


Q ss_pred             CCEEEEEEeeC
Q 012177          175 EAVIHLLVRKS  185 (469)
Q Consensus       175 ~svI~Lv~rks  185 (469)
                      |+++.|+.+++
T Consensus       106 gatl~l~~~~~  116 (117)
T 4e74_A          106 GSVVALVSKQV  116 (117)
T ss_dssp             TCEEEEEECCC
T ss_pred             CCEEEEEeCCc
Confidence            99999977653

>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=86.28  E-value=2  Score=43.23  Aligned_cols=63  Identities=17%  Similarity=0.050  Sum_probs=53.4

Q ss_pred             ceeEEEEeecCchHHHHHHHHHHhcCC--CCCCCceEEEE------CCEEcCCCCcccccCCCCCCEEEEE
Q 012177          119 GKVFEFHVERGRNVGYVKQQIAKKGRE--FVDLKNQELIC------DGEELEDQRLITDICKRNEAVIHLL  181 (469)
Q Consensus       119 Gk~~~l~V~~~~TV~~LK~kI~~~~gi--p~~~e~QrLif------~Gk~LeD~~tL~dy~I~~~svI~Lv  181 (469)
                      +-+-+++.+++.||.++-.+|.++...  ..+.++.-|+.      .|.-|++.++|..|++++++.|+..
T Consensus        12 ~~~~~~~f~~~~~v~~~~~~i~e~~~~~~~~~~~~y~l~~~~~~~~~~~Wl~~~~~l~~y~~~~~~~l~~~   82 (371)
T 3ivf_A           12 NVVKTMQFEPSTMVYDACRMIRERIPEALAGPPNDFGLFLSDDDPKKGIWLEAGKALDYYMLRNGDTMEYR   82 (371)
T ss_dssp             TEEEEEEECTTCBHHHHHHHHHTTCGGGGSSCGGGEEEEECCSSGGGCEECCTTSBGGGGTCCTTCEEEEE
T ss_pred             ceeEEEEECCCCCHHHHHHHHHHhcccccCCCHHHCeEeccCCCCCcCEeccCCCCHHHhCCCCCceeecc
Confidence            556779999999999999999988752  23478889998      5677999999999999999998875

>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=86.10  E-value=2.6  Score=37.08  Aligned_cols=67  Identities=12%  Similarity=0.110  Sum_probs=48.1

Q ss_pred             eeEEEEeecCchHHHHHHHHHHhc--CCCC----CCCceEEEE----CCE-EcCCC-------------CcccccCCCCC
Q 012177          120 KVFEFHVERGRNVGYVKQQIAKKG--REFV----DLKNQELIC----DGE-ELEDQ-------------RLITDICKRNE  175 (469)
Q Consensus       120 k~~~l~V~~~~TV~~LK~kI~~~~--gip~----~~e~QrLif----~Gk-~LeD~-------------~tL~dy~I~~~  175 (469)
                      ..+.+.|-..+||.++|+||....  |.|.    .+++.-|-+    .|+ .|.|.             .||..|+|.+|
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            567888889999999999998774  3431    345666665    343 36553             48999999999


Q ss_pred             CEEEEEEeeCC
Q 012177          176 AVIHLLVRKSA  186 (469)
Q Consensus       176 svI~Lv~rks~  186 (469)
                      +++.|+-+.+.
T Consensus       121 a~l~l~~~~~~  131 (138)
T 2r2o_A          121 ATVALVPCLTK  131 (138)
T ss_dssp             CEEEEEEC---
T ss_pred             CEEEEEECCCc
Confidence            99999777554

>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=85.39  E-value=1.9  Score=36.08  Aligned_cols=70  Identities=16%  Similarity=0.153  Sum_probs=54.7

Q ss_pred             cceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEE--ECCEEcC--CCCcccccCCCCCCEEEEE
Q 012177          109 LQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELI--CDGEELE--DQRLITDICKRNEAVIHLL  181 (469)
Q Consensus       109 ~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLi--f~Gk~Le--D~~tL~dy~I~~~svI~Lv  181 (469)
                      ..+|.||..+|+.+.-....++||.+|.+-|..... .  +...+|+  |-.+.|.  ...+|.+.++.+.++|.|.
T Consensus        23 ~~~IqiRlpdG~r~~rrF~~~~tl~~v~~fv~~~~~-~--~~~f~L~t~fPrk~l~~d~~~TL~e~gL~p~a~L~Ve   96 (109)
T 2cr5_A           23 VVTVALRCPNGRVLRRRFFKSWNSQVLLDWMMKVGY-H--KSLYRLSTSFPRRALEVEGGSSLEDIGITVDTVLNVE   96 (109)
T ss_dssp             EEEEEEECTTSCEEEEEEESSSBTHHHHHHHHHHTC-C--TTTEEEECSSSCCBCCCCSSCBHHHHTCSSCEEEEEE
T ss_pred             cEEEEEECCCCCEEEEEeCCCCCHHHHHHHHHhcCC-C--CCCeEEEeCCCCcCCCCCCCCCHHHcCCCCCeEEEEE
Confidence            456777878888888788899999999999986633 3  4566676  5577775  4799999999999998764

>1ryj_A Unknown; beta/alpha protein, structural genomics, protein structure initiative, OCSP, NESG, PSI; NMR {Methanothermococcusthermolithotrophicus} SCOP: d.15.3.2

Probab=85.24  E-value=7.2  Score=29.68  Aligned_cols=65  Identities=8%  Similarity=0.102  Sum_probs=47.1

Q ss_pred             CEEEEEEeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecc
Q 012177           33 SILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLS  107 (469)
Q Consensus        33 ~M~I~V~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLs  107 (469)
                      .|+|+|.-......+++....||.+|..++    +++...-.+..+|..+.++ .     -+++|+.+.++...+
T Consensus         4 ~m~i~vNg~~~~~~~~~~~~~tv~~Ll~~l----~~~~~~v~vavN~~~v~~~-~-----~L~~gD~V~ii~~V~   68 (70)
T 1ryj_A            4 GMKFTVITDDGKKILESGAPRRIKDVLGEL----EIPIETVVVKKNGQIVIDE-E-----EIFDGDIIEVIRVIY   68 (70)
T ss_dssp             CEEEEEEETTEEEEEEESSCCBHHHHHHHT----TCCTTTEEEEETTEECCTT-S-----BCCTTCEEEEEECTT
T ss_pred             eEEEEEeCccCceeEECCCCCcHHHHHHHh----CCCCCCEEEEECCEECCCc-c-----cCCCCCEEEEEeccc
Confidence            488888555556677888889999999875    4565555677899988743 2     567788887765444

>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=84.99  E-value=1.7  Score=37.49  Aligned_cols=69  Identities=12%  Similarity=0.151  Sum_probs=54.4

Q ss_pred             cceeeeeeecceeEEEEeecCchHHHHHHHHHHhcC-CCCCCCceEEE--ECCEEcCC-CCcccccCCCCCCEEE
Q 012177          109 LQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGR-EFVDLKNQELI--CDGEELED-QRLITDICKRNEAVIH  179 (469)
Q Consensus       109 ~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~g-ip~~~e~QrLi--f~Gk~LeD-~~tL~dy~I~~~svI~  179 (469)
                      ..+|.||..+|+.+.-....++||.+|.+-|..... ..  .....|+  |-.+.|+| ..+|.|.++.+.++|.
T Consensus        52 ~t~IqIRlpdG~rl~~rF~~~~tl~~v~~fV~~~~~~~~--~~~f~L~t~fPrk~l~d~~~TL~eagL~psavl~  124 (127)
T 1s3s_G           52 TTNIQIRLADGGRLVQKFNHSHRISDIRLFIVDARPAMA--ATSFVLMTTFPNKELADENQTLKEANLLNAVIVQ  124 (127)
T ss_dssp             CCCEEEEETTTTEEEEECCSSCBHHHHHHHHHHHCSGGG--TSCEEEEETTTTEECCSTTCBHHHHTCSSCEEEE
T ss_pred             cEEEEEECCCCCEEEEEeCCCCCHHHHHHHHHHhCcCCC--CCCeEEecCCCCCCCCCCCCcHHHCCCcCceEEE
Confidence            467888888998888888999999999999988642 22  4556666  56888875 7999999998865554

>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=84.73  E-value=2.3  Score=34.24  Aligned_cols=48  Identities=8%  Similarity=0.064  Sum_probs=42.0

Q ss_pred             CCCEEEEEEeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcC
Q 012177           31 NDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEG   79 (469)
Q Consensus        31 ~~~M~I~V~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~G   79 (469)
                      ...|.|.|... -++.|+|.++.+..+|..+|.++..++++.-.|.|..
T Consensus         3 ~~~~~VKV~~~-~tvairvp~~~~y~~L~~~l~~kL~l~~~~~~LsYk~   50 (83)
T 1oey_A            3 HMAYTLKVHYK-YTVVMKTQPGLPYSQVRDMVSKKLELRLEHTKLSYRP   50 (83)
T ss_dssp             SSCEEEEEESS-SEEEEEECTTCCHHHHHHHHHHHTTCCGGGCCEEECC
T ss_pred             CCcEEEEEEEE-EEEEEECCCCCCHHHHHHHHHHHhCCCcceeEEEeeC
Confidence            45688888655 5999999999999999999999999998888898864

>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=84.51  E-value=1.6  Score=37.61  Aligned_cols=70  Identities=19%  Similarity=0.289  Sum_probs=54.5

Q ss_pred             CCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHh-CCCCcceEEE--EcCeecccCCccccccCccCccce
Q 012177           31 NDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYN-GFFVKKQKLV--FEGRELARSNSRVRDYGLADGNVL  100 (469)
Q Consensus        31 ~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~-Gip~~~QrLv--f~Gk~L~~D~~tL~dygI~~gstl  100 (469)
                      ....+|-| ..+|+.+.-....++||.+|..-|.... +.......|+  |-.+.+.+++.+|.+.|+....++
T Consensus        50 ~~~t~IqIRlpdG~rl~~rF~~~~tl~~v~~fV~~~~~~~~~~~f~L~t~fPrk~l~d~~~TL~eagL~psavl  123 (127)
T 1s3s_G           50 EPTTNIQIRLADGGRLVQKFNHSHRISDIRLFIVDARPAMAATSFVLMTTFPNKELADENQTLKEANLLNAVIV  123 (127)
T ss_dssp             SCCCCEEEEETTTTEEEEECCSSCBHHHHHHHHHHHCSGGGTSCEEEEETTTTEECCSTTCBHHHHTCSSCEEE
T ss_pred             CCcEEEEEECCCCCEEEEEeCCCCCHHHHHHHHHHhCcCCCCCCeEEecCCCCCCCCCCCCcHHHCCCcCceEE
Confidence            34567777 4478899999999999999999999863 3444556676  568899866799999999975543

>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=84.06  E-value=3.8  Score=38.80  Aligned_cols=62  Identities=15%  Similarity=0.160  Sum_probs=51.7

Q ss_pred             eEEEEeecCchHHHHHHHHHHhcCCCCCCC-ceEEEE-----CCEEcCC-CCcccccCCCCCCEEEEEEee
Q 012177          121 VFEFHVERGRNVGYVKQQIAKKGREFVDLK-NQELIC-----DGEELED-QRLITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       121 ~~~l~V~~~~TV~~LK~kI~~~~gip~~~e-~QrLif-----~Gk~LeD-~~tL~dy~I~~~svI~Lv~rk  184 (469)
                      .+++.+.+.+||.+|++++.+..+++  .+ +.||-.     .-..|.| ..+|.++++.++..|.+-.+.
T Consensus       153 ~~~~~~Sk~~ti~~l~~~~~~~~~i~--~~~~~RLW~~~~~~~~~~L~~~~~tl~d~~L~~~Q~illE~r~  221 (231)
T 3jyu_A          153 VLSCHFSKADTIATIEKEMRKLFNIP--AERETRLWNKYMSNTYEQLSKLDNTIQDAGLYQGQVLVIEPQN  221 (231)
T ss_dssp             EEEEEECTTCBHHHHHHHHHHHTTCC--TTSCEEEEECSSSSSCEECCCTTSBTTTTTCCTTEEEEEEECC
T ss_pred             eEEEEecccCcHHHHHHHHHHHhCCC--CCCeEEEEEecCCCCHhhhcCCCCCHHHhCCCCCCEEEEEEec
Confidence            45677899999999999999999987  65 688885     3456776 589999999999999987764

>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=83.62  E-value=3.5  Score=44.53  Aligned_cols=80  Identities=18%  Similarity=0.341  Sum_probs=53.6

Q ss_pred             CCCCEEEEE-EeC------CeEEEEEeCCCCcHHHHHHHHHHH--hCCCCc------ceEEEE-c---Ce-ecccCC---
Q 012177           30 SNDSILIFL-SVG------GSVIPMRVMESDSIASVKLRIQSY--NGFFVK------KQKLVF-E---GR-ELARSN---   86 (469)
Q Consensus        30 ~~~~M~I~V-~l~------G~~~~l~V~~sdTV~~LK~kIq~~--~Gip~~------~QrLvf-~---Gk-~L~~D~---   86 (469)
                      ...+|.++| ...      ...+++.|...|||.++|+||-..  .|+|..      ...|-+ .   |+ .|.+.+   
T Consensus       254 e~~~ltL~v~~~~~~~~~~~~~i~VkVLdCDTItQVKeKiLDavYk~~pyS~rP~~~~~dLEwr~g~~g~~iL~D~D~ts  333 (644)
T 3hm6_X          254 EYRPLTLNALLAVGPGAGEAQGVPVKVLDCDTISQAKEKMLDQLYKGVPLTQRPDPRTLDVEWRSGVAGHLILSDEDVTS  333 (644)
T ss_dssp             CCCEEEEEEECC-------CCCEEEEEETTSBHHHHHHHHHHHHTTTSCGGGSCCGGGEEEEEECSSSCEEEECSSSTTC
T ss_pred             cceeEEEEEeecCccccCCCCceeeEeeccCcHHHHHHHHHHHHHcCCCcccCCCCCCcceEEeeCCCCceeecccCccc
Confidence            466777777 221      246899999999999999999865  566644      344554 2   33 244211   


Q ss_pred             ---------ccccccCccCccceeeeeecccc
Q 012177           87 ---------SRVRDYGLADGNVLHLVLRLSDL  109 (469)
Q Consensus        87 ---------~tL~dygI~~gstl~LvlrLsd~  109 (469)
                               .||++|+|.+|+++-|+.+....
T Consensus       334 ~~~~~wkrLNTL~HY~V~dga~v~L~p~~~~~  365 (644)
T 3hm6_X          334 EVQGLWRRLNTLQHYKVPDGATVALVPCLTKH  365 (644)
T ss_dssp             CEETTEEECCBTTTTTCCTTCEEEEEEC----
T ss_pred             eecCcceeecchhhcCCCCCcEEEEEeccccc
Confidence                     37999999999999988776543

>3ig3_A Plxna3 protein; plexin intracellular GAP RBD inactive, membrane, transmembra membrane protein, signaling protein; 1.99A {Mus musculus} PDB: 3ryt_A*

Probab=83.45  E-value=4  Score=44.04  Aligned_cols=80  Identities=19%  Similarity=0.365  Sum_probs=53.7

Q ss_pred             CCCCEEEEEE-eC---CeEEEEEeCCCCcHHHHHHHHHHH--hCCCC------cceEEEE-c---Ce-ecccCC------
Q 012177           30 SNDSILIFLS-VG---GSVIPMRVMESDSIASVKLRIQSY--NGFFV------KKQKLVF-E---GR-ELARSN------   86 (469)
Q Consensus        30 ~~~~M~I~V~-l~---G~~~~l~V~~sdTV~~LK~kIq~~--~Gip~------~~QrLvf-~---Gk-~L~~D~------   86 (469)
                      ..++|.++|. ..   ...+++.|...|||.++|+||-..  .|+|.      +...|-+ .   |+ .|.+.+      
T Consensus       230 e~~~ltL~v~~~~~~~~~~i~vkVLdCDTItQVKeKiLdavYk~~pyS~rP~~~~~dLEwr~g~~g~~iL~D~D~ts~~~  309 (627)
T 3ig3_A          230 DYKTLTLHCVCPESEGSAQVPVKVLNCDSITQAKDKLLDTVYKGIPYSQRPKAEDMDLEWRQGRMARIILQDEDITTKIE  309 (627)
T ss_dssp             CCCEEEEEEECTTTC--CEEEEEEETTCBHHHHHHHHHHHHTTTSCGGGSCCGGGEEEEEESCSSCEEEECSSSTTCCEE
T ss_pred             cceeEEEEEeccCCCCCCceeeEeeccCcHHHHHHHHHHHHHcCCCcccCCCCCccceeEeeCCCCceeeccCCcccccc
Confidence            4667777773 22   367999999999999999999876  45554      3445554 2   22 233211      


Q ss_pred             ------ccccccCccCccceeeeeecccc
Q 012177           87 ------SRVRDYGLADGNVLHLVLRLSDL  109 (469)
Q Consensus        87 ------~tL~dygI~~gstl~LvlrLsd~  109 (469)
                            .||++|+|.+|+++-|+.+..+.
T Consensus       310 ~~wkrLNTL~HY~V~Dga~v~L~p~~~~~  338 (627)
T 3ig3_A          310 CDWKRVNSLAHYQVTDGSLVALVPKQVSA  338 (627)
T ss_dssp             TTEEECCBTTTTTCCTTCEEEEEEC----
T ss_pred             CceeEecchhhcCCCCCceEEEEeccccc
Confidence                  36899999999999998876543

>2x6h_A GH13170P, VPS34, phosphotidylinositol 3 kinase 59F; transferase; 2.90A {Drosophila melanogaster} PDB: 2x6f_A 2x6i_A* 2x6j_A* 2x6k_A*

Probab=83.33  E-value=0.54  Score=51.80  Aligned_cols=41  Identities=34%  Similarity=0.540  Sum_probs=34.8

Q ss_pred             hhhheeeecEEEecCCCCCCcEEEecCCCCceEEEeeecCCccCC
Q 012177          414 EVHKISVLDIRLANTDRHAGNILVSKDEGGQIKLVPIDHGYCLPY  458 (469)
Q Consensus       414 ev~ki~ilD~~~~N~DR~~gN~Lv~~~~~~~~~l~~IDhg~~~p~  458 (469)
                      .+.-++|.=|++.=.|||.+|||+..+  |+  ++.||=|.||-.
T Consensus       537 SlA~~Svv~YILGlGDRH~~NILid~t--G~--v~HIDFG~~f~~  577 (696)
T 2x6h_A          537 SCAGYCVITYLLGVGDRHLDNLLLTTN--GK--LFHIDFGYILGR  577 (696)
T ss_dssp             HHHHHHHHHHHHTCCCCCTTTEEECTT--SC--EEECCCCSCTTC
T ss_pred             HHHHHHHHHHHccCCCCCCcceEEeCC--CC--EEEEeehhhhcc
Confidence            355677888899999999999999853  77  999999999954

>2juo_A GA-binding protein alpha chain; OST, ubiquitin, transcription factor, ensemble, DNA-binding, nucleus, transcription regulation; NMR {Mus musculus}

Probab=83.17  E-value=3.4  Score=33.28  Aligned_cols=61  Identities=10%  Similarity=0.223  Sum_probs=52.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeee
Q 012177           44 VIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLR  105 (469)
Q Consensus        44 ~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~Lvlr  105 (469)
                      .+.-.++=.+++..||..++.+.|++.+.-.+++++..|. ++.+|.|.+++-...+.+.+.
T Consensus         4 vi~qhmDI~epL~~Lk~LLe~Rl~i~L~~y~f~LQd~~L~-~~k~LvdQcVqgeGlVQinvq   64 (89)
T 2juo_A            4 CVSQAIDINEPIGNLKKLLEPRLQCSLDAHEICLQDIQLD-PDRSLFDQGVKTDGTVQLSVQ   64 (89)
T ss_dssp             EEEEEEESSSBGGGHHHHSHHHHCSCCSSCEEEETTEECC-TTSBTTTSSCCCCSEEEEEEE
T ss_pred             hhhhhccccCcHHHHHHHHHHHhcCCcccCeEEeeccccC-CCccHHHhhcccccEEEEEEE
Confidence            3445566788999999999999999999999999999987 999999999998888876654

>4a3p_A Ubiquitin carboxyl-terminal hydrolase 15; 1.40A {Homo sapiens} PDB: 4a3o_A 3pv1_A 3ppa_A* 3t9l_A 3lmn_A

Probab=80.94  E-value=4.3  Score=38.00  Aligned_cols=62  Identities=15%  Similarity=0.088  Sum_probs=50.7

Q ss_pred             eEEEEeecCchHHHHHHHHHHhcCCCCCCC-ceEEEE---C--CEEcCC-CCcccccCCCCCCEEEEEEee
Q 012177          121 VFEFHVERGRNVGYVKQQIAKKGREFVDLK-NQELIC---D--GEELED-QRLITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       121 ~~~l~V~~~~TV~~LK~kI~~~~gip~~~e-~QrLif---~--Gk~LeD-~~tL~dy~I~~~svI~Lv~rk  184 (469)
                      .+++.+.+.+||.+|++++.+..+++  .+ +.||-.   .  ...|+| .++|.++++.++..|.|-.|.
T Consensus       141 ~~~~~~Sk~~ti~~l~~~~~~~~~i~--~~~~~RlW~~~~~~~~~~L~~~~~tl~~~~l~~~Q~illE~r~  209 (217)
T 4a3p_A          141 VVTRRFSKADTIDTIEKEIRKIFSIP--DEKETRLWNKYMSNTFEPLNKPDSTIQDAGLYQGQVLVIEQKN  209 (217)
T ss_dssp             EEEEEECTTSBHHHHHHHHHHHTTCC--TTSCEEEEEEEETTEEEECCCTTSBHHHHTCCTTCEEEEEECC
T ss_pred             ceEEEEcccchHHHHHHHHHHHhCCC--CCCceEEEEecCCCCeeecCCCCCCHHHhCCCCCCEEEEEEec
Confidence            46688899999999999999999988  65 678873   2  344666 579999999999999987763

>3hhm_A Phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit alpha isoform; PI3KCA, PI3K, PIK3R1, phosphatidilynositol 3,4,5- triphosphate, wortmannin, H1047R, ATP-binding, disease mutation, kinase; HET: KWT; 2.80A {Homo sapiens} PDB: 3hiz_A 2rd0_A 4a55_A* 2enq_A

Probab=80.36  E-value=0.8  Score=52.76  Aligned_cols=40  Identities=40%  Similarity=0.495  Sum_probs=32.7

Q ss_pred             hhheeeecEEEecCCCCCCcEEEecCCCCceEEEeeecCCccCC
Q 012177          415 VHKISVLDIRLANTDRHAGNILVSKDEGGQIKLVPIDHGYCLPY  458 (469)
Q Consensus       415 v~ki~ilD~~~~N~DR~~gN~Lv~~~~~~~~~l~~IDhg~~~p~  458 (469)
                      +.-.+|.=|++.=.|||.+|||+.++  |+  ++.||=|+||-.
T Consensus       924 ~A~ysvv~YiLgigDRH~~NILid~t--G~--v~HIDFG~~f~~  963 (1091)
T 3hhm_A          924 CAGYCVATFILGIGDRHNSNIMVKDD--GQ--LFHIDFGHFLDH  963 (1091)
T ss_dssp             HHHHHHHHHHHTCCCCCTTTEEEETT--SC--EEECCCCCCSCC
T ss_pred             hhhhhheEEEEeecCCCCcceEEeCC--CC--EEEEeehhhhcc
Confidence            44567788888889999999999864  77  899999999843

---

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	469
d1v5oa_	102	d.15.1.1 (A:) 1700011n24rik protein {Mouse (Mus mu	3e-13
d1v5oa_	102	d.15.1.1 (A:) 1700011n24rik protein {Mouse (Mus mu	9e-06
d1zkha1	86	d.15.1.1 (A:1-86) Splicing factor 3 subunit 1, C-t	7e-13
d1zkha1	86	d.15.1.1 (A:1-86) Splicing factor 3 subunit 1, C-t	6e-07
d2bwfa1	73	d.15.1.1 (A:2-74) DSK2 {Baker's yeast (Saccharomyc	1e-11
d2bwfa1	73	d.15.1.1 (A:2-74) DSK2 {Baker's yeast (Saccharomyc	8e-08
d1z2ma2	76	d.15.1.1 (A:79-154) Interferon-induced 15 kDa prot	1e-11
d1z2ma2	76	d.15.1.1 (A:79-154) Interferon-induced 15 kDa prot	7e-10
d1uela_	95	d.15.1.1 (A:) Ubiquitin-like domain of Rad23 homol	1e-11
d1uela_	95	d.15.1.1 (A:) Ubiquitin-like domain of Rad23 homol	3e-06
d1v2ya_	105	d.15.1.1 (A:) Ubiquitin-like protein 3300001g02rik	2e-11
d1v2ya_	105	d.15.1.1 (A:) Ubiquitin-like protein 3300001g02rik	3e-06
d1oqya4	77	d.15.1.1 (A:1-77) Ubiquitin-like domain of Rad23 h	4e-11
d1bt0a_	73	d.15.1.1 (A:) Rub1 {Mouse-ear cress (Arabidopsis t	6e-11
d1bt0a_	73	d.15.1.1 (A:) Rub1 {Mouse-ear cress (Arabidopsis t	2e-10
d2zeqa1	78	d.15.1.1 (A:1-78) Ubiquitin-like domain of parkin	7e-11
d2zeqa1	78	d.15.1.1 (A:1-78) Ubiquitin-like domain of parkin	5e-08
d1ogwa_	76	d.15.1.1 (A:) Ubiquitin {Human (Homo sapiens) [Tax	3e-10
d1ogwa_	76	d.15.1.1 (A:) Ubiquitin {Human (Homo sapiens) [Tax	1e-08
d1wxva1	81	d.15.1.1 (A:7-87) Bag-family molecular chaperone r	5e-10
d1wxva1	81	d.15.1.1 (A:7-87) Bag-family molecular chaperone r	0.003
d1wh3a_	87	d.15.1.1 (A:) 2'-5'-oligoadenylate synthetase-like	2e-09
d1wh3a_	87	d.15.1.1 (A:) 2'-5'-oligoadenylate synthetase-like	1e-07
d1wx9a1	73	d.15.1.1 (A:8-80) Large proline-rich protein BAT3	2e-09
d1wx9a1	73	d.15.1.1 (A:8-80) Large proline-rich protein BAT3	5e-09
d1x1ma1	94	d.15.1.1 (A:8-101) Ubiquitin-like protein 7 {Mouse	3e-09
d1x1ma1	94	d.15.1.1 (A:8-101) Ubiquitin-like protein 7 {Mouse	3e-06
d1ttna1	80	d.15.1.1 (A:21-100) Dendritic cell-derived ubiquit	5e-09
d1ttna1	80	d.15.1.1 (A:21-100) Dendritic cell-derived ubiquit	1e-08
d2faza1	76	d.15.1.1 (A:1-76) Ubiquitin-like PHD and RING fing	7e-09
d2faza1	76	d.15.1.1 (A:1-76) Ubiquitin-like PHD and RING fing	3e-06
d1z2ma1	76	d.15.1.1 (A:3-78) Interferon-induced 15 kDa protei	9e-09
d1z2ma1	76	d.15.1.1 (A:3-78) Interferon-induced 15 kDa protei	1e-08
d1wx8a1	83	d.15.1.1 (A:8-90) 4931431F19Rik {Mouse (Mus muscul	1e-08
d1wx8a1	83	d.15.1.1 (A:8-90) 4931431F19Rik {Mouse (Mus muscul	5e-07
d1uh6a_	100	d.15.1.1 (A:) Ubiquitin-like protein 5, ubl5 {Mous	2e-08
d1uh6a_	100	d.15.1.1 (A:) Ubiquitin-like protein 5, ubl5 {Mous	2e-06
d1wiaa_	95	d.15.1.1 (A:) Ubiquitin-like protein bab25500 (201	2e-08
d1wgda_	93	d.15.1.1 (A:) Homocysteine-responsive endoplasmic	2e-08
d1wgda_	93	d.15.1.1 (A:) Homocysteine-responsive endoplasmic	1e-05
d2c9wb1	103	d.15.1.1 (B:2-104) Elongin B {Human (Homo sapiens)	4e-08
d2c9wb1	103	d.15.1.1 (B:2-104) Elongin B {Human (Homo sapiens)	0.003
d1wy8a1	76	d.15.1.1 (A:8-83) Ubiquitin-like PHD and RING fing	5e-08
d1yqba1	84	d.15.1.1 (A:15-98) Ubiquilin-3 {Human (Homo sapien	2e-07
d1yqba1	84	d.15.1.1 (A:15-98) Ubiquilin-3 {Human (Homo sapien	3e-05
d1t0ya_	90	d.15.1.1 (A:) Ubiquitin-like domain of tubulin fol	2e-07
d1j8ca_	103	d.15.1.1 (A:) Ubiquitin-like N-terminal domain of	1e-06
d1j8ca_	103	d.15.1.1 (A:) Ubiquitin-like N-terminal domain of	4e-05
d1se9a_	101	d.15.1.1 (A:) Hypothetical protein At3g01050 {Thal	3e-06
d1euvb_	79	d.15.1.1 (B:) SUMO-1 (smt3 homologue) {Baker's yea	3e-06
d1euvb_	79	d.15.1.1 (B:) SUMO-1 (smt3 homologue) {Baker's yea	0.002
d1m94a_	73	d.15.1.1 (A:) Ubiquitin-like modifier protein hub1	8e-06
d1m94a_	73	d.15.1.1 (A:) Ubiquitin-like modifier protein hub1	5e-04
d1we6a_	111	d.15.1.1 (A:) Splicing factor 3 subunit 1, C-termi	1e-05
d1v86a_	95	d.15.1.1 (A:) hypothetical D7wsu128e protein {Mous	2e-05
d1v6ea_	95	d.15.1.1 (A:) Ubiquitin-like domain of tubulin fol	2e-05
d1wjna_	97	d.15.1.1 (A:) Tubulin-folding protein TbcE {Mouse	1e-04
d1v5ta_	90	d.15.1.1 (A:) 8430435i17rik protein {Mouse (Mus mu	2e-04
d1v5ta_	90	d.15.1.1 (A:) 8430435i17rik protein {Mouse (Mus mu	0.001
d2uyzb1	77	d.15.1.1 (B:20-96) SUMO-1 (smt3 homologue) {Human	3e-04
d1wgga_	96	d.15.1.1 (A:) Ubiquitin carboxyl-terminal hydrolas	4e-04
d1wjua_	100	d.15.1.1 (A:) NEDD8 ultimate buster-1, NUB1 {Human	5e-04

>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 = 63.5 bits (154), Expect = 3e-13
 Identities = 11/75 (14%), Positives = 34/75 (45%)

Query: 42  GSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLH 101
                ++V     +++ ++  +  +G   ++ ++V+  + L   +  +  YGL DG+++ 
Sbjct: 21  EVTFSLQVNPDFELSNFRVLCELESGVPAEEAQIVYMEQLLTDDHCSLGSYGLKDGDMVV 80

Query: 102 LVLRLSDLQAITVTT 116
           L+ + +        T
Sbjct: 81  LLQKDNVGLRTPGRT 95

>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 = 42.3 bits (99), Expect = 9e-06
 Identities = 10/86 (11%), Positives = 27/86 (31%), Gaps = 7/86 (8%)

Query: 112 ITVTTVC----GKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEE-LEDQRL 166
           ITV  V        F   V     +   +     +     +    +++   +   +D   
Sbjct: 10  ITVYCVRRDLTEVTFSLQVNPDFELSNFRVLCELESGVPAE--EAQIVYMEQLLTDDHCS 67

Query: 167 ITDICKRNEAVIHLLVRKSAKVRAKP 192
           +     ++  ++ LL + +  +R   
Sbjct: 68  LGSYGLKDGDMVVLLQKDNVGLRTPG 93

>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 = 61.8 bits (150), Expect = 7e-13
 Identities = 23/79 (29%), Positives = 41/79 (51%), Gaps = 1/79 (1%)

Query: 28  KLSNDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNS 87
           ++ N        + G V+   +  +D ++ +K++I    G    KQKL +EG  +  SNS
Sbjct: 7   QVPNMQDKTEWKLNGQVLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDSNS 66

Query: 88  RVRDYGLADGNVLHLVLRL 106
            +  Y +A+G V+HL L+ 
Sbjct: 67  -LAYYNMANGAVIHLALKE 84

>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 = 45.2 bits (107), Expect = 6e-07
 Identities = 16/66 (24%), Positives = 30/66 (45%), Gaps = 2/66 (3%)

Query: 119 GKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVI 178
           G+V  F +     V  +K +I +     +    Q+L  +G  ++D   +      N AVI
Sbjct: 21  GQVLVFTLPLTDQVSVIKVKIHEA--TGMPAGKQKLQYEGIFIKDSNSLAYYNMANGAVI 78

Query: 179 HLLVRK 184
           HL +++
Sbjct: 79  HLALKE 84

>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 = 58.2 bits (141), Expect = 1e-11
 Identities = 20/73 (27%), Positives = 33/73 (45%), Gaps = 1/73 (1%)

Query: 33  SILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDY 92
           S+ I +  G     + V    ++   K  I   NG  V  Q+L++ G+ L    + V  Y
Sbjct: 1   SLNIHIKSGQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQT-VESY 59

Query: 93  GLADGNVLHLVLR 105
            + DG+ +HLV  
Sbjct: 60  HIQDGHSVHLVKS 72

>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 = 47.1 bits (112), Expect = 8e-08
 Identities = 17/73 (23%), Positives = 33/73 (45%), Gaps = 3/73 (4%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
           I + +   K +E +V     V   K+ I K     + + NQ LI  G+ L+D + +    
Sbjct: 4   IHIKSGQDK-WEVNVAPESTVLQFKEAINKA--NGIPVANQRLIYSGKILKDDQTVESYH 60

Query: 172 KRNEAVIHLLVRK 184
            ++   +HL+  +
Sbjct: 61  IQDGHSVHLVKSQ 73

>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 = 58.4 bits (141), Expect = 1e-11
 Identities = 17/77 (22%), Positives = 34/77 (44%), Gaps = 2/77 (2%)

Query: 31  NDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRV 89
           ++ + I + +  G      V  + ++A +K ++    G       L FEG+ L      +
Sbjct: 1   DEPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPL-EDQLPL 59

Query: 90  RDYGLADGNVLHLVLRL 106
            +YGL   + + + LRL
Sbjct: 60  GEYGLKPLSTVFMNLRL 76

>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 = 53.0 bits (127), Expect = 7e-10
 Identities = 16/72 (22%), Positives = 32/72 (44%), Gaps = 2/72 (2%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
           I V    G+   + V   + V ++KQQ++       DL       +G+ LEDQ  + +  
Sbjct: 6   ILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWL--TFEGKPLEDQLPLGEYG 63

Query: 172 KRNEAVIHLLVR 183
            +  + + + +R
Sbjct: 64  LKPLSTVFMNLR 75

>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 = 58.9 bits (142), Expect = 1e-11
 Identities = 15/80 (18%), Positives = 36/80 (45%), Gaps = 1/80 (1%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGR-EFVDLKNQELICDGEELEDQRLITDI 170
           +T+ T+  + F+  ++    V  +K++I  +   +   +  Q+LI  G+ L D   + + 
Sbjct: 3   VTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALKEY 62

Query: 171 CKRNEAVIHLLVRKSAKVRA 190
               +  + ++V K   V  
Sbjct: 63  KIDEKNFVVVMVTKPKAVST 82

>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 = 43.5 bits (102), Expect = 3e-06
 Identities = 12/70 (17%), Positives = 38/70 (54%), Gaps = 4/70 (5%)

Query: 39  SVGGSVIPMRVMESDSIASVKLRIQS---YNGFFVKKQKLVFEGRELARSNSRVRDYGLA 95
           ++      + +   +++ ++K +I+S    + F V  QKL++ G+ L   ++ +++Y + 
Sbjct: 7   TLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKIL-NDDTALKEYKID 65

Query: 96  DGNVLHLVLR 105
           + N + +++ 
Sbjct: 66  EKNFVVVMVT 75

>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 = 58.5 bits (141), Expect = 2e-11
 Identities = 19/96 (19%), Positives = 42/96 (43%), Gaps = 18/96 (18%)

Query: 30  SNDSILIFLSV---GGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQK------------ 74
           S+ S  + + V    G V+P+ V+++ ++  +K  IQ Y     +++             
Sbjct: 2   SSGSSGMTVRVCKMDGEVMPVVVVQNATVLDLKKAIQRYVQLKQEREGGVQHISWSYVWR 61

Query: 75  ---LVFEGRELARSNSRVRDYGLADGNVLHLVLRLS 107
              L   G +L     ++RDYG+ + + +  + +L 
Sbjct: 62  TYHLTSAGEKLTEDRKKLRDYGIRNRDEVSFIKKLG 97

>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 = 43.5 bits (102), Expect = 3e-06
 Identities = 16/90 (17%), Positives = 30/90 (33%), Gaps = 14/90 (15%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKK-------------GREFVDLKNQELICDG 158
           + V  + G+V    V +   V  +K+ I +                     +   L   G
Sbjct: 10  VRVCKMDGEVMPVVVVQNATVLDLKKAIQRYVQLKQEREGGVQHISWSYVWRTYHLTSAG 69

Query: 159 EELEDQR-LITDICKRNEAVIHLLVRKSAK 187
           E+L + R  + D   RN   +  + +   K
Sbjct: 70  EKLTEDRKKLRDYGIRNRDEVSFIKKLGQK 99

>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 = 56.8 bits (137), Expect = 4e-11
 Identities = 20/72 (27%), Positives = 37/72 (51%), Gaps = 1/72 (1%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIA-KKGREFVDLKNQELICDGEELEDQRLITDI 170
           IT+ T+  + F+  +E    V  +K++I  +KGR+   +  Q+LI  G+ L D   I D 
Sbjct: 5   ITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIRDY 64

Query: 171 CKRNEAVIHLLV 182
               +  + ++V
Sbjct: 65  RIDEKNFVVVMV 76

>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 = 56.0 bits (135), Expect = 6e-11
 Identities = 22/65 (33%), Positives = 39/65 (60%), Gaps = 1/65 (1%)

Query: 42  GSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLH 101
           G  I + +  +D+I  +K R++   G    +Q+L++ G++LA   +  +DY +  G+VLH
Sbjct: 10  GKEIEIDIEPTDTIDRIKERVEEKEGIPPVQQRLIYAGKQLADDKT-AKDYNIEGGSVLH 68

Query: 102 LVLRL 106
           LVL L
Sbjct: 69  LVLAL 73

>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 = 54.5 bits (131), Expect = 2e-10
 Identities = 20/72 (27%), Positives = 36/72 (50%), Gaps = 2/72 (2%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
           I V T+ GK  E  +E    +  +K+++ +K  E +    Q LI  G++L D +   D  
Sbjct: 3   IKVKTLTGKEIEIDIEPTDTIDRIKERVEEK--EGIPPVQQRLIYAGKQLADDKTAKDYN 60

Query: 172 KRNEAVIHLLVR 183
               +V+HL++ 
Sbjct: 61  IEGGSVLHLVLA 72

>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 = 56.1 bits (135), Expect = 7e-11
 Identities = 16/72 (22%), Positives = 33/72 (45%), Gaps = 2/72 (2%)

Query: 36  IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
           +F+        P+ V    SI  +K  +    G    + +++F G+EL    + V++  L
Sbjct: 5   VFVRFNSSYGFPVEVDSDTSILQLKEVVAKRQGVPADQLRVIFAGKELPNHLT-VQNCDL 63

Query: 95  ADGNVLHLVLRL 106
              +++H+V R 
Sbjct: 64  EQQSIVHIVQRP 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 = 48.0 bits (114), Expect = 5e-08
 Identities = 13/72 (18%), Positives = 33/72 (45%), Gaps = 2/72 (2%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
           + V       F   V+   ++  +K+ +AK+  + V      +I  G+EL +   + +  
Sbjct: 5   VFVRFNSSYGFPVEVDSDTSILQLKEVVAKR--QGVPADQLRVIFAGKELPNHLTVQNCD 62

Query: 172 KRNEAVIHLLVR 183
              ++++H++ R
Sbjct: 63  LEQQSIVHIVQR 74

>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 = 54.2 bits (130), Expect = 3e-10
 Identities = 25/65 (38%), Positives = 38/65 (58%), Gaps = 1/65 (1%)

Query: 42  GSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLH 101
           G  I + V  SD+I +VK +IQ   G    +Q+L+F G++L    + + DY +   + LH
Sbjct: 10  GKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNIQKESTLH 68

Query: 102 LVLRL 106
           LVLRL
Sbjct: 69  LVLRL 73

>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 = 49.5 bits (118), Expect = 1e-08
 Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 2/72 (2%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
           I V T+ GK     VE    +  VK +I  K  E +    Q LI  G++LED R ++D  
Sbjct: 3   IFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSDYN 60

Query: 172 KRNEAVIHLLVR 183
            + E+ +HL++R
Sbjct: 61  IQKESTLHLVLR 72

>d1wxva1 d.15.1.1 (A:7-87) Bag-family molecular chaperone regulator-1 {Human (Homo sapiens) [TaxId: 9606]} Length = 81

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

 Score = 53.7 bits (129), Expect = 5e-10
 Identities = 12/63 (19%), Positives = 26/63 (41%)

Query: 43  SVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHL 102
            V   +      +  +   ++   G     QKL+F+G+ L    + +   G+ DG  + L
Sbjct: 16  HVTSQQGSSEPVVQDLAQVVEEVIGVPQSFQKLIFKGKSLKEMETPLSALGIQDGCRVML 75

Query: 103 VLR 105
           + +
Sbjct: 76  IGK 78

>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 = 34.5 bits (79), Expect = 0.003
 Identities = 17/82 (20%), Positives = 36/82 (43%), Gaps = 9/82 (10%)

Query: 111 AITVT-TVCGKVFEFHVERGRN-----VGYVKQQIAKKGREFVDLKNQELICDGEEL-ED 163
            +TVT T   +  + HV   +      V  + Q + +     V    Q+LI  G+ L E 
Sbjct: 1   GLTVTVTHSNEKHDLHVTSQQGSSEPVVQDLAQVVEEV--IGVPQSFQKLIFKGKSLKEM 58

Query: 164 QRLITDICKRNEAVIHLLVRKS 185
           +  ++ +  ++   + L+ +K+
Sbjct: 59  ETPLSALGIQDGCRVMLIGKKN 80

>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 = 52.2 bits (125), Expect = 2e-09
 Identities = 18/78 (23%), Positives = 36/78 (46%), Gaps = 2/78 (2%)

Query: 30  SNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSR 88
            +  I +F+ +  G      +  +  I  +K +I+   G   K+Q+L F+G+ L +    
Sbjct: 4   GSSGIQVFVKNPDGGSYAYAINPNSFILGLKQQIEDQQGLPKKQQQLEFQGQVL-QDWLG 62

Query: 89  VRDYGLADGNVLHLVLRL 106
           +  YG+ D + L L  + 
Sbjct: 63  LGIYGIQDSDTLILSKKK 80

>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 = 47.2 bits (112), Expect = 1e-07
 Identities = 14/73 (19%), Positives = 31/73 (42%), Gaps = 2/73 (2%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
           + V    G  + + +     +  +KQQI  +  + +  K Q+L   G+ L+D   +    
Sbjct: 10  VFVKNPDGGSYAYAINPNSFILGLKQQIEDQ--QGLPKKQQQLEFQGQVLQDWLGLGIYG 67

Query: 172 KRNEAVIHLLVRK 184
            ++   + L  +K
Sbjct: 68  IQDSDTLILSKKK 80

>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 = 51.8 bits (124), Expect = 2e-09
 Identities = 20/73 (27%), Positives = 31/73 (42%), Gaps = 3/73 (4%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
           + V T+  +   F V    NV   K+ IA      +  + Q LI  G  L+D + + +  
Sbjct: 3   VLVKTLDSQTRTFIVGAQMNVKEFKEHIAAS--VSIPSEKQRLIYQGRVLQDDKKLQE-Y 59

Query: 172 KRNEAVIHLLVRK 184
                VIHL+ R 
Sbjct: 60  NVGGKVIHLVERA 72

>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 = 50.6 bits (121), Expect = 5e-09
 Identities = 16/73 (21%), Positives = 37/73 (50%), Gaps = 3/73 (4%)

Query: 34  ILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDY 92
           + + + ++        V    ++   K  I +      +KQ+L+++GR L + + ++++Y
Sbjct: 1   LEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVL-QDDKKLQEY 59

Query: 93  GLADGNVLHLVLR 105
            +  G V+HLV R
Sbjct: 60  NV-GGKVIHLVER 71

>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 = 51.8 bits (124), Expect = 3e-09
 Identities = 21/87 (24%), Positives = 43/87 (49%), Gaps = 3/87 (3%)

Query: 100 LHLVLRLSDLQAITVTTVCGKVFE--FHVERGRNVGYVKQQIAKKGREFV-DLKNQELIC 156
            HL ++L+D      + +     E   +   G ++ ++KQ IA K +E V D +  +LI 
Sbjct: 6   WHLAVKLADQPLAPKSILQLPETELGEYSLGGYSISFLKQLIAGKLQESVPDPELIDLIY 65

Query: 157 DGEELEDQRLITDICKRNEAVIHLLVR 183
            G +L+D + +     +  + +H+L +
Sbjct: 66  CGRKLKDDQTLDFYGIQPGSTVHVLRK 92

>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 = 43.3 bits (102), Expect = 3e-06
 Identities = 12/60 (20%), Positives = 28/60 (46%), Gaps = 4/60 (6%)

Query: 49  VMESDSIASVKLRIQ---SYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLR 105
            +   SI+ +K  I      +    +   L++ GR+L    + +  YG+  G+ +H++ +
Sbjct: 34  SLGGYSISFLKQLIAGKLQESVPDPELIDLIYCGRKLKDDQT-LDFYGIQPGSTVHVLRK 92

>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 = 50.7 bits (121), Expect = 5e-09
 Identities = 12/65 (18%), Positives = 27/65 (41%), Gaps = 1/65 (1%)

Query: 42  GSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLH 101
           G  + + V  +D++  +K R+ +  G     Q+  F GR L        +  +    V+ 
Sbjct: 13  GKDLKLVVRSTDTVFHMKRRLHAAEGVEPGSQRWFFSGRPLTDKMK-FEELKIPKDYVVQ 71

Query: 102 LVLRL 106
           +++  
Sbjct: 72  VIVSQ 76

>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 = 49.6 bits (118), Expect = 1e-08
 Identities = 13/75 (17%), Positives = 31/75 (41%), Gaps = 2/75 (2%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
           + +    GK  +  V     V ++K+++     E V+  +Q     G  L D+    ++ 
Sbjct: 6   LRLRLSTGKDLKLVVRSTDTVFHMKRRLHAA--EGVEPGSQRWFFSGRPLTDKMKFEELK 63

Query: 172 KRNEAVIHLLVRKSA 186
              + V+ ++V +  
Sbjct: 64  IPKDYVVQVIVSQPV 78

>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 = 50.3 bits (120), Expect = 7e-09
 Identities = 10/59 (16%), Positives = 28/59 (47%), Gaps = 1/59 (1%)

Query: 49  VMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLS 107
           +     +  ++ +IQ         Q+L + G+++   ++ + DY +   + + L++R S
Sbjct: 19  LSRLTKVEELRRKIQELFHVEPGLQRLFYRGKQMEDGHT-LFDYEVRLNDTIQLLVRQS 76

>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 = 42.6 bits (100), Expect = 3e-06
 Identities = 21/76 (27%), Positives = 35/76 (46%), Gaps = 4/76 (5%)

Query: 112 ITVTTVCGKVFEF--HVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITD 169
           I V T+ G+       + R   V  ++++I +     V+   Q L   G+++ED   + D
Sbjct: 3   IQVRTMDGRQTHTVDSLSRLTKVEELRRKIQEL--FHVEPGLQRLFYRGKQMEDGHTLFD 60

Query: 170 ICKRNEAVIHLLVRKS 185
              R    I LLVR+S
Sbjct: 61  YEVRLNDTIQLLVRQS 76

>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 = 49.9 bits (119), Expect = 9e-09
 Identities = 18/76 (23%), Positives = 31/76 (40%), Gaps = 4/76 (5%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELI--CDGEELEDQRLITD 169
           +TV  + G  F+  +    +V  +K QI +K         Q L     G  L+D+  +  
Sbjct: 3   LTVKMLAGNEFQVSLSSSMSVSELKAQITQKIGVHAF--QQRLAVHPSGVALQDRVPLAS 60

Query: 170 ICKRNEAVIHLLVRKS 185
                 + + L+V KS
Sbjct: 61  QGLGPGSTVLLVVDKS 76

>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 = 49.5 bits (118), Expect = 1e-08
 Identities = 15/68 (22%), Positives = 30/68 (44%), Gaps = 1/68 (1%)

Query: 41  GGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSR-VRDYGLADGNV 99
            G+   + +  S S++ +K +I    G    +Q+L      +A  +   +   GL  G+ 
Sbjct: 9   AGNEFQVSLSSSMSVSELKAQITQKIGVHAFQQRLAVHPSGVALQDRVPLASQGLGPGST 68

Query: 100 LHLVLRLS 107
           + LV+  S
Sbjct: 69  VLLVVDKS 76

>d1wx8a1 d.15.1.1 (A:8-90) 4931431F19Rik {Mouse (Mus musculus) [TaxId: 10090]} Length = 83

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: 4931431F19Rik
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 49.6 bits (118), Expect = 1e-08
 Identities = 16/76 (21%), Positives = 33/76 (43%), Gaps = 1/76 (1%)

Query: 30  SNDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRV 89
           S+  I + +          + E+ ++   K +I  Y      +  L+F G+ L      +
Sbjct: 7   SSRIIRVSVKTPQDCHEFFLAENSNVRRFKKQISKYLHCNADRLVLIFTGKILRD-QDIL 65

Query: 90  RDYGLADGNVLHLVLR 105
              G+ DG+ +H+V+R
Sbjct: 66  SQRGILDGSTVHVVVR 81

>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 = 45.4 bits (107), Expect = 5e-07
 Identities = 19/72 (26%), Positives = 34/72 (47%), Gaps = 3/72 (4%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
           ++V T      EF +    NV   K+QI+K      +     LI  G+ L DQ +++   
Sbjct: 13  VSVKTPQDC-HEFFLAENSNVRRFKKQISKY--LHCNADRLVLIFTGKILRDQDILSQRG 69

Query: 172 KRNEAVIHLLVR 183
             + + +H++VR
Sbjct: 70  ILDGSTVHVVVR 81

>d1uh6a_ d.15.1.1 (A:) Ubiquitin-like protein 5, ubl5 {Mouse (Mus musculus) [TaxId: 10090]} Length = 100

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein 5, ubl5
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 50.0 bits (119), Expect = 2e-08
 Identities = 15/64 (23%), Positives = 24/64 (37%), Gaps = 1/64 (1%)

Query: 42  GSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLH 101
           G  + ++    D+I  +K  I +  G    K  L           S + DY + DG  L 
Sbjct: 38  GKKVRVKCNTDDTIGDLKKLIAAQTGTRWNKIVLKKWYTIFKDHVS-LGDYEIHDGMNLE 96

Query: 102 LVLR 105
           L  +
Sbjct: 97  LYYQ 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 = 44.2 bits (104), Expect = 2e-06
 Identities = 10/72 (13%), Positives = 20/72 (27%), Gaps = 2/72 (2%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
           +      GK           +G +K+ IA +           L       +D   + D  
Sbjct: 31  VVCNDRLGKKVRVKCNTDDTIGDLKKLIAAQ--TGTRWNKIVLKKWYTIFKDHVSLGDYE 88

Query: 172 KRNEAVIHLLVR 183
             +   + L  +
Sbjct: 89  IHDGMNLELYYQ 100

>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 = 49.9 bits (119), Expect = 2e-08
 Identities = 11/77 (14%), Positives = 28/77 (36%), Gaps = 4/77 (5%)

Query: 30  SNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSR 88
            +  I + L  +  +         D++ ++K +          + KL+++GR L      
Sbjct: 4   GSSGINVRLKFLNDTEELAVARPEDTVGTLKSKYFPGQE---SQMKLIYQGRLLQDPART 60

Query: 89  VRDYGLADGNVLHLVLR 105
           +    + +  V+H    
Sbjct: 61  LSSLNITNNCVIHCHRS 77

>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 = 49.5 bits (118), Expect = 2e-08
 Identities = 17/76 (22%), Positives = 36/76 (47%), Gaps = 4/76 (5%)

Query: 112 ITVTTVCGKVFEFHVERGRN--VGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITD 169
           + V +   +  +  +   R   VG++K  +++   E    ++Q LI  G+ L D + + D
Sbjct: 10  LLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLLDHQCLRD 69

Query: 170 ICKRNEA--VIHLLVR 183
           +  + E   V+HL+  
Sbjct: 70  LLPKQEKRHVLHLVCN 85

>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 = 41.8 bits (98), Expect = 1e-05
 Identities = 13/67 (19%), Positives = 26/67 (38%), Gaps = 5/67 (7%)

Query: 45  IPMRVMESDSIASVKLRIQSYNGFFV--KKQKLVFEGRELARSNSRVRDYGLA--DGNVL 100
           + +      S+  +K  +          + Q+L++ G+ L      +RD        +VL
Sbjct: 22  LELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLLDHQC-LRDLLPKQEKRHVL 80

Query: 101 HLVLRLS 107
           HLV  + 
Sbjct: 81  HLVCNVK 87

>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 = 48.7 bits (116), Expect = 4e-08
 Identities = 11/82 (13%), Positives = 28/82 (34%), Gaps = 8/82 (9%)

Query: 34  ILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYG 93
           + + +    + I     ES ++  +K  ++        +Q+L  + + L    + + + G
Sbjct: 2   VFLMIRRHKTTIFTDAKESSTVFELKRIVEGILKRPPDEQRLYKDDQLLDDGKT-LGECG 60

Query: 94  LADGN-------VLHLVLRLSD 108
                        + L  R  D
Sbjct: 61  FTSQTARPQAPATVGLAFRADD 82

>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 = 35.2 bits (81), Expect = 0.003
 Identities = 11/82 (13%), Positives = 24/82 (29%), Gaps = 10/82 (12%)

Query: 112 ITVTTVCGK-VFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITD- 169
           + +     K       +    V  +K+ +            Q L  D + L+D + + + 
Sbjct: 2   VFLMIRRHKTTIFTDAKESSTVFELKRIVEGI--LKRPPDEQRLYKDDQLLDDGKTLGEC 59

Query: 170 ------ICKRNEAVIHLLVRKS 185
                    +  A + L  R  
Sbjct: 60  GFTSQTARPQAPATVGLAFRAD 81

>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 = 48.0 bits (114), Expect = 5e-08
 Identities = 11/68 (16%), Positives = 31/68 (45%), Gaps = 1/68 (1%)

Query: 38  LSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADG 97
           +    +     V    +I  ++ R+ +      + Q+L + G++L    + + DY +   
Sbjct: 8   IDGSKTCTIEDVSRKATIEELRERVWALFDVRPECQRLFYRGKQLENGYT-LFDYDVGLN 66

Query: 98  NVLHLVLR 105
           +++ L++R
Sbjct: 67  DIIQLLVR 74

>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 = 46.5 bits (110), Expect = 2e-07
 Identities = 15/78 (19%), Positives = 30/78 (38%), Gaps = 1/78 (1%)

Query: 30  SNDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRV 89
           S   I + +          V ++ +I  +K  I         +  L+F G+   +    +
Sbjct: 4   SPHLIKVTVKTPKDKEDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKI-LKDPDSL 62

Query: 90  RDYGLADGNVLHLVLRLS 107
              G+ DG  +HLV++  
Sbjct: 63  AQCGVRDGLTVHLVIKRQ 80

>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 = 40.4 bits (94), Expect = 3e-05
 Identities = 16/76 (21%), Positives = 35/76 (46%), Gaps = 3/76 (3%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
           +TV T   K  +F V     +  +K++I+++           LI  G+ L+D   +    
Sbjct: 10  VTVKTPKDK-EDFSVTDTCTIQQLKEEISQR--FKAHPDQLVLIFAGKILKDPDSLAQCG 66

Query: 172 KRNEAVIHLLVRKSAK 187
            R+   +HL++++  +
Sbjct: 67  VRDGLTVHLVIKRQHR 82

>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 = 46.8 bits (111), Expect = 2e-07
 Identities = 14/82 (17%), Positives = 31/82 (37%), Gaps = 8/82 (9%)

Query: 32  DSILIFLSVGGSVIPM--RVMESDSIASVKLRIQSYNGFFVKKQKLVFEGR------ELA 83
           +   + ++   +  PM  +     S+  +K +++   G  V   ++           EL 
Sbjct: 3   EVYDLEITTNATDFPMEKKYPAGMSLNDLKKKLELVVGTTVDSMRIQLFDGDDQLKGELT 62

Query: 84  RSNSRVRDYGLADGNVLHLVLR 105
                ++D G+ DG  +H V  
Sbjct: 63  DGAKSLKDLGVRDGYRIHAVDV 84

>d1j8ca_ d.15.1.1 (A:) Ubiquitin-like N-terminal domain of PLIC-2 {Human (Homo sapiens) [TaxId: 9606]} Length = 103

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

 Score = 44.6 bits (105), Expect = 1e-06
 Identities = 16/72 (22%), Positives = 31/72 (43%), Gaps = 1/72 (1%)

Query: 34  ILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYG 93
           I + +          V E+ S+   K  I         +  L+F G+ L   ++ +  +G
Sbjct: 33  IKVTVKTPKEKEEFAVPENSSVQQFKEAISKRFKSQTDQLVLIFAGKILKDQDT-LIQHG 91

Query: 94  LADGNVLHLVLR 105
           + DG  +HLV++
Sbjct: 92  IHDGLTVHLVIK 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 = 40.4 bits (94), Expect = 4e-05
 Identities = 19/72 (26%), Positives = 32/72 (44%), Gaps = 3/72 (4%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
           +TV T   K  EF V    +V   K+ I+K+           LI  G+ L+DQ  +    
Sbjct: 35  VTVKTPKEK-EEFAVPENSSVQQFKEAISKR--FKSQTDQLVLIFAGKILKDQDTLIQHG 91

Query: 172 KRNEAVIHLLVR 183
             +   +HL+++
Sbjct: 92  IHDGLTVHLVIK 103

>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 = 43.8 bits (103), Expect = 3e-06
 Identities = 18/87 (20%), Positives = 37/87 (42%), Gaps = 15/87 (17%)

Query: 35  LIFLSVGGSVI-PMRVMESDSIASVKLRIQSYNGFF-------VKKQKLVFEGRELARSN 86
           + F    GS I P    ++ +++++K  + S            VK+ KL+  G+ L  S 
Sbjct: 10  IKFRLTDGSDIGPKAFPDATTVSALKETVISEWPREKENGPKTVKEVKLISAGKVLENSK 69

Query: 87  SRVRDYGLADG------NVLHLVLRLS 107
           + V+DY             +H++++  
Sbjct: 70  T-VKDYRSPVSNLAGAVTTMHVIIQAP 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 = 42.5 bits (100), Expect = 3e-06
 Identities = 9/76 (11%), Positives = 30/76 (39%), Gaps = 1/76 (1%)

Query: 31  NDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVR 90
              I + +S G S I  ++ ++  +  +        G  +   + +++G  + +++    
Sbjct: 2   ETHINLKVSDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRI-QADQTPE 60

Query: 91  DYGLADGNVLHLVLRL 106
           D  + D +++      
Sbjct: 61  DLDMEDNDIIEAHREQ 76

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

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

 Score = 34.8 bits (80), Expect = 0.002
 Identities = 9/73 (12%), Positives = 27/73 (36%), Gaps = 3/73 (4%)

Query: 112 ITVTTV-CGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDI 170
           I +          F +++   +  + +  AK  R+  ++ +   + DG  ++  +   D+
Sbjct: 5   INLKVSDGSSEIFFKIKKTTPLRRLMEAFAK--RQGKEMDSLRFLYDGIRIQADQTPEDL 62

Query: 171 CKRNEAVIHLLVR 183
              +  +I     
Sbjct: 63  DMEDNDIIEAHRE 75

>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 = 41.6 bits (97), Expect = 8e-06
 Identities = 14/61 (22%), Positives = 24/61 (39%), Gaps = 1/61 (1%)

Query: 42  GSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLH 101
           G  + ++ +  DS+   K  +    G    K  L   G  L + +  + DY + D   L 
Sbjct: 11  GKKVRVKCLAEDSVGDFKKVLSLQIGTQPNKIVLQKGGSVL-KDHISLEDYEVHDQTNLE 69

Query: 102 L 102
           L
Sbjct: 70  L 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 = 36.2 bits (83), Expect = 5e-04
 Identities = 12/69 (17%), Positives = 23/69 (33%), Gaps = 2/69 (2%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
           + V    GK          +VG  K+ ++   +         L   G  L+D   + D  
Sbjct: 4   VVVNDRLGKKVRVKCLAEDSVGDFKKVLSL--QIGTQPNKIVLQKGGSVLKDHISLEDYE 61

Query: 172 KRNEAVIHL 180
             ++  + L
Sbjct: 62  VHDQTNLEL 70

>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 = 41.9 bits (98), Expect = 1e-05
 Identities = 18/75 (24%), Positives = 31/75 (41%), Gaps = 2/75 (2%)

Query: 33  SILIFLSVGGSVIPMRV-MESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRD 91
            +       G  + + V   S+++ S+K +I         KQKL  +   L  + S +  
Sbjct: 31  RVSKPNENDGQFMEITVQSLSENVGSLKEKIAGEIQIPANKQKLSGKAGFLKDNMS-LAH 89

Query: 92  YGLADGNVLHLVLRL 106
           Y +  G +L L LR 
Sbjct: 90  YNVGAGEILTLSLRE 104

>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 = 41.1 bits (96), Expect = 2e-05
 Identities = 13/73 (17%), Positives = 32/73 (43%), Gaps = 4/73 (5%)

Query: 35  LIFLSV--GGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDY 92
           L+ L +    +   ++V    + + +K +I S  G     QK+++  + L   +  +R+ 
Sbjct: 17  LVDLKIIWNKTKHDVKVPLDSTGSELKQKIHSITGLPPAMQKVMY--KGLVPEDKTLREI 74

Query: 93  GLADGNVLHLVLR 105
            +  G  + +V  
Sbjct: 75  KVTSGAKIMVVGS 87

>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 = 41.1 bits (96), Expect = 2e-05
 Identities = 15/79 (18%), Positives = 31/79 (39%), Gaps = 6/79 (7%)

Query: 33  SILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRE------LARSN 86
            + I  S+       R   S +IA  K +++   G      +L   G +      L + +
Sbjct: 9   MVFISSSLNSFRSEKRYSRSLTIAEFKCKLELVVGSPASCMELELYGADDKFYSKLDQED 68

Query: 87  SRVRDYGLADGNVLHLVLR 105
           + +  Y + DG  +H++  
Sbjct: 69  ALLGSYPVDDGCRIHVIDH 87

>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 = 38.7 bits (90), Expect = 1e-04
 Identities = 10/89 (11%), Positives = 31/89 (34%), Gaps = 11/89 (12%)

Query: 26  PEKLSNDSILIFL----SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRE 81
               S   + + +         ++  ++ +S ++  VK  +       V +  L +E  +
Sbjct: 2   SSGSSGQLLTLKIKCSNQPERQILEKQLPDSMTVQKVKGLLSRLLKVPVSELLLSYESSK 61

Query: 82  LA-------RSNSRVRDYGLADGNVLHLV 103
           +             ++ Y + +G+ L + 
Sbjct: 62  MPGREIELENDLQPLQFYSVENGDCLLVR 90

>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 = 38.1 bits (88), Expect = 2e-04
 Identities = 10/76 (13%), Positives = 24/76 (31%), Gaps = 1/76 (1%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVD-LKNQELICDGEELEDQRLITDI 170
           I V     +     +     V  +KQ +        +  K   L   G+  E+   +  +
Sbjct: 10  IIVKWGGQEYSVTTLSEDDTVLDLKQFLKTLTGVLPERQKLLGLKVKGKPAENDVKLGAL 69

Query: 171 CKRNEAVIHLLVRKSA 186
             +    I ++  + +
Sbjct: 70  KLKPNTKIMMMGTRES 85

>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 = 36.1 bits (83), Expect = 0.001
 Identities = 12/80 (15%), Positives = 31/80 (38%), Gaps = 5/80 (6%)

Query: 30  SNDSILIFLSVGGSVIP-MRVMESDSIASVKLRIQSYNGFFVKKQKLV---FEGRELARS 85
            +  + I +  GG       + E D++  +K  +++  G   ++QKL+    +G+     
Sbjct: 4   GSSGLPIIVKWGGQEYSVTTLSEDDTVLDLKQFLKTLTGVLPERQKLLGLKVKGKPAEND 63

Query: 86  NSRVRDYGLADGNVLHLVLR 105
              +    L     + ++  
Sbjct: 64  VK-LGALKLKPNTKIMMMGT 82

>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 = 37.0 bits (86), Expect = 3e-04
 Identities = 11/72 (15%), Positives = 28/72 (38%), Gaps = 2/72 (2%)

Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
           + V         F V+   ++  +K+   +  R+ V + +   + +G+ + D     ++ 
Sbjct: 5   LKVIGQDSSEIHFKVKMTTHLKKLKESYCQ--RQGVPMNSLRFLFEGQRIADNHTPKELG 62

Query: 172 KRNEAVIHLLVR 183
              E VI +   
Sbjct: 63  MEEEDVIEVYQE 74

>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 = 37.3 bits (86), Expect = 4e-04
 Identities = 7/63 (11%), Positives = 24/63 (38%), Gaps = 2/63 (3%)

Query: 41  GGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVL 100
                 + +   +     K ++ +  G    +QK++ +G  L   +    +  + +G  +
Sbjct: 16  KEKFEGVELNTDEPPMVFKAQLFALTGVQPARQKVMVKGGTL--KDDDWGNIKMKNGMTV 73

Query: 101 HLV 103
            ++
Sbjct: 74  LMM 76

>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 = 37.3 bits (86), Expect = 5e-04
 Identities = 9/76 (11%), Positives = 25/76 (32%), Gaps = 4/76 (5%)

Query: 33  SILIFLSV---GGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRV 89
           +I +FL           +      +   ++ +I    G      K+V   ++  +    +
Sbjct: 17  TIEVFLPPRLKKDRKNLLETRLHITGRELRSKIAETFGLQENYIKIVINKKQ-LQLGKTL 75

Query: 90  RDYGLADGNVLHLVLR 105
            + G+A      ++  
Sbjct: 76  EEQGVAHNVKAMVLEL 91

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	469
d1z2ma2	76	Interferon-induced 15 kDa protein {Human (Homo sap	99.72
d1wh3a_	87	2'-5'-oligoadenylate synthetase-like protein, OASL	99.72
d2zeqa1	78	Ubiquitin-like domain of parkin {Mouse (Mus muscul	99.71
d1bt0a_	73	Rub1 {Mouse-ear cress (Arabidopsis thaliana) [TaxI	99.71
d1ogwa_	76	Ubiquitin {Human (Homo sapiens) [TaxId: 9606]}	99.71
d1bt0a_	73	Rub1 {Mouse-ear cress (Arabidopsis thaliana) [TaxI	99.71
d2zeqa1	78	Ubiquitin-like domain of parkin {Mouse (Mus muscul	99.71
d1wh3a_	87	2'-5'-oligoadenylate synthetase-like protein, OASL	99.7
d1z2ma2	76	Interferon-induced 15 kDa protein {Human (Homo sap	99.69
d2faza1	76	Ubiquitin-like PHD and RING finger domain-containi	99.69
d1ttna1	80	Dendritic cell-derived ubiquitin-like protein {Hum	99.68
d2faza1	76	Ubiquitin-like PHD and RING finger domain-containi	99.68
d1ogwa_	76	Ubiquitin {Human (Homo sapiens) [TaxId: 9606]}	99.67
d1ttna1	80	Dendritic cell-derived ubiquitin-like protein {Hum	99.65
d1wx9a1	73	Large proline-rich protein BAT3 {Human (Homo sapie	99.65
d1wy8a1	76	Ubiquitin-like PHD and RING finger domain-containi	99.64
d1wy8a1	76	Ubiquitin-like PHD and RING finger domain-containi	99.64
d1uela_	95	Ubiquitin-like domain of Rad23 homolog B (Hhr23B)	99.64
d1wx9a1	73	Large proline-rich protein BAT3 {Human (Homo sapie	99.63
d2bwfa1	73	DSK2 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.63
d1z2ma1	76	Interferon-induced 15 kDa protein {Human (Homo sap	99.61
d1m94a_	73	Ubiquitin-like modifier protein hub1 {Baker's yeas	99.6
d1yqba1	84	Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]}	99.59
d1m94a_	73	Ubiquitin-like modifier protein hub1 {Baker's yeas	99.59
d1yqba1	84	Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]}	99.58
d2bwfa1	73	DSK2 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.58
d1uela_	95	Ubiquitin-like domain of Rad23 homolog B (Hhr23B)	99.57
d1oqya4	77	Ubiquitin-like domain of Rad23 homolog A (Hhr23a)	99.57
d1z2ma1	76	Interferon-induced 15 kDa protein {Human (Homo sap	99.57
d1oqya4	77	Ubiquitin-like domain of Rad23 homolog A (Hhr23a)	99.56
d1uh6a_	100	Ubiquitin-like protein 5, ubl5 {Mouse (Mus musculu	99.55
d1j8ca_	103	Ubiquitin-like N-terminal domain of PLIC-2 {Human	99.55
d1uh6a_	100	Ubiquitin-like protein 5, ubl5 {Mouse (Mus musculu	99.54
d1v5oa_	102	1700011n24rik protein {Mouse (Mus musculus) [TaxId	99.54
d1wx8a1	83	4931431F19Rik {Mouse (Mus musculus) [TaxId: 10090]	99.52
d1v2ya_	105	Ubiquitin-like protein 3300001g02rik {Mouse (Mus m	99.52
d1zkha1	86	Splicing factor 3 subunit 1, C-terminal domain {Hu	99.51
d1se9a_	101	Hypothetical protein At3g01050 {Thale cress (Arabi	99.5
d1we6a_	111	Splicing factor 3 subunit 1, C-terminal domain {Th	99.5
d1j8ca_	103	Ubiquitin-like N-terminal domain of PLIC-2 {Human	99.5
d1wx8a1	83	4931431F19Rik {Mouse (Mus musculus) [TaxId: 10090]	99.49
d1v5oa_	102	1700011n24rik protein {Mouse (Mus musculus) [TaxId	99.48
d1wiaa_	95	Ubiquitin-like protein bab25500 (2010008E23Rik) {M	99.48
d1wgha_	116	Ubiquitin-like protein 3, Ubl3 {Mouse (Mus musculu	99.47
d1wgha_	116	Ubiquitin-like protein 3, Ubl3 {Mouse (Mus musculu	99.47
d1se9a_	101	Hypothetical protein At3g01050 {Thale cress (Arabi	99.46
d1zkha1	86	Splicing factor 3 subunit 1, C-terminal domain {Hu	99.46
d1wiaa_	95	Ubiquitin-like protein bab25500 (2010008E23Rik) {M	99.46
d1v2ya_	105	Ubiquitin-like protein 3300001g02rik {Mouse (Mus m	99.43
d1wxva1	81	Bag-family molecular chaperone regulator-1 {Human	99.41
d1v5ta_	90	8430435i17rik protein {Mouse (Mus musculus) [TaxId	99.39
d1wgga_	96	Ubiquitin carboxyl-terminal hydrolase 14 {Mouse (M	99.39
d1wgga_	96	Ubiquitin carboxyl-terminal hydrolase 14 {Mouse (M	99.39
d1wjua_	100	NEDD8 ultimate buster-1, NUB1 {Human (Homo sapiens	99.38
d1v86a_	95	hypothetical D7wsu128e protein {Mouse (Mus musculu	99.37
d1wgda_	93	Homocysteine-responsive endoplasmic reticulum-resi	99.36
d2c9wb1	103	Elongin B {Human (Homo sapiens) [TaxId: 9606]}	99.36
d1we6a_	111	Splicing factor 3 subunit 1, C-terminal domain {Th	99.36
d1wjua_	100	NEDD8 ultimate buster-1, NUB1 {Human (Homo sapiens	99.32
d1wgda_	93	Homocysteine-responsive endoplasmic reticulum-resi	99.29
d1v5ta_	90	8430435i17rik protein {Mouse (Mus musculus) [TaxId	99.29
d1wxva1	81	Bag-family molecular chaperone regulator-1 {Human	99.28
d2c9wb1	103	Elongin B {Human (Homo sapiens) [TaxId: 9606]}	99.27
d1x1ma1	94	Ubiquitin-like protein 7 {Mouse (Mus musculus) [Ta	99.23
d1v86a_	95	hypothetical D7wsu128e protein {Mouse (Mus musculu	99.21
d1v6ea_	95	Ubiquitin-like domain of tubulin folding cofactor	99.2
d1euvb_	79	SUMO-1 (smt3 homologue) {Baker's yeast (Saccharomy	99.15
d1v6ea_	95	Ubiquitin-like domain of tubulin folding cofactor	99.14
d1wjna_	97	Tubulin-folding protein TbcE {Mouse (Mus musculus)	99.02
d1euvb_	79	SUMO-1 (smt3 homologue) {Baker's yeast (Saccharomy	99.01
d1t0ya_	90	Ubiquitin-like domain of tubulin folding cofactor	98.95
d1wjna_	97	Tubulin-folding protein TbcE {Mouse (Mus musculus)	98.93
d2uyzb1	77	SUMO-1 (smt3 homologue) {Human (Homo sapiens) [Tax	98.92
d1x1ma1	94	Ubiquitin-like protein 7 {Mouse (Mus musculus) [Ta	98.88
d2uyzb1	77	SUMO-1 (smt3 homologue) {Human (Homo sapiens) [Tax	98.88
d1t0ya_	90	Ubiquitin-like domain of tubulin folding cofactor	98.78
d1wm3a_	72	SUMO-2 {Human (Homo sapiens) [TaxId: 9606]}	97.84
d1wf9a1	94	NPL4-like protein 1 {Thale cress (Arabidopsis thal	97.69
d1wm3a_	72	SUMO-2 {Human (Homo sapiens) [TaxId: 9606]}	97.68
d1wf9a1	94	NPL4-like protein 1 {Thale cress (Arabidopsis thal	97.34
d1cjaa_	342	Actin-fragmin kinase, catalytic domain {Physarum p	96.94
d2al3a1	76	Tether containing UBX domain for GLUT4 (Tug) {Mous	96.4
d2al3a1	76	Tether containing UBX domain for GLUT4 (Tug) {Mous	95.73
d1i42a_	89	p47 {Rat (Rattus norvegicus) [TaxId: 10116]}	91.74
d1e7ua4	369	Phoshoinositide 3-kinase (PI3K), catalytic domain	90.91
d1h8ca_	82	Fas-associated factor 1, Faf1 {Human (Homo sapiens	90.82
d1i42a_	89	p47 {Rat (Rattus norvegicus) [TaxId: 10116]}	90.41
d2cr5a1	96	UBX domain-containing protein 6 (Reproduction 8) {	89.13
d1h8ca_	82	Fas-associated factor 1, Faf1 {Human (Homo sapiens	89.03
d2cr5a1	96	UBX domain-containing protein 6 (Reproduction 8) {	88.48
d1wj4a_	124	Hypothetical protein KIAA0794 {Human (Homo sapiens	85.96
d1wj4a_	124	Hypothetical protein KIAA0794 {Human (Homo sapiens	81.41

>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=99.72  E-value=5.9e-18  Score=134.18  Aligned_cols=75  Identities=23%  Similarity=0.376  Sum_probs=72.1

Q ss_pred             CCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeec
Q 012177           31 NDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRL  106 (469)
Q Consensus        31 ~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrL  106 (469)
                      ++.|+|+| +..|++++++|.+++||.+||.+|+++.|+|+++|+|+|+|++|. |+.+|++|||++|++|||++|+
T Consensus         1 d~~~qi~Vk~~~G~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~qrL~~~gk~L~-d~~tL~~y~I~~~sti~l~lRL   76 (76)
T d1z2ma2           1 DEPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLE-DQLPLGEYGLKPLSTVFMNLRL   76 (76)
T ss_dssp             CCCEEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHTCCGGGEEEEETTEECC-TTSBGGGGTCCTTCEEEEEECC
T ss_pred             CCCEEEEEEcCCCCEEEEEECCCCcHHHHHHHHHHHhcCChhHeEEEECCeECC-CCCcHHHcCCCCCCEEEEEEeC
Confidence            47899999 789999999999999999999999999999999999999999998 8999999999999999999885

>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=99.72  E-value=1e-17  Score=136.35  Aligned_cols=80  Identities=23%  Similarity=0.328  Sum_probs=75.7

Q ss_pred             CCCCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecc
Q 012177           29 LSNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLS  107 (469)
Q Consensus        29 ~~~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLs  107 (469)
                      .++..|+||| +++|++++++|.+++||.+||++|+.++|+|+++|+|+|+|++|. |+.+|++|+|.++++|||+.|..
T Consensus         3 ~~s~~mqI~Vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gip~~~qrLi~~Gk~L~-d~~tL~~y~I~~~stl~l~~r~~   81 (87)
T d1wh3a_           3 SGSSGIQVFVKNPDGGSYAYAINPNSFILGLKQQIEDQQGLPKKQQQLEFQGQVLQ-DWLGLGIYGIQDSDTLILSKKKG   81 (87)
T ss_dssp             CCSSSEEEEEEETTTEEEEEEECSSSBHHHHHHHHHHHTCCCTTTEEEEETTEECC-SSSBHHHHTCCTTEEEEEEECSC
T ss_pred             CCCCcEEEEEECCCCCEEEEEECCcCcHHHHHHHHHHHHCcChHHeEEEeeceEcC-CCCcHHHcCCCCCCEEEEEecCC
Confidence            3578999999 889999999999999999999999999999999999999999998 89999999999999999999886


Q ss_pred             cc
Q 012177          108 DL  109 (469)
Q Consensus       108 d~  109 (469)
                      ++
T Consensus        82 ~g   83 (87)
T d1wh3a_          82 SG   83 (87)
T ss_dssp             CC
T ss_pred             CC
Confidence            54

>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=99.71  E-value=7.7e-18  Score=134.50  Aligned_cols=75  Identities=21%  Similarity=0.406  Sum_probs=72.2

Q ss_pred             CEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeeccc
Q 012177           33 SILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSD  108 (469)
Q Consensus        33 ~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd  108 (469)
                      .|+||| +.+|++++++|++++||++||++|++++|+|+++|+|+|+|++|. |+.+|++|+|+++++|||++|+++
T Consensus         2 ~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           2 GMIVFVRFNSSYGFPVEVDSDTSILQLKEVVAKRQGVPADQLRVIFAGKELP-NHLTVQNCDLEQQSIVHIVQRPRR   77 (78)
T ss_dssp             CEEEEEESSSSSCEEEEECTTCBHHHHHHHHHHHHTCCGGGEEEEETTEEEC-TTCBGGGSSCCTTCEEEEEESSCC
T ss_pred             ceEEEEEcCCCCEEEEEEcccccHHHHHHHHHHHHCcChhHeEEEEeeeEcC-CCCCHHHcCCCCCCEEEEEeccCC
Confidence            599999 678999999999999999999999999999999999999999998 899999999999999999999875

>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=99.71  E-value=8.1e-18  Score=132.45  Aligned_cols=72  Identities=33%  Similarity=0.645  Sum_probs=70.0

Q ss_pred             EEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeec
Q 012177           34 ILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRL  106 (469)
Q Consensus        34 M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrL  106 (469)
                      |+|+| +++|++++++|++++||++||++|+++.|+|+++|+|+|+|++|. |+.+|++|+|++|++|||++||
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 MLIKVKTLTGKEIEIDIEPTDTIDRIKERVEEKEGIPPVQQRLIYAGKQLA-DDKTAKDYNIEGGSVLHLVLAL   73 (73)
T ss_dssp             CEEEEECTTSCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECC-TTSBTGGGTCCTTCEEEEEECC
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHhCCChHHEEEEECCeEcC-CCCcHHHcCCCCCCEEEEEeeC
Confidence            89999 889999999999999999999999999999999999999999998 8999999999999999999985

>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=99.71  E-value=1.1e-17  Score=132.66  Aligned_cols=75  Identities=36%  Similarity=0.625  Sum_probs=72.5

Q ss_pred             EEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecccc
Q 012177           34 ILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDL  109 (469)
Q Consensus        34 M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~  109 (469)
                      |+|+| +++|++++++|++++||.+||++|+.+.|+|+++|+|+|+|++|. |+.+|++|+|+++++|+|++|++++
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 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLE-DGRTLSDYNIQKESTLHLVLRLRGG   76 (76)
T ss_dssp             CEEEEEETTSCEEEEECCTTSBHHHHHHHHHHHHCCCGGGEEEEETTEECC-TTSBGGGGTCCTTCEEEEEECTTCC
T ss_pred             CEEEEEcCCCCEEEEEECCCCcHHHHHHhhhhhcCCChHHEEeEECCeEcC-CCCCHHHcCCCCCCEEEEEEecCCC
Confidence            89999 889999999999999999999999999999999999999999998 8999999999999999999998864

>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=99.71  E-value=1e-17  Score=131.83  Aligned_cols=72  Identities=26%  Similarity=0.396  Sum_probs=70.4

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEe
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVR  183 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~r  183 (469)
                      |.|+|||.+|++++++|++++||++||++|+++.|++  +++|+|+|+|++|+|+++|++|+|+++++|||++|
T Consensus         1 M~I~Vk~~~G~~~~l~V~~~~tV~~lK~~i~~~~gi~--~~~qrLi~~Gk~L~d~~tL~~y~I~~~sti~lvlr   72 (73)
T d1bt0a_           1 MLIKVKTLTGKEIEIDIEPTDTIDRIKERVEEKEGIP--PVQQRLIYAGKQLADDKTAKDYNIEGGSVLHLVLA   72 (73)
T ss_dssp             CEEEEECTTSCEEEEECCTTCBHHHHHHHHHHHHCCC--GGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEEC
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHhCCC--hHHEEEEECCeEcCCCCcHHHcCCCCCCEEEEEee
Confidence            7899999999999999999999999999999999988  99999999999999999999999999999999987

>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=99.71  E-value=1.1e-17  Score=133.55  Aligned_cols=76  Identities=16%  Similarity=0.212  Sum_probs=72.7

Q ss_pred             cceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeCC
Q 012177          109 LQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKSA  186 (469)
Q Consensus       109 ~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks~  186 (469)
                      +|+|+||+.+|++++++|++++||.+||++|+++.|+|  +++|+|+|+|++|+|+++|++|+|+++++|||+.|...
T Consensus         2 ~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           2 GMIVFVRFNSSYGFPVEVDSDTSILQLKEVVAKRQGVP--ADQLRVIFAGKELPNHLTVQNCDLEQQSIVHIVQRPRR   77 (78)
T ss_dssp             CEEEEEESSSSSCEEEEECTTCBHHHHHHHHHHHHTCC--GGGEEEEETTEEECTTCBGGGSSCCTTCEEEEEESSCC
T ss_pred             ceEEEEEcCCCCEEEEEEcccccHHHHHHHHHHHHCcC--hhHeEEEEeeeEcCCCCCHHHcCCCCCCEEEEEeccCC
Confidence            58999999999999999999999999999999999998  99999999999999999999999999999999988543

>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=99.70  E-value=2e-17  Score=134.61  Aligned_cols=78  Identities=19%  Similarity=0.142  Sum_probs=74.6

Q ss_pred             cccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeCC
Q 012177          107 SDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKSA  186 (469)
Q Consensus       107 sd~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks~  186 (469)
                      +..|+|+||+.+|++++++|++++||.+||++|+++.|+|  +++|+|+|+|++|+|+++|.+|+|+++++|||+.|+..
T Consensus         5 s~~mqI~Vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gip--~~~qrLi~~Gk~L~d~~tL~~y~I~~~stl~l~~r~~~   82 (87)
T d1wh3a_           5 SSGIQVFVKNPDGGSYAYAINPNSFILGLKQQIEDQQGLP--KKQQQLEFQGQVLQDWLGLGIYGIQDSDTLILSKKKGS   82 (87)
T ss_dssp             SSSEEEEEEETTTEEEEEEECSSSBHHHHHHHHHHHTCCC--TTTEEEEETTEECCSSSBHHHHTCCTTEEEEEEECSCC
T ss_pred             CCcEEEEEECCCCCEEEEEECCcCcHHHHHHHHHHHHCcC--hHHeEEEeeceEcCCCCcHHHcCCCCCCEEEEEecCCC
Confidence            5679999999999999999999999999999999999998  99999999999999999999999999999999988654

>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=99.69  E-value=2.8e-17  Score=130.27  Aligned_cols=74  Identities=20%  Similarity=0.183  Sum_probs=71.7

Q ss_pred             ccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEe
Q 012177          108 DLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVR  183 (469)
Q Consensus       108 d~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~r  183 (469)
                      +.|+|+||+.+|++++++|++++||.+||++|+++.|+|  +++|+|+|+|+.|+|+++|++|+|+++++|||++|
T Consensus         2 ~~~qi~Vk~~~G~~~~l~v~~~~tV~~lK~~I~~~~gi~--~~~qrL~~~gk~L~d~~tL~~y~I~~~sti~l~lR   75 (76)
T d1z2ma2           2 EPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQ--DDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNLR   75 (76)
T ss_dssp             CCEEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHTCC--GGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEEC
T ss_pred             CCEEEEEEcCCCCEEEEEECCCCcHHHHHHHHHHHhcCC--hhHeEEEECCeECCCCCcHHHcCCCCCCEEEEEEe
Confidence            468999999999999999999999999999999999998  99999999999999999999999999999999887

>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=99.69  E-value=2.9e-17  Score=130.49  Aligned_cols=74  Identities=27%  Similarity=0.285  Sum_probs=70.3

Q ss_pred             ceeeeeeecce-eEEEE-eecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeC
Q 012177          110 QAITVTTVCGK-VFEFH-VERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKS  185 (469)
Q Consensus       110 m~I~Vkt~~Gk-~~~l~-V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks  185 (469)
                      |+|+|||.+|+ +++++ +++++||++||++|+++.|+|  +++|+|+|+|++|+|+++|++|+|+++++|||++|+|
T Consensus         1 M~I~Vktl~Gk~t~~l~~v~~~~tV~~lK~~I~~~~gip--~~~qrLi~~Gk~L~D~~tL~~y~I~~~sti~lv~r~s   76 (76)
T d2faza1           1 MWIQVRTMDGRQTHTVDSLSRLTKVEELRRKIQELFHVE--PGLQRLFYRGKQMEDGHTLFDYEVRLNDTIQLLVRQS   76 (76)
T ss_dssp             EEEEEEETTSSCEEEEEEECTTCBHHHHHHHHHHHHCCC--GGGEEEEETTEECCTTCBTTTTTCCTTCEEEEEECCC
T ss_pred             CEEEEEeCCCCcEEEEecCCCCCCHHHHHHHHHHHHCcC--hHHeEEEEeeEeccCCCcHHHcCCCCCCEEEEEEEcC
Confidence            78999999996 78885 899999999999999999998  9999999999999999999999999999999999875

>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=99.68  E-value=4.3e-17  Score=130.58  Aligned_cols=76  Identities=14%  Similarity=0.173  Sum_probs=72.8

Q ss_pred             cceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeCC
Q 012177          109 LQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKSA  186 (469)
Q Consensus       109 ~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks~  186 (469)
                      .++|+||+.+|++++++|++++||.+||++|+++.++|  +++|+|+|+|++|+|+++|++|+|+++++|||+++++.
T Consensus         3 e~qi~Vk~~~G~~~~l~V~~~~tV~~lK~~I~~~~~ip--~~~qrLi~~Gk~L~d~~tL~~y~I~~~sti~lvi~~p~   78 (80)
T d1ttna1           3 ECQLRLRLSTGKDLKLVVRSTDTVFHMKRRLHAAEGVE--PGSQRWFFSGRPLTDKMKFEELKIPKDYVVQVIVSQPV   78 (80)
T ss_dssp             SEEEEEEETTTEEEEEEECTTSHHHHHHHHHHHTTCCC--STTCEEEETTEECCTTSHHHHCCCSSSCEEEEECCCSS
T ss_pred             eEEEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhCCC--cccEEEEECceEcCCCCcHHHcCCCCCCEEEEEecCCC
Confidence            57899999999999999999999999999999999988  99999999999999999999999999999999988664

>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=99.68  E-value=5.7e-17  Score=128.80  Aligned_cols=73  Identities=16%  Similarity=0.325  Sum_probs=69.4

Q ss_pred             EEEEE-EeCCe-EEEEE-eCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecc
Q 012177           34 ILIFL-SVGGS-VIPMR-VMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLS  107 (469)
Q Consensus        34 M~I~V-~l~G~-~~~l~-V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLs  107 (469)
                      |+|+| +++|+ +++++ +.+++||++||.+|+++.|+|+++|+|+|+|++|. |+.+|++|||+++++|||++|++
T Consensus         1 M~I~Vktl~Gk~t~~l~~v~~~~tV~~lK~~I~~~~gip~~~qrLi~~Gk~L~-D~~tL~~y~I~~~sti~lv~r~s   76 (76)
T d2faza1           1 MWIQVRTMDGRQTHTVDSLSRLTKVEELRRKIQELFHVEPGLQRLFYRGKQME-DGHTLFDYEVRLNDTIQLLVRQS   76 (76)
T ss_dssp             EEEEEEETTSSCEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECC-TTCBTTTTTCCTTCEEEEEECCC
T ss_pred             CEEEEEeCCCCcEEEEecCCCCCCHHHHHHHHHHHHCcChHHeEEEEeeEecc-CCCcHHHcCCCCCCEEEEEEEcC
Confidence            89999 89995 89986 89999999999999999999999999999999998 89999999999999999999874

>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=99.67  E-value=8.9e-17  Score=127.34  Aligned_cols=73  Identities=33%  Similarity=0.454  Sum_probs=70.9

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEee
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rk  184 (469)
                      |+|+||+.+|++++++|++++||.+||++|+.+.++|  +++|+|+|+|+.|+|+.+|++|+|+++++|+|++|.
T Consensus         1 MqI~Vk~l~G~~~~l~v~~~~tV~~lK~~I~~~~gi~--~~~qrL~~~Gk~L~d~~tL~~y~i~~~s~I~L~~rl   73 (76)
T d1ogwa_           1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIP--PDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRL   73 (76)
T ss_dssp             CEEEEEETTSCEEEEECCTTSBHHHHHHHHHHHHCCC--GGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEECT
T ss_pred             CEEEEEcCCCCEEEEEECCCCcHHHHHHhhhhhcCCC--hHHEEeEECCeEcCCCCCHHHcCCCCCCEEEEEEec
Confidence            7899999999999999999999999999999999998  999999999999999999999999999999999883

>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=99.65  E-value=1.3e-16  Score=127.65  Aligned_cols=75  Identities=17%  Similarity=0.305  Sum_probs=71.8

Q ss_pred             CCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecc
Q 012177           32 DSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLS  107 (469)
Q Consensus        32 ~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLs  107 (469)
                      ..|+|+| +++|++++++|.+++||++||.+|++++|+|+.+|+|+|+|++|. |+.+|++|+|+++++|||+++.+
T Consensus         2 ~e~qi~Vk~~~G~~~~l~V~~~~tV~~lK~~I~~~~~ip~~~qrLi~~Gk~L~-d~~tL~~y~I~~~sti~lvi~~p   77 (80)
T d1ttna1           2 YECQLRLRLSTGKDLKLVVRSTDTVFHMKRRLHAAEGVEPGSQRWFFSGRPLT-DKMKFEELKIPKDYVVQVIVSQP   77 (80)
T ss_dssp             CSEEEEEEETTTEEEEEEECTTSHHHHHHHHHHHTTCCCSTTCEEEETTEECC-TTSHHHHCCCSSSCEEEEECCCS
T ss_pred             CeEEEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhCCCcccEEEEECceEcC-CCCcHHHcCCCCCCEEEEEecCC
Confidence            5799999 889999999999999999999999999999999999999999998 89999999999999999998764

>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=99.65  E-value=3.6e-17  Score=128.87  Aligned_cols=73  Identities=27%  Similarity=0.294  Sum_probs=69.1

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeC
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKS  185 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks  185 (469)
                      |+|+||+.+|+++.++|++++||++||++|+++.|+|  +++|+|+|+|++|+|+++|+||+| ++++|||+.|.+
T Consensus         1 m~I~Vk~~~g~~~~l~V~~~~tV~~lK~~I~~~~gip--~~~qrLi~~Gk~L~d~~tL~dy~i-~~~ti~lv~r~P   73 (73)
T d1wx9a1           1 LEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIP--SEKQRLIYQGRVLQDDKKLQEYNV-GGKVIHLVERAP   73 (73)
T ss_dssp             EEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHCCC--TTTCCCEETTEECCSSSBHHHHTC-TTEEEBCCCSSC
T ss_pred             CEEEEEcCCCCEEEEEECCCChHHHHHHHHHHHhCCC--hHHEEEEECCeEccCCCCHHHhCC-CCCEEEEEecCC
Confidence            7899999999999999999999999999999999998  999999999999999999999999 579999987753

>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=99.64  E-value=2.3e-16  Score=125.21  Aligned_cols=73  Identities=25%  Similarity=0.256  Sum_probs=69.0

Q ss_pred             ceeeeeeecc-eeEEE-EeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEee
Q 012177          110 QAITVTTVCG-KVFEF-HVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       110 m~I~Vkt~~G-k~~~l-~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rk  184 (469)
                      |+|+||+.+| +++++ .|++++||++||++|+++.|+|  +++|+|+|+|++|+|+++|++|+|+++++|||++|+
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 MWIQVRTIDGSKTCTIEDVSRKATIEELRERVWALFDVR--PECQRLFYRGKQLENGYTLFDYDVGLNDIIQLLVRP   75 (76)
T ss_dssp             EEEEEEETTCSCEEEEEEECTTCBHHHHHHHHHHHSCCC--TTTEEEEETTEECCSSSBHHHHTCCTTCEEEEEECC
T ss_pred             CEEEEEeCCCCceEEEeccCCCChHHHHHHHHHHHHCCC--chhcEEEEEeeEecCCCCHHHcCCCCCCEEEEEEcc
Confidence            7899999999 57777 5999999999999999999998  999999999999999999999999999999999884

>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=99.64  E-value=2.3e-16  Score=125.19  Aligned_cols=72  Identities=18%  Similarity=0.382  Sum_probs=68.3

Q ss_pred             EEEEE-EeCC-eEEEE-EeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeec
Q 012177           34 ILIFL-SVGG-SVIPM-RVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRL  106 (469)
Q Consensus        34 M~I~V-~l~G-~~~~l-~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrL  106 (469)
                      |+|+| +++| +++++ +|++++||++||.+|++++|+|+++|+|+|+|++|. |+.+|++|||+++++|||++|+
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 MWIQVRTIDGSKTCTIEDVSRKATIEELRERVWALFDVRPECQRLFYRGKQLE-NGYTLFDYDVGLNDIIQLLVRP   75 (76)
T ss_dssp             EEEEEEETTCSCEEEEEEECTTCBHHHHHHHHHHHSCCCTTTEEEEETTEECC-SSSBHHHHTCCTTCEEEEEECC
T ss_pred             CEEEEEeCCCCceEEEeccCCCChHHHHHHHHHHHHCCCchhcEEEEEeeEec-CCCCHHHcCCCCCCEEEEEEcc
Confidence            89999 8888 68887 599999999999999999999999999999999998 8999999999999999999875

>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=99.64  E-value=3.8e-16  Score=128.83  Aligned_cols=77  Identities=19%  Similarity=0.308  Sum_probs=71.7

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcC---CCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeCC
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGR---EFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKSA  186 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~g---ip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks~  186 (469)
                      |+|+||+.+|+++.++|++++||.+||++|+++.+   ++  +++|+|+|+|+.|+|+++|++|+|.++++|+|+++++.
T Consensus         1 M~I~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~~~~i~--~~~qrLi~~Gk~L~d~~tL~~y~I~~~s~i~lv~~~~~   78 (95)
T d1uela_           1 MQVTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFP--VAGQKLIYAGKILNDDTALKEYKIDEKNFVVVMVTKPK   78 (95)
T ss_dssp             CEEEEEETTCCEEEEECCTTSBHHHHHHHHHHHHCTTTCC--TTTEEEEETTEECCTTSBGGGGTCCSSSEEEEEESSCC
T ss_pred             CEEEEEeCCCCEEEEEECCCccHHHHHHHHHhhhcccCCC--ccceEEEECCeEccCCCcHHHcCCCCCCEEEEEECCCC
Confidence            78999999999999999999999999999999876   45  89999999999999999999999999999999988665


Q ss_pred             cc
Q 012177          187 KV  188 (469)
Q Consensus       187 kv  188 (469)
                      ..
T Consensus        79 ~~   80 (95)
T d1uela_          79 AV   80 (95)
T ss_dssp             CC
T ss_pred             CC
Confidence            43

>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=99.63  E-value=1.1e-16  Score=126.03  Aligned_cols=71  Identities=23%  Similarity=0.440  Sum_probs=67.6

Q ss_pred             EEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeec
Q 012177           34 ILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRL  106 (469)
Q Consensus        34 M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrL  106 (469)
                      |+|+| +++|++++++|++++||++||++|+++.|+|+++|+|+|+|+.|. |+.+|++|+| +++++||+.|.
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 LEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQ-DDKKLQEYNV-GGKVIHLVERA   72 (73)
T ss_dssp             EEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHCCCTTTCCCEETTEECC-SSSBHHHHTC-TTEEEBCCCSS
T ss_pred             CEEEEEcCCCCEEEEEECCCChHHHHHHHHHHHhCCChHHEEEEECCeEcc-CCCCHHHhCC-CCCEEEEEecC
Confidence            89999 789999999999999999999999999999999999999999998 8999999999 57999998864

>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=99.63  E-value=6e-16  Score=121.67  Aligned_cols=72  Identities=28%  Similarity=0.467  Sum_probs=68.2

Q ss_pred             CEEEEEEeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeee
Q 012177           33 SILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLR  105 (469)
Q Consensus        33 ~M~I~V~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~Lvlr  105 (469)
                      +|+|+|...+.+++++|.+++||.+||++|+.++|+|+++|+|+|+|+.|. |+.+|++|+|++|++|||+.+
T Consensus         1 si~I~Vk~~~~~~~i~v~~~~tV~~lK~~I~~~~gip~~~qrLi~~Gk~L~-D~~tL~~~~I~~g~~i~lV~~   72 (73)
T d2bwfa1           1 SLNIHIKSGQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILK-DDQTVESYHIQDGHSVHLVKS   72 (73)
T ss_dssp             EEEEEEEETTEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECC-TTSBTGGGTCCTTCEEEEEEC
T ss_pred             CEEEEEEeCCeEEEEEECCCChHHHHHHHHHHHHCcChHHeEEEECCeEcc-CCCcHHHCCCCCCCEEEEEee
Confidence            589999667888999999999999999999999999999999999999998 889999999999999999864

>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=99.61  E-value=5.3e-16  Score=123.00  Aligned_cols=73  Identities=25%  Similarity=0.290  Sum_probs=70.3

Q ss_pred             eeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEE--CCEEcCCCCcccccCCCCCCEEEEEEeeC
Q 012177          111 AITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELIC--DGEELEDQRLITDICKRNEAVIHLLVRKS  185 (469)
Q Consensus       111 ~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif--~Gk~LeD~~tL~dy~I~~~svI~Lv~rks  185 (469)
                      +|+||+++|+++.++|++++||.+||++|+.+.|+|  +++|+|+|  +|+.|+|+.+|++|+|++|++|||+++++
T Consensus         2 ~l~Vk~l~G~~~~v~V~~~~tV~~lK~~I~~~~gip--~~~QrLi~~~~Gk~L~D~~tL~~y~i~~g~~i~lv~~~s   76 (76)
T d1z2ma1           2 DLTVKMLAGNEFQVSLSSSMSVSELKAQITQKIGVH--AFQQRLAVHPSGVALQDRVPLASQGLGPGSTVLLVVDKS   76 (76)
T ss_dssp             EEEEEESSSCEEEEECCSSCCHHHHHHHHHHHHCCC--GGGEEEEEETTCCBCCSSSCSGGGTCCTTCEEEEEECCC
T ss_pred             EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHhccC--CccEEEEEcCCCeeccCCCcHHHcCCCCCCEEEEEEECC
Confidence            589999999999999999999999999999999998  99999999  79999999999999999999999999875

>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=99.60  E-value=8.4e-16  Score=120.90  Aligned_cols=70  Identities=21%  Similarity=0.250  Sum_probs=67.3

Q ss_pred             EEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeee
Q 012177           34 ILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVL  104 (469)
Q Consensus        34 M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~Lvl  104 (469)
                      |+|+| +..|++++++|.+++||++||.+|+.++|+|+++|+|+|+|+.|. |+.+|++|||++|++|+|..
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 IEVVVNDRLGKKVRVKCLAEDSVGDFKKVLSLQIGTQPNKIVLQKGGSVLK-DHISLEDYEVHDQTNLELYY   72 (73)
T ss_dssp             EEEEEEETTTEEEEEEECTTSBHHHHHHHHHHHHCCTTTSEEEESSSCEEC-TTSBHHHHTCCTTEEEEEEE
T ss_pred             eEEEEECCCCCEEEEEECCcCcHHHHHHHHHHhhcccccEEEEEEEeEEec-ccCcHHHcCCCCCCEEEEEE
Confidence            78999 889999999999999999999999999999999999999999998 89999999999999999863

>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=99.59  E-value=1.4e-15  Score=122.72  Aligned_cols=78  Identities=21%  Similarity=0.276  Sum_probs=71.7

Q ss_pred             CCCCEEEEEEeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeeccc
Q 012177           30 SNDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSD  108 (469)
Q Consensus        30 ~~~~M~I~V~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd  108 (469)
                      ++..|+|+|+..|.+++++|.+++||.+||.+|++++|+|+++|+|+|+|++|. |+.+|++|||++|++|||++|.+.
T Consensus         4 ~~~~i~I~Vkt~~~~~~~~V~~~~tV~~lK~~i~~~~gi~~~~qrL~~~Gk~L~-D~~tL~~y~i~~gsti~lv~r~~~   81 (84)
T d1yqba1           4 SPHLIKVTVKTPKDKEDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILK-DPDSLAQCGVRDGLTVHLVIKRQH   81 (84)
T ss_dssp             CTTEEEEEEECSSCEEEEEEETTCBHHHHHHHHHHHHTCCGGGEEEEETTEECC-TTSBHHHHTCCTTCEEEEEECCCC
T ss_pred             CCCEEEEEEEcCCCcEEEEECCCCcHHHHHHHHHHHHCcCchhEEEEEeeeecc-ccCcHHHcCCCCCCEEEEEECCCC
Confidence            467899999556667899999999999999999999999999999999999997 899999999999999999988653

>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=99.59  E-value=8.6e-16  Score=120.85  Aligned_cols=70  Identities=17%  Similarity=0.152  Sum_probs=68.2

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEE
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLL  181 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv  181 (469)
                      |+|+|++..|+++.++|++++||.+||++|+++.|+|  +++|+|+|+|+.|+|+.+|++|+|++|++|+|.
T Consensus         2 i~i~vk~~~Gk~~~v~V~~~~tV~~lK~~I~~~~~i~--~~~q~Li~~Gk~L~d~~tL~~y~I~~gstl~L~   71 (73)
T d1m94a_           2 IEVVVNDRLGKKVRVKCLAEDSVGDFKKVLSLQIGTQ--PNKIVLQKGGSVLKDHISLEDYEVHDQTNLELY   71 (73)
T ss_dssp             EEEEEEETTTEEEEEEECTTSBHHHHHHHHHHHHCCT--TTSEEEESSSCEECTTSBHHHHTCCTTEEEEEE
T ss_pred             eEEEEECCCCCEEEEEECCcCcHHHHHHHHHHhhccc--ccEEEEEEEeEEecccCcHHHcCCCCCCEEEEE
Confidence            6899999999999999999999999999999999998  999999999999999999999999999999986

>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=99.58  E-value=1.8e-15  Score=122.08  Aligned_cols=76  Identities=21%  Similarity=0.322  Sum_probs=70.7

Q ss_pred             cceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeCCc
Q 012177          109 LQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKSAK  187 (469)
Q Consensus       109 ~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks~k  187 (469)
                      .|+|+|+|.++ ++.++|++++||++||++|++++|++  +++|+|+|+|++|+|+.+|++|+|++|++|||++|++.+
T Consensus         7 ~i~I~Vkt~~~-~~~~~V~~~~tV~~lK~~i~~~~gi~--~~~qrL~~~Gk~L~D~~tL~~y~i~~gsti~lv~r~~~~   82 (84)
T d1yqba1           7 LIKVTVKTPKD-KEDFSVTDTCTIQQLKEEISQRFKAH--PDQLVLIFAGKILKDPDSLAQCGVRDGLTVHLVIKRQHR   82 (84)
T ss_dssp             EEEEEEECSSC-EEEEEEETTCBHHHHHHHHHHHHTCC--GGGEEEEETTEECCTTSBHHHHTCCTTCEEEEEECCCCS
T ss_pred             EEEEEEEcCCC-cEEEEECCCCcHHHHHHHHHHHHCcC--chhEEEEEeeeeccccCcHHHcCCCCCCEEEEEECCCCC
Confidence            48999999765 58999999999999999999999998  999999999999999999999999999999999986653

>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=99.58  E-value=2.7e-15  Score=117.86  Aligned_cols=72  Identities=22%  Similarity=0.281  Sum_probs=67.4

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEee
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rk  184 (469)
                      |+|.|++. ++++.++|++++||.+||++|++..|+|  +++|+|+|+|++|+|+.+|++|+|+++++|||+.++
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-QDKWEVNVAPESTVLQFKEAINKANGIP--VANQRLIYSGKILKDDQTVESYHIQDGHSVHLVKSQ   73 (73)
T ss_dssp             EEEEEEET-TEEEEEEECTTCBHHHHHHHHHHHHCCC--GGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEECC
T ss_pred             EEEEEEeC-CeEEEEEECCCChHHHHHHHHHHHHCcC--hHHeEEEECCeEccCCCcHHHCCCCCCCEEEEEeeC
Confidence            67899975 5679999999999999999999999998  999999999999999999999999999999998764

>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=99.57  E-value=2.6e-15  Score=123.70  Aligned_cols=73  Identities=19%  Similarity=0.445  Sum_probs=68.9

Q ss_pred             EEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhC---CCCcceEEEEcCeecccCCccccccCccCccceeeeeecc
Q 012177           34 ILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNG---FFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLS  107 (469)
Q Consensus        34 M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~G---ip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLs  107 (469)
                      |+|+| ++.|++++++|++++||.+||++|+++.|   +|+++|+|+|+|+.|. |+.+|++|||.++++|+|+++.+
T Consensus         1 M~I~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~~~~i~~~~qrLi~~Gk~L~-d~~tL~~y~I~~~s~i~lv~~~~   77 (95)
T d1uela_           1 MQVTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILN-DDTALKEYKIDEKNFVVVMVTKP   77 (95)
T ss_dssp             CEEEEEETTCCEEEEECCTTSBHHHHHHHHHHHHCTTTCCTTTEEEEETTEECC-TTSBGGGGTCCSSSEEEEEESSC
T ss_pred             CEEEEEeCCCCEEEEEECCCccHHHHHHHHHhhhcccCCCccceEEEECCeEcc-CCCcHHHcCCCCCCEEEEEECCC
Confidence            89999 88999999999999999999999999876   8999999999999998 89999999999999999988754

>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=99.57  E-value=1.9e-15  Score=119.85  Aligned_cols=71  Identities=24%  Similarity=0.506  Sum_probs=68.0

Q ss_pred             CEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhC---CCCcceEEEEcCeecccCCccccccCccCccceeeee
Q 012177           33 SILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNG---FFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVL  104 (469)
Q Consensus        33 ~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~G---ip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~Lvl  104 (469)
                      +|+|+| +++|++++++|.+++||.+||++|+.+.|   +|+++|+|+|+|+.|. |+.+|++|||++++++++++
T Consensus         2 ~~~i~vk~l~g~~~~l~v~~~~TV~~lK~~i~~~~g~~~i~~~~qrLi~~Gk~L~-D~~tL~~y~I~~~s~i~~~v   76 (77)
T d1oqya4           2 AVTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILS-DDVPIRDYRIDEKNFVVVMV   76 (77)
T ss_dssp             CCCEEEEETTTEEEEECCCTTCBHHHHHHHHHHHTCSSSCCSTEEEEESSSSEEC-SSSBTTTTCCCTTSCEEEEE
T ss_pred             cEEEEEECCCCCEEEEEECCCCcHHHHHHHHHHhcCCCCCChHHEEeEECCcCcc-CCCcHHHcCCCCCCEEEEEE
Confidence            699999 89999999999999999999999999988   8999999999999998 89999999999999999876

>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=99.57  E-value=3.4e-15  Score=118.27  Aligned_cols=71  Identities=21%  Similarity=0.305  Sum_probs=67.6

Q ss_pred             EEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEE--cCeecccCCccccccCccCccceeeeeec
Q 012177           35 LIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVF--EGRELARSNSRVRDYGLADGNVLHLVLRL  106 (469)
Q Consensus        35 ~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf--~Gk~L~~D~~tL~dygI~~gstl~LvlrL  106 (469)
                      +|+| +++|++++++|.+++||.+||.+|+.+.|+|+++|+|+|  .|+.|. |+.+|++|||++|++|||+++-
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 DLTVKMLAGNEFQVSLSSSMSVSELKAQITQKIGVHAFQQRLAVHPSGVALQ-DRVPLASQGLGPGSTVLLVVDK   75 (76)
T ss_dssp             EEEEEESSSCEEEEECCSSCCHHHHHHHHHHHHCCCGGGEEEEEETTCCBCC-SSSCSGGGTCCTTCEEEEEECC
T ss_pred             EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHhccCCccEEEEEcCCCeecc-CCCcHHHcCCCCCCEEEEEEEC
Confidence            6899 899999999999999999999999999999999999999  699998 8999999999999999999864

>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=99.56  E-value=2.3e-15  Score=119.42  Aligned_cols=72  Identities=24%  Similarity=0.307  Sum_probs=68.3

Q ss_pred             cceeeeeeecceeEEEEeecCchHHHHHHHHHHhcC---CCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEE
Q 012177          109 LQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGR---EFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLV  182 (469)
Q Consensus       109 ~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~g---ip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~  182 (469)
                      .|+|+||+.+|+++.++|++++||.+||++|+++.|   +|  +++|+|+|+|++|+|+++|++|+|+++++|++++
T Consensus         2 ~~~i~vk~l~g~~~~l~v~~~~TV~~lK~~i~~~~g~~~i~--~~~qrLi~~Gk~L~D~~tL~~y~I~~~s~i~~~v   76 (77)
T d1oqya4           2 AVTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFP--VAGQKLIYAGKILSDDVPIRDYRIDEKNFVVVMV   76 (77)
T ss_dssp             CCCEEEEETTTEEEEECCCTTCBHHHHHHHHHHHTCSSSCC--STEEEEESSSSEECSSSBTTTTCCCTTSCEEEEE
T ss_pred             cEEEEEECCCCCEEEEEECCCCcHHHHHHHHHHhcCCCCCC--hHHEEeEECCcCccCCCcHHHcCCCCCCEEEEEE
Confidence            488999999999999999999999999999999987   55  9999999999999999999999999999999875

>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=99.55  E-value=3.3e-15  Score=124.50  Aligned_cols=89  Identities=16%  Similarity=0.072  Sum_probs=76.0

Q ss_pred             cCccCccceeeeeecc----ccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcc
Q 012177           92 YGLADGNVLHLVLRLS----DLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLI  167 (469)
Q Consensus        92 ygI~~gstl~LvlrLs----d~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL  167 (469)
                      |.....+.-.++.+..    ..++|+|++..|+++.++|++++||.+||++|+++.++|  +++|+|+|+|+.|+|+.+|
T Consensus         7 ~~~~~ss~~~~~p~~~~~~~~~i~V~V~~~~Gk~~~v~V~p~~TV~~LK~~I~~~~gip--~~~qrLi~~Gk~L~D~~tL   84 (100)
T d1uh6a_           7 HHHHHSSGASLVPRGSEGAATMIEVVCNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTR--WNKIVLKKWYTIFKDHVSL   84 (100)
T ss_dssp             CCCCCCCCCSSCCCCCSSCCCEEEEEEECSSSSCEEEEEETTSBHHHHHHHHHHHHCCC--GGGCEEEETTEECCSSCBH
T ss_pred             cccccCCcccccCCCCCCCCceEEEEEECCCCCEEEEEECCcChHHHHHHHHHHHHCCC--cceEEEEEEeecccCcCCH
Confidence            3444444444444432    236999999999999999999999999999999999998  9999999999999999999


Q ss_pred             cccCCCCCCEEEEEE
Q 012177          168 TDICKRNEAVIHLLV  182 (469)
Q Consensus       168 ~dy~I~~~svI~Lv~  182 (469)
                      ++|+|++|++|+|..
T Consensus        85 ~dygI~~GstI~L~~   99 (100)
T d1uh6a_          85 GDYEIHDGMNLELYY   99 (100)
T ss_dssp             HHHTCCTTEEEEEEC
T ss_pred             HHcCCCCCCEEEEEE
Confidence            999999999999964

>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=99.55  E-value=2.4e-14  Score=119.66  Aligned_cols=76  Identities=21%  Similarity=0.262  Sum_probs=69.5

Q ss_pred             CCCCCEEEEEEeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeee
Q 012177           29 LSNDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLR  105 (469)
Q Consensus        29 ~~~~~M~I~V~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~Lvlr  105 (469)
                      .....|+|+|...+..++++|++++||.+||.+|+.++|+++++|+|+|+|++|. |+.+|++|||++|++|||++|
T Consensus        28 ~~~~~i~V~Vk~~~~~~~i~V~~~~tV~~LK~~I~~~~gi~~~~qrLi~~Gk~L~-D~~tL~~~~I~~g~~I~lvlr  103 (103)
T d1j8ca_          28 AEPKIIKVTVKTPKEKEEFAVPENSSVQQFKEAISKRFKSQTDQLVLIFAGKILK-DQDTLIQHGIHDGLTVHLVIK  103 (103)
T ss_dssp             CCCCCEEEEEECSSCEEEEEECTTCCHHHHHHHHHHHHCSCSSSEEEEETTEEES-TTSCGGGTTCSSSEEEEEEEC
T ss_pred             CCCCeEEEEEECCCccEEEEECCCChHHHHHHHHHHHHCcCHHHeeeeeeeeccc-CCCcHHHcCCCCCCEEEEEEC
Confidence            3467899999444556899999999999999999999999999999999999998 899999999999999999975

>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=99.54  E-value=4.5e-15  Score=123.72  Aligned_cols=73  Identities=21%  Similarity=0.176  Sum_probs=69.0

Q ss_pred             CCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeee
Q 012177           31 NDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVL  104 (469)
Q Consensus        31 ~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~Lvl  104 (469)
                      ...|+|+| +..|+++.++|.+++||.+||++|++++|+|+++|+|+|+|++|. |+.+|++|||++|++|+|..
T Consensus        26 ~~~i~V~V~~~~Gk~~~v~V~p~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~-D~~tL~dygI~~GstI~L~~   99 (100)
T d1uh6a_          26 ATMIEVVCNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTRWNKIVLKKWYTIFK-DHVSLGDYEIHDGMNLELYY   99 (100)
T ss_dssp             CCEEEEEEECSSSSCEEEEEETTSBHHHHHHHHHHHHCCCGGGCEEEETTEECC-SSCBHHHHTCCTTEEEEEEC
T ss_pred             CceEEEEEECCCCCEEEEEECCcChHHHHHHHHHHHHCCCcceEEEEEEeeccc-CcCCHHHcCCCCCCEEEEEE
Confidence            45579999 778999999999999999999999999999999999999999998 89999999999999999874

>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=99.54  E-value=7e-15  Score=122.99  Aligned_cols=87  Identities=14%  Similarity=0.232  Sum_probs=75.9

Q ss_pred             CCCCCEEEEE-E----eCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeee
Q 012177           29 LSNDSILIFL-S----VGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLV  103 (469)
Q Consensus        29 ~~~~~M~I~V-~----l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~Lv  103 (469)
                      .....|.|+| .    +++.+++++|++++||.+||.+|+.+.|+|+++|+|+|+|++|.+|+.+|++|||++|++|+|+
T Consensus         3 ~~~~~m~itV~~~~~~~~~~t~~l~V~~~~tV~~LK~~Ie~~~gip~~~Q~Li~~Gk~L~dd~~tL~~~gI~~g~~i~l~   82 (102)
T d1v5oa_           3 SGSSGMLITVYCVRRDLTEVTFSLQVNPDFELSNFRVLCELESGVPAEEAQIVYMEQLLTDDHCSLGSYGLKDGDMVVLL   82 (102)
T ss_dssp             CCSCCEEEEEEECCCCCCCCEEEEEECTTCBHHHHHHHHHHHTCCCGGGBCEEETTEEECCSSSBHHHHTCCTTEEEEEC
T ss_pred             CCcCCEEEEEEecccCCCCCEEEEEECCcccHHHHHHHHHHHhCCCcceEEEEeCCeEeecccCCHHHcCCCCCCEEEEE
Confidence            3577899999 2    3588999999999999999999999999999999999999999757789999999999999999


Q ss_pred             eeccccceeeee
Q 012177          104 LRLSDLQAITVT  115 (469)
Q Consensus       104 lrLsd~m~I~Vk  115 (469)
                      .+.......-.+
T Consensus        83 ~r~~~~~~~~~~   94 (102)
T d1v5oa_          83 QKDNVGLRTPGR   94 (102)
T ss_dssp             BCCCCCCSSCCC
T ss_pred             ECCCCCCCCCCC
Confidence            887655444333

>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=99.52  E-value=6e-15  Score=118.71  Aligned_cols=75  Identities=21%  Similarity=0.349  Sum_probs=69.3

Q ss_pred             CCCCEEEEEEeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeee
Q 012177           30 SNDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLR  105 (469)
Q Consensus        30 ~~~~M~I~V~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~Lvlr  105 (469)
                      ..+.|+|+|+..+..++++|.+++||.+||++|++++|+|+++|+|+|+|+.|. |+.+|++|||++|++|||++|
T Consensus         7 ~~~~i~v~Vk~~~~~~~i~v~~~~tV~~lK~~I~~~~~v~~~~qrL~f~Gk~L~-d~~tL~~~gI~~gs~I~lv~r   81 (83)
T d1wx8a1           7 SSRIIRVSVKTPQDCHEFFLAENSNVRRFKKQISKYLHCNADRLVLIFTGKILR-DQDILSQRGILDGSTVHVVVR   81 (83)
T ss_dssp             CSCEEEEEEECSSSEEEEEEETTCCHHHHHHHHHHHTCSCTTTBCCEETTEECC-TTSCHHHHTCCTTEEEECCBC
T ss_pred             CCCeEEEEEEcCCCcEEEEECCCChHHHHHHHHHHHhCCChhHEEEEEEhhccc-cCCcHHHcCCCCCCEEEEEEe
Confidence            367799999555666799999999999999999999999999999999999998 889999999999999999886

>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=99.52  E-value=2.2e-15  Score=126.73  Aligned_cols=80  Identities=20%  Similarity=0.460  Sum_probs=74.1

Q ss_pred             CCCCCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceE---------------EEEcCeecccCCccccc
Q 012177           28 KLSNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQK---------------LVFEGRELARSNSRVRD   91 (469)
Q Consensus        28 ~~~~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~Qr---------------Lvf~Gk~L~~D~~tL~d   91 (469)
                      ++++..|+|+| +++|++++++|.+++||.+||.+|+++.++|+++|+               |+|.|+.|.+|+.+|.+
T Consensus         2 ssgss~M~v~Vk~~~G~~~~v~V~~~~TV~~LK~~I~~~~~ip~~~Qr~~~~~~~~~~~~~~~Li~~G~~L~d~~~tL~~   81 (105)
T d1v2ya_           2 SSGSSGMTVRVCKMDGEVMPVVVVQNATVLDLKKAIQRYVQLKQEREGGVQHISWSYVWRTYHLTSAGEKLTEDRKKLRD   81 (105)
T ss_dssp             CCCCCSEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHHHHHHHTTCCCCCCHHHHHTTEEEESSSCEECCSSSBHHH
T ss_pred             CCCCCcEEEEEEeCCCCEEEEEECCCChHHHHHHHHHHHHCcCHHHhcccccccccccccceEEEECCEECcccCCCHHH
Confidence            34588999999 889999999999999999999999999999999998               99999999855579999


Q ss_pred             cCccCccceeeeeecc
Q 012177           92 YGLADGNVLHLVLRLS  107 (469)
Q Consensus        92 ygI~~gstl~LvlrLs  107 (469)
                      |+|.+|++|||+.+++
T Consensus        82 ~gI~~g~~l~lv~r~~   97 (105)
T d1v2ya_          82 YGIRNRDEVSFIKKLG   97 (105)
T ss_dssp             HTCCSSEEEEEEECSC
T ss_pred             cCCCCCCEEEEEEecC
Confidence            9999999999998874

>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=99.51  E-value=9.3e-15  Score=118.51  Aligned_cols=68  Identities=28%  Similarity=0.513  Sum_probs=65.3

Q ss_pred             eCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeeccc
Q 012177           40 VGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSD  108 (469)
Q Consensus        40 l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd  108 (469)
                      ++|++++++|++++||++||++|++++|+|+++|+|+|+|+.|. |+.+|++|||++|++|||++|++|
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 LNGQVLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIK-DSNSLAYYNMANGAVIHLALKERG   86 (86)
T ss_dssp             CSSCEEEEEECTTSBHHHHHHHHHHHTCCCTTTEEEEETTEEEC-TTSBHHHHTCCTTEEEEEEESCCC
T ss_pred             cCCeEEEEEECCCChHHHHHHHHHhhhcCChHHEEEEeCCcCcC-CCCCHHHcCCCCCCEEEEEEecCC
Confidence            68999999999999999999999999999999999999999998 899999999999999999998764

>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=99.50  E-value=3.3e-14  Score=118.29  Aligned_cols=81  Identities=15%  Similarity=0.232  Sum_probs=72.2

Q ss_pred             ccccceeeeeeecceeE-EEEeecCchHHHHHHHHHHh-----cCCCCCCCceEEEECCEEcCCCCcccccCCCCCC---
Q 012177          106 LSDLQAITVTTVCGKVF-EFHVERGRNVGYVKQQIAKK-----GREFVDLKNQELICDGEELEDQRLITDICKRNEA---  176 (469)
Q Consensus       106 Lsd~m~I~Vkt~~Gk~~-~l~V~~~~TV~~LK~kI~~~-----~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~s---  176 (469)
                      ..+.|.|.||+.+|+.+ .+.+++++||.+||++|++.     .++|.++++|||+|+|+.|+|.++|.+|+|.+|+   
T Consensus         4 ~~~~i~I~~r~~~G~~i~~~~v~~s~TV~~lK~~I~~~~~~~k~~iP~~~~~qRLIf~Gk~L~D~~tL~dy~i~~g~~~~   83 (101)
T d1se9a_           4 VHNQLEIKFRLTDGSDIGPKAFPDATTVSALKETVISEWPREKENGPKTVKEVKLISAGKVLENSKTVKDYRSPVSNLAG   83 (101)
T ss_dssp             SCCCEEEEEEETTSCEEEEEEECTTCBHHHHHHHHHHHSCTTCSSSCCSGGGEEEEETTEECCTTSBGGGGSCCTTSCTT
T ss_pred             ccceEEEEEEeCCCCeecceecCccCHHHHHHHHHHHhccccccCCCCCcccEEEEECCeEecCCCCHHHcCCCCCCcCC
Confidence            35678999999999987 59999999999999999886     5666557899999999999999999999999997   


Q ss_pred             ---EEEEEEeeCC
Q 012177          177 ---VIHLLVRKSA  186 (469)
Q Consensus       177 ---vI~Lv~rks~  186 (469)
                         ++||++|.+.
T Consensus        84 ~~~tmHlVvrpp~   96 (101)
T d1se9a_          84 AVTTMHVIIQAPV   96 (101)
T ss_dssp             CCEEEEEEECCCS
T ss_pred             CceEEEEEeCCCC
Confidence               9999998654

>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=99.50  E-value=7.3e-15  Score=124.64  Aligned_cols=79  Identities=24%  Similarity=0.280  Sum_probs=71.1

Q ss_pred             CCCEEEEE-E-eCCeEEEEEeCC-CCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecc
Q 012177           31 NDSILIFL-S-VGGSVIPMRVME-SDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLS  107 (469)
Q Consensus        31 ~~~M~I~V-~-l~G~~~~l~V~~-sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLs  107 (469)
                      +.+++|+| . .+|++++++|.+ ++||.+||.+|++++|+|+++|+|+|.|+.|. |+.+|++|+|++|++|||++|++
T Consensus        27 ~~ti~V~v~~~~~G~~i~l~v~~~sdtV~~lK~~I~~~~gip~~~QrLi~~Gk~L~-D~~tL~~ynI~~gsti~L~lr~r  105 (111)
T d1we6a_          27 PATIRVSKPNENDGQFMEITVQSLSENVGSLKEKIAGEIQIPANKQKLSGKAGFLK-DNMSLAHYNVGAGEILTLSLRER  105 (111)
T ss_dssp             CEEEEECCTTCSSSCCEEEEESCSSSBHHHHHHHHHHHTTCCTTTSEEECSSSBCC-TTSBTTTTTCSSSCEEEEECSSC
T ss_pred             CEEEEEEcccCCCCeEEEEEecCCccHHHHHHHHHHHHHCCCccceEEEEeeEEcc-ccCCHHHcCCCCCCEEEEEeeCC
Confidence            44556666 3 468999999997 99999999999999999999999999999998 89999999999999999999998


Q ss_pred             ccc
Q 012177          108 DLQ  110 (469)
Q Consensus       108 d~m  110 (469)
                      ++-
T Consensus       106 GG~  108 (111)
T d1we6a_         106 SGP  108 (111)
T ss_dssp             CSS
T ss_pred             CCC
Confidence            763

>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=99.50  E-value=2.4e-14  Score=119.65  Aligned_cols=73  Identities=25%  Similarity=0.299  Sum_probs=68.3

Q ss_pred             ccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEe
Q 012177          108 DLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVR  183 (469)
Q Consensus       108 d~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~r  183 (469)
                      ..|+|+|++.++ ++.++|++++||.+||++|++.+|++  +++|+|+|+|++|+|+++|++|+|++|++|||++|
T Consensus        31 ~~i~V~Vk~~~~-~~~i~V~~~~tV~~LK~~I~~~~gi~--~~~qrLi~~Gk~L~D~~tL~~~~I~~g~~I~lvlr  103 (103)
T d1j8ca_          31 KIIKVTVKTPKE-KEEFAVPENSSVQQFKEAISKRFKSQ--TDQLVLIFAGKILKDQDTLIQHGIHDGLTVHLVIK  103 (103)
T ss_dssp             CCEEEEEECSSC-EEEEEECTTCCHHHHHHHHHHHHCSC--SSSEEEEETTEEESTTSCGGGTTCSSSEEEEEEEC
T ss_pred             CeEEEEEECCCc-cEEEEECCCChHHHHHHHHHHHHCcC--HHHeeeeeeeecccCCCcHHHcCCCCCCEEEEEEC
Confidence            358999999776 47899999999999999999999998  99999999999999999999999999999999886

>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=99.49  E-value=1.2e-14  Score=116.85  Aligned_cols=75  Identities=27%  Similarity=0.310  Sum_probs=69.2

Q ss_pred             cccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEee
Q 012177          107 SDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       107 sd~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rk  184 (469)
                      +..|+|+|++.+++ +.++|++++||.+||++|++..+++  +++|+|+|+|+.|+|+++|++|+|+++++|||++|.
T Consensus         8 ~~~i~v~Vk~~~~~-~~i~v~~~~tV~~lK~~I~~~~~v~--~~~qrL~f~Gk~L~d~~tL~~~gI~~gs~I~lv~r~   82 (83)
T d1wx8a1           8 SRIIRVSVKTPQDC-HEFFLAENSNVRRFKKQISKYLHCN--ADRLVLIFTGKILRDQDILSQRGILDGSTVHVVVRS   82 (83)
T ss_dssp             SCEEEEEEECSSSE-EEEEEETTCCHHHHHHHHHHHTCSC--TTTBCCEETTEECCTTSCHHHHTCCTTEEEECCBCC
T ss_pred             CCeEEEEEEcCCCc-EEEEECCCChHHHHHHHHHHHhCCC--hhHEEEEEEhhccccCCcHHHcCCCCCCEEEEEEeC
Confidence            34589999997655 6899999999999999999999988  999999999999999999999999999999998874

>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=99.48  E-value=2.5e-14  Score=119.57  Aligned_cols=80  Identities=13%  Similarity=0.136  Sum_probs=72.0

Q ss_pred             cccceeee----eeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcC-CCCcccccCCCCCCEEEEE
Q 012177          107 SDLQAITV----TTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELE-DQRLITDICKRNEAVIHLL  181 (469)
Q Consensus       107 sd~m~I~V----kt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~Le-D~~tL~dy~I~~~svI~Lv  181 (469)
                      +.+|.|+|    ++.++.+++++|+++.||.+||++|+.+.++|  +++|+|+|+|++|. |.++|.+|+|+++++|+|+
T Consensus         5 ~~~m~itV~~~~~~~~~~t~~l~V~~~~tV~~LK~~Ie~~~gip--~~~Q~Li~~Gk~L~dd~~tL~~~gI~~g~~i~l~   82 (102)
T d1v5oa_           5 SSGMLITVYCVRRDLTEVTFSLQVNPDFELSNFRVLCELESGVP--AEEAQIVYMEQLLTDDHCSLGSYGLKDGDMVVLL   82 (102)
T ss_dssp             SCCEEEEEEECCCCCCCCEEEEEECTTCBHHHHHHHHHHHTCCC--GGGBCEEETTEEECCSSSBHHHHTCCTTEEEEEC
T ss_pred             cCCEEEEEEecccCCCCCEEEEEECCcccHHHHHHHHHHHhCCC--cceEEEEeCCeEeecccCCHHHcCCCCCCEEEEE
Confidence            35688898    77889999999999999999999999999998  99999999999995 6789999999999999998


Q ss_pred             EeeCCcc
Q 012177          182 VRKSAKV  188 (469)
Q Consensus       182 ~rks~kv  188 (469)
                      .++....
T Consensus        83 ~r~~~~~   89 (102)
T d1v5oa_          83 QKDNVGL   89 (102)
T ss_dssp             BCCCCCC
T ss_pred             ECCCCCC
Confidence            7765543

>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=99.48  E-value=4.6e-14  Score=116.47  Aligned_cols=78  Identities=17%  Similarity=0.113  Sum_probs=69.4

Q ss_pred             cccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcC-CCCcccccCCCCCCEEEEEEeeC
Q 012177          107 SDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELE-DQRLITDICKRNEAVIHLLVRKS  185 (469)
Q Consensus       107 sd~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~Le-D~~tL~dy~I~~~svI~Lv~rks  185 (469)
                      +..|+|+||+++|+++.++|++++||.+||++|+   ..+  +++|+|+|+|++|. |.++|.+|+|.++++|||+++++
T Consensus         5 ~s~m~i~vK~l~~~~~~v~v~~~~TV~~lK~~i~---~~~--~~~qrLi~~Gk~L~dd~~tL~~y~i~~g~~v~l~~~~~   79 (95)
T d1wiaa_           5 SSGINVRLKFLNDTEELAVARPEDTVGTLKSKYF---PGQ--ESQMKLIYQGRLLQDPARTLSSLNITNNCVIHCHRSPP   79 (95)
T ss_dssp             CCSEEEEEEETTTEEEEEEECSSSBHHHHHHHHS---SST--TTTCEEEETTEECCCSSCBTTTTTCCTTEEEEEECCCC
T ss_pred             CCcEEEEEEcCCCCEEEEEECCcCcHHHHHHHHh---cCC--cceeEEEECCEEcccCCCCHHHcCCCCCCEEEEEEcCC
Confidence            4579999999999999999999999999999986   335  79999999999996 67899999999999999998876


Q ss_pred             Cccc
Q 012177          186 AKVR  189 (469)
Q Consensus       186 ~kv~  189 (469)
                      ....
T Consensus        80 ~~~~   83 (95)
T d1wiaa_          80 GAAV   83 (95)
T ss_dssp             CCCC
T ss_pred             CCCC
Confidence            5543

>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=99.47  E-value=5.2e-14  Score=120.20  Aligned_cols=79  Identities=16%  Similarity=0.209  Sum_probs=69.2

Q ss_pred             ccccceeeeeeecceeEEEEeecCchHHHHHHHHH--------HhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCE
Q 012177          106 LSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIA--------KKGREFVDLKNQELICDGEELEDQRLITDICKRNEAV  177 (469)
Q Consensus       106 Lsd~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~--------~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~sv  177 (469)
                      ..+.|.|.|++++|+++.+.|++++||.+||++|.        ++.+++  +++|||+|.|+.|+|.++|.+|+|.++++
T Consensus        13 ~~~~i~i~v~~l~Gk~~~~~v~p~~TV~~lK~~I~~~~p~~~~e~~~~~--~~~qRLiy~Gk~L~D~~tL~~~~i~~g~~   90 (116)
T d1wgha_          13 PADMINLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSS--PNILRLIYQGRFLHGNVTLGALKLPFGKT   90 (116)
T ss_dssp             CSSSEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHSSSCCSSCCCCCC--TTTEEEEETTEEECSSCBTTTTTCCSSCE
T ss_pred             CCCeEEEEEEEcCCCEEEEEECCcchHHHHHHHHHhhcccccccccCCC--hHHeEEEECCEEecCCCCHHHcCCCCCCE
Confidence            35668999999999999999999999999999995        445555  99999999999999999999999999986


Q ss_pred             --EEEEEeeCC
Q 012177          178 --IHLLVRKSA  186 (469)
Q Consensus       178 --I~Lv~rks~  186 (469)
                        |||++|+..
T Consensus        91 ~~lhlv~r~~~  101 (116)
T d1wgha_          91 TVMHLVARETL  101 (116)
T ss_dssp             EEEEEEECSSC
T ss_pred             EEEEEEeCCCC
Confidence              677766543

>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=99.47  E-value=5.4e-14  Score=120.08  Aligned_cols=77  Identities=23%  Similarity=0.288  Sum_probs=70.1

Q ss_pred             CCCCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHH--------HHHhCCCCcceEEEEcCeecccCCccccccCccCccc
Q 012177           29 LSNDSILIFL-SVGGSVIPMRVMESDSIASVKLRI--------QSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNV   99 (469)
Q Consensus        29 ~~~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kI--------q~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gst   99 (469)
                      .+.+.|+|+| +++|++++++|.+++||.+||++|        +++.++++++|||+|.|+.|. |+.+|.+|+|.+|++
T Consensus        12 ~~~~~i~i~v~~l~Gk~~~~~v~p~~TV~~lK~~I~~~~p~~~~e~~~~~~~~qRLiy~Gk~L~-D~~tL~~~~i~~g~~   90 (116)
T d1wgha_          12 VPADMINLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLH-GNVTLGALKLPFGKT   90 (116)
T ss_dssp             CCSSSEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHSSSCCSSCCCCCCTTTEEEEETTEEEC-SSCBTTTTTCCSSCE
T ss_pred             CCCCeEEEEEEEcCCCEEEEEECCcchHHHHHHHHHhhcccccccccCCChHHeEEEECCEEec-CCCCHHHcCCCCCCE
Confidence            3578899999 889999999999999999999999        678999999999999999998 999999999999986


Q ss_pred             --eeeeeec
Q 012177          100 --LHLVLRL  106 (469)
Q Consensus       100 --l~LvlrL  106 (469)
                        |||++|.
T Consensus        91 ~~lhlv~r~   99 (116)
T d1wgha_          91 TVMHLVARE   99 (116)
T ss_dssp             EEEEEEECS
T ss_pred             EEEEEEeCC
Confidence              6666663

>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=99.46  E-value=9.5e-14  Score=115.48  Aligned_cols=76  Identities=24%  Similarity=0.371  Sum_probs=69.6

Q ss_pred             CCCEEEEE-EeCCeEE-EEEeCCCCcHHHHHHHHHHH-----hCCC--CcceEEEEcCeecccCCccccccCccCcc---
Q 012177           31 NDSILIFL-SVGGSVI-PMRVMESDSIASVKLRIQSY-----NGFF--VKKQKLVFEGRELARSNSRVRDYGLADGN---   98 (469)
Q Consensus        31 ~~~M~I~V-~l~G~~~-~l~V~~sdTV~~LK~kIq~~-----~Gip--~~~QrLvf~Gk~L~~D~~tL~dygI~~gs---   98 (469)
                      .+.|.|++ .++|+.+ ++.|.+++||.+||++|++.     .|+|  +++|||+|.|+.|. |+.+|++|+|..|.   
T Consensus         5 ~~~i~I~~r~~~G~~i~~~~v~~s~TV~~lK~~I~~~~~~~k~~iP~~~~~qRLIf~Gk~L~-D~~tL~dy~i~~g~~~~   83 (101)
T d1se9a_           5 HNQLEIKFRLTDGSDIGPKAFPDATTVSALKETVISEWPREKENGPKTVKEVKLISAGKVLE-NSKTVKDYRSPVSNLAG   83 (101)
T ss_dssp             CCCEEEEEEETTSCEEEEEEECTTCBHHHHHHHHHHHSCTTCSSSCCSGGGEEEEETTEECC-TTSBGGGGSCCTTSCTT
T ss_pred             cceEEEEEEeCCCCeecceecCccCHHHHHHHHHHHhccccccCCCCCcccEEEEECCeEec-CCCCHHHcCCCCCCcCC
Confidence            67899999 8889876 79999999999999999875     7888  78999999999998 89999999999997   


Q ss_pred             ---ceeeeeecc
Q 012177           99 ---VLHLVLRLS  107 (469)
Q Consensus        99 ---tl~LvlrLs  107 (469)
                         ++||++|.+
T Consensus        84 ~~~tmHlVvrpp   95 (101)
T d1se9a_          84 AVTTMHVIIQAP   95 (101)
T ss_dssp             CCEEEEEEECCC
T ss_pred             CceEEEEEeCCC
Confidence               999999875

>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=99.46  E-value=6.5e-14  Score=113.42  Aligned_cols=66  Identities=24%  Similarity=0.299  Sum_probs=63.8

Q ss_pred             ecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEee
Q 012177          117 VCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       117 ~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rk  184 (469)
                      ++|++++++|++++||++||++|+++.++|  +++|+|+|+|+.|+|+++|++|+|+++++|||++|.
T Consensus        19 L~G~~~~l~v~~~~tV~~lK~~I~~~~~ip--~~~q~Li~~Gk~L~D~~tL~dY~I~~gsti~l~~r~   84 (86)
T d1zkha1          19 LNGQVLVFTLPLTDQVSVIKVKIHEATGMP--AGKQKLQYEGIFIKDSNSLAYYNMANGAVIHLALKE   84 (86)
T ss_dssp             CSSCEEEEEECTTSBHHHHHHHHHHHTCCC--TTTEEEEETTEEECTTSBHHHHTCCTTEEEEEEESC
T ss_pred             cCCeEEEEEECCCChHHHHHHHHHhhhcCC--hHHEEEEeCCcCcCCCCCHHHcCCCCCCEEEEEEec
Confidence            689999999999999999999999999998  999999999999999999999999999999999884

>d1wiaa_ d.15.1.1 (A:) Ubiquitin-like protein bab25500 (2010008E23Rik) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein bab25500 (2010008E23Rik)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.46  E-value=9e-14  Score=114.66  Aligned_cols=78  Identities=14%  Similarity=0.165  Sum_probs=70.0

Q ss_pred             CCCCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecc
Q 012177           29 LSNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLS  107 (469)
Q Consensus        29 ~~~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLs  107 (469)
                      ..+..|+|+| +++|+.+.++|++++||.+||.+|+.   +++.+|+|+|.|+.|.+|..+|.+|+|.+|++|||+++.+
T Consensus         3 ~~~s~m~i~vK~l~~~~~~v~v~~~~TV~~lK~~i~~---~~~~~qrLi~~Gk~L~dd~~tL~~y~i~~g~~v~l~~~~~   79 (95)
T d1wiaa_           3 SGSSGINVRLKFLNDTEELAVARPEDTVGTLKSKYFP---GQESQMKLIYQGRLLQDPARTLSSLNITNNCVIHCHRSPP   79 (95)
T ss_dssp             CCCCSEEEEEEETTTEEEEEEECSSSBHHHHHHHHSS---STTTTCEEEETTEECCCSSCBTTTTTCCTTEEEEEECCCC
T ss_pred             CCCCcEEEEEEcCCCCEEEEEECCcCcHHHHHHHHhc---CCcceeEEEECCEEcccCCCCHHHcCCCCCCEEEEEEcCC
Confidence            4578999999 88999999999999999999999874   5789999999999998567899999999999999998765


Q ss_pred             cc
Q 012177          108 DL  109 (469)
Q Consensus       108 d~  109 (469)
                      +.
T Consensus        80 ~~   81 (95)
T d1wiaa_          80 GA   81 (95)
T ss_dssp             CC
T ss_pred             CC
Confidence            43

>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=99.43  E-value=1.5e-14  Score=121.49  Aligned_cols=79  Identities=20%  Similarity=0.245  Sum_probs=72.3

Q ss_pred             cccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceE---------------EEECCEEcCCC-Cccccc
Q 012177          107 SDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQE---------------LICDGEELEDQ-RLITDI  170 (469)
Q Consensus       107 sd~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~Qr---------------Lif~Gk~LeD~-~tL~dy  170 (469)
                      +..|.|+|++.+|+++.++|+++.||.+||++|++..++|  +++|+               |+|+|++|.|+ .+|.+|
T Consensus         5 ss~M~v~Vk~~~G~~~~v~V~~~~TV~~LK~~I~~~~~ip--~~~Qr~~~~~~~~~~~~~~~Li~~G~~L~d~~~tL~~~   82 (105)
T d1v2ya_           5 SSGMTVRVCKMDGEVMPVVVVQNATVLDLKKAIQRYVQLK--QEREGGVQHISWSYVWRTYHLTSAGEKLTEDRKKLRDY   82 (105)
T ss_dssp             CCSEEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHHHH--HHHTTCCCCCCHHHHHTTEEEESSSCEECCSSSBHHHH
T ss_pred             CCcEEEEEEeCCCCEEEEEECCCChHHHHHHHHHHHHCcC--HHHhcccccccccccccceEEEECCEECcccCCCHHHc
Confidence            4679999999999999999999999999999999999998  88887               99999999765 689999


Q ss_pred             CCCCCCEEEEEEeeCCc
Q 012177          171 CKRNEAVIHLLVRKSAK  187 (469)
Q Consensus       171 ~I~~~svI~Lv~rks~k  187 (469)
                      +|+++++|||+.|...+
T Consensus        83 gI~~g~~l~lv~r~~~~   99 (105)
T d1v2ya_          83 GIRNRDEVSFIKKLGQK   99 (105)
T ss_dssp             TCCSSEEEEEEECSCSC
T ss_pred             CCCCCCEEEEEEecCCC
Confidence            99999999999875543

>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=99.41  E-value=2.2e-13  Score=108.99  Aligned_cols=75  Identities=16%  Similarity=0.280  Sum_probs=68.3

Q ss_pred             CEEEEEEeCCeEEEEEe-----CCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecc
Q 012177           33 SILIFLSVGGSVIPMRV-----MESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLS  107 (469)
Q Consensus        33 ~M~I~V~l~G~~~~l~V-----~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLs  107 (469)
                      .|.|+|+..+..++++|     ++++||++||++|++++|+|+++|+|+|+|+.|.+|+.+|++|||++|++|+|+.+.+
T Consensus         1 gi~i~V~~~~~~~~i~v~~~~~~~~~Tv~~LK~~I~~~tgvp~~~QkL~~~G~~L~~d~~tL~~~gi~~g~~i~lv~~~~   80 (81)
T d1wxva1           1 GLTVTVTHSNEKHDLHVTSQQGSSEPVVQDLAQVVEEVIGVPQSFQKLIFKGKSLKEMETPLSALGIQDGCRVMLIGKKN   80 (81)
T ss_dssp             SEEEEEECSSSEEEEEECCCSSSSSCBHHHHHHHHHHHTCCCTTTCEEEETTEEECCSSSBHHHHTCCSSEEEEEESCCS
T ss_pred             CEEEEEEECCeeEEEEEecCCCCCccHHHHHHHHHHHHHCcCHHHEEeeecCeEeCcCCCChHHCCCCCCCEEEEEEecC
Confidence            37889988889999998     4688999999999999999999999999999997677899999999999999987653

>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=99.39  E-value=3.1e-13  Score=110.09  Aligned_cols=78  Identities=15%  Similarity=0.318  Sum_probs=71.5

Q ss_pred             CCCCCEEEEEEeCCeEEEE-EeCCCCcHHHHHHHHHHHhCCCCcceEEE---EcCeecccCCccccccCccCccceeeee
Q 012177           29 LSNDSILIFLSVGGSVIPM-RVMESDSIASVKLRIQSYNGFFVKKQKLV---FEGRELARSNSRVRDYGLADGNVLHLVL  104 (469)
Q Consensus        29 ~~~~~M~I~V~l~G~~~~l-~V~~sdTV~~LK~kIq~~~Gip~~~QrLv---f~Gk~L~~D~~tL~dygI~~gstl~Lvl  104 (469)
                      .++..|.|+|+..++.+.+ +|.+++||.+||++|++++|+|+++|+|+   |.|+.|. |+.+|.+|+|++|++|+|+.
T Consensus         3 s~s~~~~i~Vk~~~~~~~i~~v~~~~tV~~LK~~i~~~t~vp~~~QkLi~~~~~Gk~L~-D~~tL~~~~i~~g~~i~lv~   81 (90)
T d1v5ta_           3 SGSSGLPIIVKWGGQEYSVTTLSEDDTVLDLKQFLKTLTGVLPERQKLLGLKVKGKPAE-NDVKLGALKLKPNTKIMMMG   81 (90)
T ss_dssp             CCCCSCCEEEEETTEEEEECSCCSSSBHHHHHHHHHHHTCCCTTTCEEESCEETTEECC-TTSBHHHHTCCTTEEEEEEC
T ss_pred             CCCCcEEEEEEECCeEEEEEEeCCCCcHHHHHHHHHHHHcCCHHHhhhhhhccCCcCCC-CcCcHHHcCCCCCCEEEEEe
Confidence            3578899999888888888 69999999999999999999999999999   6899998 89999999999999999987


Q ss_pred             ecc
Q 012177          105 RLS  107 (469)
Q Consensus       105 rLs  107 (469)
                      +..
T Consensus        82 s~~   84 (90)
T d1v5ta_          82 TRE   84 (90)
T ss_dssp             CCS
T ss_pred             eCC
Confidence            643

>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=99.39  E-value=2.2e-13  Score=112.38  Aligned_cols=76  Identities=9%  Similarity=0.110  Sum_probs=68.3

Q ss_pred             CCCCCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeec
Q 012177           29 LSNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRL  106 (469)
Q Consensus        29 ~~~~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrL  106 (469)
                      ..+..|+|+| ...++.+.++|.+++||.+||++|++++|+|+++|+|+|.|+.|. |+ +|++|||++|++|+|+.+.
T Consensus         3 s~s~~~~I~VK~~~~~~~~v~v~~~~tV~~lK~~i~~~~gvp~~~QkLi~~Gk~L~-d~-tL~~~gi~~g~~i~lv~t~   79 (96)
T d1wgga_           3 SGSSGYSVTVKWGKEKFEGVELNTDEPPMVFKAQLFALTGVQPARQKVMVKGGTLK-DD-DWGNIKMKNGMTVLMMGSA   79 (96)
T ss_dssp             SCCCEEEEEEEETTEEEEEEEEESSSCHHHHHHHHHHHTCCCTTTSCCEETTEECC-SS-CCCSCCCCSSCEEECCCCC
T ss_pred             CCCCceEEEEEeCCCCEEEEEECCCCcHHHHHHHhhhhcCccceeeEEeecCcccC-CC-cHHHCCCCCCCEEEEEeeC
Confidence            3578899999 556666789999999999999999999999999999999999998 55 7999999999999998653

>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=99.39  E-value=2.8e-13  Score=111.79  Aligned_cols=77  Identities=17%  Similarity=0.076  Sum_probs=70.4

Q ss_pred             cccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeCC
Q 012177          107 SDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKSA  186 (469)
Q Consensus       107 sd~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks~  186 (469)
                      +..++|.||+.+++.+.++|++++||.+||++|++..++|  +++|+|+|+|+.|+|. +|++|+|+++++|+|+..+.+
T Consensus         5 s~~~~I~VK~~~~~~~~v~v~~~~tV~~lK~~i~~~~gvp--~~~QkLi~~Gk~L~d~-tL~~~gi~~g~~i~lv~t~~~   81 (96)
T d1wgga_           5 SSGYSVTVKWGKEKFEGVELNTDEPPMVFKAQLFALTGVQ--PARQKVMVKGGTLKDD-DWGNIKMKNGMTVLMMGSADA   81 (96)
T ss_dssp             CCEEEEEEEETTEEEEEEEEESSSCHHHHHHHHHHHTCCC--TTTSCCEETTEECCSS-CCCSCCCCSSCEEECCCCCCC
T ss_pred             CCceEEEEEeCCCCEEEEEECCCCcHHHHHHHhhhhcCcc--ceeeEEeecCcccCCC-cHHHCCCCCCCEEEEEeeCCc
Confidence            4568999999999888999999999999999999999998  9999999999999986 799999999999999765444

>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=99.38  E-value=3.7e-13  Score=111.90  Aligned_cols=70  Identities=7%  Similarity=-0.033  Sum_probs=65.1

Q ss_pred             eeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeCC
Q 012177          115 TTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKSA  186 (469)
Q Consensus       115 kt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks~  186 (469)
                      +...|+++.++|+.++||.+||++|+++.+++  +++|+|+|+|+.|+|+++|.+|+|+++++|+++..+..
T Consensus        25 ~~~~g~~~~lev~~~~TV~~LK~~I~~~~gi~--~~~qkLi~~Gk~L~d~~tL~~~gI~~~s~i~vi~~~~~   94 (100)
T d1wjua_          25 RLKKDRKNLLETRLHITGRELRSKIAETFGLQ--ENYIKIVINKKQLQLGKTLEEQGVAHNVKAMVLELKQS   94 (100)
T ss_dssp             TTCCSSSEEEEEESSSBHHHHHHHHHHHTTCC--STTCEEEETTEECCTTSBHHHHTCCSSEEEEEECCCCC
T ss_pred             ccCCCeEEEEEECCCcHHHHHHHHHHHHHCCC--CeeEEEEEcccCcCCCcCHHHcCCCCCCEEEEEEcCCC
Confidence            55679999999999999999999999999998  99999999999999999999999999999998866544

>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=99.37  E-value=3.5e-13  Score=110.96  Aligned_cols=75  Identities=15%  Similarity=0.230  Sum_probs=69.8

Q ss_pred             CCCCEEEEEEeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeec
Q 012177           30 SNDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRL  106 (469)
Q Consensus        30 ~~~~M~I~V~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrL  106 (469)
                      ..+.|.|.|..++++++++|.+++||.+||++|++++|+|+++|+|+|.|+ |. |+.+|++|+|+++++|+|+.+.
T Consensus        14 ~~~~i~v~V~~~~k~~~i~v~~~~TV~~LK~~I~~~tgvp~~~q~Li~~g~-l~-D~~tL~~~~I~~gs~i~lvgs~   88 (95)
T d1v86a_          14 GKELVDLKIIWNKTKHDVKVPLDSTGSELKQKIHSITGLPPAMQKVMYKGL-VP-EDKTLREIKVTSGAKIMVVGST   88 (95)
T ss_dssp             CCCCEEEEEEETTEEEEEEECTTSBHHHHHHHHHHHHCSCSTTCCCBSSSB-CC-SSSBHHHHCCCTTEEEEECCSS
T ss_pred             CccEEEEEEEECCEEEEEEECCCCcHHHHHHHHHHHhCCChhHEEEEeccc-cc-CCCcHHHCCCCCCCEEEEEecC
Confidence            367899999889999999999999999999999999999999999999997 87 8899999999999999998654

>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=99.36  E-value=7.7e-13  Score=108.53  Aligned_cols=77  Identities=25%  Similarity=0.354  Sum_probs=65.1

Q ss_pred             ccceeeeeeecce--eEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCC--CEEEEEEe
Q 012177          108 DLQAITVTTVCGK--VFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNE--AVIHLLVR  183 (469)
Q Consensus       108 d~m~I~Vkt~~Gk--~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~--svI~Lv~r  183 (469)
                      ..|+|+|++.+++  .+++++++++||.+||++|++..+...|+++|||+|+|+.|+|+.+|.||.+..+  .+|||+.+
T Consensus         6 ~~i~l~Ik~~~~~~~~~~~~v~~~~TV~~LK~~I~~~~~~~~~~~~qrLIy~Gk~L~D~~~L~d~~~~~~~~~viHLV~~   85 (93)
T d1wgda_           6 SGVTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLLDHQCLRDLLPKQEKRHVLHLVCN   85 (93)
T ss_dssp             CCCEEEEECSSSSCCCEEEECCTTSCHHHHHHHHHHHSTTCCCTTTCEEEETTEECCSSSCHHHHSCSSSCSEEEEEECC
T ss_pred             CcEEEEEECCCCCceeEEEEcCCCCcHHHHHHHHHHHcCCCCChHHEEEEECCeEccCCCCHHHhCcccCCCCEEEEEec
Confidence            4588999998765  4889999999999999999999762223999999999999999999999976544  59999865


Q ss_pred             e
Q 012177          184 K  184 (469)
Q Consensus       184 k  184 (469)
                      .
T Consensus        86 ~   86 (93)
T d1wgda_          86 V   86 (93)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.36  E-value=6.9e-13  Score=110.76  Aligned_cols=72  Identities=18%  Similarity=0.229  Sum_probs=62.2

Q ss_pred             EEE--EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCc-------cceeeeeec
Q 012177           36 IFL--SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADG-------NVLHLVLRL  106 (469)
Q Consensus        36 I~V--~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~g-------stl~LvlrL  106 (469)
                      |||  ...+.++.++|.+++||.+||++|++++|+++++|+|+|+|++|. |+.+|++|||.++       ++++|.++.
T Consensus         2 ifv~i~~~k~Ti~l~v~~~~TV~~lK~~I~~~~gip~~~QrLi~~Gk~L~-D~~TL~dYgI~~~~~~~~~~~~~~l~~~~   80 (103)
T d2c9wb1           2 VFLMIRRHKTTIFTDAKESSTVFELKRIVEGILKRPPDEQRLYKDDQLLD-DGKTLGECGFTSQTARPQAPATVGLAFRA   80 (103)
T ss_dssp             EEEEEEEBTEEEEEEECTTSBHHHHHHHHHHHHCCCGGGEEEEETTEECC-TTSBHHHHTCCTTTSBTTBCEEEEEEEEE
T ss_pred             EEEEEeCCCEEEEEEeCCCCcHHHHHHHHHHHhCCCcccEEEEECCEEcC-CCCCHHHcCCCcccccccCCcEEEEEEec
Confidence            565  456678999999999999999999999999999999999999998 8999999999654       466666665


Q ss_pred             cc
Q 012177          107 SD  108 (469)
Q Consensus       107 sd  108 (469)
                      .+
T Consensus        81 ~~   82 (103)
T d2c9wb1          81 DD   82 (103)
T ss_dssp             TT
T ss_pred             CC
Confidence            54

>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=99.36  E-value=3.2e-13  Score=114.37  Aligned_cols=72  Identities=21%  Similarity=0.256  Sum_probs=65.2

Q ss_pred             eeeeeee-cceeEEEEeec-CchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEee
Q 012177          111 AITVTTV-CGKVFEFHVER-GRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRK  184 (469)
Q Consensus       111 ~I~Vkt~-~Gk~~~l~V~~-~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rk  184 (469)
                      +|.|++. +|+++++.|.+ ++||.+||++|+++.++|  +++|+|+|+|+.|+|+++|++|+|+++++|||++|.
T Consensus        31 ~V~v~~~~~G~~i~l~v~~~sdtV~~lK~~I~~~~gip--~~~QrLi~~Gk~L~D~~tL~~ynI~~gsti~L~lr~  104 (111)
T d1we6a_          31 RVSKPNENDGQFMEITVQSLSENVGSLKEKIAGEIQIP--ANKQKLSGKAGFLKDNMSLAHYNVGAGEILTLSLRE  104 (111)
T ss_dssp             EECCTTCSSSCCEEEEESCSSSBHHHHHHHHHHHTTCC--TTTSEEECSSSBCCTTSBTTTTTCSSSCEEEEECSS
T ss_pred             EEEcccCCCCeEEEEEecCCccHHHHHHHHHHHHHCCC--ccceEEEEeeEEccccCCHHHcCCCCCCEEEEEeeC
Confidence            3444443 69999999987 899999999999999988  999999999999999999999999999999999883

>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=99.32  E-value=5.2e-13  Score=111.01  Aligned_cols=75  Identities=13%  Similarity=0.112  Sum_probs=68.4

Q ss_pred             CCCCEEEEEE---eCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeee
Q 012177           30 SNDSILIFLS---VGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLR  105 (469)
Q Consensus        30 ~~~~M~I~V~---l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~Lvlr  105 (469)
                      ...+|+|+|.   ..|++++++|.+++||.+||.+|+++.|+++.+|+|+|.|+.|. |+.+|.+|+|+++++|+++..
T Consensus        14 g~ati~V~~~~~~~~g~~~~lev~~~~TV~~LK~~I~~~~gi~~~~qkLi~~Gk~L~-d~~tL~~~gI~~~s~i~vi~~   91 (100)
T d1wjua_          14 GIATIEVFLPPRLKKDRKNLLETRLHITGRELRSKIAETFGLQENYIKIVINKKQLQ-LGKTLEEQGVAHNVKAMVLEL   91 (100)
T ss_dssp             CEEEEEEECCTTTCCSSSEEEEEESSSBHHHHHHHHHHHTTCCSTTCEEEETTEECC-TTSBHHHHTCCSSEEEEEECC
T ss_pred             ceEEEEEEEeeccCCCeEEEEEECCCcHHHHHHHHHHHHHCCCCeeEEEEEcccCcC-CCcCHHHcCCCCCCEEEEEEc
Confidence            3557888882   47899999999999999999999999999999999999999998 899999999999999987654

>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=99.29  E-value=2e-12  Score=105.94  Aligned_cols=78  Identities=18%  Similarity=0.235  Sum_probs=66.7

Q ss_pred             CCCCCEEEEE-EeCC--eEEEEEeCCCCcHHHHHHHHHHHhC--CCCcceEEEEcCeecccCCccccccCccC--cccee
Q 012177           29 LSNDSILIFL-SVGG--SVIPMRVMESDSIASVKLRIQSYNG--FFVKKQKLVFEGRELARSNSRVRDYGLAD--GNVLH  101 (469)
Q Consensus        29 ~~~~~M~I~V-~l~G--~~~~l~V~~sdTV~~LK~kIq~~~G--ip~~~QrLvf~Gk~L~~D~~tL~dygI~~--gstl~  101 (469)
                      .....|+|+| +.++  ..++++|++++||.+||++|+++.+  +|+++|||+|.|+.|. |+.+|++|.+..  +.+||
T Consensus         3 sgs~~i~l~Ik~~~~~~~~~~~~v~~~~TV~~LK~~I~~~~~~~~~~~~qrLIy~Gk~L~-D~~~L~d~~~~~~~~~viH   81 (93)
T d1wgda_           3 SGSSGVTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLL-DHQCLRDLLPKQEKRHVLH   81 (93)
T ss_dssp             CCSCCCEEEEECSSSSCCCEEEECCTTSCHHHHHHHHHHHSTTCCCTTTCEEEETTEECC-SSSCHHHHSCSSSCSEEEE
T ss_pred             CCCCcEEEEEECCCCCceeEEEEcCCCCcHHHHHHHHHHHcCCCCChHHEEEEECCeEcc-CCCCHHHhCcccCCCCEEE
Confidence            3467799999 5554  4599999999999999999999954  9999999999999998 999999997654  45999


Q ss_pred             eeeecc
Q 012177          102 LVLRLS  107 (469)
Q Consensus       102 LvlrLs  107 (469)
                      |+++..
T Consensus        82 LV~~~~   87 (93)
T d1wgda_          82 LVCNVK   87 (93)
T ss_dssp             EECCCC
T ss_pred             EEecCC
Confidence            998764

>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=99.29  E-value=2.3e-12  Score=104.80  Aligned_cols=77  Identities=16%  Similarity=0.179  Sum_probs=69.1

Q ss_pred             cccceeeeeeecceeEEE-EeecCchHHHHHHHHHHhcCCCCCCCceEEE---ECCEEcCCCCcccccCCCCCCEEEEEE
Q 012177          107 SDLQAITVTTVCGKVFEF-HVERGRNVGYVKQQIAKKGREFVDLKNQELI---CDGEELEDQRLITDICKRNEAVIHLLV  182 (469)
Q Consensus       107 sd~m~I~Vkt~~Gk~~~l-~V~~~~TV~~LK~kI~~~~gip~~~e~QrLi---f~Gk~LeD~~tL~dy~I~~~svI~Lv~  182 (469)
                      +..|.|+|+. .|+.+.+ +|++++||.+||++|+++.++|  +++|+|+   |.|+.|+|+.+|.+|+|+++++|+|+.
T Consensus         5 s~~~~i~Vk~-~~~~~~i~~v~~~~tV~~LK~~i~~~t~vp--~~~QkLi~~~~~Gk~L~D~~tL~~~~i~~g~~i~lv~   81 (90)
T d1v5ta_           5 SSGLPIIVKW-GGQEYSVTTLSEDDTVLDLKQFLKTLTGVL--PERQKLLGLKVKGKPAENDVKLGALKLKPNTKIMMMG   81 (90)
T ss_dssp             CCSCCEEEEE-TTEEEEECSCCSSSBHHHHHHHHHHHTCCC--TTTCEEESCEETTEECCTTSBHHHHTCCTTEEEEEEC
T ss_pred             CCcEEEEEEE-CCeEEEEEEeCCCCcHHHHHHHHHHHHcCC--HHHhhhhhhccCCcCCCCcCcHHHcCCCCCCEEEEEe
Confidence            4578999996 5666776 7999999999999999999998  9999999   699999999999999999999999987


Q ss_pred             eeCC
Q 012177          183 RKSA  186 (469)
Q Consensus       183 rks~  186 (469)
                      ++.+
T Consensus        82 s~~~   85 (90)
T d1v5ta_          82 TRES   85 (90)
T ss_dssp             CCSS
T ss_pred             eCCC
Confidence            7554

>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=99.28  E-value=3.7e-12  Score=101.73  Aligned_cols=74  Identities=19%  Similarity=0.192  Sum_probs=65.4

Q ss_pred             cceeeeeeecceeEEEEe-----ecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcC-CCCcccccCCCCCCEEEEEE
Q 012177          109 LQAITVTTVCGKVFEFHV-----ERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELE-DQRLITDICKRNEAVIHLLV  182 (469)
Q Consensus       109 ~m~I~Vkt~~Gk~~~l~V-----~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~Le-D~~tL~dy~I~~~svI~Lv~  182 (469)
                      +|+|.|+. .++.+.++|     +++.||++||++|+...|+|  +++|+|+|+|++|. |.++|++|+|+++++|+|+.
T Consensus         1 gi~i~V~~-~~~~~~i~v~~~~~~~~~Tv~~LK~~I~~~tgvp--~~~QkL~~~G~~L~~d~~tL~~~gi~~g~~i~lv~   77 (81)
T d1wxva1           1 GLTVTVTH-SNEKHDLHVTSQQGSSEPVVQDLAQVVEEVIGVP--QSFQKLIFKGKSLKEMETPLSALGIQDGCRVMLIG   77 (81)
T ss_dssp             SEEEEEEC-SSSEEEEEECCCSSSSSCBHHHHHHHHHHHTCCC--TTTCEEEETTEEECCSSSBHHHHTCCSSEEEEEES
T ss_pred             CEEEEEEE-CCeeEEEEEecCCCCCccHHHHHHHHHHHHHCcC--HHHEEeeecCeEeCcCCCChHHCCCCCCCEEEEEE
Confidence            46788864 567788888     56889999999999999998  99999999999995 67899999999999999998


Q ss_pred             eeC
Q 012177          183 RKS  185 (469)
Q Consensus       183 rks  185 (469)
                      |++
T Consensus        78 ~~~   80 (81)
T d1wxva1          78 KKN   80 (81)
T ss_dssp             CCS
T ss_pred             ecC
Confidence            865

>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=99.27  E-value=3.7e-12  Score=106.21  Aligned_cols=63  Identities=11%  Similarity=0.039  Sum_probs=56.7

Q ss_pred             eeeeeeecc-eeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCC
Q 012177          111 AITVTTVCG-KVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNE  175 (469)
Q Consensus       111 ~I~Vkt~~G-k~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~  175 (469)
                      +|+|++..+ .++.++|++++||.+||++|++++|++  +++|+|+|+|++|+|+++|+||+|.++
T Consensus         1 qifv~i~~~k~Ti~l~v~~~~TV~~lK~~I~~~~gip--~~~QrLi~~Gk~L~D~~TL~dYgI~~~   64 (103)
T d2c9wb1           1 DVFLMIRRHKTTIFTDAKESSTVFELKRIVEGILKRP--PDEQRLYKDDQLLDDGKTLGECGFTSQ   64 (103)
T ss_dssp             CEEEEEEEBTEEEEEEECTTSBHHHHHHHHHHHHCCC--GGGEEEEETTEECCTTSBHHHHTCCTT
T ss_pred             CEEEEEeCCCEEEEEEeCCCCcHHHHHHHHHHHhCCC--cccEEEEECCEEcCCCCCHHHcCCCcc
Confidence            367777665 477899999999999999999999998  999999999999999999999999544

>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=99.23  E-value=6.7e-12  Score=102.83  Aligned_cols=85  Identities=21%  Similarity=0.201  Sum_probs=66.9

Q ss_pred             ccceeeeeeccccc---eeeeeeecceeEEEEeecCchHHHHHHHHHHhcC--CCCCCCceEEEECCEEcCCCCcccccC
Q 012177           97 GNVLHLVLRLSDLQ---AITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGR--EFVDLKNQELICDGEELEDQRLITDIC  171 (469)
Q Consensus        97 gstl~LvlrLsd~m---~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~g--ip~~~e~QrLif~Gk~LeD~~tL~dy~  171 (469)
                      -+..|+.+++.+..   ...++..+. .....+..+.||.+||++|+++..  .| ++++|+|+|+|++|+|+.+|++|+
T Consensus         3 ~s~~~~~~~l~~~p~~pk~~i~~p~~-~~~~~~~~~~tV~~lK~~i~~~~~~~~P-~p~~~rLIy~Gk~L~D~~tL~~y~   80 (94)
T d1x1ma1           3 LSDWHLAVKLADQPLAPKSILQLPET-ELGEYSLGGYSISFLKQLIAGKLQESVP-DPELIDLIYCGRKLKDDQTLDFYG   80 (94)
T ss_dssp             CCSCCEEEEETTCTTSCCEEECCCCC-SSCSSCCCCCBHHHHHHHHHHHCTTTCC-CSSSEEEEETTEECCTTCBHHHHT
T ss_pred             cccceEEEEEccCCCCCcceEECCCC-ccCccCCCccCHHHHHHHHHHHcccCCC-ChhheEEEECCeEECCCccHHHcC
Confidence            46789999998774   334554432 222334457899999999999875  44 379999999999999999999999


Q ss_pred             CCCCCEEEEEEe
Q 012177          172 KRNEAVIHLLVR  183 (469)
Q Consensus       172 I~~~svI~Lv~r  183 (469)
                      |+++++|||+.|
T Consensus        81 I~~gstihLV~r   92 (94)
T d1x1ma1          81 IQPGSTVHVLRK   92 (94)
T ss_dssp             CCTTCEEEEEES
T ss_pred             CCCCCEEEEEEe
Confidence            999999999766

>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=99.21  E-value=3.8e-12  Score=104.63  Aligned_cols=72  Identities=14%  Similarity=0.119  Sum_probs=65.9

Q ss_pred             ccceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEe
Q 012177          108 DLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVR  183 (469)
Q Consensus       108 d~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~r  183 (469)
                      +.|.|.|+ .+++++.++|++++||.+||++|++.+++|  +++|+|+|+|+ |+|+.+|.+|+|+++++|+|+.+
T Consensus        16 ~~i~v~V~-~~~k~~~i~v~~~~TV~~LK~~I~~~tgvp--~~~q~Li~~g~-l~D~~tL~~~~I~~gs~i~lvgs   87 (95)
T d1v86a_          16 ELVDLKII-WNKTKHDVKVPLDSTGSELKQKIHSITGLP--PAMQKVMYKGL-VPEDKTLREIKVTSGAKIMVVGS   87 (95)
T ss_dssp             CCEEEEEE-ETTEEEEEEECTTSBHHHHHHHHHHHHCSC--STTCCCBSSSB-CCSSSBHHHHCCCTTEEEEECCS
T ss_pred             cEEEEEEE-ECCEEEEEEECCCCcHHHHHHHHHHHhCCC--hhHEEEEeccc-ccCCCcHHHCCCCCCCEEEEEec
Confidence            34677777 588999999999999999999999999998  99999999997 99999999999999999999754

>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=99.20  E-value=8.7e-12  Score=102.52  Aligned_cols=79  Identities=19%  Similarity=0.273  Sum_probs=69.2

Q ss_pred             CCCCCEEEEEEe--CCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCee------cccCCccccccCccCccce
Q 012177           29 LSNDSILIFLSV--GGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRE------LARSNSRVRDYGLADGNVL  100 (469)
Q Consensus        29 ~~~~~M~I~V~l--~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~------L~~D~~tL~dygI~~gstl  100 (469)
                      +.+..|.|+|+.  ++.....++.++.||.+||++|+..+|+|+.+|+|+|.|+.      |.+|+.+|.+|+|.+|++|
T Consensus         3 sgss~v~v~I~s~~~~~~~E~r~~~~~TV~~LK~kle~~tGip~~~qrL~~~~~~~~~~~~l~~d~~~L~~y~i~dg~~i   82 (95)
T d1v6ea_           3 SGSSGVMVFISSSLNSFRSEKRYSRSLTIAEFKCKLELVVGSPASCMELELYGADDKFYSKLDQEDALLGSYPVDDGCRI   82 (95)
T ss_dssp             SCCCCEEEEEEETTSSSCEEEEECTTSBHHHHHHHHHHHTCSCTTTCBCEEECSSSCEEEECCCSSSBTTSSSCCTTCEE
T ss_pred             CCCCcEEEEEEECCCCcEEEEEeCCCCCHHHHHHHHHHHhCcCchhEEEEEeCCCCceeecccCCcCCHHHCCCCCCCEE
Confidence            357789999943  55668899999999999999999999999999999998883      5559999999999999999


Q ss_pred             eeeeecc
Q 012177          101 HLVLRLS  107 (469)
Q Consensus       101 ~LvlrLs  107 (469)
                      ||+.+-.
T Consensus        83 hlvd~~p   89 (95)
T d1v6ea_          83 HVIDHSG   89 (95)
T ss_dssp             EEBCCSC
T ss_pred             EEEeCCC
Confidence            9987654

>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=99.15  E-value=5.6e-11  Score=94.11  Aligned_cols=78  Identities=12%  Similarity=0.214  Sum_probs=72.1

Q ss_pred             CCCEEEEEEeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecccc
Q 012177           31 NDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLSDL  109 (469)
Q Consensus        31 ~~~M~I~V~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLsd~  109 (469)
                      .+.|.|.|..+|+.+.+.|..++++..||..++++.|+++++|+|+|+|+.|. ++.|+++|+|.+|++|++++++.++
T Consensus         2 ~~~I~ikv~~~~~~~~f~v~~~~~~~~l~~~~~~~~~i~~~~~~l~f~G~~l~-~~~T~~~~~i~dgd~I~v~~~q~GG   79 (79)
T d1euvb_           2 ETHINLKVSDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQ-ADQTPEDLDMEDNDIIEAHREQIGG   79 (79)
T ss_dssp             CSEEEEEEESSSCEEEEEEETTSCTHHHHHHHHHHTTCCGGGEEEEETTEECC-TTCCTTTTTCCTTEEEEEEECCBCC
T ss_pred             CcEEEEEECCCCeEEEEEECCCCcHHHHHHHHHHHhCCChHhEEEEECCEEeC-CCCCHHHCCCCCCCEEEEEEeccCC
Confidence            45678888668899999999999999999999999999999999999999998 8999999999999999999988764

>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=99.14  E-value=2.6e-11  Score=99.57  Aligned_cols=80  Identities=13%  Similarity=0.015  Sum_probs=70.2

Q ss_pred             cccceeeeeee-cceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCE-------EcCCCCcccccCCCCCCEE
Q 012177          107 SDLQAITVTTV-CGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGE-------ELEDQRLITDICKRNEAVI  178 (469)
Q Consensus       107 sd~m~I~Vkt~-~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk-------~LeD~~tL~dy~I~~~svI  178 (469)
                      +..+.|+|++. ++......++++.||.+||++|+...|+|  +++|+|+|.|+       .++|.++|.+|++.++++|
T Consensus         5 ss~v~v~I~s~~~~~~~E~r~~~~~TV~~LK~kle~~tGip--~~~qrL~~~~~~~~~~~~l~~d~~~L~~y~i~dg~~i   82 (95)
T d1v6ea_           5 SSGVMVFISSSLNSFRSEKRYSRSLTIAEFKCKLELVVGSP--ASCMELELYGADDKFYSKLDQEDALLGSYPVDDGCRI   82 (95)
T ss_dssp             CCCEEEEEEETTSSSCEEEEECTTSBHHHHHHHHHHHTCSC--TTTCBCEEECSSSCEEEECCCSSSBTTSSSCCTTCEE
T ss_pred             CCcEEEEEEECCCCcEEEEEeCCCCCHHHHHHHHHHHhCcC--chhEEEEEeCCCCceeecccCCcCCHHHCCCCCCCEE
Confidence            45688889873 66678889999999999999999999998  99999999887       4789999999999999999


Q ss_pred             EEEEeeCCcc
Q 012177          179 HLLVRKSAKV  188 (469)
Q Consensus       179 ~Lv~rks~kv  188 (469)
                      ||+.++++..
T Consensus        83 hlvd~~p~~~   92 (95)
T d1v6ea_          83 HVIDHSGSGP   92 (95)
T ss_dssp             EEBCCSCCSS
T ss_pred             EEEeCCCCCC
Confidence            9988766543

>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=99.02  E-value=1.7e-10  Score=94.87  Aligned_cols=73  Identities=15%  Similarity=0.209  Sum_probs=62.8

Q ss_pred             CCCEEEEEE----eCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCe-------ecccCCccccccCccCccc
Q 012177           31 NDSILIFLS----VGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGR-------ELARSNSRVRDYGLADGNV   99 (469)
Q Consensus        31 ~~~M~I~V~----l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk-------~L~~D~~tL~dygI~~gst   99 (469)
                      ..-|.|+|.    .+++.++++|..++||.+||.+|+..+|+|+.+|+|+|.|+       +|.+|+.+|.+|||++|++
T Consensus         7 ~~~iti~i~~~~~~~~~~~~~kv~~~~TV~~LK~~i~~~~gip~~~qrL~y~~~~~~~~~~~l~~d~~tL~~YgI~dg~~   86 (97)
T d1wjna_           7 GQLLTLKIKCSNQPERQILEKQLPDSMTVQKVKGLLSRLLKVPVSELLLSYESSKMPGREIELENDLQPLQFYSVENGDC   86 (97)
T ss_dssp             SCEEEEEEEESSCSSSCCEEEEEETTSBHHHHHHHHHTTTTCCTTTCEEEEECTTSCSCEEECCCSSSBSGGGTCCTTCE
T ss_pred             CCeEEEEEEeCCCCCCceEEEEcCCCCCHHHHHHHHHHHHCcChHHeEEEecCCCCCcccceecCCCcCHhhccCCCCCE
Confidence            344555552    35688999999999999999999999999999999999887       3776889999999999999


Q ss_pred             eeee
Q 012177          100 LHLV  103 (469)
Q Consensus       100 l~Lv  103 (469)
                      |++.
T Consensus        87 I~V~   90 (97)
T d1wjna_          87 LLVR   90 (97)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            9975

>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=99.01  E-value=5.1e-10  Score=88.44  Aligned_cols=73  Identities=11%  Similarity=0.206  Sum_probs=66.6

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeC
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKS  185 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks  185 (469)
                      +.|.|++ +|+.+.+.|.+++++..||+.++++.+++  +++++|+|+|+.|.+..|+++|+++++++|++++++.
T Consensus         5 I~ikv~~-~~~~~~f~v~~~~~~~~l~~~~~~~~~i~--~~~~~l~f~G~~l~~~~T~~~~~i~dgd~I~v~~~q~   77 (79)
T d1euvb_           5 INLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKE--MDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHREQI   77 (79)
T ss_dssp             EEEEEES-SSCEEEEEEETTSCTHHHHHHHHHHTTCC--GGGEEEEETTEECCTTCCTTTTTCCTTEEEEEEECCB
T ss_pred             EEEEECC-CCeEEEEEECCCCcHHHHHHHHHHHhCCC--hHhEEEEECCEEeCCCCCHHHCCCCCCCEEEEEEecc
Confidence            4566664 67888899999999999999999999988  8999999999999999999999999999999998753

>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=98.95  E-value=7e-10  Score=89.94  Aligned_cols=73  Identities=16%  Similarity=0.220  Sum_probs=62.5

Q ss_pred             CCEEEEEEe--CCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCe------ecccCCccccccCccCccceeee
Q 012177           32 DSILIFLSV--GGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGR------ELARSNSRVRDYGLADGNVLHLV  103 (469)
Q Consensus        32 ~~M~I~V~l--~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk------~L~~D~~tL~dygI~~gstl~Lv  103 (469)
                      +-+.|+|+.  ++.....++.++.||.+||.+|+...|+|+..|+|+|.|+      .|.+|+.+|.+|||.+|++||++
T Consensus         3 ~~~~l~it~~~t~~~~E~r~~~~~TV~~LK~kle~~~Gip~~~q~L~~~~~~~~~~~~l~dd~~~L~~ygi~dG~~Ihvv   82 (90)
T d1t0ya_           3 EVYDLEITTNATDFPMEKKYPAGMSLNDLKKKLELVVGTTVDSMRIQLFDGDDQLKGELTDGAKSLKDLGVRDGYRIHAV   82 (90)
T ss_dssp             CEEEEEEEESSCCSCEEEEEETTSBHHHHHHHHHHHHCCCTTTEEEEEECSSSSEEEECCCCSSBTTTTTCCSSEEEEEE
T ss_pred             cEEEEEEEECCCccEEEEecCCCCCHHHHHHHHHHHHCCChhheEEEEeCCCCCcccccccCCCCHHHCCCCCCCEEEEE
Confidence            446777754  3444677889999999999999999999999999999887      36678999999999999999986


Q ss_pred             e
Q 012177          104 L  104 (469)
Q Consensus       104 l  104 (469)
                      =
T Consensus        83 d   83 (90)
T d1t0ya_          83 D   83 (90)
T ss_dssp             E
T ss_pred             e
Confidence            4

>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=98.93  E-value=7e-10  Score=91.16  Aligned_cols=65  Identities=14%  Similarity=0.080  Sum_probs=58.1

Q ss_pred             ecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEE-------cC-CCCcccccCCCCCCEEEEEEe
Q 012177          117 VCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEE-------LE-DQRLITDICKRNEAVIHLLVR  183 (469)
Q Consensus       117 ~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~-------Le-D~~tL~dy~I~~~svI~Lv~r  183 (469)
                      .+++.++++|..+.||.+||.+|+..+|+|  +++|+|+|.|+.       |+ |.++|.+|+|+++++|++...
T Consensus        20 ~~~~~~~~kv~~~~TV~~LK~~i~~~~gip--~~~qrL~y~~~~~~~~~~~l~~d~~tL~~YgI~dg~~I~V~~~   92 (97)
T d1wjna_          20 PERQILEKQLPDSMTVQKVKGLLSRLLKVP--VSELLLSYESSKMPGREIELENDLQPLQFYSVENGDCLLVRWS   92 (97)
T ss_dssp             SSSCCEEEEEETTSBHHHHHHHHHTTTTCC--TTTCEEEEECTTSCSCEEECCCSSSBSGGGTCCTTCEEEEECC
T ss_pred             CCCceEEEEcCCCCCHHHHHHHHHHHHCcC--hHHeEEEecCCCCCcccceecCCCcCHhhccCCCCCEEEEEeC
Confidence            457889999999999999999999999998  999999998873       54 789999999999999998543

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

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

Probab=98.92  E-value=1.3e-09  Score=85.68  Aligned_cols=75  Identities=12%  Similarity=0.232  Sum_probs=70.8

Q ss_pred             cceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEEeeC
Q 012177          109 LQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLVRKS  185 (469)
Q Consensus       109 ~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~rks  185 (469)
                      .+.|.|++.+|+.+.+.|.++.++..|++..+++.+++  +++++|+|+|+.|.+..|+.+++++++++|++++++.
T Consensus         2 ~I~ikv~~~dg~~v~f~v~~~t~l~kl~~~y~~~~~~~--~~~~~f~fdG~~l~~~~T~~~l~~edgD~Idv~~~q~   76 (77)
T d2uyzb1           2 YIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVP--MNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQEQT   76 (77)
T ss_dssp             EEEEEEECTTCCEEEEEEETTSCTHHHHHHHHHHHTCC--GGGEEEEETTEECCTTCCHHHHTCCTTEEEEEEECCC
T ss_pred             EEEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCCC--hhHEEEEECCEECCCCCCHHHcCCCCCCEEEEEEecC
Confidence            46788999999999999999999999999999999988  9999999999999999999999999999999988753

>d1x1ma1 d.15.1.1 (A:8-101) Ubiquitin-like protein 7 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like protein 7
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.88  E-value=8.8e-10  Score=90.02  Aligned_cols=56  Identities=21%  Similarity=0.339  Sum_probs=49.7

Q ss_pred             eCCCCcHHHHHHHHHHHh--CCC-CcceEEEEcCeecccCCccccccCccCccceeeeee
Q 012177           49 VMESDSIASVKLRIQSYN--GFF-VKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLR  105 (469)
Q Consensus        49 V~~sdTV~~LK~kIq~~~--Gip-~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~Lvlr  105 (469)
                      +..+.||.+||++|+++.  ++| +++|+|+|+|++|. |+.+|++|+|++|++|||+.|
T Consensus        34 ~~~~~tV~~lK~~i~~~~~~~~P~p~~~rLIy~Gk~L~-D~~tL~~y~I~~gstihLV~r   92 (94)
T d1x1ma1          34 SLGGYSISFLKQLIAGKLQESVPDPELIDLIYCGRKLK-DDQTLDFYGIQPGSTVHVLRK   92 (94)
T ss_dssp             CCCCCBHHHHHHHHHHHCTTTCCCSSSEEEEETTEECC-TTCBHHHHTCCTTCEEEEEES
T ss_pred             CCCccCHHHHHHHHHHHcccCCCChhheEEEECCeEEC-CCccHHHcCCCCCCEEEEEEe
Confidence            345889999999999885  444 68999999999998 899999999999999999876

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

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

Probab=98.88  E-value=1.8e-09  Score=84.83  Aligned_cols=75  Identities=17%  Similarity=0.332  Sum_probs=70.0

Q ss_pred             CCEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeeeecc
Q 012177           32 DSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLRLS  107 (469)
Q Consensus        32 ~~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~LvlrLs  107 (469)
                      +.|.|.| ..+|+.+.+.|..+.++..|+...+++.|+++.+++|+|+|+.|. ++.|+.++++.+|++|+++++..
T Consensus         1 e~I~ikv~~~dg~~v~f~v~~~t~l~kl~~~y~~~~~~~~~~~~f~fdG~~l~-~~~T~~~l~~edgD~Idv~~~q~   76 (77)
T d2uyzb1           1 EYIKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIA-DNHTPKELGMEEEDVIEVYQEQT   76 (77)
T ss_dssp             CEEEEEEECTTCCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECC-TTCCHHHHTCCTTEEEEEEECCC
T ss_pred             CEEEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCCChhHEEEEECCEECC-CCCCHHHcCCCCCCEEEEEEecC
Confidence            4588888 778999999999999999999999999999999999999999998 88999999999999999988654

>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=98.78  E-value=6.9e-09  Score=83.92  Aligned_cols=76  Identities=12%  Similarity=0.100  Sum_probs=62.5

Q ss_pred             cceeeeee-ecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCE-------EcCCCCcccccCCCCCCEEEE
Q 012177          109 LQAITVTT-VCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGE-------ELEDQRLITDICKRNEAVIHL  180 (469)
Q Consensus       109 ~m~I~Vkt-~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk-------~LeD~~tL~dy~I~~~svI~L  180 (469)
                      ...+.|.+ .++..+...+.++.||.+||++|+...|+|  +..|+|+|.|+       .++|.++|.+|+|++|++||+
T Consensus         4 ~~~l~it~~~t~~~~E~r~~~~~TV~~LK~kle~~~Gip--~~~q~L~~~~~~~~~~~~l~dd~~~L~~ygi~dG~~Ihv   81 (90)
T d1t0ya_           4 VYDLEITTNATDFPMEKKYPAGMSLNDLKKKLELVVGTT--VDSMRIQLFDGDDQLKGELTDGAKSLKDLGVRDGYRIHA   81 (90)
T ss_dssp             EEEEEEEESSCCSCEEEEEETTSBHHHHHHHHHHHHCCC--TTTEEEEEECSSSSEEEECCCCSSBTTTTTCCSSEEEEE
T ss_pred             EEEEEEEECCCccEEEEecCCCCCHHHHHHHHHHHHCCC--hhheEEEEeCCCCCcccccccCCCCHHHCCCCCCCEEEE
Confidence            34455554 234456778899999999999999999998  99999999886       356899999999999999999


Q ss_pred             EEeeCC
Q 012177          181 LVRKSA  186 (469)
Q Consensus       181 v~rks~  186 (469)
                      +-..++
T Consensus        82 vd~~~~   87 (90)
T d1t0ya_          82 VDVTGG   87 (90)
T ss_dssp             EECTTC
T ss_pred             EeCCCC
Confidence            766543

>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=97.84  E-value=2.9e-05  Score=59.45  Aligned_cols=69  Identities=13%  Similarity=0.258  Sum_probs=64.0

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEE
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHL  180 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~L  180 (469)
                      +.|.|+..+|+.+.+.|.++.+...|...-++..+++  +...+++|+|+.|....|.++++++++++|.+
T Consensus         2 I~lkv~~~~g~~v~f~vk~~t~l~kl~~~y~~~~~~~--~~~~~f~fdG~~i~~~~Tp~~l~med~D~Idv   70 (72)
T d1wm3a_           2 INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLS--MRQIRFRFDGQPINETDTPAQLEMEDEDTIDV   70 (72)
T ss_dssp             EEEEEECTTSCEEEEEECTTSCTHHHHHHHHHHHTCC--TTTCEEEETTEECCTTCCTTTTTCCTTEEEEE
T ss_pred             EEEEEECCCCCEEEEEEcCCChHHHHHHHHHHHhCCC--ccceEEEECCEEcCCCCCHHHcCCCCCCEEEE
Confidence            3567777889999999999999999999999999987  89999999999999999999999999999986

>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=97.69  E-value=2.7e-05  Score=62.01  Aligned_cols=70  Identities=19%  Similarity=0.206  Sum_probs=55.3

Q ss_pred             EEEEeCCeEEEEEeCC-CCcHHHHHHHHHHHhCCCCcceEEEEc--------------CeecccCCccccccCccCccce
Q 012177           36 IFLSVGGSVIPMRVME-SDSIASVKLRIQSYNGFFVKKQKLVFE--------------GRELARSNSRVRDYGLADGNVL  100 (469)
Q Consensus        36 I~V~l~G~~~~l~V~~-sdTV~~LK~kIq~~~Gip~~~QrLvf~--------------Gk~L~~D~~tL~dygI~~gstl  100 (469)
                      |.|....-+..++|+. +.||.+||.+|+++.++|+++|.|..+              =..|.+|..+|+.+||..|+.+
T Consensus         3 iRiRsrdG~eRv~v~~~~~Tl~~LK~~Ie~~L~VPv~~Q~LSl~~~llL~k~P~~~~~~~~l~d~~~~L~sl~i~hGsiv   82 (94)
T d1wf9a1           3 LRVRSRDGLERVSVDGPHITVSQLKTLIQDQLQIPIHNQTLSTNRNLLLAKSPSDFLAFTDMADPNLRISSLNLAHGSMV   82 (94)
T ss_dssp             EEEECSSCEEEEEECCTTSBHHHHHHHHHHHSCCCTTTCCCBSSGGGGTCCSHHHHTTCCSSCCTTCBGGGTCCCTTCEE
T ss_pred             EEEEecCCceEEEecCCCCcHHHHHHHHHHHhCCCcccceeecChhhhccCCccccchhhhccCCccCHHHcCccCceEE
Confidence            4443334577788864 789999999999999999999999653              2336767788999999999999


Q ss_pred             eeeee
Q 012177          101 HLVLR  105 (469)
Q Consensus       101 ~Lvlr  105 (469)
                      +|...
T Consensus        83 yL~y~   87 (94)
T d1wf9a1          83 YLAYE   87 (94)
T ss_dssp             ECCCS
T ss_pred             EEEee
Confidence            98653

>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=97.68  E-value=5.9e-05  Score=57.64  Aligned_cols=68  Identities=12%  Similarity=0.323  Sum_probs=63.0

Q ss_pred             EEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceee
Q 012177           34 ILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHL  102 (469)
Q Consensus        34 M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~L  102 (469)
                      |.|.| ..+|+.+.+.|..+.++..|...-+++.|+++.+.+++|+|+.|. .+.|.+++++.+|++|.+
T Consensus         2 I~lkv~~~~g~~v~f~vk~~t~l~kl~~~y~~~~~~~~~~~~f~fdG~~i~-~~~Tp~~l~med~D~Idv   70 (72)
T d1wm3a_           2 INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPIN-ETDTPAQLEMEDEDTIDV   70 (72)
T ss_dssp             EEEEEECTTSCEEEEEECTTSCTHHHHHHHHHHHTCCTTTCEEEETTEECC-TTCCTTTTTCCTTEEEEE
T ss_pred             EEEEEECCCCCEEEEEEcCCChHHHHHHHHHHHhCCCccceEEEECCEEcC-CCCCHHHcCCCCCCEEEE
Confidence            56777 567899999999999999999999999999999999999999998 889999999999999875

>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=97.34  E-value=9.4e-05  Score=58.86  Aligned_cols=67  Identities=16%  Similarity=0.138  Sum_probs=53.0

Q ss_pred             eeeeeecceeEEEEeec-CchHHHHHHHHHHhcCCCCCCCceEEEEC--------------CEEcC-CCCcccccCCCCC
Q 012177          112 ITVTTVCGKVFEFHVER-GRNVGYVKQQIAKKGREFVDLKNQELICD--------------GEELE-DQRLITDICKRNE  175 (469)
Q Consensus       112 I~Vkt~~Gk~~~l~V~~-~~TV~~LK~kI~~~~gip~~~e~QrLif~--------------Gk~Le-D~~tL~dy~I~~~  175 (469)
                      |.||+.+|. -.++|+. +.||.+||++|++..++|  .++|.|..+              -..|. |..+|+.++|.+|
T Consensus         3 iRiRsrdG~-eRv~v~~~~~Tl~~LK~~Ie~~L~VP--v~~Q~LSl~~~llL~k~P~~~~~~~~l~d~~~~L~sl~i~hG   79 (94)
T d1wf9a1           3 LRVRSRDGL-ERVSVDGPHITVSQLKTLIQDQLQIP--IHNQTLSTNRNLLLAKSPSDFLAFTDMADPNLRISSLNLAHG   79 (94)
T ss_dssp             EEEECSSCE-EEEEECCTTSBHHHHHHHHHHHSCCC--TTTCCCBSSGGGGTCCSHHHHTTCCSSCCTTCBGGGTCCCTT
T ss_pred             EEEEecCCc-eEEEecCCCCcHHHHHHHHHHHhCCC--cccceeecChhhhccCCccccchhhhccCCccCHHHcCccCc
Confidence            456666665 4678864 689999999999999998  899999543              33355 4667999999999


Q ss_pred             CEEEEE
Q 012177          176 AVIHLL  181 (469)
Q Consensus       176 svI~Lv  181 (469)
                      +.|+|.
T Consensus        80 sivyL~   85 (94)
T d1wf9a1          80 SMVYLA   85 (94)
T ss_dssp             CEEECC
T ss_pred             eEEEEE
Confidence            999984

>d1cjaa_ d.144.1.3 (A:) Actin-fragmin kinase, catalytic domain {Physarum polycephalum [TaxId: 5791]}

class: Alpha and beta proteins (a+b)
fold: Protein kinase-like (PK-like)
superfamily: Protein kinase-like (PK-like)
family: Actin-fragmin kinase, catalytic domain
domain: Actin-fragmin kinase, catalytic domain
species: Physarum polycephalum [TaxId: 5791]

Probab=96.94  E-value=5.8e-05  Score=72.98  Aligned_cols=135  Identities=21%  Similarity=0.303  Sum_probs=87.9

Q ss_pred             ccccCCCCcEEEEEeCCCCeEEEEEecCCCCCCCcCCCCCCCCCCCCCCccCCCcCCCcchhheeeeecccCCCCccccc
Q 012177          273 IPSSEGSGGAYFMQDSSGQKYISVFKPMDEEPMSVNNPRGLPISVDGEGLKKGTRAGEGALREVAAYILDHPRDATYSLH  352 (469)
Q Consensus       273 ~~~~~gs~g~y~~~~~~g~~~~~vfKP~deEp~~~~nP~g~~~~~~~~~~~~~~~~g~~~~rEvaAylld~~~~~~~~~~  352 (469)
                      .++..||+|++|+...+|   +.|-|...-                             ...|+=+|.|-          
T Consensus        75 ~~s~~Gs~Gv~FV~~e~g---aiVlK~s~t-----------------------------ta~E~y~~eLA----------  112 (342)
T d1cjaa_          75 ERSEKGTEGLFFVETESG---VFIVKRSTN-----------------------------IESETFCSLLC----------  112 (342)
T ss_dssp             EECCSTTSCEEEEEESSC---EEEEECCTT-----------------------------HHHHHHHHHHH----------
T ss_pred             EEeecCCceEEEEEcCCc---eEEEecCCc-----------------------------hHHHHHHHHHH----------
Confidence            367789999999987766   788887442                             35699999988          


Q ss_pred             ccccCCCCCCCeEEEEeccccccCC----------CCCCCCCCCccceeEeeeecCcCCcccCCC----CCCC---hhhh
Q 012177          353 DEERGFAGVPPTVMVRCLHKGFNHP----------NGYKHDLENVKIGSLQMFVENVGSCEEMGP----RAFP---VDEV  415 (469)
Q Consensus       353 ~~~~g~~~VP~T~~v~~~~~~f~~~----------~~~~~~~~~~k~GSlQ~fv~~~~~~~~~~~----~~f~---~~ev  415 (469)
                       ..||. -||..++++.....|.--          +...+..+..--+-+|.|+++.. .-+.+.    ..|.   ..++
T Consensus       113 -r~LGv-pvPqmRvI~~~~~E~~~~~~~~l~~~e~d~~I~sel~~A~~liMeYvpG~~-l~e~~~~~a~~~fs~~~l~~L  189 (342)
T d1cjaa_         113 -MRLGL-HAPKVRVVSSNSEEGTNMLECLAAIDKSFRVITTLANQANILLMELVRGIT-LNKLTTTSAPEVLTKSTMQQL  189 (342)
T ss_dssp             -HHHTC-CCCCEEEEESSSHHHHHHHHHHHHHCSSSCHHHHHTTCSEEEEEECCCEEE-STTCCSSSHHHHSCHHHHHHH
T ss_pred             -HHhCC-CCCceEEecCCCHHHHHHHHHHhcCCChhHHHHHHHhcccceeeeccCCcc-ccccccccchhhhcHHHHHHh
Confidence             47887 578888887333211100          00000111122577888987643 223332    2232   2367


Q ss_pred             hheeeecEEEecCCC---------CCCcEEEecCCCCceEEEeeecCCc
Q 012177          416 HKISVLDIRLANTDR---------HAGNILVSKDEGGQIKLVPIDHGYC  455 (469)
Q Consensus       416 ~ki~ilD~~~~N~DR---------~~gN~Lv~~~~~~~~~l~~IDhg~~  455 (469)
                      =||..||+.|+|-||         |..|+|+..+  |. .+++||-|..
T Consensus       190 GkIiaFDifInN~DR~PL~Wrn~GN~~Niml~~n--~~-~~~~IDs~i~  235 (342)
T d1cjaa_         190 GSLMALDVIVNNSDRLPIAWTNEGNLDNIMLSER--GA-TVVPIDSKII  235 (342)
T ss_dssp             HHHHHHHHHHTCCSSSCSSSCSCCCGGGEEEESB--TT-CEEECSCCCC
T ss_pred             hhHHHHHHHHcCCccccccccCCCCccceEEecC--Cc-EEEEecCCcc
Confidence            789999999999999         4567999764  32 4899998874

>d2al3a1 d.15.1.2 (A:10-85) Tether containing UBX domain for GLUT4 (Tug) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: UBX domain
domain: Tether containing UBX domain for GLUT4 (Tug)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.40  E-value=0.0035  Score=47.98  Aligned_cols=68  Identities=18%  Similarity=0.143  Sum_probs=62.9

Q ss_pred             EEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEEEcCeecccCCccccccCccCccceeeee
Q 012177           36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVL  104 (469)
Q Consensus        36 I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLvf~Gk~L~~D~~tL~dygI~~gstl~Lvl  104 (469)
                      |.| ..+|+..++.|.|+.|+.++-+...++.|+.+++-.|.|+++.|+ -..+++..|+.+|+.+.|+.
T Consensus         3 V~Vl~~~~rR~~VKvtP~t~l~~VL~eaC~k~~~~~~~~~Lkh~~k~ld-Lsl~~R~sgLpnnakLELv~   71 (76)
T d2al3a1           3 VSVLAPNGRRHTVKVTPSTVLLQVLEDTCRRQDFNPSEYDLKFQRTVLD-LSLQWRFANLPNNAKLEMVP   71 (76)
T ss_dssp             EEEECTTSCEEEECCCTTSBHHHHHHHHHHHTTCCGGGCEEEETTEEES-SSCBHHHHCCCSSCEEEEEC
T ss_pred             EEEECCCCcEEEEEeCCCcCHHHHHHHHHHHhCCChhHceeeeCCEEcC-ccceeeecCCCCCCEEEEEE
Confidence            455 678999999999999999999999999999999999999999997 88999999999999999874

>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=95.73  E-value=0.015  Score=44.42  Aligned_cols=69  Identities=12%  Similarity=0.030  Sum_probs=63.2

Q ss_pred             eeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEECCEEcCCCCcccccCCCCCCEEEEEE
Q 012177          112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIHLLV  182 (469)
Q Consensus       112 I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif~Gk~LeD~~tL~dy~I~~~svI~Lv~  182 (469)
                      +.|-..+|+..++.|.|+.++.++-+...+++|..  +++..|.|+++.|+-...+.-.++.+++.+.|+-
T Consensus         3 V~Vl~~~~rR~~VKvtP~t~l~~VL~eaC~k~~~~--~~~~~Lkh~~k~ldLsl~~R~sgLpnnakLELv~   71 (76)
T d2al3a1           3 VSVLAPNGRRHTVKVTPSTVLLQVLEDTCRRQDFN--PSEYDLKFQRTVLDLSLQWRFANLPNNAKLEMVP   71 (76)
T ss_dssp             EEEECTTSCEEEECCCTTSBHHHHHHHHHHHTTCC--GGGCEEEETTEEESSSCBHHHHCCCSSCEEEEEC
T ss_pred             EEEECCCCcEEEEEeCCCcCHHHHHHHHHHHhCCC--hhHceeeeCCEEcCccceeeecCCCCCCEEEEEE
Confidence            45667889999999999999999999999999976  8999999999999999999888999999999863

>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=91.74  E-value=0.37  Score=37.01  Aligned_cols=65  Identities=11%  Similarity=0.141  Sum_probs=50.6

Q ss_pred             eeeeeeecceeEEEEeecCchHHHHHHHHHHhc-CCCCCCCceEEEEC--CEEcC-CCCcccccCCCCCCE
Q 012177          111 AITVTTVCGKVFEFHVERGRNVGYVKQQIAKKG-REFVDLKNQELICD--GEELE-DQRLITDICKRNEAV  177 (469)
Q Consensus       111 ~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~-gip~~~e~QrLif~--Gk~Le-D~~tL~dy~I~~~sv  177 (469)
                      .|.||..+|+.+......+++|.+|.+-+.... +..  ...-.|+..  -+.|. ++.+|.+.++.+.++
T Consensus        16 ~I~iRlPdG~~~~~~F~~~~tl~dv~~~v~~~~~~~~--~~~f~L~t~~Prr~l~d~~~TL~e~gL~~s~v   84 (89)
T d1i42a_          16 NIQIRLADGGRLVQKFNHSHRISDIRLFIVDARPAMA--ATSFVLMTTFPNKELADENQTLKEANLLNAVI   84 (89)
T ss_dssp             EEEEEETTTCCEEEEECSSSCGGGHHHHHHHHCTTTS--SCCEEEEETTTTEECCCCSSCSGGGTTCCSEE
T ss_pred             EEEEEcCCCCEEEEEECCchhHHHHHHHHHHhCccCC--CCCEEEecCCCCcccCCCcCcHHHCCCcCceE
Confidence            567888889999999999999999999998764 323  556777754  67785 488999999986443

>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=90.82  E-value=0.31  Score=36.76  Aligned_cols=68  Identities=12%  Similarity=0.151  Sum_probs=54.9

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEE--ECCEEcC---CCCcccccCCCCCCEEEE
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELI--CDGEELE---DQRLITDICKRNEAVIHL  180 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLi--f~Gk~Le---D~~tL~dy~I~~~svI~L  180 (469)
                      .+|.||..+|+.+.-....++||.+|.+-|... +..  .....|+  |-.+.+.   ...+|.+.++.+.++|++
T Consensus         6 ~~i~iRlPdG~~~~~~F~~~~tl~~v~~~v~~~-~~~--~~~~~l~~~~Pr~~l~~~d~~~TL~e~gL~p~~~L~v   78 (82)
T d1h8ca_           6 SKLRIRTPSGEFLERRFLASNKLQIVFDFVASK-GFP--WDEYKLLSTFPRRDVTQLDPNKSLLEVKLFPQETLFL   78 (82)
T ss_dssp             EEEEEECTTSCEEEEEECTTSBHHHHHHHHHHH-TCC--SSSEEEEETTTTEETTTCCTTSBHHHHCCCSEEEEEE
T ss_pred             EEEEEECCCCCEEEEEECCCCcHHHHHHHHHhc-CCC--CCceEEEecCcccccccccccCCHHHCCCCCCCEEEE
Confidence            457788888988888999999999999999875 433  5666676  5788883   468999999988888876

>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=90.41  E-value=0.46  Score=36.44  Aligned_cols=66  Identities=18%  Similarity=0.235  Sum_probs=53.2

Q ss_pred             CEEEEE-EeCCeEEEEEeCCCCcHHHHHHHHHHHh-CCCCcceEEEE--cCeecccCCccccccCccCcc
Q 012177           33 SILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYN-GFFVKKQKLVF--EGRELARSNSRVRDYGLADGN   98 (469)
Q Consensus        33 ~M~I~V-~l~G~~~~l~V~~sdTV~~LK~kIq~~~-Gip~~~QrLvf--~Gk~L~~D~~tL~dygI~~gs   98 (469)
                      ...|-| ..+|+.+......++||.+|...|.+.. +.....-.|+.  --+.|.+++.+|++.|+.+..
T Consensus        14 ~t~I~iRlPdG~~~~~~F~~~~tl~dv~~~v~~~~~~~~~~~f~L~t~~Prr~l~d~~~TL~e~gL~~s~   83 (89)
T d1i42a_          14 TTNIQIRLADGGRLVQKFNHSHRISDIRLFIVDARPAMAATSFVLMTTFPNKELADENQTLKEANLLNAV   83 (89)
T ss_dssp             CEEEEEEETTTCCEEEEECSSSCGGGHHHHHHHHCTTTSSCCEEEEETTTTEECCCCSSCSGGGTTCCSE
T ss_pred             cEEEEEEcCCCCEEEEEECCchhHHHHHHHHHHhCccCCCCCEEEecCCCCcccCCCcCcHHHCCCcCce
Confidence            457777 5578999999999999999999998763 55666677774  477898888999999998543

>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=89.13  E-value=0.41  Score=37.03  Aligned_cols=78  Identities=18%  Similarity=0.264  Sum_probs=58.5

Q ss_pred             CCCCCCCEEEEEE-eCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEE--EcCeecc-cCCccccccCccCccceee
Q 012177           27 EKLSNDSILIFLS-VGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLV--FEGRELA-RSNSRVRDYGLADGNVLHL  102 (469)
Q Consensus        27 ~~~~~~~M~I~V~-l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLv--f~Gk~L~-~D~~tL~dygI~~gstl~L  102 (469)
                      .....+.++|-|. .+|+.+.-....++||.+|..-|.... .....-+|+  |-.+.+. +.+.+|++.|+....+|+|
T Consensus        10 ~~~~~~~~~i~iRlPdG~r~~r~F~~~dtl~~l~~fv~~~~-~~~~~f~l~~~~Pr~~~~~d~~~TL~e~gl~p~~~L~v   88 (96)
T d2cr5a1          10 SETAEEVVTVALRCPNGRVLRRRFFKSWNSQVLLDWMMKVG-YHKSLYRLSTSFPRRALEVEGGSSLEDIGITVDTVLNV   88 (96)
T ss_dssp             CSSCSSEEEEEEECTTSCEEEEEEESSSBTHHHHHHHHHHT-CCTTTEEEECSSSCCBCCCCSSCBHHHHTCSSCEEEEE
T ss_pred             CCCCCCeEEEEEECCCCCEEEEEECCcccHHHHHHHHHHhc-cCcccceeecCCCceecCccCCCcHHHCCCCCCCEEEE
Confidence            3344667888884 478999999999999999999997654 444556666  4456665 3468999999998888876


Q ss_pred             eee
Q 012177          103 VLR  105 (469)
Q Consensus       103 vlr  105 (469)
                      .-+
T Consensus        89 ~~~   91 (96)
T d2cr5a1          89 EEK   91 (96)
T ss_dssp             EEC
T ss_pred             ecC
Confidence            543

>d1h8ca_ d.15.1.2 (A:) Fas-associated factor 1, Faf1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: UBX domain
domain: Fas-associated factor 1, Faf1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.03  E-value=0.78  Score=34.38  Aligned_cols=71  Identities=21%  Similarity=0.252  Sum_probs=56.1

Q ss_pred             CEEEEEE-eCCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEE--EcCeecc--cCCccccccCccCccceeeee
Q 012177           33 SILIFLS-VGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLV--FEGRELA--RSNSRVRDYGLADGNVLHLVL  104 (469)
Q Consensus        33 ~M~I~V~-l~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLv--f~Gk~L~--~D~~tL~dygI~~gstl~Lvl  104 (469)
                      ..+|-|. .+|+.+.-....++||.+|..-|... +.......|+  |-.+.+.  +.+.+|++.|+...++|++-.
T Consensus         5 ~~~i~iRlPdG~~~~~~F~~~~tl~~v~~~v~~~-~~~~~~~~l~~~~Pr~~l~~~d~~~TL~e~gL~p~~~L~vq~   80 (82)
T d1h8ca_           5 VSKLRIRTPSGEFLERRFLASNKLQIVFDFVASK-GFPWDEYKLLSTFPRRDVTQLDPNKSLLEVKLFPQETLFLEA   80 (82)
T ss_dssp             CEEEEEECTTSCEEEEEECTTSBHHHHHHHHHHH-TCCSSSEEEEETTTTEETTTCCTTSBHHHHCCCSEEEEEEEE
T ss_pred             cEEEEEECCCCCEEEEEECCCCcHHHHHHHHHhc-CCCCCceEEEecCcccccccccccCCHHHCCCCCCCEEEEEe
Confidence            3567774 46889999999999999999999874 7777777776  4677774  346799999999988887643

>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=88.48  E-value=0.75  Score=35.46  Aligned_cols=72  Identities=15%  Similarity=0.156  Sum_probs=54.1

Q ss_pred             cceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEEE--CCEEcC--CCCcccccCCCCCCEEEEEEe
Q 012177          109 LQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELIC--DGEELE--DQRLITDICKRNEAVIHLLVR  183 (469)
Q Consensus       109 ~m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLif--~Gk~Le--D~~tL~dy~I~~~svI~Lv~r  183 (469)
                      ..+|.||..+|+.+.-....++||.+|.+-+......   ...-.|+.  --+.+.  ..+||.+.++.+.++|+|--+
T Consensus        16 ~~~i~iRlPdG~r~~r~F~~~dtl~~l~~fv~~~~~~---~~~f~l~~~~Pr~~~~~d~~~TL~e~gl~p~~~L~v~~~   91 (96)
T d2cr5a1          16 VVTVALRCPNGRVLRRRFFKSWNSQVLLDWMMKVGYH---KSLYRLSTSFPRRALEVEGGSSLEDIGITVDTVLNVEEK   91 (96)
T ss_dssp             EEEEEEECTTSCEEEEEEESSSBTHHHHHHHHHHTCC---TTTEEEECSSSCCBCCCCSSCBHHHHTCSSCEEEEEEEC
T ss_pred             eEEEEEECCCCCEEEEEECCcccHHHHHHHHHHhccC---cccceeecCCCceecCccCCCcHHHCCCCCCCEEEEecC
Confidence            4567777788888888888999999999999776542   45556663  335553  478999999999999887433

>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=85.96  E-value=0.72  Score=37.56  Aligned_cols=68  Identities=10%  Similarity=0.097  Sum_probs=53.9

Q ss_pred             ceeeeeeecceeEEEEeecCchHHHHHHHHHHhcCCCCCCCceEEE--ECCEEc---CCCCcccccCCCCCCEEEE
Q 012177          110 QAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELI--CDGEEL---EDQRLITDICKRNEAVIHL  180 (469)
Q Consensus       110 m~I~Vkt~~Gk~~~l~V~~~~TV~~LK~kI~~~~gip~~~e~QrLi--f~Gk~L---eD~~tL~dy~I~~~svI~L  180 (469)
                      -+|.||..+|+.+.-....++||.+|.+-|..... .  .....|+  |--+.|   +...+|.+.++.+.++|+|
T Consensus        44 ~~l~iRlPdG~r~~r~F~~~~tl~~l~~~v~~~~~-~--~~~~~L~~~fPr~~l~~~d~~~TL~e~gL~P~~~L~v  116 (124)
T d1wj4a_          44 AQLMLRYPDGKREQITLPEQAKLLALVKHVQSKGY-P--NERFELLTNFPRRKLSHLDYDITLQEAGLCPQETVFV  116 (124)
T ss_dssp             EEEEEECTTSCEEEEEEETTSCHHHHHHHHHHHHC-C--TTTEEEECSSSCCEETSSCSSSCTTTTTCCSSBCCEE
T ss_pred             eEEEEECCCCCEEEEEeCCCCcHHHHHHHHHhccc-C--CcceEEeecccccccccccccCcHHHcCCCCCCEEEE
Confidence            46778888899999999999999999999987643 3  4556666  456666   3478999999998888876

>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=81.41  E-value=2.4  Score=34.25  Aligned_cols=73  Identities=16%  Similarity=0.279  Sum_probs=55.6

Q ss_pred             CCCEEEEEEe-CCeEEEEEeCCCCcHHHHHHHHHHHhCCCCcceEEE--EcCeecc--cCCccccccCccCccceeeee
Q 012177           31 NDSILIFLSV-GGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLV--FEGRELA--RSNSRVRDYGLADGNVLHLVL  104 (469)
Q Consensus        31 ~~~M~I~V~l-~G~~~~l~V~~sdTV~~LK~kIq~~~Gip~~~QrLv--f~Gk~L~--~D~~tL~dygI~~gstl~Lvl  104 (469)
                      ...-+|-|.+ +|+.+......++||.+|...|+.. +.....-.|+  |--+.|.  +.+.+|++.||....+|++.-
T Consensus        41 ~p~~~l~iRlPdG~r~~r~F~~~~tl~~l~~~v~~~-~~~~~~~~L~~~fPr~~l~~~d~~~TL~e~gL~P~~~L~vee  118 (124)
T d1wj4a_          41 GPKAQLMLRYPDGKREQITLPEQAKLLALVKHVQSK-GYPNERFELLTNFPRRKLSHLDYDITLQEAGLCPQETVFVQE  118 (124)
T ss_dssp             SCEEEEEEECTTSCEEEEEEETTSCHHHHHHHHHHH-HCCTTTEEEECSSSCCEETSSCSSSCTTTTTCCSSBCCEEEE
T ss_pred             CCceEEEEECCCCCEEEEEeCCCCcHHHHHHHHHhc-ccCCcceEEeecccccccccccccCcHHHcCCCCCCEEEEEe
Confidence            3346777754 7899999999999999999999876 4455555665  5567774  356899999999988887653