Citrus Sinensis ID: 016931

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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
Protein Sequence
MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNAASSPATNNLSFNPDGSAVNPAAFQQHIRNDANLMTQLFQSDPELAQVLLGNDLNKLQDLLRERSRQRSELRRRQEEEMALLYADPFDVEAQKKIEAAIRQKGIDENWAAALEHNPEAFARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRVGGGEVSVPFLQEKDIPSHFLDEERYSKQASSSGTAVTSAAKDKSSNLPAGGGQSSGGTRGNTTQVILLCSIVLSTY
Secondary Structure (PSIPRED)
cEEEEEEccccEEEEEEcccccHHHHHHHHHHHHccccccEEEEEccEEccccccccccccccccEEEEEEcccccccccccccccccccccHHHHHHHHHccHHHHHHHHcccHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHcHHHHHHHHHHccccccccEEEEEEEEEEccEEEEEEEccccccccccHHHHHHHccccccccccccccccccccccccEEEEEEEEEccEEEEEEEEEEcccccccHHcHHHHHHccEEEEccccEEEEccccEEEccccccccccccccHHHHcccccccccccccccccccccccccccccccccccccccEEEEEEEEcccc
Secondary Structure Prediction (SSPRO)
cEEEEEEcccEEEEEEccccccHHHHHHHHHHHccccHHcEEEEEccccccccccHHHcccccccEEEEEEcccccccccccccccccccccHHHHHHHHHccHHHHHHHHHHcHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHcccHcEEEEEEEEEEEEcccEEEEEEcccccHEEccHHHHHHcccHHHHHHHHcccEEcccccEEEEEEEEEEEEEcccccccEEEEEccccccEEEHHHHHHHccEEEEccccEEEEccccEEEccccHHHccHHHHHHHHccccccccccccccHcccccccccccccccccccccccccEEEEcHHHHccc
Coil and Loop (DISEMBL)
MRITVmtadeqiisldvdphetVENVKALLEVETQVPLQQQQLLyngremnnaeklsalgvkdedlVMMVSNaasspatnnlsfnpdgsavnpaAFQQHIRNDANLMTQLFQSDPELAQVLLGNDLNKLQDLLRERSRQRSELRRRQEEEMALlyadpfdvEAQKKIEAAIRQKGIDENWAAALEHNPEAFARVVMLYVDMevngiplkafvdsgaqstIISKSCAERCGLLRLLddryrgvahgvgqseilgrihvapikignvfypcsfvvldspnmeflFGLDMLRKHQCIIDLkenvlrvgggevsvpflqekdipshfldeeryskqasssgtavtsaakdkssnlpagggqssggtrgnTTQVILLCSIVLSTY
Flexible Loop (DISEMBL)
mritvmtadeqiisldvdpheTVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNAASSPATNNLSFNPDGSAVNPAAFQQHIRNDANLMTQLFQSDPELAQVLLGNDLNKLQDLLRERSRQRSELRRRQEEEMallyadpfdveAQKKIEAAIRQKGIDENWAAALEHNPEAFARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHgvgqseilgrIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRVGGGEVSVPFLQEKDIPSHFLDEERYSKQASSSGTAVtsaakdkssnlpagggqssggtrgnttqVILLCSIVLSTY
Low Complexity Region (SEG)
MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNAASSPATNNLSFNPDGSAVNPAAFQQHIRNDANLMTQLFQSDPELAQVLLGNDLNKLQDllrersrqrselrrrqeeeMALLYADPFDVEAQKKIEAAIRQKGIDENWAAALEHNPEAFARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGllrllddrYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRVGGGEVSVPFLQEKDIPSHFLDEERYSKQasssgtavtsaaKDKSSNLPAgggqssggtrgnttqVILLCSIVLSTY
Disordered region (IsUnstruct)
**********QIISLDVDPHETVENVKALLEVETQVPLQQQQLLYN**********************************************************NLMTQLFQ***ELAQVLLGNDL*************************ALLYADPFDVEAQKKIEAAIRQKGIDENWAAALEHNPEAFARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRVGGGEVSVPFLQE****************************************************************
Disordered Region (DISOPRED)
MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN*****************************************************************************************************************HNPEAFARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLD**************ILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRVGGGEVSVPFLQ**********************************************************SIVLSTY
Disordered Region (DISEMBL)
MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNAASSPATNNLSFNPDGSAVNPAAFQQHIRNDANLMTQLFQSDPELAQVLLGNDLNKLQDLLRERSRQRSELRRRQEEEMALLYADPFDVEAQKKIEAAIRQKGIDENWAAALEHNPEAFARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRVGGGEVSVPFLQEKDIPSHFLDEE**********************************TRGNTTQVILLCSIVLSTY
Disordered Region (DISPRO)
MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNAA**************SAVNPAAFQQHIRNDANLMTQLFQSDPELAQVLLGNDLNKLQDLLRERSRQRSELRRRQEEEMALLYADPFDVEAQKKIEAAIRQKGIDENWAAALEHNPEAFARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRVGGGEVSVPFLQEKDIPSHFLDEE****************************************QVILLCSIVLSTY
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNAASSPATNNLSFNPDGSAVNPAAFQQHIRNDANLMTQLFQSDPELAQVLLGNDxxxxxxxxxxxxxxxxxxxxxxxxEMALLYADPFDVEAQKKIEAAIRQKGIDENWAAALEHNPEAFARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRVGGGEVSVPFLQEKDIPSHFLDEERYSKQASSSGTAVTSAAKDKSSNLPAGGGQSSGGTRGNTTQVILLCSIVLSTY
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	380	2.2.26 [Sep-21-2011]
Q0U3Y6	442	DNA damage-inducible prot	N/A	no	0.878	0.755	0.388	1e-67
Q7ZYA7	393	Protein DDI1 homolog 2 OS	N/A	no	0.834	0.806	0.396	5e-65
Q497D6	394	Protein DDI1 homolog 2 OS	yes	no	0.834	0.804	0.392	5e-65
Q2USD7	402	DNA damage-inducible prot	yes	no	0.865	0.818	0.387	1e-64
A1CDT9	404	DNA damage-inducible prot	N/A	no	0.789	0.742	0.405	4e-64
A1DCU5	405	DNA damage-inducible prot	N/A	no	0.892	0.837	0.379	4e-64
Q5TDH0	399	Protein DDI1 homolog 2 OS	yes	no	0.807	0.769	0.382	5e-64
Q4WGS4	405	DNA damage-inducible prot	yes	no	0.860	0.807	0.381	1e-63
A2ADY9	399	Protein DDI1 homolog 2 OS	yes	no	0.810	0.771	0.392	6e-63
Q2T9Z1	396	Protein DDI1 homolog 1 OS	yes	no	0.810	0.777	0.387	7e-63

>sp|Q0U3Y6|DDI1_PHANO DNA damage-inducible protein 1 OS=Phaeosphaeria nodorum (strain SN15 / ATCC MYA-4574 / FGSC 10173) GN=DDI1 PE=3 SV=2

 Score =  256 bits (655), Expect = 1e-67,   Method: Compositional matrix adjust.
 Identities = 139/358 (38%), Positives = 217/358 (60%), Gaps = 24/358 (6%)

Query: 8   ADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNN-AEKLSALGVKDEDL 66
           +D ++++L++ P  TV+++K  +E ET +P   Q +  NG+ ++   + L  +G++D ++
Sbjct: 15  SDGELLTLELPPGSTVKDLKGFIEAETNLPAASQGIYLNGQPVSQETQTLENVGIRDGEM 74

Query: 67  VMMV---------SNAASSPATNNLSFNPDGSAVNPAAFQQHIRNDANLMTQLFQSDPEL 117
           + ++           AAS PA       P G + +P A +Q +  +  +  +L Q DPEL
Sbjct: 75  LAVIVRQNRQQPQQPAASRPA-------PVGQS-DPEAVRQQVLRNPQVQAELRQRDPEL 126

Query: 118 AQVLLGNDLNKLQDLLRERSRQRSELRRRQEEEMALLYADPFDVEAQKKIEAAIRQKGID 177
             ++  ND ++ ++    R        R ++ ++ALL  DPF+VEAQ+KIE  IRQ+ + 
Sbjct: 127 LAIM--NDADRWREAFASRQNSAQNAERERQNQIALLNEDPFNVEAQRKIEDIIRQERVV 184

Query: 178 ENWAAALEHNPEAFARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDD 237
           EN   A   NPE F RV MLY++ EVNG+P+KAFVDSGAQ+TI+S  CAERCG++RL+D 
Sbjct: 185 ENLEKAYNENPEVFVRVHMLYINTEVNGVPVKAFVDSGAQATIMSPDCAERCGIMRLMDT 244

Query: 238 RYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQCIIDL 297
           RY G+A GVG + ILGR+H A IKIG    PC+F V++  +++ LFGLDML++++  IDL
Sbjct: 245 RYAGMARGVGTARILGRVHHAEIKIGGAVMPCAFTVMEGKDVDLLFGLDMLKRYKAKIDL 304

Query: 298 KENVLRVGGGEVSVPFLQEKDIPSHFLDEERYSKQASSSGTAVTSAAKDKSSNLPAGG 355
           ++N L      + VPFL E +IP + LDE   + + + +G   T       +  PAGG
Sbjct: 305 EKNALCF--ESIEVPFLHESEIPRN-LDEAEMN-EPTVAGPNGTEIGARSGAVRPAGG 358

Acts as a linker between the 19S proteasome and polyubiquitinated proteins via UBA domain interactions with ubiquitin for their subsequent degradation. Required for S-phase checkpoint control and may be involved in the regulation of exocytosis.
Phaeosphaeria nodorum (strain SN15 / ATCC MYA-4574 / FGSC 10173) (taxid: 321614)

>sp|Q7ZYA7|DDI2_XENLA Protein DDI1 homolog 2 OS=Xenopus laevis GN=ddi2 PE=2 SV=1

 Score =  248 bits (634), Expect = 5e-65,   Method: Compositional matrix adjust.
 Identities = 141/356 (39%), Positives = 212/356 (59%), Gaps = 39/356 (10%)

Query: 1   MRITVMTA----DEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREM-NNAEK 55
           M ITV        E   SL+VD    +EN +AL E+E+ +P     ++Y  R + +N   
Sbjct: 1   MLITVYCVRRDLSEITFSLEVDGDFELENFRALCELESGIPASDTLIVYAERPLTDNQRS 60

Query: 56  LSALGVKDEDLVMMVSNAA--SSPATN--NLSFN----PDGSAV---------------- 91
           L++ G+KD D+V++    A  + PA     L F+    P  S+                 
Sbjct: 61  LASYGLKDGDVVILRQKEAPETRPAAPFPGLDFSTIAVPGASSQPDPSQPQAPPPPPDTS 120

Query: 92  -------NPAAFQQHIRNDANLMTQLFQSDPELAQVLLGNDLNKLQDLLRERSRQRSELR 144
                  NPA  +Q +  + + ++ L + +P LA+ LL  DL K   +L+E+ ++R+   
Sbjct: 121 SFPQGLDNPALLRQMLLANPHELSLLKERNPPLAEALLSGDLEKFTKVLQEQQQERA--- 177

Query: 145 RRQEEEMALLYADPFDVEAQKKIEAAIRQKGIDENWAAALEHNPEAFARVVMLYVDMEVN 204
           RR++E + L  ADPFD++AQ KIE  IRQ  I+EN   A+E  PE+F +VVMLY++ +VN
Sbjct: 178 RREQERIRLYSADPFDLDAQAKIEEDIRQHNIEENMTIAMEEAPESFGQVVMLYINCKVN 237

Query: 205 GIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGN 264
           G P+KAFVDSGAQ TI+S++CAERC ++RL+D R+ G+A GVG  +I+GR+H+A ++I  
Sbjct: 238 GYPVKAFVDSGAQMTIMSQACAERCHIMRLVDRRWAGIAKGVGTQKIIGRVHLAQVQIEG 297

Query: 265 VFYPCSFVVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRVGGGEVSVPFLQEKDIP 320
            F PCSF +L+   M+ L GLDML++HQC IDL++NVL +G       FL E ++P
Sbjct: 298 DFLPCSFSILEEQPMDMLLGLDMLKRHQCSIDLEKNVLVIGTTGTHTTFLPEGELP 353

Xenopus laevis (taxid: 8355)

>sp|Q497D6|DDI2_XENTR Protein DDI1 homolog 2 OS=Xenopus tropicalis GN=ddi2 PE=2 SV=1

 Score =  248 bits (633), Expect = 5e-65,   Method: Compositional matrix adjust.
 Identities = 140/357 (39%), Positives = 211/357 (59%), Gaps = 40/357 (11%)

Query: 1   MRITVMTA----DEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREM-NNAEK 55
           M ITV        E   SL+VD    +EN +AL E+E+ +P  +  ++Y  R + NN   
Sbjct: 1   MLITVYCVRRDLSEVTFSLEVDGDFELENFRALCELESGIPASETLIVYAERPLTNNQRS 60

Query: 56  LSALGVKDEDLVMM-------VSNAASSPATNNLSFNPDGSAV----------------- 91
           L++ G+KD D+V++          AA  P  +  +    GS+                  
Sbjct: 61  LASYGLKDGDVVILRQRETPEARPAAPFPGLDFSTIAVPGSSSQPAPSQPQAPPPPPPDT 120

Query: 92  --------NPAAFQQHIRNDANLMTQLFQSDPELAQVLLGNDLNKLQDLLRERSRQRSEL 143
                   NPA  ++ +  + + ++ L + +P LA+ LL  DL K   +L E+ ++R+  
Sbjct: 121 SSFPQGLDNPALLREMLLANPHELSLLKERNPPLAEALLSGDLEKFTKVLLEQQQERA-- 178

Query: 144 RRRQEEEMALLYADPFDVEAQKKIEAAIRQKGIDENWAAALEHNPEAFARVVMLYVDMEV 203
            RR++E + L  ADPFD+EAQ KIE  IRQ+ I+EN   A+E  PE+F +VVMLY++ +V
Sbjct: 179 -RREQERIRLYSADPFDLEAQAKIEEDIRQQNIEENMTIAMEEAPESFGQVVMLYINCKV 237

Query: 204 NGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIG 263
           NG P+KAFVDSGAQ TI+S++CAERC ++RL+D R+ G+A GVG  +I+GR+H+A ++I 
Sbjct: 238 NGYPVKAFVDSGAQMTIMSQACAERCHIMRLVDRRWAGIAKGVGTQKIIGRVHLAQVQIE 297

Query: 264 NVFYPCSFVVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRVGGGEVSVPFLQEKDIP 320
             F PCSF +L+   M+ L GLDML++HQC IDL++NVL +G       FL E ++P
Sbjct: 298 GDFLPCSFSILEEQPMDMLLGLDMLKRHQCSIDLEKNVLVIGTTGTRTSFLPEGELP 354

Xenopus tropicalis (taxid: 8364)

>sp|Q2USD7|DDI1_ASPOR DNA damage-inducible protein 1 OS=Aspergillus oryzae (strain ATCC 42149 / RIB 40) GN=ddi1 PE=3 SV=2

 Score =  246 bits (629), Expect = 1e-64,   Method: Compositional matrix adjust.
 Identities = 139/359 (38%), Positives = 207/359 (57%), Gaps = 30/359 (8%)

Query: 22  TVENVKALLEVETQVPLQQQQLLYNGREM-NNAEKLSALGVKDEDLVMM----------- 69
           TVE +KA++E ET VP   Q+++YN + + ++A  L  +G+ + D++ +           
Sbjct: 2   TVELLKAIVESETSVPPSAQRIVYNNQLLGDDARTLEQVGIGEGDMLGVHVTLRSPQAPT 61

Query: 70  -VSNAASSPATN-NL----SFNPDGSAVNPAAFQQHIRNDANLMTQLFQSDPELAQVLLG 123
             +   S+PA   NL    + NPD     P   + HI  D  +   + + +PELA     
Sbjct: 62  RTAGGPSAPAAQQNLQRRQAMNPD-----PETIRLHILGDPRVREAVRRQNPELADA--A 114

Query: 124 NDLNKLQDLLRERSRQRSELRRRQEEEMALLYADPFDVEAQKKIEAAIRQKGIDENWAAA 183
           +D  + +D+   + R+ ++L   +E  +A+L ADPF+ E Q++IE  IRQ  + EN   A
Sbjct: 115 SDAQRFRDVFLNQQRREAQLEAEKEARIAMLNADPFNPENQRQIEEIIRQNAVTENLHNA 174

Query: 184 LEHNPEAFARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVA 243
           +EH+PE+F RV MLY+ +EVNG  L AFVDSGAQ TI+S  CA  C ++RL+D RY G+A
Sbjct: 175 MEHHPESFGRVTMLYIPVEVNGHKLNAFVDSGAQVTIMSPECATACNIMRLVDQRYGGIA 234

Query: 244 HGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQCIIDLKENVLR 303
            GVG + ILGR+H A IKIG++F PCSF V++  +++ L GLDMLR+HQ  IDL+   L 
Sbjct: 235 KGVGTANILGRVHSAQIKIGSMFLPCSFTVMEGKHIDLLLGLDMLRRHQACIDLRRGALV 294

Query: 304 VGGGEVSVPFLQEKDIPSHFLD---EERYSKQASSSGTAVTSAAKDKSSNLPAGGGQSS 359
           +   + +VPFL E DIP H  D   +E   K A  +     + A    +  P G   S+
Sbjct: 295 IQ--DQAVPFLGEADIPKHLQDGFEDEPLVKGADGAEVGARTGAVTHQAQGPGGASSST 351

Acts as a linker between the 19S proteasome and polyubiquitinated proteins via UBA domain interactions with ubiquitin for their subsequent degradation. Required for S-phase checkpoint control and may be involved in the regulation of exocytosis.

Aspergillus oryzae (strain ATCC 42149 / RIB 40) (taxid: 510516)

>sp|A1CDT9|DDI1_ASPCL DNA damage-inducible protein 1 OS=Aspergillus clavatus (strain ATCC 1007 / CBS 513.65 / DSM 816 / NCTC 3887 / NRRL 1) GN=ddi1 PE=3 SV=1

 Score =  245 bits (626), Expect = 4e-64,   Method: Compositional matrix adjust.
 Identities = 129/318 (40%), Positives = 195/318 (61%), Gaps = 18/318 (5%)

Query: 22  TVENVKALLEVETQVPLQQQQLLYNGREM-NNAEKLSALGVKDEDLVMMVSNAASSPATN 80
           +VE +KA++E ET +P   Q+L+YN + + N+++ L  +G+ + D+ + V     SP   
Sbjct: 2   SVELLKAIVESETSIPANTQRLVYNNQLLGNDSQTLEQIGIGEGDM-LGVHVTLRSPQAP 60

Query: 81  NLSFNPDGSAV------------NPAAFQQHIRNDANLMTQLFQSDPELAQVLLGNDLNK 128
             S  P  +A             +P   + HI  D  +   + + +PELAQ    +D ++
Sbjct: 61  ARSVGPPSTAAQQNLQRRQAAAPDPETIRLHILGDPRVREAVRRQNPELAQA--ADDAHR 118

Query: 129 LQDLLRERSRQRSELRRRQEEEMALLYADPFDVEAQKKIEAAIRQKGIDENWAAALEHNP 188
            +++L  + R+ ++L   +E  +A+L +DPF+ E Q++IE  IRQ  + EN   A+EH+P
Sbjct: 119 FREVLMAQQRREAQLEAEKEARIAMLNSDPFNPENQREIEEIIRQNAVTENLHTAMEHHP 178

Query: 189 EAFARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQ 248
           E+F RV MLY+ +EVNG  + AFVDSGAQ TI+S  CA  C ++RL+D RY G+A GVG 
Sbjct: 179 ESFGRVTMLYIPVEVNGHKVNAFVDSGAQVTIMSPECATACNIMRLVDQRYGGIAKGVGT 238

Query: 249 SEILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRVGGGE 308
           + ILGR+H A IKIG++F PCSF V++  +++ L GLDMLR+HQ  IDLK   L +   +
Sbjct: 239 ATILGRVHSAQIKIGSMFLPCSFTVMEGKHIDLLLGLDMLRRHQACIDLKNGALVI--QD 296

Query: 309 VSVPFLQEKDIPSHFLDE 326
            +VPFL E DIP    DE
Sbjct: 297 QAVPFLGEADIPRQLQDE 314

Acts as a linker between the 19S proteasome and polyubiquitinated proteins via UBA domain interactions with ubiquitin for their subsequent degradation. Required for S-phase checkpoint control and may be involved in the regulation of exocytosis.

Aspergillus clavatus (strain ATCC 1007 / CBS 513.65 / DSM 816 / NCTC 3887 / NRRL 1) (taxid: 344612)

>sp|A1DCU5|DDI1_NEOFI DNA damage-inducible protein 1 OS=Neosartorya fischeri (strain ATCC 1020 / DSM 3700 / FGSC A1164 / NRRL 181) GN=ddi1 PE=3 SV=1

 Score =  245 bits (626), Expect = 4e-64,   Method: Compositional matrix adjust.
 Identities = 139/366 (37%), Positives = 213/366 (58%), Gaps = 27/366 (7%)

Query: 22  TVENVKALLEVETQVPLQQQQLLYNGREM-NNAEKLSALGVKDEDL--VMMVSNAASSPA 78
           TVE +KA++E ET +P   Q+L+YN + + N+A+ L  +G+ + D+  V +   +  +PA
Sbjct: 2   TVELLKAIVESETSIPTNNQRLVYNNQLLGNDAQTLEQIGIGEGDMLGVHVTMRSPQAPA 61

Query: 79  TNNLSFNPDGSA-----------VNPAAFQQHIRNDANLMTQLFQSDPELAQVLLGNDLN 127
             ++   P  +A            +P   + HI  D  +   + + +PELA     ND  
Sbjct: 62  -RSIGGGPSAAAQQNLQRRQPMTPDPETIRLHILGDPRVREAVRRQNPELADA--ANDAQ 118

Query: 128 KLQDLLRERSRQRSELRRRQEEEMALLYADPFDVEAQKKIEAAIRQKGIDENWAAALEHN 187
           + +D+L  + R+ +++   +E  +A+L ADPF+ E Q++IE  IRQ  + EN   A+EH+
Sbjct: 119 RFRDVLMAQQRREAQMEAEKEARIAMLNADPFNPENQREIEEIIRQNAVTENLHTAMEHH 178

Query: 188 PEAFARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVG 247
           PE+F RV MLY+ +EVNG  + AFVDSGAQ TI+S  CA  C ++RL+D RY G+A GVG
Sbjct: 179 PESFGRVTMLYIPVEVNGHKVNAFVDSGAQVTIMSPECATACNIMRLVDRRYGGIAKGVG 238

Query: 248 QSEILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRVGGG 307
            + ILGR+H A IKIG++F PCSF V++  +++ L GLDML++HQ  IDLK+  L +   
Sbjct: 239 TATILGRVHSAQIKIGSMFLPCSFTVMEGKHIDLLLGLDMLKRHQACIDLKKGALVI--Q 296

Query: 308 EVSVPFLQEKDIPSH----FLDEERYSKQASSSGTAVTSAAKDKSSNLPAGGGQSSGGTR 363
           + +VPFL E DIP      F DE        +   A T A   ++S    G G S+    
Sbjct: 297 DEAVPFLGEADIPKELQEGFEDEPIVKGADGAEVGARTGAVTHQAS----GPGTSAAAPS 352

Query: 364 GNTTQV 369
            +T ++
Sbjct: 353 SSTPRI 358

Acts as a linker between the 19S proteasome and polyubiquitinated proteins via UBA domain interactions with ubiquitin for their subsequent degradation. Required for S-phase checkpoint control and may be involved in the regulation of exocytosis.

Neosartorya fischeri (strain ATCC 1020 / DSM 3700 / FGSC A1164 / NRRL 181) (taxid: 331117)

>sp|Q5TDH0|DDI2_HUMAN Protein DDI1 homolog 2 OS=Homo sapiens GN=DDI2 PE=1 SV=1

 Score =  245 bits (625), Expect = 5e-64,   Method: Compositional matrix adjust.
 Identities = 134/350 (38%), Positives = 204/350 (58%), Gaps = 43/350 (12%)

Query: 10  EQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREM-NNAEKLSALGVKDEDLVM 68
           E   SL VD    + N +AL E+E+ +P  + Q++Y  R + +N   L++ G+KD D+V+
Sbjct: 14  EVTFSLQVDADFELHNFRALCELESGIPAAESQIVYAERPLTDNHRSLASYGLKDGDVVI 73

Query: 69  MVSNAASSP--------------------------------------ATNNLSFNPDGSA 90
           +     + P                                      +   ++ +P G  
Sbjct: 74  LRQKENADPRPPVQFPNLPRIDFSSIAVPGTSSPRQRQPPGTQQSHSSPGEITSSPQGLD 133

Query: 91  VNPAAFQQHIRNDANLMTQLFQSDPELAQVLLGNDLNKLQDLLRERSRQRSELRRRQEEE 150
            NPA  +  +  + + ++ L + +P LA+ LL  DL K   +L E+ + R+   RR++E 
Sbjct: 134 -NPALLRDMLLANPHELSLLKERNPPLAEALLSGDLEKFSRVLVEQQQDRA---RREQER 189

Query: 151 MALLYADPFDVEAQKKIEAAIRQKGIDENWAAALEHNPEAFARVVMLYVDMEVNGIPLKA 210
           + L  ADPFD+EAQ KIE  IRQ+ I+EN   A+E  PE+F +VVMLY++ +VNG P+KA
Sbjct: 190 IRLFSADPFDLEAQAKIEEDIRQQNIEENMTIAMEEAPESFGQVVMLYINCKVNGHPVKA 249

Query: 211 FVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCS 270
           FVDSGAQ TI+S++CAERC ++RL+D R+ G+A GVG  +I+GR+H+A ++I   F PCS
Sbjct: 250 FVDSGAQMTIMSQACAERCNIMRLVDRRWAGIAKGVGTQKIIGRVHLAQVQIEGDFLPCS 309

Query: 271 FVVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRVGGGEVSVPFLQEKDIP 320
           F +L+   M+ L GLDML++HQC IDLK+NVL +G       FL E ++P
Sbjct: 310 FSILEEQPMDMLLGLDMLKRHQCSIDLKKNVLVIGTTGSQTTFLPEGELP 359

Homo sapiens (taxid: 9606)

>sp|Q4WGS4|DDI1_ASPFU DNA damage-inducible protein 1 OS=Neosartorya fumigata (strain ATCC MYA-4609 / Af293 / CBS 101355 / FGSC A1100) GN=ddi1 PE=3 SV=1

 Score =  243 bits (621), Expect = 1e-63,   Method: Compositional matrix adjust.
 Identities = 140/367 (38%), Positives = 213/367 (58%), Gaps = 40/367 (10%)

Query: 22  TVENVKALLEVETQVPLQQQQLLYNGREM-NNAEKLSALGVKDEDL--VMMVSNAASSPA 78
           TVE +KA++E ET +P   Q+L+YN + + N+A+ L  +G+ + D+  V +   +  +PA
Sbjct: 2   TVELLKAIVESETSIPTNNQRLVYNNQLLGNDAQTLEQIGIGEGDMLGVHVTMRSPQAPA 61

Query: 79  TNNLSFNPDGSA-----------VNPAAFQQHIRNDANLMTQLFQSDPELAQVLLGNDLN 127
             ++   P  +A            +P   + HI  D  +   + + +PELA      D  
Sbjct: 62  -RSIGGGPSAAAQQNLQRRQPMTPDPETIRLHILGDPRVREAVRRQNPELADA--ATDAQ 118

Query: 128 KLQDLLRERSRQRSELRRRQEEEMALLYADPFDVEAQKKIEAAIRQKGIDENWAAALEHN 187
           + +D+L  + R+ +++   +E  +A+L ADPF+ E Q++IE  IRQ  + EN   A+EH+
Sbjct: 119 RFRDVLMAQQRREAQMEAEKEARIAMLNADPFNPENQREIEEIIRQNAVTENLHTAMEHH 178

Query: 188 PEAFARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVG 247
           PE+F RV MLY+ +EVNG  + AFVDSGAQ TI+S  CA  C ++RL+D RY G+A GVG
Sbjct: 179 PESFGRVTMLYIPVEVNGHKVNAFVDSGAQVTIMSPECATACNIMRLVDRRYGGIAKGVG 238

Query: 248 QSEILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRVGGG 307
            + ILGR+H A IKIG++F PCSF V++  +++ L GLDML++HQ  IDLK+  L +   
Sbjct: 239 TATILGRVHSAQIKIGSMFLPCSFTVMEGKHIDLLLGLDMLKRHQACIDLKKGALVI--Q 296

Query: 308 EVSVPFLQEKDIPSH----FLDEE---------------RYSKQASSSGT--AVTSAAKD 346
           + +VPFL E DIP      F DE                  + QAS SGT  A  S++  
Sbjct: 297 DEAVPFLGEADIPKELQEGFEDEPIVKGADGAEVGARTGAVTHQASGSGTSAAAPSSSTP 356

Query: 347 KSSNLPA 353
           +++  PA
Sbjct: 357 RTNIRPA 363

Acts as a linker between the 19S proteasome and polyubiquitinated proteins via UBA domain interactions with ubiquitin for their subsequent degradation. Required for S-phase checkpoint control and may be involved in the regulation of exocytosis.

Neosartorya fumigata (strain ATCC MYA-4609 / Af293 / CBS 101355 / FGSC A1100) (taxid: 330879)

>sp|A2ADY9|DDI2_MOUSE Protein DDI1 homolog 2 OS=Mus musculus GN=Ddi2 PE=1 SV=1

 Score =  241 bits (616), Expect = 6e-63,   Method: Compositional matrix adjust.
 Identities = 137/349 (39%), Positives = 204/349 (58%), Gaps = 41/349 (11%)

Query: 10  EQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREM-NNAEKLSALGVKDEDLVM 68
           E   SL VD    + N +AL E+E+ +P  + Q++Y  R + +N   L++ G+KD D+V+
Sbjct: 14  EVTFSLQVDADFELHNFRALCELESGIPAAESQIVYAERPLTDNHRSLASYGLKDGDVVI 73

Query: 69  M--VSNAASSPAT--NNL------------SFNPDGSAV--------------------- 91
           +    NA   PA   +NL            + NP    +                     
Sbjct: 74  LRQKENADPRPAVQFSNLPRIDFSSIAVPGTSNPQQRQLPRTQAQHSSPGEMASSPQGLD 133

Query: 92  NPAAFQQHIRNDANLMTQLFQSDPELAQVLLGNDLNKLQDLLRERSRQRSELRRRQEEEM 151
           NPA  +  +  + + ++ L + +P LA+ LL  DL K   +L E+ + R+   RR++E +
Sbjct: 134 NPALLRDMLLANPHELSLLKERNPPLAEALLSGDLEKFSRVLVEQQQDRA---RREQERI 190

Query: 152 ALLYADPFDVEAQKKIEAAIRQKGIDENWAAALEHNPEAFARVVMLYVDMEVNGIPLKAF 211
            L  ADPFD+EAQ KIE  IRQ+ I+EN   A+E  PE+F +V MLY++  VNG P+KAF
Sbjct: 191 RLFSADPFDLEAQAKIEEDIRQQNIEENMTIAMEEAPESFGQVAMLYINCRVNGHPVKAF 250

Query: 212 VDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSF 271
           VDSGAQ TI+S++CAERC ++RL+D R+ G+A GVG  +I+GR+H+A ++I   F  CSF
Sbjct: 251 VDSGAQMTIMSQACAERCNIMRLVDRRWAGIAKGVGTQKIIGRVHLAQVQIEGDFLACSF 310

Query: 272 VVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRVGGGEVSVPFLQEKDIP 320
            +L+   M+ L GLDML++HQC IDLK+NVL +G       FL E ++P
Sbjct: 311 SILEEQPMDMLLGLDMLKRHQCSIDLKKNVLVIGTTGSQTTFLPEGELP 359

Mus musculus (taxid: 10090)

>sp|Q2T9Z1|DDI1_BOVIN Protein DDI1 homolog 1 OS=Bos taurus GN=DDI1 PE=2 SV=1

 Score =  241 bits (615), Expect = 7e-63,   Method: Compositional matrix adjust.
 Identities = 136/351 (38%), Positives = 197/351 (56%), Gaps = 43/351 (12%)

Query: 10  EQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREM-NNAEKLSALGVKDEDLVM 68
           E   SL V P   + N   L E+E+ +P ++ Q++Y  R + N+   L + G+KD D+V+
Sbjct: 14  EATFSLQVRPDFELHNFLVLCELESGIPAEETQIVYMERLLVNDHCSLGSYGLKDGDMVI 73

Query: 69  MVSNAASSP-----ATNNLSFNPDGSAV-------------------------------- 91
           ++   A  P     A    S  P G A+                                
Sbjct: 74  LLQKEAMRPRSPERAAGLCSMEPAGPALPGTSGSRPHQRAQSAQHSSRRGSGEKAGPGQG 133

Query: 92  --NPAAFQQHIRNDANLMTQLFQSDPELAQVLLGNDLNKLQDLLRERSRQRSELRRRQEE 149
             +PA  +  + +  + ++ L + +P LA+ LL  +L     +L E+ R+R+    R++E
Sbjct: 134 LDSPALVRSMLLSSPHDLSLLKERNPSLAEALLSGNLESFSQVLMEQQRERA---LREQE 190

Query: 150 EMALLYADPFDVEAQKKIEAAIRQKGIDENWAAALEHNPEAFARVVMLYVDMEVNGIPLK 209
            + L  ADPFD+EAQ KIE  IRQ+ I+EN + A+E  PE+F +V MLY++  VNG PLK
Sbjct: 191 RLRLFSADPFDLEAQAKIEEEIRQQNIEENMSIAMEEAPESFGQVAMLYINCRVNGHPLK 250

Query: 210 AFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPC 269
           AFVDSGAQ TI+++ CAERC ++RL+D R+ GVA GVG   ILGR+H+A I+I   F  C
Sbjct: 251 AFVDSGAQMTIMNQVCAERCNIIRLVDRRWAGVAKGVGTQRILGRVHLAQIQIEGDFLQC 310

Query: 270 SFVVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRVGGGEVSVPFLQEKDIP 320
           SF +L+   M+ L GLDMLR+HQC IDLK NVL +G       FL E ++P
Sbjct: 311 SFSILEEQPMDMLLGLDMLRRHQCSIDLKRNVLVIGTTGTQTSFLPEGELP 361

Bos taurus (taxid: 9913)

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	380
224122096	410	predicted protein [Populus trichocarpa]	0.965	0.895	0.853	1e-178
224061633	418	predicted protein [Populus trichocarpa]	0.981	0.892	0.834	1e-178
449444008	407	PREDICTED: DNA damage-inducible protein	0.963	0.899	0.817	1e-176
449508333	407	PREDICTED: DNA damage-inducible protein	0.963	0.899	0.815	1e-176
255579550	413	DNA-damage inducible protein ddi1, putat	0.963	0.886	0.839	1e-175
358249254	405	uncharacterized protein LOC100782198 [Gl	0.897	0.841	0.835	1e-170
225462066	410	PREDICTED: DNA damage-inducible protein	0.921	0.853	0.854	1e-170
334185304	413	DNA damage-inducible protein 1 [Arabidop	0.928	0.854	0.806	1e-167
356527193	410	PREDICTED: DNA damage-inducible protein	0.876	0.812	0.846	1e-166
18399933	414	DNA damage-inducible protein 1 [Arabidop	0.928	0.852	0.804	1e-164

>gi|224122096|ref|XP_002330540.1| predicted protein [Populus trichocarpa] gi|118486011|gb|ABK94849.1| unknown [Populus trichocarpa] gi|222872098|gb|EEF09229.1| predicted protein [Populus trichocarpa]

 Score =  631 bits (1628), Expect = e-178,   Method: Compositional matrix adjust.
 Identities = 315/369 (85%), Positives = 338/369 (91%), Gaps = 2/369 (0%)

Query: 1   MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
           MRITVMTADEQIISL+VDPHE+VENVKALLEVETQVPLQQQQLLYNGREM N EKLSALG
Sbjct: 1   MRITVMTADEQIISLEVDPHESVENVKALLEVETQVPLQQQQLLYNGREMRNNEKLSALG 60

Query: 61  VKDEDLVMMVSNAAS-SPATNNLSFNPDGSAVNPAAFQQHIRNDANLMTQLFQSDPELAQ 119
           VKDEDLVMMVSNAA+ S  +NNL  NPDGSA+NP AFQQ +RND+N M QLFQ+DPELAQ
Sbjct: 61  VKDEDLVMMVSNAAALSAPSNNLGLNPDGSAMNPGAFQQQLRNDSNTMAQLFQADPELAQ 120

Query: 120 VLLGNDLNKLQDLLRERSRQRSELRRRQEEEMALLYADPFDVEAQKKIEAAIRQKGIDEN 179
           V+LGNDLNKLQDLLR+R RQRSEL R+QEEE ALL ADPFDVEAQKKIEAAIRQKGIDEN
Sbjct: 121 VILGNDLNKLQDLLRQRHRQRSELHRQQEEEFALLEADPFDVEAQKKIEAAIRQKGIDEN 180

Query: 180 WAAALEHNPEAFARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRY 239
           WAAALE+NPEAFARV+MLYVDMEVNG+PLKAFVDSGAQSTIISKSCAERCGLLRLLD RY
Sbjct: 181 WAAALEYNPEAFARVIMLYVDMEVNGVPLKAFVDSGAQSTIISKSCAERCGLLRLLDQRY 240

Query: 240 RGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQCIIDLKE 299
           +G+AHGVGQSEILGRIHVAPIKIGN+FYPCSF+VLDSPNMEFLFGLDMLRKHQCIIDLKE
Sbjct: 241 KGIAHGVGQSEILGRIHVAPIKIGNIFYPCSFMVLDSPNMEFLFGLDMLRKHQCIIDLKE 300

Query: 300 NVLRVGGGEVSVPFLQEKDIPSHFLDEERYSKQASSSGTAVTSAAKDKSSNLPAGGGQSS 359
           NVLRVGGGEVSVPFLQEKDIP  FLDEERYSK+ASSSG  VTS   +K ++ PA  GQSS
Sbjct: 301 NVLRVGGGEVSVPFLQEKDIPPRFLDEERYSKEASSSGNPVTSGKAEKKNDPPA-MGQSS 359

Query: 360 GGTRGNTTQ 368
           G  R + TQ
Sbjct: 360 GVARSSVTQ 368

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224061633|ref|XP_002300577.1| predicted protein [Populus trichocarpa] gi|222847835|gb|EEE85382.1| predicted protein [Populus trichocarpa]

 Score =  631 bits (1628), Expect = e-178,   Method: Compositional matrix adjust.
 Identities = 313/375 (83%), Positives = 341/375 (90%), Gaps = 2/375 (0%)

Query: 1   MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
           MRITVMT  EQIISL+VDPHE+VENVKALLEVETQVPLQQQQLLYNGREM N +KLSALG
Sbjct: 1   MRITVMTVGEQIISLEVDPHESVENVKALLEVETQVPLQQQQLLYNGREMKNNDKLSALG 60

Query: 61  VKDEDLVMMVSNAAS-SPATNNLSFNPDGSAVNPAAFQQHIRNDANLMTQLFQSDPELAQ 119
           VKDEDLVMMVSN+A+ S  +NNL  NPDGSAVNP AFQQH+R+D+N M QLFQ+DPELAQ
Sbjct: 61  VKDEDLVMMVSNSAAISAPSNNLGLNPDGSAVNPGAFQQHLRSDSNTMAQLFQADPELAQ 120

Query: 120 VLLGNDLNKLQDLLRERSRQRSELRRRQEEEMALLYADPFDVEAQKKIEAAIRQKGIDEN 179
            +LGNDLNKLQ+LLR+R RQRSELRR+QEEE ALL ADPFDVEAQKKIEAAIRQKGIDEN
Sbjct: 121 AVLGNDLNKLQELLRQRHRQRSELRRQQEEEFALLEADPFDVEAQKKIEAAIRQKGIDEN 180

Query: 180 WAAALEHNPEAFARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRY 239
           WAAALE+NPEAFARV+MLYVDMEVNG+PLKAFVDSGAQSTIISKSCAERCGLLRLLD RY
Sbjct: 181 WAAALEYNPEAFARVIMLYVDMEVNGVPLKAFVDSGAQSTIISKSCAERCGLLRLLDQRY 240

Query: 240 RGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQCIIDLKE 299
           +G+AHGVGQSEILGRIHVAPIKIGN+FYPCSF+VLD+PNMEFLFGLDMLRKHQCIIDLKE
Sbjct: 241 KGIAHGVGQSEILGRIHVAPIKIGNIFYPCSFMVLDAPNMEFLFGLDMLRKHQCIIDLKE 300

Query: 300 NVLRVGGGEVSVPFLQEKDIPSHFLDEERYSKQASSSGTAVTSAAKDKSSNLPAGGGQSS 359
           NVLR+GGGEVSVPFLQEKDIPS FLDEERYSK+ASSSG  VTS    K ++ PA GGQSS
Sbjct: 301 NVLRMGGGEVSVPFLQEKDIPSRFLDEERYSKEASSSGNPVTSGTTVKKNDPPA-GGQSS 359

Query: 360 GGTRGNTTQVILLCS 374
           G  RG  TQ  L+ +
Sbjct: 360 GVARGGATQFSLILA 374

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449444008|ref|XP_004139767.1| PREDICTED: DNA damage-inducible protein 1-like [Cucumis sativus]

 Score =  624 bits (1608), Expect = e-176,   Method: Compositional matrix adjust.
 Identities = 301/368 (81%), Positives = 326/368 (88%), Gaps = 2/368 (0%)

Query: 1   MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
           MRITVMTADEQI+SLDVDP+E+VENVKALLEVETQVPLQ+QQLLYNG+EM N EKLS LG
Sbjct: 1   MRITVMTADEQILSLDVDPNESVENVKALLEVETQVPLQRQQLLYNGKEMKNFEKLSGLG 60

Query: 61  VKDEDLVMMVSNAASSPATNNLSFNPDGSAVNPAAFQQHIRNDANLMTQLFQSDPELAQV 120
           VKDEDL+MMVS  ASS  TNNLSFNPDGSAVNP AFQQHIR D+N M QLFQSDPELAQ 
Sbjct: 61  VKDEDLIMMVSAGASSAPTNNLSFNPDGSAVNPEAFQQHIRRDSNTMAQLFQSDPELAQA 120

Query: 121 LLGNDLNKLQDLLRERSRQRSELRRRQEEEMALLYADPFDVEAQKKIEAAIRQKGIDENW 180
           ++GNDLN LQ +LRER RQRS L+R+QEEEMALLYADPFDVEAQKKIEAAIRQKGIDENW
Sbjct: 121 IVGNDLNNLQQILRERHRQRSVLQRQQEEEMALLYADPFDVEAQKKIEAAIRQKGIDENW 180

Query: 181 AAALEHNPEAFARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYR 240
           AAALEHNPEAFARVVMLYVDMEVNG+PLKAFVDSGAQSTIISKSCAE+CGLLRLLD RY+
Sbjct: 181 AAALEHNPEAFARVVMLYVDMEVNGVPLKAFVDSGAQSTIISKSCAEKCGLLRLLDQRYK 240

Query: 241 GVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQCIIDLKEN 300
           G+A GVGQSEILGRIHVAPIKIG++FYPCSF+VLDSPNM+FLFGLDMLRKHQCIIDLKEN
Sbjct: 241 GIARGVGQSEILGRIHVAPIKIGSIFYPCSFLVLDSPNMDFLFGLDMLRKHQCIIDLKEN 300

Query: 301 VLRVGGGEVSVPFLQEKDIPSHFLDEERYSKQASSSGTAVTSAAKDKSSNLPAGGGQSSG 360
           VLRVGGGEV VPFLQEKDIP    DEER SK+ASSSG  V S+  + S N  A   Q++ 
Sbjct: 301 VLRVGGGEVFVPFLQEKDIPPSLFDEERLSKEASSSGAPVASSPTENSRN--ARAAQATA 358

Query: 361 GTRGNTTQ 368
           G  G   Q
Sbjct: 359 GNVGGAAQ 366

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449508333|ref|XP_004163284.1| PREDICTED: DNA damage-inducible protein 1-like [Cucumis sativus]

 Score =  622 bits (1604), Expect = e-176,   Method: Compositional matrix adjust.
 Identities = 300/368 (81%), Positives = 325/368 (88%), Gaps = 2/368 (0%)

Query: 1   MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
           MRITVMTADEQI+SLDVDP+E+VENVKALLEVETQVPLQ+QQLLYNG+EM N EKLS LG
Sbjct: 1   MRITVMTADEQILSLDVDPNESVENVKALLEVETQVPLQRQQLLYNGKEMKNFEKLSGLG 60

Query: 61  VKDEDLVMMVSNAASSPATNNLSFNPDGSAVNPAAFQQHIRNDANLMTQLFQSDPELAQV 120
           VKDEDL+MMVS  ASS  TNNLSFNPDGSAVNP AFQQHIR D+N M QLFQSDPELAQ 
Sbjct: 61  VKDEDLIMMVSAGASSAPTNNLSFNPDGSAVNPEAFQQHIRRDSNTMAQLFQSDPELAQA 120

Query: 121 LLGNDLNKLQDLLRERSRQRSELRRRQEEEMALLYADPFDVEAQKKIEAAIRQKGIDENW 180
           ++GNDLN LQ +LRER RQRS L+R+QEEEMALLYADPFDVEAQKKIEAAIRQKGIDENW
Sbjct: 121 IVGNDLNNLQQILRERHRQRSVLQRQQEEEMALLYADPFDVEAQKKIEAAIRQKGIDENW 180

Query: 181 AAALEHNPEAFARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYR 240
           AAALEHNPEAFARVVMLYVDMEVNG+PLKAFVDSGAQSTIISKSCAE+CGLLRLLD RY+
Sbjct: 181 AAALEHNPEAFARVVMLYVDMEVNGVPLKAFVDSGAQSTIISKSCAEKCGLLRLLDQRYK 240

Query: 241 GVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQCIIDLKEN 300
           G+A GVGQSEILGRIHVAPIKIG++FYPCSF+VLDSPNM+FLFGLDMLRKHQCIIDLKEN
Sbjct: 241 GIARGVGQSEILGRIHVAPIKIGSIFYPCSFLVLDSPNMDFLFGLDMLRKHQCIIDLKEN 300

Query: 301 VLRVGGGEVSVPFLQEKDIPSHFLDEERYSKQASSSGTAVTSAAKDKSSNLPAGGGQSSG 360
           VLRVGGGEV VPFLQEKDIP    DEER SK+ SSSG  V S+  + S N  A   Q++ 
Sbjct: 301 VLRVGGGEVFVPFLQEKDIPPSLFDEERLSKETSSSGAPVASSPTENSRN--ARAAQATA 358

Query: 361 GTRGNTTQ 368
           G  G   Q
Sbjct: 359 GNVGGAAQ 366

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255579550|ref|XP_002530617.1| DNA-damage inducible protein ddi1, putative [Ricinus communis] gi|223529827|gb|EEF31760.1| DNA-damage inducible protein ddi1, putative [Ricinus communis]

 Score =  619 bits (1597), Expect = e-175,   Method: Compositional matrix adjust.
 Identities = 313/373 (83%), Positives = 338/373 (90%), Gaps = 7/373 (1%)

Query: 1   MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
           MRITVMTADEQIISL+VDPHE+VENVKALLEVETQVPLQQQQLLYNGRE+ N EKLSALG
Sbjct: 1   MRITVMTADEQIISLEVDPHESVENVKALLEVETQVPLQQQQLLYNGREIRNNEKLSALG 60

Query: 61  VKDEDLVMMVSNAASSPAT-----NNLSFNPDGSAVNPAAFQQHIRNDANLMTQLFQSDP 115
           VKDEDL+MMVS   ++ A      N+LSFN DGSAVNP AFQQHIRND+NLM QLFQ+DP
Sbjct: 61  VKDEDLLMMVSGGGAAVAPSSAPANDLSFNADGSAVNPGAFQQHIRNDSNLMAQLFQTDP 120

Query: 116 ELAQVLLGNDLNKLQDLLRERSRQRSELRRRQEEEMALLYADPFDVEAQKKIEAAIRQKG 175
           ELAQ LLGNDLN+LQ LLR+R+RQRSELRR+QEEE+ALL ADPFDVEAQKKIEAAIRQKG
Sbjct: 121 ELAQALLGNDLNRLQGLLRQRNRQRSELRRQQEEELALLSADPFDVEAQKKIEAAIRQKG 180

Query: 176 IDENWAAALEHNPEAFARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLL 235
           IDENWAAALE+NPEAFARVVMLYVDMEVNG+PLKAFVDSGAQSTIISKSCAERCGLLRLL
Sbjct: 181 IDENWAAALEYNPEAFARVVMLYVDMEVNGVPLKAFVDSGAQSTIISKSCAERCGLLRLL 240

Query: 236 DDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQCII 295
           D RYRG+A GVGQSEILGRIHVAPIKIG++FYPCSF+VLDSPNMEFLFGLDMLRKHQCII
Sbjct: 241 DQRYRGIARGVGQSEILGRIHVAPIKIGSIFYPCSFLVLDSPNMEFLFGLDMLRKHQCII 300

Query: 296 DLKENVLRVGGGEVSVPFLQEKDIPSHFLDEERYSKQASSSGTAVTSAAKDKSSNLPAGG 355
           DLKENVL+V GGEVSVPFLQEKDIPSHFLDEE + K+ASSSG  VTS   DK +N  A G
Sbjct: 301 DLKENVLKVAGGEVSVPFLQEKDIPSHFLDEESH-KEASSSGNPVTSGTVDKKANASA-G 358

Query: 356 GQSSGGTRGNTTQ 368
           GQSSG  RG+ TQ
Sbjct: 359 GQSSGVARGSVTQ 371

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|358249254|ref|NP_001240274.1| uncharacterized protein LOC100782198 [Glycine max] gi|255638715|gb|ACU19662.1| unknown [Glycine max]

 Score =  605 bits (1560), Expect = e-170,   Method: Compositional matrix adjust.
 Identities = 289/346 (83%), Positives = 320/346 (92%), Gaps = 5/346 (1%)

Query: 6   MTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDED 65
           MTADEQII+LDVDPHE+VENVKALLEVET VPLQQQQLL+NG+E+ N+EKLSALGVKD+D
Sbjct: 1   MTADEQIITLDVDPHESVENVKALLEVETSVPLQQQQLLFNGKEVRNSEKLSALGVKDDD 60

Query: 66  LVMMVSNA-----ASSPATNNLSFNPDGSAVNPAAFQQHIRNDANLMTQLFQSDPELAQV 120
           L+MMVS A     ASS +TN+LS N DGSAVNP +FQQHIR+D+NLM+QLFQSDPELAQ 
Sbjct: 61  LLMMVSGAGAGATASSGSTNDLSLNADGSAVNPGSFQQHIRHDSNLMSQLFQSDPELAQA 120

Query: 121 LLGNDLNKLQDLLRERSRQRSELRRRQEEEMALLYADPFDVEAQKKIEAAIRQKGIDENW 180
           +LGNDLNKLQ++LR R  QR EL+R++EEE+ALLYADPFDVEAQKKIEAAIRQKGIDENW
Sbjct: 121 ILGNDLNKLQEVLRLRHHQRDELKRQKEEELALLYADPFDVEAQKKIEAAIRQKGIDENW 180

Query: 181 AAALEHNPEAFARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYR 240
           AAALEHNPEAFARVVMLYVDMEVNG+PLKAFVDSGAQSTIISKSCAER GLLRLLD RYR
Sbjct: 181 AAALEHNPEAFARVVMLYVDMEVNGVPLKAFVDSGAQSTIISKSCAERLGLLRLLDQRYR 240

Query: 241 GVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQCIIDLKEN 300
           G+AHGVGQSEILGRIHVAPIKIG++FYPCSF+VLDSPNMEFLFGLDMLRKHQCIIDLKEN
Sbjct: 241 GIAHGVGQSEILGRIHVAPIKIGSIFYPCSFLVLDSPNMEFLFGLDMLRKHQCIIDLKEN 300

Query: 301 VLRVGGGEVSVPFLQEKDIPSHFLDEERYSKQASSSGTAVTSAAKD 346
           VLRVGGGEVSVPFLQEKDIPS FLDEE+Y+K+AS SG  V S + +
Sbjct: 301 VLRVGGGEVSVPFLQEKDIPSRFLDEEKYAKEASGSGGQVASGSNN 346

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225462066|ref|XP_002276099.1| PREDICTED: DNA damage-inducible protein 1 [Vitis vinifera] gi|296090003|emb|CBI39822.3| unnamed protein product [Vitis vinifera]

 Score =  604 bits (1558), Expect = e-170,   Method: Compositional matrix adjust.
 Identities = 299/350 (85%), Positives = 325/350 (92%)

Query: 1   MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
           M+ITVMTADEQIISLDVD  E+VENVKALLEVET+VPLQQQQLL+NG+EM N EKLSALG
Sbjct: 1   MKITVMTADEQIISLDVDRDESVENVKALLEVETRVPLQQQQLLFNGQEMRNNEKLSALG 60

Query: 61  VKDEDLVMMVSNAASSPATNNLSFNPDGSAVNPAAFQQHIRNDANLMTQLFQSDPELAQV 120
           VKDEDLVMMVSNAA S +TN LS NPDGSAVNP A QQH R ++N M QLFQ+DPE AQ 
Sbjct: 61  VKDEDLVMMVSNAAPSSSTNALSLNPDGSAVNPEALQQHFRRESNTMAQLFQTDPEFAQA 120

Query: 121 LLGNDLNKLQDLLRERSRQRSELRRRQEEEMALLYADPFDVEAQKKIEAAIRQKGIDENW 180
           LLGNDLNKLQ++LR+R R RSE++R+++EE+ALLYADPFDVEAQKKIEAAI+QKGIDENW
Sbjct: 121 LLGNDLNKLQEILRQRHRHRSEIQRQRDEELALLYADPFDVEAQKKIEAAIQQKGIDENW 180

Query: 181 AAALEHNPEAFARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYR 240
           AAALE+NPEAFARVVMLYVDMEVNG+PLKAFVDSGAQSTIISKSCAERCGLLRLLD RYR
Sbjct: 181 AAALEYNPEAFARVVMLYVDMEVNGVPLKAFVDSGAQSTIISKSCAERCGLLRLLDRRYR 240

Query: 241 GVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQCIIDLKEN 300
           G+AHGVGQSEILGRIHVAPIKIGN+FYPCSF+VLDSPNMEFLFGLDMLRKHQCIIDLK+N
Sbjct: 241 GIAHGVGQSEILGRIHVAPIKIGNIFYPCSFMVLDSPNMEFLFGLDMLRKHQCIIDLKDN 300

Query: 301 VLRVGGGEVSVPFLQEKDIPSHFLDEERYSKQASSSGTAVTSAAKDKSSN 350
           VLRVGGGEVSVPFLQEKDIPSHFLDEERYSKQASSSG    S AKDK+ N
Sbjct: 301 VLRVGGGEVSVPFLQEKDIPSHFLDEERYSKQASSSGGPAASGAKDKNDN 350

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|334185304|ref|NP_001189876.1| DNA damage-inducible protein 1 [Arabidopsis thaliana] gi|332641803|gb|AEE75324.1| DNA damage-inducible protein 1 [Arabidopsis thaliana]

 Score =  593 bits (1529), Expect = e-167,   Method: Compositional matrix adjust.
 Identities = 288/357 (80%), Positives = 317/357 (88%), Gaps = 4/357 (1%)

Query: 1   MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
           MRITVMTA EQII+LDVD  ETVENVKALLEVE+ VP+QQQQLLYNG EM N++KLSALG
Sbjct: 1   MRITVMTAGEQIITLDVDSQETVENVKALLEVESNVPIQQQQLLYNGNEMGNSDKLSALG 60

Query: 61  VKDEDLVMM-VSNA---ASSPATNNLSFNPDGSAVNPAAFQQHIRNDANLMTQLFQSDPE 116
           VKD+DL+MM VSNA   A+S A N+L  NPDGSA+NPAAFQQHIR D+NLM QLFQ+DPE
Sbjct: 61  VKDDDLLMMMVSNASSGATSAAGNDLGMNPDGSALNPAAFQQHIRGDSNLMGQLFQNDPE 120

Query: 117 LAQVLLGNDLNKLQDLLRERSRQRSELRRRQEEEMALLYADPFDVEAQKKIEAAIRQKGI 176
           LAQV+ G+DLNKLQD+LR R RQRS L+R++EEE+ALLYADPFDVEAQ+KIEAAIRQKGI
Sbjct: 121 LAQVISGSDLNKLQDVLRARHRQRSVLQRQKEEELALLYADPFDVEAQRKIEAAIRQKGI 180

Query: 177 DENWAAALEHNPEAFARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLD 236
           DENW AALEHNPE FARV+MLYVDMEVNG+PLKAFVDSGAQSTIISKSCAERCGLLRL+D
Sbjct: 181 DENWEAALEHNPEGFARVIMLYVDMEVNGVPLKAFVDSGAQSTIISKSCAERCGLLRLMD 240

Query: 237 DRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQCIID 296
            RY+G+AHGVGQ+EILGRIHVAPIKIGN FYPCSFVVLDSPNMEFLFGLDMLRKHQC ID
Sbjct: 241 QRYKGIAHGVGQTEILGRIHVAPIKIGNNFYPCSFVVLDSPNMEFLFGLDMLRKHQCTID 300

Query: 297 LKENVLRVGGGEVSVPFLQEKDIPSHFLDEERYSKQASSSGTAVTSAAKDKSSNLPA 353
           LKENV+ VGGGEVSVPFLQEKDIPS FLDEER    ASSSG  V S   +K +N  A
Sbjct: 301 LKENVMTVGGGEVSVPFLQEKDIPSRFLDEERVPNDASSSGATVPSGFTEKKNNTVA 357

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356527193|ref|XP_003532197.1| PREDICTED: DNA damage-inducible protein 1-like [Glycine max]

 Score =  591 bits (1523), Expect = e-166,   Method: Compositional matrix adjust.
 Identities = 286/338 (84%), Positives = 313/338 (92%), Gaps = 5/338 (1%)

Query: 1   MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
           M+ITVMTADEQII+LDVDPHE+VENVKALLEVET V LQQQQLL+NG+E+ N+EKLSALG
Sbjct: 1   MKITVMTADEQIITLDVDPHESVENVKALLEVETSVALQQQQLLFNGKEVRNSEKLSALG 60

Query: 61  VKDEDLVMMVSNAASSPA-----TNNLSFNPDGSAVNPAAFQQHIRNDANLMTQLFQSDP 115
           VKD+DL+MMVS A +  A     TN+LS N DGSAVNP AFQQHIR D+NLM QLFQSDP
Sbjct: 61  VKDDDLLMMVSGAGAGAAASSGSTNDLSLNTDGSAVNPGAFQQHIRRDSNLMGQLFQSDP 120

Query: 116 ELAQVLLGNDLNKLQDLLRERSRQRSELRRRQEEEMALLYADPFDVEAQKKIEAAIRQKG 175
           ELAQ +LGNDLNKLQ++LR R  QR EL+R++EEE+ALLYADPFDVEAQKKIEAAIRQKG
Sbjct: 121 ELAQAILGNDLNKLQEVLRLRHHQRDELKRQKEEELALLYADPFDVEAQKKIEAAIRQKG 180

Query: 176 IDENWAAALEHNPEAFARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLL 235
           IDENWAAALEHNPEAFARVVMLYVDMEVNG+PLKAFVDSGAQSTIISKSCAER GLLRLL
Sbjct: 181 IDENWAAALEHNPEAFARVVMLYVDMEVNGVPLKAFVDSGAQSTIISKSCAERLGLLRLL 240

Query: 236 DDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQCII 295
           D RYRG+AHGVGQSEILGRIHVAPIKIG++FYPCSF+VLDSPNMEFLFGLDMLRKHQCII
Sbjct: 241 DQRYRGIAHGVGQSEILGRIHVAPIKIGSIFYPCSFLVLDSPNMEFLFGLDMLRKHQCII 300

Query: 296 DLKENVLRVGGGEVSVPFLQEKDIPSHFLDEERYSKQA 333
           DLKENVLRVGGGEVSVPFLQEKDIPS FLDEE+Y+K+A
Sbjct: 301 DLKENVLRVGGGEVSVPFLQEKDIPSRFLDEEKYAKEA 338

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18399933|ref|NP_566451.1| DNA damage-inducible protein 1 [Arabidopsis thaliana] gi|334185306|ref|NP_001189877.1| DNA damage-inducible protein 1 [Arabidopsis thaliana] gi|109134143|gb|ABG25069.1| At3g13235 [Arabidopsis thaliana] gi|110741912|dbj|BAE98897.1| hypothetical protein [Arabidopsis thaliana] gi|332641802|gb|AEE75323.1| DNA damage-inducible protein 1 [Arabidopsis thaliana] gi|332641804|gb|AEE75325.1| DNA damage-inducible protein 1 [Arabidopsis thaliana]

 Score =  584 bits (1505), Expect = e-164,   Method: Compositional matrix adjust.
 Identities = 288/358 (80%), Positives = 317/358 (88%), Gaps = 5/358 (1%)

Query: 1   MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
           MRITVMTA EQII+LDVD  ETVENVKALLEVE+ VP+QQQQLLYNG EM N++KLSALG
Sbjct: 1   MRITVMTAGEQIITLDVDSQETVENVKALLEVESNVPIQQQQLLYNGNEMGNSDKLSALG 60

Query: 61  VKDEDLVMM-VSNAASSPAT----NNLSFNPDGSAVNPAAFQQHIRNDANLMTQLFQSDP 115
           VKD+DL+MM VSNA+S  AT    N+L  NPDGSA+NPAAFQQHIR D+NLM QLFQ+DP
Sbjct: 61  VKDDDLLMMMVSNASSGSATSAAGNDLGMNPDGSALNPAAFQQHIRGDSNLMGQLFQNDP 120

Query: 116 ELAQVLLGNDLNKLQDLLRERSRQRSELRRRQEEEMALLYADPFDVEAQKKIEAAIRQKG 175
           ELAQV+ G+DLNKLQD+LR R RQRS L+R++EEE+ALLYADPFDVEAQ+KIEAAIRQKG
Sbjct: 121 ELAQVISGSDLNKLQDVLRARHRQRSVLQRQKEEELALLYADPFDVEAQRKIEAAIRQKG 180

Query: 176 IDENWAAALEHNPEAFARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLL 235
           IDENW AALEHNPE FARV+MLYVDMEVNG+PLKAFVDSGAQSTIISKSCAERCGLLRL+
Sbjct: 181 IDENWEAALEHNPEGFARVIMLYVDMEVNGVPLKAFVDSGAQSTIISKSCAERCGLLRLM 240

Query: 236 DDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQCII 295
           D RY+G+AHGVGQ+EILGRIHVAPIKIGN FYPCSFVVLDSPNMEFLFGLDMLRKHQC I
Sbjct: 241 DQRYKGIAHGVGQTEILGRIHVAPIKIGNNFYPCSFVVLDSPNMEFLFGLDMLRKHQCTI 300

Query: 296 DLKENVLRVGGGEVSVPFLQEKDIPSHFLDEERYSKQASSSGTAVTSAAKDKSSNLPA 353
           DLKENV+ VGGGEVSVPFLQEKDIPS FLDEER    ASSSG  V S   +K +N  A
Sbjct: 301 DLKENVMTVGGGEVSVPFLQEKDIPSRFLDEERVPNDASSSGATVPSGFTEKKNNTVA 358

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	380
TAIR|locus:505006342	414	DDI1 "DNA-damage inducible 1"	0.928	0.852	0.734	3.3e-134
FB|FBgn0030753	458	rngo "rings lost" [Drosophila	0.642	0.532	0.412	8.8e-57
UNIPROTKB|Q5TDH0	399	DDI2 "Protein DDI1 homolog 2"	0.631	0.601	0.426	1.6e-55
UNIPROTKB|F1SUU7	399	DDI2 "Uncharacterized protein"	0.644	0.614	0.418	8.8e-55
MGI|MGI:1917244	399	Ddi2 "DNA-damage inducible pro	0.631	0.601	0.418	2.3e-54
UNIPROTKB|E2QUJ5	399	DDI2 "Uncharacterized protein"	0.631	0.601	0.422	2.9e-54
UNIPROTKB|E1B9T9	399	DDI2 "Uncharacterized protein"	0.636	0.606	0.414	2.9e-54
ZFIN|ZDB-GENE-031030-15	411	ddi2 "DNA-damage inducible pro	0.634	0.586	0.419	3.3e-53
UNIPROTKB|F1MG01	396	DDI1 "Protein DDI1 homolog 1"	0.594	0.570	0.432	4.2e-53
UNIPROTKB|F1MAK5	399	Ddi2 "Protein Ddi2" [Rattus no	0.594	0.566	0.423	5.4e-53

TAIR|locus:505006342 DDI1 "DNA-damage inducible 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 1315 (468.0 bits), Expect = 3.3e-134, P = 3.3e-134
 Identities = 263/358 (73%), Positives = 287/358 (80%)

Query:     1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
             MRITVMTA EQII+LDVD  ETVENVKALLEVE+ VP+QQQQLLYNG EM N++KLSALG
Sbjct:     1 MRITVMTAGEQIITLDVDSQETVENVKALLEVESNVPIQQQQLLYNGNEMGNSDKLSALG 60

Query:    61 VKDEDLVMM-VSNAASSPAT----NNLSFNPDGSAVNPAAFQQHIRNDANLMTQLFQSDP 115
             VKD+DL+MM VSNA+S  AT    N+L  NPDGSA+NPAAFQQHIR D+NLM QLFQ+DP
Sbjct:    61 VKDDDLLMMMVSNASSGSATSAAGNDLGMNPDGSALNPAAFQQHIRGDSNLMGQLFQNDP 120

Query:   116 ELAQVLLGNDLNKLQDXXXXXXXXXXXXXXXXXXXMALLYADPFDVEAQKKIEAAIRQKG 175
             ELAQV+ G+DLNKLQD                   +ALLYADPFDVEAQ+KIEAAIRQKG
Sbjct:   121 ELAQVISGSDLNKLQDVLRARHRQRSVLQRQKEEELALLYADPFDVEAQRKIEAAIRQKG 180

Query:   176 IDENWAAALEHNPEAFARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGXXXXX 235
             IDENW AALEHNPE FARV+MLYVDMEVNG+PLKAFVDSGAQSTIISKSCAERCG     
Sbjct:   181 IDENWEAALEHNPEGFARVIMLYVDMEVNGVPLKAFVDSGAQSTIISKSCAERCGLLRLM 240

Query:   236 XXXYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQCII 295
                Y+G+AHGVGQ+EILGRIHVAPIKIGN FYPCSFVVLDSPNMEFLFGLDMLRKHQC I
Sbjct:   241 DQRYKGIAHGVGQTEILGRIHVAPIKIGNNFYPCSFVVLDSPNMEFLFGLDMLRKHQCTI 300

Query:   296 DLKENVLRVGGGEVSVPFLQEKDIPSHFLDEERYSKQXXXXXXXXXXXXKDKSSNLPA 353
             DLKENV+ VGGGEVSVPFLQEKDIPS FLDEER                 +K +N  A
Sbjct:   301 DLKENVMTVGGGEVSVPFLQEKDIPSRFLDEERVPNDASSSGATVPSGFTEKKNNTVA 358

GO:0004190 "aspartic-type endopeptidase activity" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

GO:0006508 "proteolysis" evidence=IEA

GO:0046686 "response to cadmium ion" evidence=IEP

GO:0005634 "nucleus" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0006486 "protein glycosylation" evidence=RCA

FB|FBgn0030753 rngo "rings lost" [Drosophila melanogaster (taxid:7227)]

 Score = 475 (172.3 bits), Expect = 8.8e-57, Sum P(2) = 8.8e-57
 Identities = 103/250 (41%), Positives = 140/250 (56%)

Query:    71 SNAASSPATNNLSFNPDGSAVNPAAFQQHIRNDANLMTQLFQSDPELAQVLLGNDLNKLQ 130
             +N    P T+  + N D    +P   +Q   +    ++ L Q +P LA+ +   D  K  
Sbjct:   121 NNLTDIPTTDEFNVNFDD---DPETVRQMFLSSPETLSLLRQYNPSLAEAIDSGDKEKF- 176

Query:   131 DXXXXXXXXXXXXXXXXXXXMALLYADPFDVEAQKKIEAAIRQKGIDENWAAALEHNPEA 190
                                 M +L ADPFD E Q+ I   I+QK I +N AAA+E+NPE 
Sbjct:   177 --ARLLREHITERKRRNEHRMRMLNADPFDEETQRLIAEEIKQKNIQDNMAAAIEYNPEI 234

Query:   191 FARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGXXXXXXXXYRGVAHGVGQSE 250
             F  V MLY++ +VNGIP+KAFVDSGAQ+TI+SK CAERC         + GVA GVG   
Sbjct:   235 FGTVTMLYINCKVNGIPVKAFVDSGAQTTIMSKDCAERCHVNRLIDTRWNGVAKGVGTQP 294

Query:   251 ILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRVGGGEVS 310
             ILGRIH+  ++I N     SF VL    M+ L GLDML++HQC+IDL+ N+L +G    +
Sbjct:   295 ILGRIHMVQLQIENDHLTSSFTVLGQQPMDMLLGLDMLKRHQCLIDLQRNLLIIGTTGTT 354

Query:   311 VPFLQEKDIP 320
              PFL E ++P
Sbjct:   355 TPFLPESELP 364

GO:0004190 "aspartic-type endopeptidase activity" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

GO:0005737 "cytoplasm" evidence=IDA

GO:0005634 "nucleus" evidence=IDA

GO:0043130 "ubiquitin binding" evidence=IDA

GO:0007301 "female germline ring canal formation" evidence=IMP

GO:0070628 "proteasome binding" evidence=IPI

UNIPROTKB|Q5TDH0 DDI2 "Protein DDI1 homolog 2" [Homo sapiens (taxid:9606)]

 Score = 491 (177.9 bits), Expect = 1.6e-55, Sum P(2) = 1.6e-55
 Identities = 105/246 (42%), Positives = 148/246 (60%)

Query:    75 SSPATNNLSFNPDGSAVNPAAFQQHIRNDANLMTQLFQSDPELAQVLLGNDLNKLQDXXX 134
             SSP    ++ +P G   NPA  +  +  + + ++ L + +P LA+ LL  DL K      
Sbjct:   120 SSPG--EITSSPQGLD-NPALLRDMLLANPHELSLLKERNPPLAEALLSGDLEKFS---R 173

Query:   135 XXXXXXXXXXXXXXXXMALLYADPFDVEAQKKIEAAIRQKGIDENWAAALEHNPEAFARV 194
                             + L  ADPFD+EAQ KIE  IRQ+ I+EN   A+E  PE+F +V
Sbjct:   174 VLVEQQQDRARREQERIRLFSADPFDLEAQAKIEEDIRQQNIEENMTIAMEEAPESFGQV 233

Query:   195 VMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGXXXXXXXXYRGVAHGVGQSEILGR 254
             VMLY++ +VNG P+KAFVDSGAQ TI+S++CAERC         + G+A GVG  +I+GR
Sbjct:   234 VMLYINCKVNGHPVKAFVDSGAQMTIMSQACAERCNIMRLVDRRWAGIAKGVGTQKIIGR 293

Query:   255 IHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRVGGGEVSVPFL 314
             +H+A ++I   F PCSF +L+   M+ L GLDML++HQC IDLK+NVL +G       FL
Sbjct:   294 VHLAQVQIEGDFLPCSFSILEEQPMDMLLGLDMLKRHQCSIDLKKNVLVIGTTGSQTTFL 353

Query:   315 QEKDIP 320
              E ++P
Sbjct:   354 PEGELP 359

GO:0004190 "aspartic-type endopeptidase activity" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

UNIPROTKB|F1SUU7 DDI2 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 484 (175.4 bits), Expect = 8.8e-55, Sum P(2) = 8.8e-55
 Identities = 105/251 (41%), Positives = 148/251 (58%)

Query:    70 VSNAASSPATNNLSFNPDGSAVNPAAFQQHIRNDANLMTQLFQSDPELAQVLLGNDLNKL 129
             V  + SSP    ++ +P G   NPA  +  +  + + ++ L + +P LA  LL  DL K 
Sbjct:   115 VQQSHSSPG--EIASSPQGLD-NPALLRDMLLANPHELSLLKERNPPLADALLSGDLEKF 171

Query:   130 QDXXXXXXXXXXXXXXXXXXXMALLYADPFDVEAQKKIEAAIRQKGIDENWAAALEHNPE 189
                                  + L  ADPFD+EAQ KIE  IRQ+ I+EN   A+E  PE
Sbjct:   172 S---RVLVEQQQDRARREQERIRLFSADPFDLEAQAKIEEDIRQQNIEENMTIAMEEAPE 228

Query:   190 AFARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGXXXXXXXXYRGVAHGVGQS 249
             +F +VVMLY++ +VNG P+KAFVDSGAQ TI+S++CAERC         + G+A GVG  
Sbjct:   229 SFGQVVMLYINCKVNGHPVKAFVDSGAQMTIMSQACAERCNIMRLVDRRWAGIAKGVGTQ 288

Query:   250 EILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRVGGGEV 309
             +I+GR+H+A ++I   F  CSF +L+   M+ L GLDML++HQC IDLK+NVL +G    
Sbjct:   289 KIIGRVHLAQVQIEGDFLACSFSILEEQPMDMLLGLDMLKRHQCSIDLKKNVLVIGTTGS 348

Query:   310 SVPFLQEKDIP 320
                FL E ++P
Sbjct:   349 QTTFLPEGELP 359

GO:0006508 "proteolysis" evidence=IEA

GO:0004190 "aspartic-type endopeptidase activity" evidence=IEA

MGI|MGI:1917244 Ddi2 "DNA-damage inducible protein 2" [Mus musculus (taxid:10090)]

 Score = 478 (173.3 bits), Expect = 2.3e-54, Sum P(2) = 2.3e-54
 Identities = 103/246 (41%), Positives = 145/246 (58%)

Query:    75 SSPATNNLSFNPDGSAVNPAAFQQHIRNDANLMTQLFQSDPELAQVLLGNDLNKLQDXXX 134
             SSP    ++ +P G   NPA  +  +  + + ++ L + +P LA+ LL  DL K      
Sbjct:   120 SSPG--EMASSPQGLD-NPALLRDMLLANPHELSLLKERNPPLAEALLSGDLEKFS---R 173

Query:   135 XXXXXXXXXXXXXXXXMALLYADPFDVEAQKKIEAAIRQKGIDENWAAALEHNPEAFARV 194
                             + L  ADPFD+EAQ KIE  IRQ+ I+EN   A+E  PE+F +V
Sbjct:   174 VLVEQQQDRARREQERIRLFSADPFDLEAQAKIEEDIRQQNIEENMTIAMEEAPESFGQV 233

Query:   195 VMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGXXXXXXXXYRGVAHGVGQSEILGR 254
              MLY++  VNG P+KAFVDSGAQ TI+S++CAERC         + G+A GVG  +I+GR
Sbjct:   234 AMLYINCRVNGHPVKAFVDSGAQMTIMSQACAERCNIMRLVDRRWAGIAKGVGTQKIIGR 293

Query:   255 IHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRVGGGEVSVPFL 314
             +H+A ++I   F  CSF +L+   M+ L GLDML++HQC IDLK+NVL +G       FL
Sbjct:   294 VHLAQVQIEGDFLACSFSILEEQPMDMLLGLDMLKRHQCSIDLKKNVLVIGTTGSQTTFL 353

Query:   315 QEKDIP 320
              E ++P
Sbjct:   354 PEGELP 359

GO:0004190 "aspartic-type endopeptidase activity" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

GO:0006508 "proteolysis" evidence=IEA

UNIPROTKB|E2QUJ5 DDI2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 482 (174.7 bits), Expect = 2.9e-54, Sum P(2) = 2.9e-54
 Identities = 104/246 (42%), Positives = 147/246 (59%)

Query:    75 SSPATNNLSFNPDGSAVNPAAFQQHIRNDANLMTQLFQSDPELAQVLLGNDLNKLQDXXX 134
             SSP   +++ +P G   NPA  +  +  + + ++ L + +P LA  LL  DL K      
Sbjct:   120 SSPG--DIASSPQGLD-NPALLRDMLLANPHELSLLKERNPPLADALLSGDLEKFS---R 173

Query:   135 XXXXXXXXXXXXXXXXMALLYADPFDVEAQKKIEAAIRQKGIDENWAAALEHNPEAFARV 194
                             + L  ADPFD+EAQ KIE  IRQ+ I+EN   A+E  PE+F +V
Sbjct:   174 VLVEQQQDRARREQERIRLFSADPFDLEAQAKIEEDIRQQNIEENMTIAMEEAPESFGQV 233

Query:   195 VMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGXXXXXXXXYRGVAHGVGQSEILGR 254
             VMLY++ +VNG P+KAFVDSGAQ TI+S++CAERC         + G+A GVG  +I+GR
Sbjct:   234 VMLYINCKVNGHPVKAFVDSGAQMTIMSQACAERCNIMRLVDRRWAGIAKGVGTQKIIGR 293

Query:   255 IHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRVGGGEVSVPFL 314
             +H+A ++I   F  CSF +L+   M+ L GLDML++HQC IDLK+NVL +G       FL
Sbjct:   294 VHLAQVQIEGDFLACSFSILEEQPMDMLLGLDMLKRHQCSIDLKKNVLVIGTTGSQTTFL 353

Query:   315 QEKDIP 320
              E ++P
Sbjct:   354 PEGELP 359

GO:0006508 "proteolysis" evidence=IEA

GO:0004190 "aspartic-type endopeptidase activity" evidence=IEA

UNIPROTKB|E1B9T9 DDI2 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 479 (173.7 bits), Expect = 2.9e-54, Sum P(2) = 2.9e-54
 Identities = 102/246 (41%), Positives = 145/246 (58%)

Query:    75 SSPATNNLSFNPDGSAVNPAAFQQHIRNDANLMTQLFQSDPELAQVLLGNDLNKLQDXXX 134
             S  A   ++ +P G   NPA  +  +  + + ++ L + +P LA  LL  DL +      
Sbjct:   118 SHSAPGEIASSPQGLD-NPALLRDMLLANPHELSLLKERNPPLADALLSGDLERFS---R 173

Query:   135 XXXXXXXXXXXXXXXXMALLYADPFDVEAQKKIEAAIRQKGIDENWAAALEHNPEAFARV 194
                             + L  ADPFD+EAQ KIE  IRQ+ I+EN   A+E  PE+F +V
Sbjct:   174 VLVEQQQDRARREQERIRLFSADPFDLEAQAKIEEDIRQQNIEENMTIAMEEAPESFGQV 233

Query:   195 VMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGXXXXXXXXYRGVAHGVGQSEILGR 254
             VMLY++ +VNG P+KAFVDSGAQ TI+S++CAERC         + G+A GVG  +I+GR
Sbjct:   234 VMLYINCKVNGHPVKAFVDSGAQMTIMSQACAERCNIMRLVDRRWAGIAKGVGTQKIIGR 293

Query:   255 IHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRVGGGEVSVPFL 314
             +H+A ++I   F  CSF +L+   M+ L GLDML++HQC IDLK+NVL +G       FL
Sbjct:   294 VHLAQVQIEGDFLACSFSILEEQPMDMLLGLDMLKRHQCSIDLKKNVLVIGTTGSKTTFL 353

Query:   315 QEKDIP 320
              E ++P
Sbjct:   354 PEGELP 359

GO:0006508 "proteolysis" evidence=IEA

GO:0004190 "aspartic-type endopeptidase activity" evidence=IEA

ZFIN|ZDB-GENE-031030-15 ddi2 "DNA-damage inducible protein 2" [Danio rerio (taxid:7955)]

 Score = 489 (177.2 bits), Expect = 3.3e-53, Sum P(2) = 3.3e-53
 Identities = 104/248 (41%), Positives = 148/248 (59%)

Query:    73 AASSPATNNLSFNPDGSAVNPAAFQQHIRNDANLMTQLFQSDPELAQVLLGNDLNKLQDX 132
             A +SP +     +P G   NPA  +  +  + + ++ L + +P LA+ LL  DL +    
Sbjct:   129 ATTSPGSG---VSPQGLD-NPALLRDMLLANPHELSLLKERNPPLAEALLSGDLERF--- 181

Query:   133 XXXXXXXXXXXXXXXXXXMALLYADPFDVEAQKKIEAAIRQKGIDENWAAALEHNPEAFA 192
                               + LL ADPFD++AQ KIE  IRQ  I+EN   A+E  PE+F 
Sbjct:   182 TKVLMEQQQDRARRDQERIKLLTADPFDLDAQAKIEEEIRQHNIEENMTIAMEEAPESFG 241

Query:   193 RVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGXXXXXXXXYRGVAHGVGQSEIL 252
             +VVMLY++ +VNG P+KAFVDSGAQ TI+S++CAERC         + G+A GVG  +I+
Sbjct:   242 QVVMLYINCKVNGHPVKAFVDSGAQMTIMSQACAERCNIMRLVDRRWAGIAKGVGTQKII 301

Query:   253 GRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRVGGGEVSVP 312
             GR+H+A ++I   F PCSF +L+   M+ L GLDML++HQC IDLK+NVL +G       
Sbjct:   302 GRVHLAQVQIEGDFLPCSFSILEDQPMDMLLGLDMLKRHQCSIDLKKNVLLIGTTGTETR 361

Query:   313 FLQEKDIP 320
             FL E ++P
Sbjct:   362 FLPEAELP 369

GO:0006508 "proteolysis" evidence=IEA

GO:0004190 "aspartic-type endopeptidase activity" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

UNIPROTKB|F1MG01 DDI1 "Protein DDI1 homolog 1" [Bos taurus (taxid:9913)]

 Score = 466 (169.1 bits), Expect = 4.2e-53, Sum P(2) = 4.2e-53
 Identities = 99/229 (43%), Positives = 134/229 (58%)

Query:    92 NPAAFQQHIRNDANLMTQLFQSDPELAQVLLGNDLNKLQDXXXXXXXXXXXXXXXXXXXM 151
             +PA  +  + +  + ++ L + +P LA+ LL  +L                        +
Sbjct:   136 SPALVRSMLLSSPHDLSLLKERNPSLAEALLSGNLESFSQVLMEQQRERALREQER---L 192

Query:   152 ALLYADPFDVEAQKKIEAAIRQKGIDENWAAALEHNPEAFARVVMLYVDMEVNGIPLKAF 211
              L  ADPFD+EAQ KIE  IRQ+ I+EN + A+E  PE+F +V MLY++  VNG PLKAF
Sbjct:   193 RLFSADPFDLEAQAKIEEEIRQQNIEENMSIAMEEAPESFGQVAMLYINCRVNGHPLKAF 252

Query:   212 VDSGAQSTIISKSCAERCGXXXXXXXXYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSF 271
             VDSGAQ TI+++ CAERC         + GVA GVG   ILGR+H+A I+I   F  CSF
Sbjct:   253 VDSGAQMTIMNQVCAERCNIIRLVDRRWAGVAKGVGTQRILGRVHLAQIQIEGDFLQCSF 312

Query:   272 VVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRVGGGEVSVPFLQEKDIP 320
              +L+   M+ L GLDMLR+HQC IDLK NVL +G       FL E ++P
Sbjct:   313 SILEEQPMDMLLGLDMLRRHQCSIDLKRNVLVIGTTGTQTSFLPEGELP 361

GO:0006508 "proteolysis" evidence=IEA

GO:0004190 "aspartic-type endopeptidase activity" evidence=IEA

UNIPROTKB|F1MAK5 Ddi2 "Protein Ddi2" [Rattus norvegicus (taxid:10116)]

 Score = 467 (169.5 bits), Expect = 5.4e-53, Sum P(2) = 5.4e-53
 Identities = 97/229 (42%), Positives = 137/229 (59%)

Query:    92 NPAAFQQHIRNDANLMTQLFQSDPELAQVLLGNDLNKLQDXXXXXXXXXXXXXXXXXXXM 151
             +PA  +  +  + + ++ L + +P LA+ LL  DL K                      +
Sbjct:   134 SPALLRDMLLANPHELSLLKERNPPLAEALLSGDLEKFS---RVLVEQQQDRARREQERI 190

Query:   152 ALLYADPFDVEAQKKIEAAIRQKGIDENWAAALEHNPEAFARVVMLYVDMEVNGIPLKAF 211
              L  ADPFD+EAQ KIE  IRQ+ I+EN   A+E  PE+F +V MLY++  VNG P+KAF
Sbjct:   191 RLFSADPFDLEAQAKIEEDIRQQNIEENMTIAMEEAPESFGQVAMLYINCRVNGHPVKAF 250

Query:   212 VDSGAQSTIISKSCAERCGXXXXXXXXYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSF 271
             VDSGAQ TI+S++CAERC         + G+A GVG  +I+GR+H+A ++I   F  CSF
Sbjct:   251 VDSGAQMTIMSQACAERCNIMRLVDRRWAGIAKGVGTQKIIGRVHLAQVQIEGDFLACSF 310

Query:   272 VVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRVGGGEVSVPFLQEKDIP 320
              +L+   M+ L GLDML++HQC IDLK+NVL +G       FL E ++P
Sbjct:   311 SILEEQPMDMLLGLDMLKRHQCSIDLKKNVLVIGTTGSQTTFLPEGELP 359

GO:0004190 "aspartic-type endopeptidase activity" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q6CFI3	DDI1_YARLI	No assigned EC number	0.3471	0.8631	0.8261	yes	no
Q4WGS4	DDI1_ASPFU	No assigned EC number	0.3814	0.8605	0.8074	yes	no
Q2USD7	DDI1_ASPOR	No assigned EC number	0.3871	0.8657	0.8184	yes	no
Q497D6	DDI2_XENTR	No assigned EC number	0.3921	0.8342	0.8045	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	380
cd05479	124	cd05479, RP_DDI, RP_DDI; retropepsin-like domain o	3e-77
pfam09668	124	pfam09668, Asp_protease, Aspartyl protease	4e-69
cd01796	71	cd01796, DDI1_N, DNA damage inducible protein 1 ub	6e-22
cd01769	69	cd01769, UBL, Ubiquitin-like domain of UBL	2e-14
cd00303	92	cd00303, retropepsin_like, Retropepsins; pepsin-li	8e-14
pfam00240	69	pfam00240, ubiquitin, Ubiquitin family	1e-13
smart00213	72	smart00213, UBQ, Ubiquitin homologues	2e-13
pfam13650	89	pfam13650, Asp_protease_2, Aspartyl protease	2e-10
cd01805	77	cd01805, RAD23_N, Ubiquitin-like domain of RAD23	4e-09
cd01812	71	cd01812, BAG1_N, Ubiquitin-like domain of BAG1	4e-09
cd05483	96	cd05483, retropepsin_like_bacteria, Bacterial aspa	7e-09
cd05480	103	cd05480, NRIP_C, NRIP_C; putative nuclear receptor	2e-08
cd00196	69	cd00196, UBQ, Ubiquitin-like proteins	9e-08
pfam08284	135	pfam08284, RVP_2, Retroviral aspartyl protease	9e-08
cd01803	76	cd01803, Ubiquitin, Ubiquitin	9e-08
cd01809	72	cd01809, Scythe_N, Ubiquitin-like domain of Scythe	2e-07
pfam11976	72	pfam11976, Rad60-SLD, Ubiquitin-2 like Rad60 SUMO-	6e-07
cd01806	76	cd01806, Nedd8, Nebb8-like ubiquitin protein	1e-06
cd12219	89	cd12219, UBL_TBK1_like, Ubiquitin-Like Domain Of H	5e-05
TIGR00601	378	TIGR00601, rad23, UV excision repair protein Rad23	6e-05
pfam13975	72	pfam13975, gag-asp_proteas, gag-polyprotein putati	1e-04
cd05484	91	cd05484, retropepsin_like_LTR_2, Retropepsins_like	2e-04
PTZ00044	76	PTZ00044, PTZ00044, ubiquitin; Provisional	2e-04
pfam00077	99	pfam00077, RVP, Retroviral aspartyl protease	0.001
cd01807	74	cd01807, GDX_N, ubiquitin-like domain of GDX	0.002
cd01802	103	cd01802, AN1_N, ubiquitin-like domain of AN1	0.003

>gnl|CDD|133146 cd05479, RP_DDI, RP_DDI; retropepsin-like domain of DNA damage inducible protein

 Score =  233 bits (597), Expect = 3e-77
 Identities = 79/124 (63%), Positives = 109/124 (87%)

Query: 181 AAALEHNPEAFARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYR 240
             A+EH+PE+F +V MLY+++E+NG+P+KAFVDSGAQ TI+SK+CAE+CGL+RL+D R++
Sbjct: 1   QNAMEHHPESFGKVPMLYINVEINGVPVKAFVDSGAQMTIMSKACAEKCGLMRLIDKRFQ 60

Query: 241 GVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQCIIDLKEN 300
           G+A GVG  +ILGRIH+A +KIGN+F PCSF VL+  +++FL GLDML++HQC+IDLKEN
Sbjct: 61  GIAKGVGTQKILGRIHLAQVKIGNLFLPCSFTVLEDDDVDFLIGLDMLKRHQCVIDLKEN 120

Query: 301 VLRV 304
           VLR+
Sbjct: 121 VLRI 124

The family represents the retropepsin-like domain of DNA damage inducible protein. DNA damage inducible protein has a retropepsin-like domain and an amino-terminal ubiquitin-like domain and/or a UBA (ubiquitin-associated) domain. This CD represents the retropepsin-like domain of DDI. Length = 124

>gnl|CDD|118200 pfam09668, Asp_protease, Aspartyl protease

 Score =  212 bits (543), Expect = 4e-69
 Identities = 75/124 (60%), Positives = 103/124 (83%)

Query: 173 QKGIDENWAAALEHNPEAFARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLL 232
           Q+ +DEN   A+EH PEAF RV MLY++ EVNG+P+KAFVDSGAQ++I+S  CAERCG++
Sbjct: 1   QENVDENLEHAMEHTPEAFGRVTMLYINCEVNGVPVKAFVDSGAQTSIMSPRCAERCGIM 60

Query: 233 RLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQ 292
           RLLD R+ G+A GVG ++ILGR+H+A +K+G++F PCSF V++  +M+ LFGLDML++HQ
Sbjct: 61  RLLDTRFAGIARGVGTAKILGRVHMADLKLGDLFLPCSFTVIEDQDMDLLFGLDMLKRHQ 120

Query: 293 CIID 296
           C ID
Sbjct: 121 CCID 124

This family of eukaryotic aspartyl proteases have a fold similar to retroviral proteases which implies they function proteolytically during regulated protein turnover. Length = 124

>gnl|CDD|176391 cd01796, DDI1_N, DNA damage inducible protein 1 ubiquitin-like domain

 Score = 87.8 bits (218), Expect = 6e-22
 Identities = 39/71 (54%), Positives = 49/71 (69%), Gaps = 2/71 (2%)

Query: 3  ITVMTA-DEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSAL-G 60
          ITV TA  E   SLDVDP   +EN KAL E E+ +P  QQQL+YNGRE+ + ++L AL G
Sbjct: 1  ITVYTARSETTFSLDVDPDLELENFKALCEAESGIPASQQQLIYNGRELVDNKRLLALYG 60

Query: 61 VKDEDLVMMVS 71
          VKD DLV++  
Sbjct: 61 VKDGDLVVLRQ 71

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. Length = 71

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

 Score = 66.9 bits (164), Expect = 2e-14
 Identities = 22/67 (32%), Positives = 39/67 (58%)

Query: 4  TVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKD 63
          TV T   +   L+V P +TV  +KA +  +  VP +QQ+L+Y G+ + + + LS  G++D
Sbjct: 1  TVKTLTGKTFELEVSPDDTVAELKAKIAAKEGVPPEQQRLIYAGKILKDDKTLSDYGIQD 60

Query: 64 EDLVMMV 70
             + +V
Sbjct: 61 GSTLHLV 67

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

>gnl|CDD|133136 cd00303, retropepsin_like, Retropepsins; pepsin-like aspartate proteases

 Score = 66.2 bits (162), Expect = 8e-14
 Identities = 31/89 (34%), Positives = 44/89 (49%), Gaps = 1/89 (1%)

Query: 202 EVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQS-EILGRIHVAPI 260
           ++NG+P++A VDSGA    IS+S A++ GL   L      V    G S + LG I    I
Sbjct: 4   KINGVPVRALVDSGASVNFISESLAKKLGLPPRLLPTPLKVKGANGSSVKTLGVILPVTI 63

Query: 261 KIGNVFYPCSFVVLDSPNMEFLFGLDMLR 289
            IG   +   F VLD  + + + G   L 
Sbjct: 64  GIGGKTFTVDFYVLDLLSYDVILGRPWLE 92

The family includes pepsin-like aspartate proteases from retroviruses, retrotransposons and retroelements, as well as eukaryotic dna-damage-inducible proteins (DDIs), and bacterial aspartate peptidases. While fungal and mammalian pepsins are bilobal proteins with structurally related N and C-terminals, retropepsins are half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and retropepsins function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. Retroviral aspartyl protease is synthesized as part of the POL polyprotein that contains an aspartyl protease, a reverse transcriptase, RNase H, and an integrase. The POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples where catalytic residues have been identified. This group of aspartate peptidases is classified by MEROPS as the peptidase family A2 (retropepsin family, clan AA), subfamily A2A. Length = 92

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

 Score = 64.9 bits (159), Expect = 1e-13
 Identities = 21/65 (32%), Positives = 41/65 (63%)

Query: 7  TADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDL 66
          T D + I+L+VDP +TV  +K  +E +  +P+ QQ+L+++G+ + +   LS  G++D   
Sbjct: 2  TLDGKTITLEVDPSDTVSELKEKIEDKEGIPVDQQRLIFSGKVLEDDTTLSEYGIQDGST 61

Query: 67 VMMVS 71
          + +V 
Sbjct: 62 LHLVL 66

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

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

 Score = 64.6 bits (158), Expect = 2e-13
 Identities = 22/70 (31%), Positives = 42/70 (60%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          + +TV T D + I+L+V P +TV  +K  +   T +P +QQ+L+Y G+ + +   L+  G
Sbjct: 1  IELTVKTLDGKTITLEVKPSDTVSELKEKIAELTGIPPEQQRLIYKGKVLEDDRTLADYG 60

Query: 61 VKDEDLVMMV 70
          ++D   + +V
Sbjct: 61 IQDGSTIHLV 70

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

>gnl|CDD|222288 pfam13650, Asp_protease_2, Aspartyl protease

 Score = 56.5 bits (137), Expect = 2e-10
 Identities = 26/90 (28%), Positives = 42/90 (46%), Gaps = 4/90 (4%)

Query: 199 VDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVA 258
           V + +NG P++  +D+GA  T++S+S AER GL         G       +     + + 
Sbjct: 1   VPVTINGKPVRFLLDTGASGTLLSRSLAERLGL--KPTKLTIGRVSTANGTVRAALVRLD 58

Query: 259 PIKIGN-VFYPCSFVVLDSPNME-FLFGLD 286
            +KIG         VVLD  ++   L G+D
Sbjct: 59  SLKIGGITLRNVPAVVLDLGDLIDGLLGMD 88

This family consists of predicted aspartic proteases, typically from 180 to 230 amino acids in length, in MEROPS clan AA. This model describes the well-conserved 121-residue C-terminal region. The poorly conserved, variable length N-terminal region usually contains a predicted transmembrane helix. Length = 89

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

 Score = 52.7 bits (127), Expect = 4e-09
 Identities = 25/74 (33%), Positives = 44/74 (59%), Gaps = 3/74 (4%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQ--VPLQQQQLLYNGREMNNAEKLSA 58
          M+IT  T  +Q   ++VDP +TV  +K  +E E     P +QQ+L+Y+G+ + +   L  
Sbjct: 1  MKITFKTLKQQTFPIEVDPDDTVAELKEKIEEEKGCDYPPEQQKLIYSGKILKDDTTLEE 60

Query: 59 LGVKDED-LVMMVS 71
            + ++D +V+MVS
Sbjct: 61 YKIDEKDFVVVMVS 74

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

>gnl|CDD|176407 cd01812, BAG1_N, Ubiquitin-like domain of BAG1

 Score = 52.3 bits (126), Expect = 4e-09
 Identities = 22/70 (31%), Positives = 37/70 (52%), Gaps = 1/70 (1%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          +R+ V    E    L +    T  ++K +L   T V  + Q+L++ G+E ++AE L   G
Sbjct: 1  IRVRVKHGGESH-DLSISSQATFGDLKKMLAPVTGVEPRDQKLIFKGKERDDAETLDMSG 59

Query: 61 VKDEDLVMMV 70
          VKD   VM++
Sbjct: 60 VKDGSKVMLL 69

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). Length = 71

>gnl|CDD|133150 cd05483, retropepsin_like_bacteria, Bacterial aspartate proteases, retropepsin-like protease family

 Score = 52.2 bits (126), Expect = 7e-09
 Identities = 27/97 (27%), Positives = 43/97 (44%), Gaps = 5/97 (5%)

Query: 196 MLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRI 255
              V + +NG P++  +D+GA +T+IS+  AER GL   L  +               R+
Sbjct: 2   HFVVPVTINGQPVRFLLDTGASTTVISEELAERLGLPLTLGGKVT--VQTANGRVRAARV 59

Query: 256 HVAPIKIGN-VFYPCSFVVLDSPNMEF--LFGLDMLR 289
            +  ++IG         VVL    +    L G+D LR
Sbjct: 60  RLDSLQIGGITLRNVPAVVLPGDALGVDGLLGMDFLR 96

This family of bacteria aspartate proteases is a subfamily of retropepsin-like protease family, which includes enzymes from retrovirus and retrotransposons. While fungal and mammalian pepsin-like aspartate proteases are bilobal proteins with structurally related N- and C-termini, this family of bacteria aspartate proteases is half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples where catalytic residues have been identified. This group of aspartate proteases is classified by MEROPS as the peptidase family A2 (retropepsin family, clan AA), subfamily A2A. Length = 96

>gnl|CDD|133147 cd05480, NRIP_C, NRIP_C; putative nuclear receptor interacting protein

 Score = 51.4 bits (123), Expect = 2e-08
 Identities = 32/101 (31%), Positives = 54/101 (53%), Gaps = 2/101 (1%)

Query: 199 VDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLL-RLLDDRYRGVAHGVGQS-EILGRIH 256
           V  +  G  L+A VD+G Q  +IS +C +R GL  R+L  +    A  +  S +++G+I 
Sbjct: 1   VSCQCAGKELRALVDTGCQYNLISAACLDRLGLKERVLKAKAEEEAPSLPTSVKVIGQIE 60

Query: 257 VAPIKIGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQCIIDL 297
              +++G +   CS  V+D     F  GL  L+  +C+I+L
Sbjct: 61  RLVLQLGQLTVECSAQVVDDNEKNFSLGLQTLKSLKCVINL 101

Proteins in this family have been described as probable nuclear receptor interacting proteins. The C-terminal domain of this family is homologous to the retroviral aspartyl protease domain. The domain is structurally related to one lobe of the pepsin molecule. The conserved active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. Asp residues are ligands of an activated water molecule in all examples where catalytic residues have been identified. This group of aspartate peptidases is classified by MEROPS as the peptidase family A2 (retropepsin family, clan AA), subfamily A2A. Length = 103

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

 Score = 48.7 bits (116), Expect = 9e-08
 Identities = 20/69 (28%), Positives = 37/69 (53%)

Query: 4  TVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKD 63
           V   D + + L V    TV ++K  L  +  +P +QQ+LL NG+ + ++  L   G++D
Sbjct: 1  KVKLNDGKTVELLVPSGTTVADLKEKLAKKLGLPPEQQRLLVNGKILPDSLTLEDYGLQD 60

Query: 64 EDLVMMVSN 72
           D +++V  
Sbjct: 61 GDELVLVPR 69

Ubiquitin homologs; Includes ubiquitin and ubiquitin-like proteins. Ubiquitin-mediated proteolysis is part of the regulated turnover of proteins required for controlling cell cycle progression. Other family members are protein modifiers that perform a wide range of functions. Ubiquitination usually results in a covalent bond between the C-terminus of ubiquitin and the epsilon-amino group of a substrate lysine. The three-step mechanism requires an activating enzyme (E1) that forms a thiol ester with the C-terminal carboxy group, a conjugating enzyme (E2) that transiently carries the activated ubiquitin molecule as a thiol ester, and a ligase (E3) that transfers the activated ubiquitin from the E2 to the substrate lysine residue. In poly-ubiquitination, ubiquitin itself is the substrate. Length = 69

>gnl|CDD|116868 pfam08284, RVP_2, Retroviral aspartyl protease

 Score = 50.5 bits (121), Expect = 9e-08
 Identities = 34/109 (31%), Positives = 51/109 (46%), Gaps = 4/109 (3%)

Query: 203 VNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVG-QSEILGRIHVAPIK 261
           VN IP     DSGA  + IS++   R GL  L   R   + H  G       R     I+
Sbjct: 28  VNSIPATVLFDSGASHSFISQAFVGRHGL-PLEALRTPMLVHSPGGDMTATHRCPSVNIE 86

Query: 262 IGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQCIIDLKEN--VLRVGGGE 308
           I  V +P + ++LDS +++ + G+D L +H+ +ID       L    GE
Sbjct: 87  IQGVDFPANLILLDSKDLDVILGMDWLAQHKGVIDCANRTVTLTSPKGE 135

Single domain aspartyl proteases from retroviruses, retrotransposons, and badnaviruses (plant dsDNA viruses). These proteases are generally part of a larger polyprotein; usually pol, more rarely gag. Retroviral proteases appear to be homologous to a single domain of the two-domain eukaryotic aspartyl proteases. Length = 135

>gnl|CDD|176398 cd01803, Ubiquitin, Ubiquitin

 Score = 48.7 bits (116), Expect = 9e-08
 Identities = 23/70 (32%), Positives = 45/70 (64%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60

Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 61 IQKESTLHLV 70

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

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

 Score = 47.2 bits (113), Expect = 2e-07
 Identities = 23/70 (32%), Positives = 40/70 (57%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          + I V T D Q  +  V+   TV ++K  +  E  +P++QQ+L+Y+GR + + E LS   
Sbjct: 1  IEIKVKTLDSQTHTFTVEEEITVLDLKEKIAEEVGIPVEQQRLIYSGRVLKDDETLSEYK 60

Query: 61 VKDEDLVMMV 70
          V+D   + +V
Sbjct: 61 VEDGHTIHLV 70

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|192903 pfam11976, Rad60-SLD, Ubiquitin-2 like Rad60 SUMO-like

 Score = 46.0 bits (110), Expect = 6e-07
 Identities = 14/71 (19%), Positives = 35/71 (49%), Gaps = 1/71 (1%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVK-ALLEVETQVPLQQQQLLYNGREMNNAEKLSAL 59
          +RI +   D + + + V P  T+  +  A  +       QQ +L+++G  ++  + ++  
Sbjct: 1  IRIKLKGKDGKEVFIKVKPTTTLSKLINAYRKKRGIPADQQVRLIFDGERLDPNDTVADY 60

Query: 60 GVKDEDLVMMV 70
           ++D D + +V
Sbjct: 61 DIEDGDTIDVV 71

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

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

 Score = 45.5 bits (108), Expect = 1e-06
 Identities = 20/52 (38%), Positives = 35/52 (67%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNN 52
          M I V T   + I +D++P + VE +K  +E +  +P QQQ+L+Y+G++MN+
Sbjct: 1  MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMND 52

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|240618 cd12219, UBL_TBK1_like, Ubiquitin-Like Domain Of Human Tbk1 and similar proteins

 Score = 41.5 bits (98), Expect = 5e-05
 Identities = 16/59 (27%), Positives = 28/59 (47%), Gaps = 3/59 (5%)

Query: 17 VDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGV---KDEDLVMMVSN 72
          + P ET+ N + L+  +T+VP   Q+LLY G  +       A        ++ +M+ S 
Sbjct: 30 IHPEETLVNFQELVFEQTEVPPSNQELLYEGEHLVLEPSTPAKHYPKTTPDNPIMLFSR 88

This family contains ubiquitin-like domain (UBL) found in TANK-binding kinase 1 (TBK1) and similar proteins. TBK1 regulates factors such as IRF3 and IRF7, promoting antiviral activity in the interferon signaling pathways. In addition to the central UBL, these proteins have an N-terminal kinase domain and a C-terminal elongated helical domain. The ubiquitin-like domain acts as a protein-protein interaction domain, and has been implicated in regulating kinase activity, which modulates interactions in the IFN pathway. Length = 89

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

 Score = 44.5 bits (105), Expect = 6e-05
 Identities = 24/83 (28%), Positives = 48/83 (57%), Gaps = 4/83 (4%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVE---TQVPLQQQQLLYNGREMNNAEKLS 57
          M +T  T  +Q   +D++P ETV+ +K  +E E      P+ QQ+L+Y+G+ +++ + + 
Sbjct: 1  MTLTFKTLQQQKFKIDMEPDETVKELKEKIEAEQGKDAYPVAQQKLIYSGKILSDDKTVK 60

Query: 58 ALGVKDED-LVMMVSNAASSPAT 79
             +K++D +V+MVS   +    
Sbjct: 61 EYKIKEKDFVVVMVSKPKTGTGK 83

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

>gnl|CDD|206145 pfam13975, gag-asp_proteas, gag-polyprotein putative aspartyl protease

 Score = 39.6 bits (93), Expect = 1e-04
 Identities = 20/65 (30%), Positives = 32/65 (49%), Gaps = 3/65 (4%)

Query: 197 LYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGL--LRLLDDRYRGVAHGVGQSEILGR 254
           + V++ + G+ +KA VD+GA  + IS+S A R GL            +A G  + EI G 
Sbjct: 9   VTVEVSIGGVEVKALVDTGATHSFISESLAARLGLPLEADQAPSRVRLADGSVR-EIQGL 67

Query: 255 IHVAP 259
           +    
Sbjct: 68  LKDLV 72

This family of putative aspartyl proteases is found pre-dominantly in retroviral proteins. Length = 72

>gnl|CDD|133151 cd05484, retropepsin_like_LTR_2, Retropepsins_like_LTR, pepsin-like aspartate proteases

 Score = 39.5 bits (93), Expect = 2e-04
 Identities = 27/94 (28%), Positives = 42/94 (44%), Gaps = 6/94 (6%)

Query: 198 YVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHV 257
            V + VNG PLK  +D+G+  T+IS+    + G   L   + R       +  +LG+I V
Sbjct: 2   TVTLLVNGKPLKFQLDTGSAITVISEKTWRKLGSPPLKPTKKRLRTATGTKLSVLGQILV 61

Query: 258 APIKIGNVFYPCSFVVL--DSPNMEFLFGLDMLR 289
             +K G      +  V+  +  N   L G D L 
Sbjct: 62  -TVKYGGKTKVLTLYVVKNEGLN---LLGRDWLD 91

Retropepsin of retrotransposons with long terminal repeats are pepsin-like aspartate proteases. While fungal and mammalian pepsins are bilobal proteins with structurally related N- and C-termini, retropepsins are half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and retropepsins function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. Retroviral aspartyl protease is synthesized as part of the POL polyprotein that contains an aspartyl protease, a reverse transcriptase, RNase H, and an integrase. The POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples where catalytic residues have been identified. This group of aspartate peptidases is classified by MEROPS as the peptidase family A2 (retropepsin family, clan AA), subfamily A2A. Length = 91

>gnl|CDD|185411 PTZ00044, PTZ00044, ubiquitin; Provisional

 Score = 39.0 bits (91), Expect = 2e-04
 Identities = 21/70 (30%), Positives = 40/70 (57%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I + T   +  S + +P  TV+ VK  L+ +  + ++Q +L+Y+G++M++  KLS   
Sbjct: 1  MQILIKTLTGKKQSFNFEPDNTVQQVKMALQEKEGIDVKQIRLIYSGKQMSDDLKLSDYK 60

Query: 61 VKDEDLVMMV 70
          V     + MV
Sbjct: 61 VVPGSTIHMV 70

Length = 76

>gnl|CDD|215697 pfam00077, RVP, Retroviral aspartyl protease

 Score = 37.6 bits (88), Expect = 0.001
 Identities = 24/103 (23%), Positives = 46/103 (44%), Gaps = 16/103 (15%)

Query: 198 YVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVA----HGV-GQSEIL 252
            + ++V G P+KA +D+GA  T+I +           L   +         G+ GQ  + 
Sbjct: 7   RITVKVGGQPIKALLDTGADDTVIPE---------NDLPGSWPPWGPTTIGGIGGQIRVK 57

Query: 253 GRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQCII 295
             I +  ++IG   +  +F+VL S  +  + G D+L +    +
Sbjct: 58  QSIQI-LVEIGGKKFRGTFLVLPSTPVN-ILGRDLLTQLGAKL 98

Single domain aspartyl proteases from retroviruses, retrotransposons, and badnaviruses (plant dsDNA viruses). These proteases are generally part of a larger polyprotein; usually pol, more rarely gag. Retroviral proteases appear to be homologous to a single domain of the two-domain eukaryotic aspartyl proteases such as pepsins, cathepsins, and renins (pfam00026). Length = 99

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

 Score = 36.8 bits (85), Expect = 0.002
 Identities = 19/57 (33%), Positives = 32/57 (56%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLS 57
          M +TV     +  SL V   E+V  +K L+     VP +QQ+LL+ G+ + + ++LS
Sbjct: 1  MFLTVKLLQGRECSLQVSEKESVSTLKKLVSEHLNVPEEQQRLLFKGKALADDKRLS 57

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

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

 Score = 36.8 bits (85), Expect = 0.003
 Identities = 18/63 (28%), Positives = 32/63 (50%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M + + T       L V P ETV +VKA ++    +P+ QQ L++N  E+ +   L+   
Sbjct: 28 MELFIETLTGTCFELRVSPFETVISVKAKIQRLEGIPVAQQHLIWNNMELEDEYCLNDYN 87

Query: 61 VKD 63
          + +
Sbjct: 88 ISE 90

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	380
KOG0012	380	consensus DNA damage inducible protein [Replicatio	100.0
PF09668	124	Asp_protease: Aspartyl protease; InterPro: IPR0191	100.0
cd05480	103	NRIP_C NRIP_C; putative nuclear receptor interacti	100.0
cd05479	124	RP_DDI RP_DDI; retropepsin-like domain of DNA dama	99.97
KOG0010	493	consensus Ubiquitin-like protein [Posttranslationa	99.94
PF08284	135	RVP_2: Retroviral aspartyl protease; InterPro: IPR	99.84
cd01807	74	GDX_N ubiquitin-like domain of GDX. GDX contains a	99.72
TIGR02281	121	clan_AA_DTGA clan AA aspartic protease, TIGR02281	99.71
cd01791	73	Ubl5 UBL5 ubiquitin-like modifier. UBL5 (also know	99.68
cd05484	91	retropepsin_like_LTR_2 Retropepsins_like_LTR, peps	99.68
cd01797	78	NIRF_N amino-terminal ubiquitin-like domain of Np9	99.68
cd01793	74	Fubi Fubi ubiquitin-like protein. Fubi is a ubiqui	99.65
cd01805	77	RAD23_N Ubiquitin-like domain of RAD23. RAD23 belo	99.65
PTZ00044	76	ubiquitin; Provisional	99.65
cd01804	78	midnolin_N Ubiquitin-like domain of midnolin. midn	99.63
cd01806	76	Nedd8 Nebb8-like ubiquitin protein. Nedd8 (also kn	99.62
cd01809	72	Scythe_N Ubiquitin-like domain of Scythe protein.	99.62
cd01798	70	parkin_N amino-terminal ubiquitin-like of parkin p	99.62
cd01803	76	Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40	99.62
cd01802	103	AN1_N ubiquitin-like domain of AN1. AN1 (also know	99.61
cd01794	70	DC_UbP_C dendritic cell derived ubiquitin-like pro	99.61
cd01810	74	ISG15_repeat2 ISG15 ubiquitin-like protein, second	99.6
cd01792	80	ISG15_repeat1 ISG15 ubiquitin-like protein, first	99.59
cd01796	71	DDI1_N DNA damage inducible protein 1 ubiquitin-li	99.59
cd01808	71	hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC	99.56
PF00240	69	ubiquitin: Ubiquitin family; InterPro: IPR000626 U	99.56
cd01790	79	Herp_N Homocysteine-responsive endoplasmic reticul	99.56
cd01812	71	BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-ter	99.55
cd01813	74	UBP_N UBP ubiquitin processing protease. The UBP (	99.55
cd05483	96	retropepsin_like_bacteria Bacterial aspartate prot	99.55
PF13650	90	Asp_protease_2: Aspartyl protease	99.54
PF00077	100	RVP: Retroviral aspartyl protease The Prosite entr	99.53
KOG0005	70	consensus Ubiquitin-like protein [Cell cycle contr	99.49
cd01800	76	SF3a120_C Ubiquitin-like domain of Mammalian splic	99.47
TIGR03698	107	clan_AA_DTGF clan AA aspartic protease, AF_0612 fa	99.47
KOG0011	340	consensus Nucleotide excision repair factor NEF2,	99.45
TIGR00601	378	rad23 UV excision repair protein Rad23. All protei	99.44
smart00213	64	UBQ Ubiquitin homologues. Ubiquitin-mediated prote	99.43
cd06095	86	RP_RTVL_H_like Retropepsin of the RTVL_H family of	99.43
KOG0003	128	consensus Ubiquitin/60s ribosomal protein L40 fusi	99.41
cd01815	75	BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP. BMSC	99.36
cd01763	87	Sumo Small ubiquitin-related modifier (SUMO). Smal	99.34
cd01799	75	Hoil1_N Ubiquitin-like domain of HOIL1. HOIL1_N HO	99.34
KOG0004	156	consensus Ubiquitin/40S ribosomal protein S27a fus	99.29
COG3577	215	Predicted aspartyl protease [General function pred	99.24
cd01769	69	UBL Ubiquitin-like domain of UBL. UBLs function by	99.23
cd00303	92	retropepsin_like Retropepsins; pepsin-like asparta	99.16
PF11976	72	Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; Inter	99.13
cd05481	93	retropepsin_like_LTR_1 Retropepsins_like_LTR; peps	99.07
cd01795	107	USP48_C USP ubiquitin-specific protease. The USP (	99.07
cd01789	84	Alp11_N Ubiquitin-like domain of Alp11 tubulin-fol	99.04
cd01814	113	NTGP5 Ubiquitin-like NTGP5 and ATGP4. NTGP5 and AT	99.0
PF12384	177	Peptidase_A2B: Ty3 transposon peptidase; InterPro:	98.99
PF13975	72	gag-asp_proteas: gag-polyprotein putative aspartyl	98.96
PF14560	87	Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2K	98.91
COG5550	125	Predicted aspartyl protease [Posttranslational mod	98.88
PLN02560	308	enoyl-CoA reductase	98.77
KOG4248	1143	consensus Ubiquitin-like protein, regulator of apo	98.76
cd01801	77	Tsc13_N Ubiquitin-like domain of Tsc13. Tsc13_N N-	98.59
cd06094	89	RP_Saci_like RP_Saci_like, retropepsin family. Ret	98.55
KOG0001	75	consensus Ubiquitin and ubiquitin-like proteins [P	98.55
cd01788	119	ElonginB Ubiquitin-like domain of Elongin B. Elong	98.42
PF11543	80	UN_NPL4: Nuclear pore localisation protein NPL4; I	98.39
PF13881	111	Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB	98.36
PF02160	201	Peptidase_A3: Cauliflower mosaic virus peptidase (	98.31
cd00196	69	UBQ Ubiquitin-like proteins. Ubiquitin homologs; I	98.31
PF05585	164	DUF1758: Putative peptidase (DUF1758); InterPro: I	98.23
cd05482	87	HIV_retropepsin_like Retropepsins, pepsin-like asp	98.22
KOG1872	473	consensus Ubiquitin-specific protease [Posttransla	97.98
KOG3493	73	consensus Ubiquitin-like protein [Posttranslationa	97.89
KOG0006	446	consensus E3 ubiquitin-protein ligase (Parkin prot	97.7
PF08817	79	YukD: WXG100 protein secretion system (Wss), prote	97.62
cd01811	80	OASL_repeat1 2'-5' oligoadenylate synthetase-like	97.49
KOG1769	99	consensus Ubiquitin-like proteins [Posttranslation	97.28
KOG4495	110	consensus RNA polymerase II transcription elongati	97.14
COG5417	81	Uncharacterized small protein [Function unknown]	96.95
PF00789	82	UBX: UBX domain; InterPro: IPR001012 The UBX domai	96.91
PF11470	65	TUG-UBL1: GLUT4 regulating protein TUG; InterPro:	96.75
smart00166	80	UBX Domain present in ubiquitin-regulatory protein	96.74
KOG3206	234	consensus Alpha-tubulin folding cofactor B [Posttr	96.64
cd01772	79	SAKS1_UBX SAKS1-like UBX domain. SAKS1 (SAPK-subst	96.41
KOG1639	297	consensus Steroid reductase required for elongatio	96.36
cd01767	77	UBX UBX (ubiquitin regulatory X) domain. The UBX (	96.35
PF10302	97	DUF2407: DUF2407 ubiquitin-like domain; InterPro:	96.29
PF12382	137	Peptidase_A2E: Retrotransposon peptidase; InterPro	96.29
cd01770	79	p47_UBX p47-like ubiquitin domain. p47_UBX p47 is	96.11
cd01773	82	Faf1_like1_UBX Faf1 ike-1 UBX domain. Faf1_like1 i	95.88
cd01774	85	Faf1_like2_UBX Faf1 ike-2 UBX domain. Faf1_like2 i	95.49
COG4067	162	Uncharacterized protein conserved in archaea [Post	95.45
cd01771	80	Faf1_UBX Faf1 UBX domain. Faf1 (fas-associated fac	95.4
PF09280	59	XPC-binding: XPC-binding domain; InterPro: IPR0153	95.31
PF00026	317	Asp: Eukaryotic aspartyl protease The Prosite entr	95.14
COG5227	103	SMT3 Ubiquitin-like protein (sentrin) [Posttransla	94.96
cd05470	109	pepsin_retropepsin_like Cellular and retroviral pe	94.79
cd05476	265	pepsin_A_like_plant Chroloplast Nucleoids DNA-bind	94.62
PF13019	162	Telomere_Sde2: Telomere stability and silencing	94.55
PTZ00013	450	plasmepsin 4 (PM4); Provisional	94.34
PTZ00147	453	plasmepsin-1; Provisional	94.31
KOG0013	231	consensus Uncharacterized conserved protein [Funct	94.26
cd06097	278	Aspergillopepsin_like Aspergillopepsin_like, aspar	93.94
cd05487	326	renin_like Renin stimulates production of angioten	93.14
cd05478	317	pepsin_A Pepsin A, aspartic protease produced in g	92.85
cd06096	326	Plasmepsin_5 Plasmepsins are a class of aspartic p	92.74
cd05477	318	gastricsin Gastricsins, asparate proteases produce	92.64
cd05474	295	SAP_like SAPs, pepsin-like proteinases secreted fr	92.53
PF14453	57	ThiS-like: ThiS-like ubiquitin	92.21
PRK06437	67	hypothetical protein; Provisional	92.14
KOG0010	493	consensus Ubiquitin-like protein [Posttranslationa	91.68
cd05476	265	pepsin_A_like_plant Chroloplast Nucleoids DNA-bind	91.67
PF05618	138	Zn_protease: Putative ATP-dependant zinc protease;	91.53
cd05478	317	pepsin_A Pepsin A, aspartic protease produced in g	91.49
cd06098	317	phytepsin Phytepsin, a plant homolog of mammalian	91.34
cd05474	295	SAP_like SAPs, pepsin-like proteinases secreted fr	91.16
cd06098	317	phytepsin Phytepsin, a plant homolog of mammalian	90.96
cd05485	329	Cathepsin_D_like Cathepsin_D_like, pepsin family o	90.96
cd05477	318	gastricsin Gastricsins, asparate proteases produce	90.74
PF15044	76	CLU_N: Mitochondrial function, CLU-N-term	90.71
PF00026	317	Asp: Eukaryotic aspartyl protease The Prosite entr	90.04
PRK08364	70	sulfur carrier protein ThiS; Provisional	90.0
cd05490	325	Cathepsin_D2 Cathepsin_D2, pepsin family of protei	89.83
PTZ00165	482	aspartyl protease; Provisional	89.79
TIGR02958	452	sec_mycoba_snm4 secretion protein snm4. Members of	89.42
cd05473	364	beta_secretase_like Beta-secretase, aspartic-acid	89.35
cd05485	329	Cathepsin_D_like Cathepsin_D_like, pepsin family o	89.34
cd05488	320	Proteinase_A_fungi Fungal Proteinase A , aspartic	89.28
cd05486	316	Cathespin_E Cathepsin E, non-lysosomal aspartic pr	88.99
cd06406	80	PB1_P67 A PB1 domain is present in p67 proteins wh	88.96
cd05472	299	cnd41_like Chloroplast Nucleoids DNA-binding Prote	88.95
TIGR00601	378	rad23 UV excision repair protein Rad23. All protei	88.44
PF14836	88	Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A	87.99
PF03539	163	Spuma_A9PTase: Spumavirus aspartic protease (A9);	87.83
PF10790	76	DUF2604: Protein of Unknown function (DUF2604); In	87.52
PF09379	80	FERM_N: FERM N-terminal domain ; InterPro: IPR0189	87.42
cd06097	278	Aspergillopepsin_like Aspergillopepsin_like, aspar	87.24
cd05471	283	pepsin_like Pepsin-like aspartic proteases, biloba	87.23
PLN02799	82	Molybdopterin synthase sulfur carrier subunit	87.1
PRK06488	65	sulfur carrier protein ThiS; Validated	86.95
PRK05863	65	sulfur carrier protein ThiS; Provisional	86.64
cd05488	320	Proteinase_A_fungi Fungal Proteinase A , aspartic	86.62
cd00754	80	MoaD Ubiquitin domain of MoaD-like proteins. MoaD	86.61
KOG4583	391	consensus Membrane-associated ER protein involved	86.23
cd06096	326	Plasmepsin_5 Plasmepsins are a class of aspartic p	85.93
PF11620	88	GABP-alpha: GA-binding protein alpha chain; InterP	85.9
PRK05659	66	sulfur carrier protein ThiS; Validated	85.77
cd05472	299	cnd41_like Chloroplast Nucleoids DNA-binding Prote	85.46
cd05471	283	pepsin_like Pepsin-like aspartic proteases, biloba	85.19
smart00727	41	STI1 Heat shock chaperonin-binding motif.	84.4
cd05487	326	renin_like Renin stimulates production of angioten	84.2
cd06407	82	PB1_NLP A PB1 domain is present in NIN like protei	84.16
cd05475	273	nucellin_like Nucellins, plant aspartic proteases	83.74
cd05486	316	Cathespin_E Cathepsin E, non-lysosomal aspartic pr	82.26
cd06409	86	PB1_MUG70 The MUG70 protein is a product of the me	82.01
smart00666	81	PB1 PB1 domain. Phox and Bem1p domain, present in	81.72
cd05490	325	Cathepsin_D2 Cathepsin_D2, pepsin family of protei	81.66
PRK08053	66	sulfur carrier protein ThiS; Provisional	81.49
PLN03146	431	aspartyl protease family protein; Provisional	81.45
cd06408	86	PB1_NoxR The PB1 domain is present in the Epichloe	81.24
PF09280	59	XPC-binding: XPC-binding domain; InterPro: IPR0153	80.22

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

Probab=100.00  E-value=5.1e-63  Score=471.46  Aligned_cols=321  Identities=42%  Similarity=0.689  Sum_probs=282.3

Q ss_pred             CEEEEEeC--CCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCc--ccchhcCCCCCcEEEEeecCCCC
Q 016931            1 MRITVMTA--DEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNA--EKLSALGVKDEDLVMMVSNAASS   76 (380)
Q Consensus         1 M~ItVk~~--~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~--~tL~~~gI~dg~~I~l~~~~~~s   76 (380)
                      |.++|.+.  ..+.+.++|..+..+.+|+.+++..+|++.+..-|+|+++++.+.  ..|.++|+++||++.+..+.+..
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            77888765  567788999999999999999999999999999999999999864  68999999999999997543221


Q ss_pred             -------------CC--CC-----CCCC------------------CCCCCCCChHHHHHHHhcCHHHHHHHhhcCHHHH
Q 016931           77 -------------PA--TN-----NLSF------------------NPDGSAVNPAAFQQHIRNDANLMTQLFQSDPELA  118 (380)
Q Consensus        77 -------------~~--~~-----~~~~------------------~~~g~~~~p~~~~q~~l~nP~~l~qL~~~nP~La  118 (380)
                                   .+  ..     +.+.                  .+.+...+|..++|.++++|..+..+++.+|.|+
T Consensus        81 r~~v~~~~~~~~dFat~A~~~fs~q~a~~~~gaq~~rg~~~~di~~a~~~~ldsp~~~Rq~~la~pf~L~~~r~~lp~La  160 (380)
T KOG0012|consen   81 RPIVPIQVRLISDFATIAVPMFSSQRARQLQGAQRTRGRLQTDIPEASSLSLDSPATFRQALLAMPFFLHLDRAYLPPLA  160 (380)
T ss_pred             CccccccceehhcccccccccccchhccccccccccccccccccccccccCcCCHHHHHHHHhcCchhhhhchhhcCccc
Confidence                         00  00     0000                  0011136788899999999999999999999999


Q ss_pred             HHhcCCCHHHHHHHHHHhHHHHHHHHHhhHHHHHHhhCCCccHHHHHHHHHHHHhhcHHHHHHHHHhcCCccccccceeE
Q 016931          119 QVLLGNDLNKLQDLLRERSRQRSELRRRQEEEMALLYADPFDVEAQKKIEAAIRQKGIDENWAAALEHNPEAFARVVMLY  198 (380)
Q Consensus       119 ~ai~~~d~~~~~~~l~~~~~q~~~~~~~~~~el~~l~~dP~~~E~Q~~I~E~Irq~~i~en~~~A~E~~Pe~f~~~~~ly  198 (380)
                      .++..+|.+.|.+.+...+..++ .  +.....+.+.+||||+|+|++|+|.|||++|+|||.+|+||+||.|+.+.|||
T Consensus       161 ~~l~~g~~~k~~~~~~~~q~d~~-r--r~~~~~rl~eanPfd~E~q~rIee~irq~~i~eq~~~ai~~~pe~f~~v~ML~  237 (380)
T KOG0012|consen  161 ALLVLGDLEKFDRTLKEMQKDYQ-R--RSVHQRRLLEANPFDLEAQRRIEEKIRQNAIDEQMSHAIEYHPEDFTQVTMLY  237 (380)
T ss_pred             hhhcccchhhhhhhhhhhccccc-h--hhhhhHHHHhcCCcchhhhhhhhHHHHHHHHHHHHHHhhhcCccccccceEEE
Confidence            99999999999888874422222 1  12234567889999999999999999999999999999999999999999999


Q ss_pred             EeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEeEEEEEecCCC
Q 016931          199 VDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPN  278 (380)
Q Consensus       199 v~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~~~~~Vl~~~~  278 (380)
                      |+|+|||++||||||||||.|+||.+||+||||.+++|+||.|++.|||+.++.|+||.++++||+.+++|+|.|++...
T Consensus       238 iN~~ing~~VKAfVDsGaq~timS~~Caer~gL~rlid~r~~g~a~gvg~~ki~g~Ih~~~lki~~~~l~c~ftV~d~~~  317 (380)
T KOG0012|consen  238 INCEINGVPVKAFVDSGAQTTIMSAACAERCGLNRLIDKRFQGEARGVGTEKILGRIHQAQLKIEDLYLPCSFTVLDRRD  317 (380)
T ss_pred             EEEEECCEEEEEEEcccchhhhhhHHHHHHhChHHHhhhhhhccccCCCcccccceeEEEEEEeccEeeccceEEecCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CceeeeHHHHhhcCeEEEcCCCEEEEcCCceeeeccCCCCCCcccc
Q 016931          279 MEFLFGLDMLRKHQCIIDLKENVLRVGGGEVSVPFLQEKDIPSHFL  324 (380)
Q Consensus       279 ~d~iLG~D~L~~~~~~ID~~~~~l~i~~~~~~~pfl~~~e~~~~~~  324 (380)
                      .|++||+|+|++|+||||+++|+|+||+++.++||++..++|.+..
T Consensus       318 ~d~llGLd~Lrr~~ccIdL~~~~L~ig~~~teiPfl~~~~lp~~~~  363 (380)
T KOG0012|consen  318 MDLLLGLDMLRRHQCCIDLKTNVLRIGNTETEIPFLPSNELPSHNK  363 (380)
T ss_pred             cchhhhHHHHHhccceeecccCeEEecCCCccccccccccCCcccc
Confidence            9999999999999999999999999999988999999999999764

>PF09668 Asp_protease: Aspartyl protease; InterPro: IPR019103 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families

Probab=100.00  E-value=4.9e-42  Score=289.45  Aligned_cols=124  Identities=60%  Similarity=1.157  Sum_probs=87.3

Q ss_pred             hhcHHHHHHHHHhcCCccccccceeEEeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEE
Q 016931          173 QKGIDENWAAALEHNPEAFARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEIL  252 (380)
Q Consensus       173 q~~i~en~~~A~E~~Pe~f~~~~~lyv~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~  252 (380)
                      |+||+|||+.||||+||.|.++.||||+|+|||++++||||||||+|+||.+||+||||++++|+|+.+.+.|+|+.+++
T Consensus         1 q~~i~~~~~~a~e~~PE~f~~v~mLyI~~~ing~~vkA~VDtGAQ~tims~~~a~r~gL~~lid~r~~g~a~GvG~~~i~   80 (124)
T PF09668_consen    1 QENIDENLENAMEHSPESFGQVSMLYINCKINGVPVKAFVDTGAQSTIMSKSCAERCGLMRLIDKRFAGVAKGVGTQKIL   80 (124)
T ss_dssp             -------------------------EEEEEETTEEEEEEEETT-SS-EEEHHHHHHTTGGGGEEGGG-EE-------EEE
T ss_pred             ChhHHHHHHHHHHhCcHhhcCcceEEEEEEECCEEEEEEEeCCCCccccCHHHHHHcCChhhccccccccccCCCcCcee
Confidence            78999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eEEEEEeEEEcCEEEeEEEEEecCCCCceeeeHHHHhhcCeEEE
Q 016931          253 GRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQCIID  296 (380)
Q Consensus       253 g~i~~~~i~ig~~~~~~~~~Vl~~~~~d~iLG~D~L~~~~~~ID  296 (380)
                      |+||.++++||+.+++|+|.|++....|+|||+|||++|+|+||
T Consensus        81 G~Ih~~~l~ig~~~~~~s~~Vle~~~~d~llGld~L~~~~c~ID  124 (124)
T PF09668_consen   81 GRIHSVQLKIGGLFFPCSFTVLEDQDVDLLLGLDMLKRHKCCID  124 (124)
T ss_dssp             EEEEEEEEEETTEEEEEEEEEETTSSSSEEEEHHHHHHTT-EEE
T ss_pred             EEEEEEEEEECCEEEEEEEEEeCCCCcceeeeHHHHHHhCcccC
Confidence            99999999999999999999999989999999999999999998

Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This family of eukaryotic aspartyl proteases have a fold similar to retroviral proteases which implies they function proteolytically during regulated protein turnover []. ; GO: 0004190 aspartic-type endopeptidase activity, 0006508 proteolysis; PDB: 3S8I_A 2I1A_B.

>cd05480 NRIP_C NRIP_C; putative nuclear receptor interacting protein

Probab=100.00  E-value=1.1e-33  Score=225.88  Aligned_cols=101  Identities=29%  Similarity=0.547  Sum_probs=97.2

Q ss_pred             EeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCC-cceeEeecCcc-eeEEeEEEEEeEEEcCEEEeEEEEEecC
Q 016931          199 VDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDD-RYRGVAHGVGQ-SEILGRIHVAPIKIGNVFYPCSFVVLDS  276 (380)
Q Consensus       199 v~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~-~~~~~~~gvg~-~~~~g~i~~~~i~ig~~~~~~~~~Vl~~  276 (380)
                      |+|++||++++||||||||+|+||++||+||||.+++++ ++.+++.|+|+ .+++|+||.++|+||+.+++|+|.|+|.
T Consensus         1 vnCk~nG~~vkAfVDsGaQ~timS~~caercgL~r~v~~~r~~g~A~gvgt~~kiiGrih~~~ikig~~~~~CSftVld~   80 (103)
T cd05480           1 VSCQCAGKELRALVDTGCQYNLISAACLDRLGLKERVLKAKAEEEAPSLPTSVKVIGQIERLVLQLGQLTVECSAQVVDD   80 (103)
T ss_pred             CceeECCEEEEEEEecCCchhhcCHHHHHHcChHhhhhhccccccccCCCcceeEeeEEEEEEEEeCCEEeeEEEEEEcC
Confidence            689999999999999999999999999999999988877 88899999998 6999999999999999999999999999


Q ss_pred             CCCceeeeHHHHhhcCeEEEcCC
Q 016931          277 PNMEFLFGLDMLRKHQCIIDLKE  299 (380)
Q Consensus       277 ~~~d~iLG~D~L~~~~~~ID~~~  299 (380)
                      .+.|++||+|+|+||+|+||+++
T Consensus        81 ~~~d~llGLdmLkrhqc~IdL~k  103 (103)
T cd05480          81 NEKNFSLGLQTLKSLKCVINLEK  103 (103)
T ss_pred             CCcceEeeHHHHhhcceeeeccC
Confidence            99999999999999999999975

Proteins in this family have been described as probable nuclear receptor interacting proteins. The C-terminal domain of this family is homologous to the retroviral aspartyl protease domain. The domain is structurally related to one lobe of the pepsin molecule. The conserved active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. Asp residues are ligands of an activated water molecule in all examples where catalytic residues have been identified. This group of aspartate peptidases is classified by MEROPS as the peptidase family A2 (retropepsin family, clan AA), subfamily A2A.

>cd05479 RP_DDI RP_DDI; retropepsin-like domain of DNA damage inducible protein

Probab=99.97  E-value=1.1e-29  Score=216.30  Aligned_cols=123  Identities=64%  Similarity=1.232  Sum_probs=116.4

Q ss_pred             HHHhcCCccccccceeEEeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEE
Q 016931          182 AALEHNPEAFARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIK  261 (380)
Q Consensus       182 ~A~E~~Pe~f~~~~~lyv~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~  261 (380)
                      .|+|++||.|....++|++++|||++++|||||||++|+||+++|+|+||....+.++...+.|+|.....|+++.+.|+
T Consensus         2 ~~~~~~~~~~~~~~~~~v~~~Ing~~~~~LvDTGAs~s~Is~~~a~~lgl~~~~~~~~~~~~~g~g~~~~~g~~~~~~l~   81 (124)
T cd05479           2 NAMEHHPESFGKVPMLYINVEINGVPVKAFVDSGAQMTIMSKACAEKCGLMRLIDKRFQGIAKGVGTQKILGRIHLAQVK   81 (124)
T ss_pred             chhhcCcchhceeeEEEEEEEECCEEEEEEEeCCCceEEeCHHHHHHcCCccccCcceEEEEecCCCcEEEeEEEEEEEE
Confidence            47899999999999999999999999999999999999999999999999776676777788888888899999999999


Q ss_pred             EcCEEEeEEEEEecCCCCceeeeHHHHhhcCeEEEcCCCEEEE
Q 016931          262 IGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRV  304 (380)
Q Consensus       262 ig~~~~~~~~~Vl~~~~~d~iLG~D~L~~~~~~ID~~~~~l~i  304 (380)
                      ||+..++++|.|++...+|+|||||||++++++|||++++|+|
T Consensus        82 i~~~~~~~~~~Vl~~~~~d~ILG~d~L~~~~~~ID~~~~~i~~  124 (124)
T cd05479          82 IGNLFLPCSFTVLEDDDVDFLIGLDMLKRHQCVIDLKENVLRI  124 (124)
T ss_pred             ECCEEeeeEEEEECCCCcCEEecHHHHHhCCeEEECCCCEEEC
Confidence            9999999999999998999999999999999999999999985

The family represents the retropepsin-like domain of DNA damage inducible protein. DNA damage inducible protein has a retropepsin-like domain and an amino-terminal ubiquitin-like domain and/or a UBA (ubiquitin-associated) domain. This CD represents the retropepsin-like domain of DDI.

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

Probab=99.94  E-value=8.1e-27  Score=231.99  Aligned_cols=201  Identities=23%  Similarity=0.430  Sum_probs=160.8

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeecCCCCCCC-
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNAASSPAT-   79 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~~~~s~~~-   79 (380)
                      ++|+||+.++ .+.+.|..+.||.+||++|..++++++++++|||.||+|+|++||..|||+||.|||||++....+.. 
T Consensus        16 irV~Vkt~~d-k~~~~V~~~ssV~qlKE~I~~~f~a~~dqlvLIfaGrILKD~dTL~~~gI~Dg~TvHLVik~~~~~~~~   94 (493)
T KOG0010|consen   16 IRVTVKTPKD-KYEVNVASDSSVLQLKELIAQRFGAPPDQLVLIYAGRILKDDDTLKQYGIQDGHTVHLVIKSQPRPTGT   94 (493)
T ss_pred             eEEEEecCCc-ceeEecccchHHHHHHHHHHHhcCCChhHeeeeecCccccChhhHHHcCCCCCcEEEEEeccCCCCCCc
Confidence            4799999887 78999999999999999999999999999999999999999999999999999999999865431111 


Q ss_pred             ----------CC--------CCCCCC---------C----C------CCChHHHHHHHhcCHHHHHHHhhcCHHHHHHhc
Q 016931           80 ----------NN--------LSFNPD---------G----S------AVNPAAFQQHIRNDANLMTQLFQSDPELAQVLL  122 (380)
Q Consensus        80 ----------~~--------~~~~~~---------g----~------~~~p~~~~q~~l~nP~~l~qL~~~nP~La~ai~  122 (380)
                                .|        .+.++.         |    +      ......++.++.++|+++.++++ ||-++..+ 
T Consensus        95 ~t~ap~~t~~~P~~~st~~~a~~~p~~l~~~~~~~g~~~~~~~~~~F~~l~~~~q~~~~snpe~~~~~m~-nP~vq~ll-  172 (493)
T KOG0010|consen   95 ATSAPSSTASTPNNISTGRSASSNPFSLLTVGGFAGLSSLGLFAAMFGELQSQMQNQLLSNPEALRQMME-NPIVQSLL-  172 (493)
T ss_pred             cccccccccCCCCCCCCcccccCCcccccccccccccccCCcchhhcccccccchhccccCHHHHHHhhh-ChHHHHHh-
Confidence                      01        000110         0    0      01123578899999999999986 99999999 


Q ss_pred             CCCHHHHHHHHHHhHHHHHHHHHhhHHHHHHhhCCCcc----HHH---HHHHHHHHHhhcHHHHHHHH---HhcCCcccc
Q 016931          123 GNDLNKLQDLLRERSRQRSELRRRQEEEMALLYADPFD----VEA---QKKIEAAIRQKGIDENWAAA---LEHNPEAFA  192 (380)
Q Consensus       123 ~~d~~~~~~~l~~~~~q~~~~~~~~~~el~~l~~dP~~----~E~---Q~~I~E~Irq~~i~en~~~A---~E~~Pe~f~  192 (380)
                       +|++.+++++..+ ++++++ +++++|+.|+++||.-    +|.   ...++|+||      |.++|   +|.+|++|.
T Consensus       173 -~Npd~mrq~I~an-Pqmq~l-m~~npei~h~ln~p~i~rQtle~arNP~m~qemmr------n~d~a~SnlesiPgG~n  243 (493)
T KOG0010|consen  173 -NNPDLMRQLIMAN-PQMQDL-MQRNPEIGHLLNNPLILRQTLESARNPEMMQEMMR------NQDRAMSNLESIPGGYN  243 (493)
T ss_pred             -cChHHHHHHHhcC-HHHHHH-HhhCCcchhhhcChHHHHHHHHhccCHHHHHHHHh------hccccccChhcCccHHH
Confidence             7899999999998 899888 6999999999999943    232   223555555      88888   999999999


Q ss_pred             ccceeEEeee----------ecCeeEEEEEc
Q 016931          193 RVVMLYVDME----------VNGIPLKAFVD  213 (380)
Q Consensus       193 ~~~~lyv~v~----------Ing~~v~alVD  213 (380)
                      .+.++|.++.          ..|-++..+..
T Consensus       244 ~l~~my~diqdPm~Na~~~~~g~Npfasl~~  274 (493)
T KOG0010|consen  244 ALRRMYTDIQDPMLNAASEQFGGNPFASLPG  274 (493)
T ss_pred             HHHHHhhhccchhhhhcccccCCCCcccccC
Confidence            9999999986          45556555553

>PF08284 RVP_2: Retroviral aspartyl protease; InterPro: IPR013242 This region defines single domain aspartyl proteases from retroviruses, retrotransposons, and badnaviruses (plant dsDNA viruses)

Probab=99.84  E-value=2.1e-20  Score=161.43  Aligned_cols=112  Identities=26%  Similarity=0.344  Sum_probs=95.6

Q ss_pred             eeEEeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEeEEEEEec
Q 016931          196 MLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLD  275 (380)
Q Consensus       196 ~lyv~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~~~~~Vl~  275 (380)
                      -+-..+.|+++++.+||||||+++|||.++|++++|......+...+..+.|.....+.++.+.+++++..+..+|.|++
T Consensus        21 vi~g~~~I~~~~~~vLiDSGAThsFIs~~~a~~~~l~~~~l~~~~~V~~~g~~~~~~~~~~~~~~~i~g~~~~~dl~vl~  100 (135)
T PF08284_consen   21 VITGTFLINSIPASVLIDSGATHSFISSSFAKKLGLPLEPLPRPIVVSAPGGSINCEGVCPDVPLSIQGHEFVVDLLVLD  100 (135)
T ss_pred             eEEEEEEeccEEEEEEEecCCCcEEccHHHHHhcCCEEEEccCeeEEecccccccccceeeeEEEEECCeEEEeeeEEec
Confidence            34567889999999999999999999999999999954432233333334456667788899999999999999999999


Q ss_pred             CCCCceeeeHHHHhhcCeEEEcCCCEEEEcCC
Q 016931          276 SPNMEFLFGLDMLRKHQCIIDLKENVLRVGGG  307 (380)
Q Consensus       276 ~~~~d~iLG~D~L~~~~~~ID~~~~~l~i~~~  307 (380)
                      ..++|+|||||||++|++.|||.+++++|...
T Consensus       101 l~~~DvILGm~WL~~~~~~IDw~~k~v~f~~p  132 (135)
T PF08284_consen  101 LGGYDVILGMDWLKKHNPVIDWATKTVTFNSP  132 (135)
T ss_pred             ccceeeEeccchHHhCCCEEEccCCEEEEeCC
Confidence            99999999999999999999999999999753

These proteases are generally part of a larger polyprotein; usually pol, more rarely gag. Retroviral proteases appear to be homologous to a single domain of the two-domain eukaryotic aspartyl proteases.

>cd01807 GDX_N ubiquitin-like domain of GDX

Probab=99.72  E-value=2.1e-17  Score=128.02  Aligned_cols=72  Identities=28%  Similarity=0.427  Sum_probs=70.3

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++.+|+++.++|++++||++||++|+.++|+|+++|+|+|+|++|+|+.+|++|||++|++||++..
T Consensus         1 m~i~vk~~~G~~~~l~v~~~~tV~~lK~~i~~~~gi~~~~q~L~~~G~~L~d~~~L~~~~i~~~~~l~l~~~   72 (74)
T cd01807           1 MFLTVKLLQGRECSLQVSEKESVSTLKKLVSEHLNVPEEQQRLLFKGKALADDKRLSDYSIGPNAKLNLVVR   72 (74)
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEECCCCCCHHHCCCCCCCEEEEEEc
Confidence            899999999999999999999999999999999999999999999999999999999999999999999865

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

>TIGR02281 clan_AA_DTGA clan AA aspartic protease, TIGR02281 family

Probab=99.71  E-value=1.6e-16  Score=134.66  Aligned_cols=108  Identities=21%  Similarity=0.247  Sum_probs=83.6

Q ss_pred             cceeEEeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEe-EEEE
Q 016931          194 VVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYP-CSFV  272 (380)
Q Consensus       194 ~~~lyv~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~-~~~~  272 (380)
                      --++|++++|||+++.|+|||||++|+||.++|+++|+..... .+.....+.+.......+....|+||+..+. +++.
T Consensus         9 ~g~~~v~~~InG~~~~flVDTGAs~t~is~~~A~~Lgl~~~~~-~~~~~~~ta~G~~~~~~~~l~~l~iG~~~~~nv~~~   87 (121)
T TIGR02281         9 DGHFYATGRVNGRNVRFLVDTGATSVALNEEDAQRLGLDLNRL-GYTVTVSTANGQIKAARVTLDRVAIGGIVVNDVDAM   87 (121)
T ss_pred             CCeEEEEEEECCEEEEEEEECCCCcEEcCHHHHHHcCCCcccC-CceEEEEeCCCcEEEEEEEeCEEEECCEEEeCcEEE
Confidence            4578999999999999999999999999999999999964322 2222333332233456778889999997766 8999


Q ss_pred             EecCC-CCceeeeHHHHhhcC-eEEEcCCCEEEE
Q 016931          273 VLDSP-NMEFLFGLDMLRKHQ-CIIDLKENVLRV  304 (380)
Q Consensus       273 Vl~~~-~~d~iLG~D~L~~~~-~~ID~~~~~l~i  304 (380)
                      |++.. ..++|||||||++++ +.||-  ++|++
T Consensus        88 v~~~~~~~~~LLGm~fL~~~~~~~~~~--~~l~l  119 (121)
T TIGR02281        88 VAEGGALSESLLGMSFLNRLSRFTVRG--GKLIL  119 (121)
T ss_pred             EeCCCcCCceEcCHHHHhccccEEEEC--CEEEE
Confidence            99875 358999999999997 77765  45544

This family consists of predicted aspartic proteases, typically from 180 to 230 amino acids in length, in MEROPS clan AA. This model describes the well-conserved 121-residue C-terminal region. The poorly conserved, variable length N-terminal region usually contains a predicted transmembrane helix. Sequences in the seed alignment and those scoring above the trusted cutoff are Proteobacterial; homologs scroing between trusted and noise are found in Pyrobaculum aerophilum str. IM2 (archaeal), Pirellula sp. (Planctomycetes), and Nostoc sp. PCC 7120 (Cyanobacteria).

>cd01791 Ubl5 UBL5 ubiquitin-like modifier

Probab=99.68  E-value=9.8e-17  Score=123.98  Aligned_cols=70  Identities=11%  Similarity=0.150  Sum_probs=68.0

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEe
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMV   70 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~   70 (380)
                      |+|+|++..|+.+.+++++++||++||++|+.+.|+|+++|+|+|.|++|+|+++|++|||++|++|||-
T Consensus         2 ~~i~vkt~~Gk~~~~~v~~~~TV~~LK~~I~~~~~~~~~~qrLi~~Gk~L~D~~tL~~ygi~~~stv~l~   71 (73)
T cd01791           2 IEVVCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRPEKIVLKKWYTIFKDHISLGDYEIHDGMNLELY   71 (73)
T ss_pred             EEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEeCCcCCCCCCCHHHcCCCCCCEEEEE
Confidence            7899999999999999999999999999999999999999999999999999999999999999999984

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.

>cd05484 retropepsin_like_LTR_2 Retropepsins_like_LTR, pepsin-like aspartate proteases

Probab=99.68  E-value=3.6e-16  Score=125.68  Aligned_cols=91  Identities=27%  Similarity=0.302  Sum_probs=78.7

Q ss_pred             eEEeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEeEEEEEecC
Q 016931          197 LYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDS  276 (380)
Q Consensus       197 lyv~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~~~~~Vl~~  276 (380)
                      .|+.++|||++++++|||||++|+||.+.+.++|+....+.......++....+..|++ .+.+++|+..+..+|+|++.
T Consensus         1 ~~~~~~Ing~~i~~lvDTGA~~svis~~~~~~lg~~~~~~~~~~v~~a~G~~~~~~G~~-~~~v~~~~~~~~~~~~v~~~   79 (91)
T cd05484           1 KTVTLLVNGKPLKFQLDTGSAITVISEKTWRKLGSPPLKPTKKRLRTATGTKLSVLGQI-LVTVKYGGKTKVLTLYVVKN   79 (91)
T ss_pred             CEEEEEECCEEEEEEEcCCcceEEeCHHHHHHhCCCccccccEEEEecCCCEeeEeEEE-EEEEEECCEEEEEEEEEEEC
Confidence            38999999999999999999999999999999999765554444444444467899999 67999999999999999998


Q ss_pred             CCCceeeeHHHHh
Q 016931          277 PNMEFLFGLDMLR  289 (380)
Q Consensus       277 ~~~d~iLG~D~L~  289 (380)
                      . ++.|||+|||.
T Consensus        80 ~-~~~lLG~~wl~   91 (91)
T cd05484          80 E-GLNLLGRDWLD   91 (91)
T ss_pred             C-CCCccChhhcC
Confidence            7 99999999984

Retropepsin of retrotransposons with long terminal repeats are pepsin-like aspartate proteases. While fungal and mammalian pepsins are bilobal proteins with structurally related N- and C-termini, retropepsins are half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and retropepsins function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. Retroviral aspartyl protease is synthesized as part of the POL polyprotein that contains an aspartyl protease, a reverse transcriptase, RNase H, and an integrase. The POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples where catalytic residues have been identified. This group of aspartate peptidases is classif

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

Probab=99.68  E-value=1.7e-16  Score=124.23  Aligned_cols=73  Identities=23%  Similarity=0.358  Sum_probs=69.4

Q ss_pred             CEEEEEeCCCCE-EEEE-eCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeecC
Q 016931            1 MRITVMTADEQI-ISLD-VDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNA   73 (380)
Q Consensus         1 M~ItVk~~~g~~-~~i~-V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~~   73 (380)
                      |+|+|++.+|+. +.++ ++++.||++||++|+.++|+|+++|+|+|+|+.|+|+.+|++|||++|++||++.+.
T Consensus         1 M~I~vk~~~G~~~~~l~~v~~~~TV~~lK~~i~~~~gi~~~~QrLi~~Gk~L~D~~tL~~y~i~~~~~i~l~~~~   75 (78)
T cd01797           1 MWIQVRTMDGKETRTVDSLSRLTKVEELREKIQELFNVEPECQRLFYRGKQMEDGHTLFDYNVGLNDIIQLLVRQ   75 (78)
T ss_pred             CEEEEEcCCCCEEEEeeccCCcCcHHHHHHHHHHHhCCCHHHeEEEeCCEECCCCCCHHHcCCCCCCEEEEEEec
Confidence            999999999996 7895 899999999999999999999999999999999999999999999999999998764

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.

>cd01793 Fubi Fubi ubiquitin-like protein

Probab=99.65  E-value=3.7e-16  Score=121.05  Aligned_cols=70  Identities=23%  Similarity=0.334  Sum_probs=66.8

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+||+  ++++.++|++++||++||++|+.++|+|+++|+|+|+|++|+|+.||++|||+++++||++..
T Consensus         1 mqi~vk~--~~~~~l~v~~~~tV~~lK~~i~~~~gip~~~q~Li~~Gk~L~D~~tL~~~~i~~~~tl~l~~~   70 (74)
T cd01793           1 MQLFVRA--QNTHTLEVTGQETVSDIKAHVAGLEGIDVEDQVLLLAGVPLEDDATLGQCGVEELCTLEVAGR   70 (74)
T ss_pred             CEEEEEC--CCEEEEEECCcCcHHHHHHHHHhhhCCCHHHEEEEECCeECCCCCCHHHcCCCCCCEEEEEEe
Confidence            8999998  478999999999999999999999999999999999999999999999999999999999753

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

>cd01805 RAD23_N Ubiquitin-like domain of RAD23

Probab=99.65  E-value=6.3e-16  Score=120.27  Aligned_cols=73  Identities=30%  Similarity=0.580  Sum_probs=70.3

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCC--CCcCeEEecCCeecCCcccchhcCCCCCcEEEEeecC
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQV--PLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNA   73 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gi--p~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~~   73 (380)
                      |+|+|++.+|+.+.+++++++||.+||+.|+.++|+  |+++|+|+|+|++|+|+.+|++|||++|++|+++.+.
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 MKITFKTLKQQTFPIEVDPDDTVAELKEKIEEEKGCDYPPEQQKLIYSGKILKDDTTLEEYKIDEKDFVVVMVSK   75 (77)
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCCChhHeEEEECCEEccCCCCHHHcCCCCCCEEEEEEec
Confidence            899999999999999999999999999999999999  9999999999999999999999999999999998653

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).

>PTZ00044 ubiquitin; Provisional

Probab=99.65  E-value=4.7e-16  Score=120.78  Aligned_cols=72  Identities=29%  Similarity=0.452  Sum_probs=70.1

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++.+|+++.+++++++||++||++|+.++|+|+++|+|+|+|+.|+|+.+|++|+|++|++||++.+
T Consensus         1 m~i~vk~~~G~~~~l~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~L~d~~~l~~~~i~~~~~i~l~~~   72 (76)
T PTZ00044          1 MQILIKTLTGKKQSFNFEPDNTVQQVKMALQEKEGIDVKQIRLIYSGKQMSDDLKLSDYKVVPGSTIHMVLQ   72 (76)
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEEccCCCcHHHcCCCCCCEEEEEEE
Confidence            899999999999999999999999999999999999999999999999999999999999999999999854

>cd01804 midnolin_N Ubiquitin-like domain of midnolin

Probab=99.63  E-value=8.7e-16  Score=120.25  Aligned_cols=71  Identities=27%  Similarity=0.439  Sum_probs=68.8

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++..|+.+.++++++.||++||+.|+++.++|+++|+|+|+|+.|+|+ +|++|||++|++|||+..
T Consensus         2 m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~~~~~~~qrL~~~Gk~L~d~-~L~~~gi~~~~~i~l~~~   72 (78)
T cd01804           2 MNLNIHSTTGTRFDLSVPPDETVEGLKKRISQRLKVPKERLALLHRETRLSSG-KLQDLGLGDGSKLTLVPT   72 (78)
T ss_pred             eEEEEEECCCCEEEEEECCcCHHHHHHHHHHHHhCCChHHEEEEECCcCCCCC-cHHHcCCCCCCEEEEEee
Confidence            89999999999999999999999999999999999999999999999999999 999999999999999864

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.

>cd01806 Nedd8 Nebb8-like ubiquitin protein

Probab=99.62  E-value=1.7e-15  Score=117.20  Aligned_cols=72  Identities=29%  Similarity=0.525  Sum_probs=70.0

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++.+|+.+.++++++.||++||++|+.++|+|+++|+|+|+|+.|.|+++|++|||++|++||++..
T Consensus         1 m~i~v~~~~g~~~~~~v~~~~tv~~lK~~i~~~~g~~~~~qrL~~~g~~L~d~~tl~~~~i~~g~~i~l~~~   72 (76)
T cd01806           1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDDKTAADYKLEGGSVLHLVLA   72 (76)
T ss_pred             CEEEEEeCCCCEEEEEECCCCCHHHHHHHHhHhhCCChhhEEEEECCeEccCCCCHHHcCCCCCCEEEEEEE
Confidence            899999999999999999999999999999999999999999999999999999999999999999999864

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

>cd01809 Scythe_N Ubiquitin-like domain of Scythe protein

Probab=99.62  E-value=1.8e-15  Score=115.83  Aligned_cols=71  Identities=32%  Similarity=0.515  Sum_probs=69.1

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS   71 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~   71 (380)
                      |+|+|++.+|+.+.++++++.||.+||++|+..+|+|++.|+|+|+|+.|+|+.+|++|||++|++||++.
T Consensus         1 i~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~L~d~~~L~~~~i~~~~~l~l~~   71 (72)
T cd01809           1 IEIKVKTLDSQTHTFTVEEEITVLDLKEKIAEEVGIPVEQQRLIYSGRVLKDDETLSEYKVEDGHTIHLVK   71 (72)
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCEECCCcCcHHHCCCCCCCEEEEEe
Confidence            89999999999999999999999999999999999999999999999999999999999999999999974

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

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

Probab=99.62  E-value=1.4e-15  Score=116.47  Aligned_cols=69  Identities=19%  Similarity=0.442  Sum_probs=66.8

Q ss_pred             EEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931            3 ITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS   71 (380)
Q Consensus         3 ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~   71 (380)
                      |+|++..|+.+.+++++++||++||++|+.++|+|+++|+|+|+|++|+|+.+|++|||++|++||++.
T Consensus         1 i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi~~~~q~Li~~G~~L~d~~~l~~~~i~~~stl~l~~   69 (70)
T cd01798           1 VYVRTNTGHTFPVEVDPDTDIKQLKEVVAKRQGVPPDQLRVIFAGKELRNTTTIQECDLGQQSILHAVR   69 (70)
T ss_pred             CEEEcCCCCEEEEEECCCChHHHHHHHHHHHHCCCHHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEe
Confidence            578999999999999999999999999999999999999999999999999999999999999999975

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=99.62  E-value=1.8e-15  Score=117.03  Aligned_cols=72  Identities=32%  Similarity=0.583  Sum_probs=70.0

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++.+|+.+.++++++.||++||++|+..+|+|+++|+|+|+|+.|+|+.+|++|||++|++||++.+
T Consensus         1 m~i~v~~~~g~~~~~~v~~~~tV~~lK~~i~~~~g~~~~~q~L~~~g~~L~d~~~L~~~~i~~~~~i~l~~~   72 (76)
T cd01803           1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR   72 (76)
T ss_pred             CEEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhCCCHHHeEEEECCEECCCCCcHHHcCCCCCCEEEEEEE
Confidence            899999999999999999999999999999999999999999999999999999999999999999999864

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

>cd01802 AN1_N ubiquitin-like domain of AN1

Probab=99.61  E-value=1.7e-15  Score=124.75  Aligned_cols=72  Identities=26%  Similarity=0.378  Sum_probs=69.8

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++.+|+.+.++|++++||.+||++|+.+.|+|+++|+|+|+|+.|+|+.+|++|+|++|++||++..
T Consensus        28 M~I~Vk~l~G~~~~leV~~~~TV~~lK~kI~~~~gip~~~QrLi~~Gk~L~D~~tL~dy~I~~~stL~l~~~   99 (103)
T cd01802          28 MELFIETLTGTCFELRVSPFETVISVKAKIQRLEGIPVAQQHLIWNNMELEDEYCLNDYNISEGCTLKLVLA   99 (103)
T ss_pred             EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEe
Confidence            899999999999999999999999999999999999999999999999999999999999999999999753

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.

>cd01794 DC_UbP_C dendritic cell derived ubiquitin-like protein

Probab=99.61  E-value=1.5e-15  Score=116.42  Aligned_cols=69  Identities=17%  Similarity=0.321  Sum_probs=66.0

Q ss_pred             EEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931            3 ITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS   71 (380)
Q Consensus         3 ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~   71 (380)
                      +.|+..+|+.+.++|++++||.+||++|+...|+|+++|+|+|+|++|+|+.+|++|||++|++|||+.
T Consensus         1 ~~vk~~~G~~~~l~v~~~~TV~~lK~~I~~~~gi~~~~q~Li~~G~~L~D~~~l~~~~i~~~~tv~~~~   69 (70)
T cd01794           1 LKVRLSTGKDVKLSVSSKDTVGQLKKQLQAAEGVDPCCQRWFFSGKLLTDKTRLQETKIQKDYVVQVIV   69 (70)
T ss_pred             CeEEcCCCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCeECCCCCCHHHcCCCCCCEEEEEe
Confidence            467888999999999999999999999999999999999999999999999999999999999999974

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

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

Probab=99.60  E-value=2.1e-15  Score=116.77  Aligned_cols=70  Identities=24%  Similarity=0.287  Sum_probs=67.4

Q ss_pred             EEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            3 ITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         3 ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|++..|+++.+++++++||.+||++|+.+.|+|+++|+|+|+|+.|+|+++|++|||++|++|+++..
T Consensus         1 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~D~~tL~~~~i~~~~tl~l~~~   70 (74)
T cd01810           1 ILVRNDKGRSSIYEVQLTQTVATLKQQVSQRERVQADQFWLSFEGRPMEDEHPLGEYGLKPGCTVFMNLR   70 (74)
T ss_pred             CEEECCCCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCEECCCCCCHHHcCCCCCCEEEEEEE
Confidence            6899999999999999999999999999999999999999999999999999999999999999999754

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.

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

Probab=99.59  E-value=3.8e-15  Score=117.15  Aligned_cols=72  Identities=19%  Similarity=0.238  Sum_probs=69.4

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEE--ecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQL--LYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~L--i~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++..|+.+.++++++.||.+||+.|+.++|+|+++|+|  +|+|+.|+|+++|++|||++|++|+|+.+
T Consensus         3 ~~i~Vk~~~G~~~~~~v~~~~TV~~lK~~I~~~~~i~~~~qrL~~~~~G~~L~D~~tL~~~gi~~gs~l~l~~~   76 (80)
T cd01792           3 WDLKVKMLGGNEFLVSLRDSMTVSELKQQIAQKIGVPAFQQRLAHLDSREVLQDGVPLVSQGLGPGSTVLLVVQ   76 (80)
T ss_pred             eEEEEEeCCCCEEEEEcCCCCcHHHHHHHHHHHhCCCHHHEEEEeccCCCCCCCCCCHHHcCCCCCCEEEEEEE
Confidence            7899999999999999999999999999999999999999999  89999999999999999999999999865

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.

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

Probab=99.59  E-value=2.9e-15  Score=115.14  Aligned_cols=68  Identities=54%  Similarity=0.764  Sum_probs=64.9

Q ss_pred             EEEEeC-CCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCc-ccchhcCCCCCcEEEEe
Q 016931            3 ITVMTA-DEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNA-EKLSALGVKDEDLVMMV   70 (380)
Q Consensus         3 ItVk~~-~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~-~tL~~~gI~dg~~I~l~   70 (380)
                      |+|++. +|+++.+++++++||++||++|+.++|+|+++|+|+|+|+.|+|+ .+|++|||++|++||+.
T Consensus         1 l~v~~~~~g~~~~l~v~~~~TV~~lK~~I~~~~gip~~~q~Li~~Gk~L~D~~~~L~~~gi~~~~~l~l~   70 (71)
T cd01796           1 ITVYTARSETTFSLDVDPDLELENFKALCEAESGIPASQQQLIYNGRELVDNKRLLALYGVKDGDLVVLR   70 (71)
T ss_pred             CEEEECCCCCEEEEEECCcCCHHHHHHHHHHHhCCCHHHeEEEECCeEccCCcccHHHcCCCCCCEEEEe
Confidence            589999 899999999999999999999999999999999999999999987 68999999999999985

DDI1_N DDI1 (DNA damage inducible protein 1) has an amino-terminal ubiquitin-like domain, an retroviral protease-like (RVP-like) domain, and a UBA (ubiquitin-associated) domain. This CD represents the amino-terminal ubiquitin-like domain of DDI1.

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

Probab=99.56  E-value=1.1e-14  Score=111.86  Aligned_cols=70  Identities=19%  Similarity=0.376  Sum_probs=66.6

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS   71 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~   71 (380)
                      |+|+|++..|+ ..++++++.||.+||+.|+.++|+|+++|+|+|+|+.|.|+++|++|||++|++||++.
T Consensus         1 ~~i~vk~~~g~-~~l~v~~~~TV~~lK~~I~~~~~i~~~~~~Li~~Gk~L~d~~tL~~~~i~~~stl~l~~   70 (71)
T cd01808           1 IKVTVKTPKDK-EEIEIAEDASVKDFKEAVSKKFKANQEQLVLIFAGKILKDTDTLTQHNIKDGLTVHLVI   70 (71)
T ss_pred             CEEEEEcCCCC-EEEEECCCChHHHHHHHHHHHhCCCHHHEEEEECCeEcCCCCcHHHcCCCCCCEEEEEE
Confidence            68999999887 58999999999999999999999999999999999999999999999999999999974

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=99.56  E-value=1.3e-14  Score=110.43  Aligned_cols=67  Identities=36%  Similarity=0.651  Sum_probs=64.3

Q ss_pred             EeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            6 MTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         6 k~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+.+|+.+.++|+++.||.+||++|+.++++|++.|+|+|+|+.|+|+.+|++|||++|++|+++.+
T Consensus         1 k~~~g~~~~~~v~~~~tV~~lK~~i~~~~~~~~~~~~L~~~G~~L~d~~tL~~~~i~~~~~I~l~~k   67 (69)
T PF00240_consen    1 KTLSGKTFTLEVDPDDTVADLKQKIAEETGIPPEQQRLIYNGKELDDDKTLSDYGIKDGSTIHLVIK   67 (69)
T ss_dssp             EETTSEEEEEEEETTSBHHHHHHHHHHHHTSTGGGEEEEETTEEESTTSBTGGGTTSTTEEEEEEES
T ss_pred             CCCCCcEEEEEECCCCCHHHhhhhcccccccccccceeeeeeecccCcCcHHHcCCCCCCEEEEEEe
Confidence            5778999999999999999999999999999999999999999999999999999999999999865

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 ....

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

Probab=99.56  E-value=8.9e-15  Score=114.17  Aligned_cols=70  Identities=19%  Similarity=0.235  Sum_probs=63.2

Q ss_pred             CEEEEEeCCCCE--EEEEeCCCCCHHHHHHHHHHHhC--CCCcCeEEecCCeecCCcccchhcC--CCCCcEEEEe
Q 016931            1 MRITVMTADEQI--ISLDVDPHETVENVKALLEVETQ--VPLQQQQLLYNGREMNNAEKLSALG--VKDEDLVMMV   70 (380)
Q Consensus         1 M~ItVk~~~g~~--~~i~V~~~~TV~~LK~~I~~~~g--ip~~~q~Li~~Gk~L~D~~tL~~~g--I~dg~~I~l~   70 (380)
                      +.|+||+++++.  +.+++++++||.+||++|+...+  .|+++|+|||.||+|+|+.||++|+  +++|.+|||+
T Consensus         2 i~l~IK~~~~~~~~~~ve~~~~~TV~~lK~~i~~~~~~~~~~~~QrLIy~GKiLkD~~tL~~~~~~~~~~~tiHLV   77 (79)
T cd01790           2 VTLLIKSPNQKYEDQTVSCFLNWTVGELKTHLSRVYPSKPLEQDQRLIYSGKLLPDHLKLRDVLRKQDEYHMVHLV   77 (79)
T ss_pred             eEEEEECCCCCeEEEEEecCCcChHHHHHHHHHHhcCCCCChhHeEEEEcCeeccchhhHHHHhhcccCCceEEEE
Confidence            578999999998  55555899999999999999885  4579999999999999999999997  9999999997

Herp (Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain protein) , is an integral membrane protein that is induced by the endoplasmic reticulum (ER) stress response pathway and is involved in improving the balance of folding capacity and protein loads in the ER. Herp has an N-terminal ubiquitin-like domain that is involved in Herp degradation, but is not necessary for its enhancement of amyloid beta-protein generation.

>cd01812 BAG1_N Ubiquitin-like domain of BAG1

Probab=99.55  E-value=1.4e-14  Score=110.76  Aligned_cols=69  Identities=30%  Similarity=0.502  Sum_probs=66.4

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEe
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMV   70 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~   70 (380)
                      |+|+|++. |+.+.+++++++||++||++|+..+|+|+++|+|+|+|+.|.|+.+|++|||++|++|+++
T Consensus         1 i~i~vk~~-g~~~~i~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~l~d~~~L~~~~i~~g~~l~v~   69 (71)
T cd01812           1 IRVRVKHG-GESHDLSISSQATFGDLKKMLAPVTGVEPRDQKLIFKGKERDDAETLDMSGVKDGSKVMLL   69 (71)
T ss_pred             CEEEEEEC-CEEEEEEECCCCcHHHHHHHHHHhhCCChHHeEEeeCCcccCccCcHHHcCCCCCCEEEEe
Confidence            68999995 8899999999999999999999999999999999999999999999999999999999986

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

>cd01813 UBP_N UBP ubiquitin processing protease

Probab=99.55  E-value=1.7e-14  Score=111.83  Aligned_cols=69  Identities=28%  Similarity=0.332  Sum_probs=66.0

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEec---CCeecCCcccchhcCCCCCcEEEEe
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLY---NGREMNNAEKLSALGVKDEDLVMMV   70 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~---~Gk~L~D~~tL~~~gI~dg~~I~l~   70 (380)
                      |.|+|+. +|+.|.++|++++||++||++|+..+|+|+++|+|+|   +|+.|+|+.+|++|+|++|+.|+|+
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 VPVIVKW-GGQEYSVTTLSEDTVLDLKQFIKTLTGVLPERQKLLGLKVKGKPAEDDVKISALKLKPNTKIMMM   72 (74)
T ss_pred             CEEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHHCCCHHHEEEEeecccCCcCCCCcCHHHcCCCCCCEEEEE
Confidence            6899998 7888999999999999999999999999999999996   9999999999999999999999987

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

>cd05483 retropepsin_like_bacteria Bacterial aspartate proteases, retropepsin-like protease family

Probab=99.55  E-value=4e-14  Score=113.32  Aligned_cols=92  Identities=29%  Similarity=0.466  Sum_probs=72.3

Q ss_pred             eeEEeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEe-EEEEEe
Q 016931          196 MLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYP-CSFVVL  274 (380)
Q Consensus       196 ~lyv~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~-~~~~Vl  274 (380)
                      ++|++++|||++++|+|||||+.|+|+.++|+++++.....  ......+++...........+++||+..+. +.+.|+
T Consensus         2 ~~~v~v~i~~~~~~~llDTGa~~s~i~~~~~~~l~~~~~~~--~~~~~~~~~G~~~~~~~~~~~i~ig~~~~~~~~~~v~   79 (96)
T cd05483           2 HFVVPVTINGQPVRFLLDTGASTTVISEELAERLGLPLTLG--GKVTVQTANGRVRAARVRLDSLQIGGITLRNVPAVVL   79 (96)
T ss_pred             cEEEEEEECCEEEEEEEECCCCcEEcCHHHHHHcCCCccCC--CcEEEEecCCCccceEEEcceEEECCcEEeccEEEEe
Confidence            68999999999999999999999999999999999822222  222334444333344555778999997665 899999


Q ss_pred             cCCC--CceeeeHHHHh
Q 016931          275 DSPN--MEFLFGLDMLR  289 (380)
Q Consensus       275 ~~~~--~d~iLG~D~L~  289 (380)
                      +...  .|+|||+|||+
T Consensus        80 d~~~~~~~gIlG~d~l~   96 (96)
T cd05483          80 PGDALGVDGLLGMDFLR   96 (96)
T ss_pred             CCcccCCceEeChHHhC
Confidence            9876  99999999995

This family of bacteria aspartate proteases is a subfamily of retropepsin-like protease family, which includes enzymes from retrovirus and retrotransposons. While fungal and mammalian pepsin-like aspartate proteases are bilobal proteins with structurally related N- and C-termini, this family of bacteria aspartate proteases is half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples where catalytic residues have been identified. This group of aspartate proteases is classified by MEROPS as the peptidase family A2 (retropepsin family, clan AA), subfamily A2A.

>PF13650 Asp_protease_2: Aspartyl protease

Probab=99.54  E-value=5.4e-14  Score=111.35  Aligned_cols=88  Identities=31%  Similarity=0.489  Sum_probs=70.1

Q ss_pred             EeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEE-eEEEEEec-C
Q 016931          199 VDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFY-PCSFVVLD-S  276 (380)
Q Consensus       199 v~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~-~~~~~Vl~-~  276 (380)
                      |+++|||++++|+|||||+.++|++++|+++|+...... ......+.+...........+++||+..+ .+.+.|++ .
T Consensus         1 V~v~vng~~~~~liDTGa~~~~i~~~~~~~l~~~~~~~~-~~~~~~~~~g~~~~~~~~~~~i~ig~~~~~~~~~~v~~~~   79 (90)
T PF13650_consen    1 VPVKVNGKPVRFLIDTGASISVISRSLAKKLGLKPRPKS-VPISVSGAGGSVTVYRGRVDSITIGGITLKNVPFLVVDLG   79 (90)
T ss_pred             CEEEECCEEEEEEEcCCCCcEEECHHHHHHcCCCCcCCc-eeEEEEeCCCCEEEEEEEEEEEEECCEEEEeEEEEEECCC
Confidence            689999999999999999999999999999999544331 12333444433455666666899999776 78999999 7


Q ss_pred             CCCceeeeHHH
Q 016931          277 PNMEFLFGLDM  287 (380)
Q Consensus       277 ~~~d~iLG~D~  287 (380)
                      ..+|+|||+||
T Consensus        80 ~~~~~iLG~df   90 (90)
T PF13650_consen   80 DPIDGILGMDF   90 (90)
T ss_pred             CCCEEEeCCcC
Confidence            78999999998

>PF00077 RVP: Retroviral aspartyl protease The Prosite entry also includes Pfam:PF00026; InterPro: IPR018061 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families

Probab=99.53  E-value=6.5e-14  Score=114.06  Aligned_cols=96  Identities=30%  Similarity=0.509  Sum_probs=78.0

Q ss_pred             ceeEEeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcc-eeEEeEEEEEeEEEcCEEEeEEEEE
Q 016931          195 VMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQ-SEILGRIHVAPIKIGNVFYPCSFVV  273 (380)
Q Consensus       195 ~~lyv~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~-~~~~g~i~~~~i~ig~~~~~~~~~V  273 (380)
                      .+-|+.++|||++++|||||||+.|+|+.+++.+.+..    ........|.|. ....|.. .+.+++++..+...|.|
T Consensus         4 ~rp~i~v~i~g~~i~~LlDTGA~vsiI~~~~~~~~~~~----~~~~~~v~~~~g~~~~~~~~-~~~v~~~~~~~~~~~~v   78 (100)
T PF00077_consen    4 NRPYITVKINGKKIKALLDTGADVSIISEKDWKKLGPP----PKTSITVRGAGGSSSILGST-TVEVKIGGKEFNHTFLV   78 (100)
T ss_dssp             SSSEEEEEETTEEEEEEEETTBSSEEESSGGSSSTSSE----EEEEEEEEETTEEEEEEEEE-EEEEEETTEEEEEEEEE
T ss_pred             CCceEEEeECCEEEEEEEecCCCcceeccccccccccc----ccCCceeccCCCcceeeeEE-EEEEEEECccceEEEEe
Confidence            35689999999999999999999999999988776654    122334556654 3455544 55999999999999999


Q ss_pred             ecCCCCceeeeHHHHhhcCeEEE
Q 016931          274 LDSPNMEFLFGLDMLRKHQCIID  296 (380)
Q Consensus       274 l~~~~~d~iLG~D~L~~~~~~ID  296 (380)
                      ++....| |||.|||+++++.|+
T Consensus        79 ~~~~~~~-ILG~D~L~~~~~~i~  100 (100)
T PF00077_consen   79 VPDLPMN-ILGRDFLKKLNAVIN  100 (100)
T ss_dssp             SSTCSSE-EEEHHHHTTTTCEEE
T ss_pred             cCCCCCC-EeChhHHHHcCCEEC
Confidence            9987788 999999999999985

Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This group of aspartic peptidases belong to the MEROPS peptidase family A2 (retropepsin family, clan AA), subfamily A2A. The family includes the single domain aspartic proteases from retroviruses, retrotransposons, and badnaviruses (plant dsDNA viruses). Retroviral aspartyl protease is synthesised as part of the POL polyprotein that contains; an aspartyl protease, a reverse transcriptase, RNase H and integrase. POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins.; PDB: 3D3T_B 3SQF_A 1NSO_A 2HB3_A 2HS2_A 2HS1_B 3K4V_A 3GGV_C 1HTG_B 2FDE_A ....

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

Probab=99.49  E-value=2.9e-14  Score=102.85  Aligned_cols=70  Identities=30%  Similarity=0.535  Sum_probs=68.4

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEe
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMV   70 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~   70 (380)
                      |.|.|++++|+.+.+++++.++|+.+|+.|+++.||||.+|+|+|.||.+.|++|-++|++.-|+++|++
T Consensus         1 m~iKvktLt~KeIeidIep~DkverIKErvEEkeGIPp~qqrli~~gkqm~DD~tA~~Y~~~~GSVlHlv   70 (70)
T KOG0005|consen    1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYAGKQMNDDKTAAHYNLLGGSVLHLV   70 (70)
T ss_pred             CeeeEeeeccceEEEeeCcchHHHHHHHHhhhhcCCCchhhhhhhccccccccccHHHhhhccceeEeeC
Confidence            7899999999999999999999999999999999999999999999999999999999999999999985

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

Probab=99.47  E-value=1.1e-13  Score=107.85  Aligned_cols=65  Identities=17%  Similarity=0.346  Sum_probs=62.3

Q ss_pred             CCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            8 ADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         8 ~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      ++|+++.++|++++||++||++|+..+|+|+++|+|+|+|+.|+|+.+|++|||++|++|||+.+
T Consensus         5 l~g~~~~l~v~~~~TV~~lK~~i~~~~gip~~~q~L~~~G~~L~d~~tL~~~~i~~g~~l~v~~~   69 (76)
T cd01800           5 LNGQMLNFTLQLSDPVSVLKVKIHEETGMPAGKQKLQYEGIFIKDSNSLAYYNLANGTIIHLQLK   69 (76)
T ss_pred             cCCeEEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCEEcCCCCcHHHcCCCCCCEEEEEEe
Confidence            46899999999999999999999999999999999999999999999999999999999999865

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.

>TIGR03698 clan_AA_DTGF clan AA aspartic protease, AF_0612 family

Probab=99.47  E-value=5.4e-13  Score=110.74  Aligned_cols=100  Identities=25%  Similarity=0.358  Sum_probs=75.9

Q ss_pred             EEeeeecC------eeEEEEEcCCccccc-cCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEeEE
Q 016931          198 YVDMEVNG------IPLKAFVDSGAQSTI-ISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCS  270 (380)
Q Consensus       198 yv~v~Ing------~~v~alVDTGA~~si-Is~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~~~  270 (380)
                      |++++|.+      .+++|||||||+..+ |+.+.|+++||..... ..  ...+.|. ....++....+++|+....+.
T Consensus         1 ~~~v~~~~p~~~~~~~v~~LVDTGat~~~~l~~~~a~~lgl~~~~~-~~--~~tA~G~-~~~~~v~~~~v~igg~~~~~~   76 (107)
T TIGR03698         1 TLDVELSNPKNPEFMEVRALVDTGFSGFLLVPPDIVNKLGLPELDQ-RR--VYLADGR-EVLTDVAKASIIINGLEIDAF   76 (107)
T ss_pred             CEEEEEeCCCCCCceEEEEEEECCCCeEEecCHHHHHHcCCCcccC-cE--EEecCCc-EEEEEEEEEEEEECCEEEEEE
Confidence            45666644      389999999999997 9999999999976432 22  2222232 344557788999999888666


Q ss_pred             EEEecCCCCceeeeHHHHhhcCeEEEcCCCEE
Q 016931          271 FVVLDSPNMEFLFGLDMLRKHQCIIDLKENVL  302 (380)
Q Consensus       271 ~~Vl~~~~~d~iLG~D~L~~~~~~ID~~~~~l  302 (380)
                      +.+.+..+ +.||||.||++++.+||++++++
T Consensus        77 v~~~~~~~-~~LLG~~~L~~l~l~id~~~~~~  107 (107)
T TIGR03698        77 VESLGYVD-EPLLGTELLEGLGIVIDYRNQGL  107 (107)
T ss_pred             EEecCCCC-ccEecHHHHhhCCEEEehhhCcC
Confidence            66556544 89999999999999999998864

Members of this protein family are clan AA aspartic proteases, related to family TIGR02281. These proteins resemble retropepsins, pepsin-like proteases of retroviruses such as HIV. Members of this family are found in archaea and bacteria.

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

Probab=99.45  E-value=1.8e-12  Score=123.99  Aligned_cols=70  Identities=30%  Similarity=0.593  Sum_probs=68.0

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhC--CCCcCeEEecCCeecCCcccchhcCCCCCcEEEEe
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQ--VPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMV   70 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~g--ip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~   70 (380)
                      |+||||++.+.+|++++.++.||.++|++|+...|  .|+++|+|||+||+|+|+.|+++|+|++++.|.|+
T Consensus         1 m~lt~KtL~q~~F~iev~Pe~tV~evK~kIet~~g~dyP~~~QkLIy~GkiL~D~~tv~Eykv~E~~fiVvM   72 (340)
T KOG0011|consen    1 MKLTVKTLKQQTFTIEVKPEDTVVEVKKKIETEKGPDYPAEQQKLIYSGKILKDETTVGEYKVKEKKFIVVM   72 (340)
T ss_pred             CeeEeeeccCceeEeecCcchhHHHHHHHHHhccCCCCchhhheeeecceeccCCcchhhhccccCceEEEE
Confidence            89999999999999999999999999999999999  99999999999999999999999999999988776

>TIGR00601 rad23 UV excision repair protein Rad23

Probab=99.44  E-value=3.8e-13  Score=134.15  Aligned_cols=71  Identities=30%  Similarity=0.591  Sum_probs=68.8

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhC---CCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQ---VPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS   71 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~g---ip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~   71 (380)
                      |+|+||+.+|+++.|+|++++||.+||++|+.+.|   +|+++|+|+|+||+|+|+++|++|||++|++|+++.
T Consensus         1 MkItVKtl~g~~~~IeV~~~~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GkiL~Dd~tL~dy~I~e~~~Ivvmv   74 (378)
T TIGR00601         1 MTLTFKTLQQQKFKIDMEPDETVKELKEKIEAEQGKDAYPVAQQKLIYSGKILSDDKTVREYKIKEKDFVVVMV   74 (378)
T ss_pred             CEEEEEeCCCCEEEEEeCCcChHHHHHHHHHHhhCCCCCChhHeEEEECCEECCCCCcHHHcCCCCCCEEEEEe
Confidence            89999999999999999999999999999999998   999999999999999999999999999999998874

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).

>smart00213 UBQ Ubiquitin homologues

Probab=99.43  E-value=3.9e-13  Score=99.97  Aligned_cols=64  Identities=31%  Similarity=0.597  Sum_probs=61.5

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCc
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDED   65 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~   65 (380)
                      |+|+|++.+ +.+.++|+++.||++||++|+..+|+|+++|+|+|+|+.|.|+.+|++|||++|+
T Consensus         1 ~~i~vk~~~-~~~~~~v~~~~tv~~lk~~i~~~~~~~~~~~~L~~~g~~L~d~~tL~~~~i~~~~   64 (64)
T smart00213        1 IELTVKTLD-GTITLEVKPSDTVSELKEKIAELTGIPVEQQRLIYKGKVLEDDRTLADYNIQDGS   64 (64)
T ss_pred             CEEEEEECC-ceEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCEECCCCCCHHHcCCcCCC
Confidence            899999988 7899999999999999999999999999999999999999999999999999985

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

>cd06095 RP_RTVL_H_like Retropepsin of the RTVL_H family of human endogenous retrovirus-like elements

Probab=99.43  E-value=6.7e-13  Score=105.73  Aligned_cols=85  Identities=22%  Similarity=0.348  Sum_probs=64.1

Q ss_pred             EeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEE-eEEEcCEEEeEEEEEecCC
Q 016931          199 VDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVA-PIKIGNVFYPCSFVVLDSP  277 (380)
Q Consensus       199 v~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~-~i~ig~~~~~~~~~Vl~~~  277 (380)
                      |++.|||+++.|||||||+.|+|+.++|+++.+   .  .......|+|.....-..... .+++|+......+.|.+. 
T Consensus         1 ~~v~InG~~~~fLvDTGA~~tii~~~~a~~~~~---~--~~~~~v~gagG~~~~~v~~~~~~v~vg~~~~~~~~~v~~~-   74 (86)
T cd06095           1 VTITVEGVPIVFLVDTGATHSVLKSDLGPKQEL---S--TTSVLIRGVSGQSQQPVTTYRTLVDLGGHTVSHSFLVVPN-   74 (86)
T ss_pred             CEEEECCEEEEEEEECCCCeEEECHHHhhhccC---C--CCcEEEEeCCCcccccEEEeeeEEEECCEEEEEEEEEEcC-
Confidence            478999999999999999999999999999822   1  233455666544311111222 699999988888988885 


Q ss_pred             CCceeeeHHHHh
Q 016931          278 NMEFLFGLDMLR  289 (380)
Q Consensus       278 ~~d~iLG~D~L~  289 (380)
                      ..+.|||||||+
T Consensus        75 ~~~~lLG~dfL~   86 (86)
T cd06095          75 CPDPLLGRDLLS   86 (86)
T ss_pred             CCCcEechhhcC
Confidence            369999999984

This family includes aspartate proteases from retroelements with LTR (long terminal repeats) including the RTVL_H family of human endogenous retrovirus-like elements. While fungal and mammalian pepsins are bilobal proteins with structurally related N- and C-termini, retropepsins are half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and retropepsins function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. Retroviral aspartyl protease is synthesized as part of the POL polyprotein that contains an aspartyl protease, a reverse transcriptase, RNase H, and an integrase. The POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples where

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

Probab=99.41  E-value=5.1e-14  Score=113.36  Aligned_cols=72  Identities=29%  Similarity=0.574  Sum_probs=69.6

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |++++++..|+++++++.+++||.++|++|..+.|+|+++|+|+|+|++|+|..||++|||+..||||++.+
T Consensus         1 ~~~~~~~~~GKT~~le~EpS~ti~~vKA~i~~~~Gi~~~~~~L~~~~k~LED~~Tla~Y~i~~~~Tl~~~~r   72 (128)
T KOG0003|consen    1 MQIFVKTLTGKTITLEVEPSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR   72 (128)
T ss_pred             CcEEEEEeeCceEEEEecccchHHHHHHHhccccCCCHHHHHHHhcccccccCCcccccCccchhhhhhhHH
Confidence            789999999999999999999999999999999999999999999999999999999999999999999854

>cd01815 BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP

Probab=99.36  E-value=8e-13  Score=101.90  Aligned_cols=54  Identities=17%  Similarity=0.362  Sum_probs=50.0

Q ss_pred             CCCCHHHHHHHHHHHh--CCC-CcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931           19 PHETVENVKALLEVET--QVP-LQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus        19 ~~~TV~~LK~~I~~~~--gip-~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      .++||.+||++|+.++  |++ +++|+|+|+||+|+|++||++|||++|++|||+++
T Consensus        19 ~~~TV~~LK~kI~~~~~egi~~~dqQrLIy~GKiL~D~~TL~dygI~~gstlhLv~~   75 (75)
T cd01815          19 GGYQVSTLKQLIAAQLPDSLPDPELIDLIHCGRKLKDDQTLDFYGIQSGSTIHILRK   75 (75)
T ss_pred             ccCcHHHHHHHHHHhhccCCCChHHeEEEeCCcCCCCCCcHHHcCCCCCCEEEEEeC
Confidence            5789999999999996  475 89999999999999999999999999999999864

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

>cd01763 Sumo Small ubiquitin-related modifier (SUMO)

Probab=99.34  E-value=4.7e-12  Score=101.17  Aligned_cols=72  Identities=11%  Similarity=0.307  Sum_probs=68.9

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |.|+|++.+|+.+.+.|.+++|+..||..++.+.|+|+++|+|+|+|+.|.++.|+++||+++||+|+++..
T Consensus        12 i~I~v~~~~g~~~~~~v~~~~~l~~l~~~y~~~~gi~~~~~rf~f~G~~L~~~~T~~~l~m~d~d~I~v~l~   83 (87)
T cd01763          12 INLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQRQGLSMNSVRFLFDGQRIRDNQTPDDLGMEDGDEIEVMLE   83 (87)
T ss_pred             EEEEEECCCCCEEEEEEcCCCHHHHHHHHHHHHhCCCccceEEEECCeECCCCCCHHHcCCCCCCEEEEEEe
Confidence            578999999999999999999999999999999999999999999999999999999999999999999753

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.

>cd01799 Hoil1_N Ubiquitin-like domain of HOIL1

Probab=99.34  E-value=2.2e-12  Score=100.18  Aligned_cols=63  Identities=22%  Similarity=0.334  Sum_probs=57.9

Q ss_pred             eCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecC-CcccchhcCCC-CCcEEEEe
Q 016931            7 TADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMN-NAEKLSALGVK-DEDLVMMV   70 (380)
Q Consensus         7 ~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~-D~~tL~~~gI~-dg~~I~l~   70 (380)
                      ...|.++.++|++++||++||.+|+.++|+|+++|+| |+|+.|. |+++|++|||+ +|+++||-
T Consensus         9 ~~~~~t~~l~v~~~~TV~~lK~kI~~~~gip~~~QrL-~~G~~L~dD~~tL~~ygi~~~g~~~~l~   73 (75)
T cd01799           9 QSHTVTIWLTVRPDMTVAQLKDKVFLDYGFPPAVQRW-VIGQRLARDQETLYSHGIRTNGDSAFLY   73 (75)
T ss_pred             ccCCCeEEEEECCCCcHHHHHHHHHHHHCcCHHHEEE-EcCCeeCCCcCCHHHcCCCCCCCEEEEE
Confidence            3468889999999999999999999999999999999 9999886 66999999998 88999984

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.

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

Probab=99.29  E-value=1.8e-12  Score=111.80  Aligned_cols=71  Identities=30%  Similarity=0.558  Sum_probs=69.3

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS   71 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~   71 (380)
                      |+|+|+++.++++.+++.++.||..+|++|+...|||+++|+|+|.|+.|.|+.||++|+|+..++||++-
T Consensus         1 m~ifVk~l~~kti~~eve~~~ti~~~Kakiq~~egIp~dqqrlifag~qLedgrtlSDY~Iqkestl~l~l   71 (156)
T KOG0004|consen    1 MQIFVKTLTGKTITLEVEANDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVL   71 (156)
T ss_pred             CccchhhccccceeeeecccccHHHHHHhhhcccCCCchhhhhhhhhcccccCCccccccccccceEEEEE
Confidence            89999999999999999999999999999999999999999999999999999999999999999999983

>COG3577 Predicted aspartyl protease [General function prediction only]

Probab=99.24  E-value=2.5e-11  Score=109.55  Aligned_cols=97  Identities=21%  Similarity=0.237  Sum_probs=76.2

Q ss_pred             ceeEEeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccC-CcceeEeecCcceeEEeEEEEEeEEEcCE-EEeEEEE
Q 016931          195 VMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLD-DRYRGVAHGVGQSEILGRIHVAPIKIGNV-FYPCSFV  272 (380)
Q Consensus       195 ~~lyv~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~-~~~~~~~~gvg~~~~~g~i~~~~i~ig~~-~~~~~~~  272 (380)
                      -|.+++..|||+++++||||||+...++.+.|+|+|+..-.. ..+. +....| ......|...+|+||++ .-.++..
T Consensus       104 GHF~a~~~VNGk~v~fLVDTGATsVal~~~dA~RlGid~~~l~y~~~-v~TANG-~~~AA~V~Ld~v~IG~I~~~nV~A~  181 (215)
T COG3577         104 GHFEANGRVNGKKVDFLVDTGATSVALNEEDARRLGIDLNSLDYTIT-VSTANG-RARAAPVTLDRVQIGGIRVKNVDAM  181 (215)
T ss_pred             CcEEEEEEECCEEEEEEEecCcceeecCHHHHHHhCCCccccCCceE-EEccCC-ccccceEEeeeEEEccEEEcCchhh
Confidence            478999999999999999999999999999999999965433 2222 222223 33456788889999994 4558999


Q ss_pred             EecCC-CCceeeeHHHHhhcCe
Q 016931          273 VLDSP-NMEFLFGLDMLRKHQC  293 (380)
Q Consensus       273 Vl~~~-~~d~iLG~D~L~~~~~  293 (380)
                      |++.. -...||||+||++++.
T Consensus       182 V~~~g~L~~sLLGMSfL~rL~~  203 (215)
T COG3577         182 VAEDGALDESLLGMSFLNRLSG  203 (215)
T ss_pred             eecCCccchhhhhHHHHhhccc
Confidence            99754 5678999999999874

>cd01769 UBL Ubiquitin-like domain of UBL

Probab=99.23  E-value=3.4e-11  Score=90.70  Aligned_cols=68  Identities=32%  Similarity=0.556  Sum_probs=63.7

Q ss_pred             EEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931            4 TVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS   71 (380)
Q Consensus         4 tVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~   71 (380)
                      +|+..+|+.+.+++++++||++||++|+..+|+|+++|+|+|+|+.|+|+.+|++||+++|+.|++..
T Consensus         1 ~v~~~~~~~~~~~~~~~~ti~~lK~~i~~~~~~~~~~~~l~~~g~~l~d~~~l~~~~v~~~~~i~v~~   68 (69)
T cd01769           1 TVKTLTGKTFELEVSPDDTVAELKAKIAAKEGVPPEQQRLIYAGKILKDDKTLSDYGIQDGSTLHLVL   68 (69)
T ss_pred             CeEccCCCEEEEEECCCChHHHHHHHHHHHHCcChHHEEEEECCcCCCCcCCHHHCCCCCCCEEEEEE
Confidence            36777799999999999999999999999999999999999999999999999999999999999863

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.

>cd00303 retropepsin_like Retropepsins; pepsin-like aspartate proteases

Probab=99.16  E-value=3e-10  Score=86.31  Aligned_cols=91  Identities=33%  Similarity=0.491  Sum_probs=68.4

Q ss_pred             EeeeecCeeEEEEEcCCccccccCHHHHHHcCC-ccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEeEEEEEecCC
Q 016931          199 VDMEVNGIPLKAFVDSGAQSTIISKSCAERCGL-LRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSP  277 (380)
Q Consensus       199 v~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL-~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~~~~~Vl~~~  277 (380)
                      +++.+||.++++++||||++++++..++++.++ .....................+.+....+.+++..+...|.+.+..
T Consensus         1 ~~~~~~~~~~~~liDtgs~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~   80 (92)
T cd00303           1 LKGKINGVPVRALVDSGASVNFISESLAKKLGLPPRLLPTPLKVKGANGSSVKTLGVILPVTIGIGGKTFTVDFYVLDLL   80 (92)
T ss_pred             CEEEECCEEEEEEEcCCCcccccCHHHHHHcCCCcccCCCceEEEecCCCEeccCcEEEEEEEEeCCEEEEEEEEEEcCC
Confidence            467899999999999999999999999999987 3322222222222211223334445668899999999999999998


Q ss_pred             CCceeeeHHHHh
Q 016931          278 NMEFLFGLDMLR  289 (380)
Q Consensus       278 ~~d~iLG~D~L~  289 (380)
                      .+++|||+|||+
T Consensus        81 ~~~~ilG~~~l~   92 (92)
T cd00303          81 SYDVILGRPWLE   92 (92)
T ss_pred             CcCEEecccccC
Confidence            999999999984

The family includes pepsin-like aspartate proteases from retroviruses, retrotransposons and retroelements, as well as eukaryotic dna-damage-inducible proteins (DDIs), and bacterial aspartate peptidases. While fungal and mammalian pepsins are bilobal proteins with structurally related N and C-terminals, retropepsins are half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and retropepsins function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. Retroviral aspartyl protease is synthesized as part of the POL polyprotein that contains an aspartyl protease, a reverse transcriptase, RNase H, and an integrase. The POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples

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

Probab=99.13  E-value=1.8e-10  Score=88.30  Aligned_cols=70  Identities=21%  Similarity=0.451  Sum_probs=65.8

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCC-cCeEEecCCeecCCcccchhcCCCCCcEEEEe
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPL-QQQQLLYNGREMNNAEKLSALGVKDEDLVMMV   70 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~-~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~   70 (380)
                      |+|+|++.+|+.+.+.|.+++++..|++.++.+.|+|+ +.++|+|+|+.|.++.|+++||+++||+|+|+
T Consensus         1 I~i~v~~~~~~~~~~~v~~~~~~~~l~~~~~~~~~i~~~~~~~l~fdG~~L~~~~T~~~~~ied~d~Idv~   71 (72)
T PF11976_consen    1 ITIKVRSQDGKEIKFKVKPTTTVSKLIEKYCEKKGIPPEESIRLIFDGKRLDPNDTPEDLGIEDGDTIDVI   71 (72)
T ss_dssp             EEEEEEETTSEEEEEEEETTSCCHHHHHHHHHHHTTTT-TTEEEEETTEEE-TTSCHHHHT-STTEEEEEE
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCccceEEEEECCEEcCCCCCHHHCCCCCCCEEEEE
Confidence            68999999999999999999999999999999999999 99999999999999999999999999999985

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 ....

>cd05481 retropepsin_like_LTR_1 Retropepsins_like_LTR; pepsin-like aspartate protease from retrotransposons with long terminal repeats

Probab=99.07  E-value=9.7e-10  Score=88.91  Aligned_cols=86  Identities=22%  Similarity=0.238  Sum_probs=72.9

Q ss_pred             eeeecC-eeEEEEEcCCccccccCHHHHHHcC---CccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEeEEEEEec
Q 016931          200 DMEVNG-IPLKAFVDSGAQSTIISKSCAERCG---LLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLD  275 (380)
Q Consensus       200 ~v~Ing-~~v~alVDTGA~~siIs~~~a~rlg---L~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~~~~~Vl~  275 (380)
                      +++||| ++++++|||||+.|+|+.+.++++|   ..++..+.....+++.......|.+ .+.+++++..+++.|+|++
T Consensus         2 ~~~i~g~~~v~~~vDtGA~vnllp~~~~~~l~~~~~~~L~~t~~~L~~~~g~~~~~~G~~-~~~v~~~~~~~~~~f~Vvd   80 (93)
T cd05481           2 DMKINGKQSVKFQLDTGATCNVLPLRWLKSLTPDKDPELRPSPVRLTAYGGSTIPVEGGV-KLKCRYRNPKYNLTFQVVK   80 (93)
T ss_pred             ceEeCCceeEEEEEecCCEEEeccHHHHhhhccCCCCcCccCCeEEEeeCCCEeeeeEEE-EEEEEECCcEEEEEEEEEC
Confidence            678999 9999999999999999999999998   6667776776677776677888884 5689999999999999999


Q ss_pred             CCCCceeeeHHH
Q 016931          276 SPNMEFLFGLDM  287 (380)
Q Consensus       276 ~~~~d~iLG~D~  287 (380)
                      .. ..-|||++.
T Consensus        81 ~~-~~~lLG~~~   91 (93)
T cd05481          81 EE-GPPLLGAKA   91 (93)
T ss_pred             CC-CCceEcccc
Confidence            75 346888763

Retropepsin of retrotransposons with long terminal repeats are pepsin-like aspartate proteases. While fungal and mammalian pepsins are bilobal proteins with structurally related N and C-terminals, retropepsins are half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and retropepsins function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. Retroviral aspartyl protease is synthesized as part of the POL polyprotein that contains an aspartyl protease, a reverse transcriptase, RNase H, and an integrase. The POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples where catalytic residues have been identifi

>cd01795 USP48_C USP ubiquitin-specific protease

Probab=99.07  E-value=2.8e-10  Score=91.21  Aligned_cols=60  Identities=22%  Similarity=0.352  Sum_probs=56.4

Q ss_pred             EEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCc-ccchhcCCCCCcEEEEeec
Q 016931           13 ISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNA-EKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus        13 ~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~-~tL~~~gI~dg~~I~l~~~   72 (380)
                      ..++|++++||.+||.+|..++++||++|+|+|+|+.|.|+ +||++|||..|++|+|...
T Consensus        17 ~~L~V~~~~TVg~LK~lImQ~f~V~P~dQkL~~dG~~L~DDsrTLssyGv~sgSvl~Llid   77 (107)
T cd01795          17 KALLVSANQTLKELKIQIMHAFSVAPFDQNLSIDGKILSDDCATLGTLGVIPESVILLKAD   77 (107)
T ss_pred             ceEEeCccccHHHHHHHHHHHhcCCcccceeeecCceeccCCccHHhcCCCCCCEEEEEec
Confidence            56889999999999999999999999999999999999875 8999999999999999864

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

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

Probab=99.04  E-value=1e-09  Score=87.05  Aligned_cols=71  Identities=14%  Similarity=0.254  Sum_probs=59.3

Q ss_pred             EEEEEeCC-CCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEe-cCCe-----ec-CCcccchhcCCCCCcEEEEeec
Q 016931            2 RITVMTAD-EQIISLDVDPHETVENVKALLEVETQVPLQQQQLL-YNGR-----EM-NNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         2 ~ItVk~~~-g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li-~~Gk-----~L-~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      .|.|+... ....+..+++++||.+||.+++..+|+|+..|+|. |.|+     .| +|+++|+.||+++|++|||+..
T Consensus         3 ~v~i~~~~~~~~~ekr~~~~~Tv~~lK~kl~~~~G~~~~~mrL~l~~~~~~~~~~l~~d~~~L~~y~~~dg~~IhVvD~   81 (84)
T cd01789           3 TVNITSSADSFSFEKKYSRGLTIAELKKKLELVVGTPASSMRLQLFDGDDKLVSKLDDDDALLGSYPVDDGCRIHVIDV   81 (84)
T ss_pred             EEEEEeCCCceeeeEecCCCCcHHHHHHHHHHHHCCCccceEEEEEcCCCCeEeecCCCccEeeeccCCCCCEEEEEeC
Confidence            45666543 33455669999999999999999999999999995 7887     45 4668999999999999999975

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.

>cd01814 NTGP5 Ubiquitin-like NTGP5 and ATGP4

Probab=99.00  E-value=6.1e-10  Score=91.77  Aligned_cols=74  Identities=14%  Similarity=0.091  Sum_probs=60.7

Q ss_pred             EEEEEeCCCCE-EEEEeCCCCCHHHHHHHHHHHh-----CCC--CcCeEEecCCeecCCcccchhcC------CCCCcEE
Q 016931            2 RITVMTADEQI-ISLDVDPHETVENVKALLEVET-----QVP--LQQQQLLYNGREMNNAEKLSALG------VKDEDLV   67 (380)
Q Consensus         2 ~ItVk~~~g~~-~~i~V~~~~TV~~LK~~I~~~~-----gip--~~~q~Li~~Gk~L~D~~tL~~~g------I~dg~~I   67 (380)
                      .|.++..+|.- =...+++++||.+||++|+...     ++|  +++|+|||.||+|+|++||++|+      +....|+
T Consensus         6 e~kfrl~dg~digp~~~~~sdTV~~lKekI~~~~p~~ke~~P~~~~~qKLIysGKiLeD~~TL~d~~~p~g~~~~~~~Tm   85 (113)
T cd01814           6 EIKFRLYDGSDIGPKRYPAATTVDFLKERVVSQWPKDKEVGPKTVNEVKLISAGKILENSKTVGECRSPVGDIAGGVITM   85 (113)
T ss_pred             EEEEEccCCCccCccccChhhHHHHHHHHHHHhcccccccCCCCHHHeEEEeCCeecCCCCcHHHhCCcccccCCCceEE
Confidence            35666667743 4567889999999999999544     555  99999999999999999999999      6677899


Q ss_pred             EEeecCCC
Q 016931           68 MMVSNAAS   75 (380)
Q Consensus        68 ~l~~~~~~   75 (380)
                      ||+..++.
T Consensus        86 Hvvlr~~~   93 (113)
T cd01814          86 HVVVQPPL   93 (113)
T ss_pred             EEEecCCC
Confidence            99976544

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

>PF12384 Peptidase_A2B: Ty3 transposon peptidase; InterPro: IPR024650 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families

Probab=98.99  E-value=4.3e-09  Score=92.04  Aligned_cols=97  Identities=21%  Similarity=0.336  Sum_probs=78.2

Q ss_pred             eeEEeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcc--eeEeecCcceeEEeEEEEEeEEEcCEEEeEEEEE
Q 016931          196 MLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRY--RGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVV  273 (380)
Q Consensus       196 ~lyv~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~--~~~~~gvg~~~~~g~i~~~~i~ig~~~~~~~~~V  273 (380)
                      -+-+++.|+|.++++|+||||-.|||+++.+++|+|+......+  .|...+  ...........++.+++..+...++|
T Consensus        34 T~~v~l~~~~t~i~vLfDSGSPTSfIr~di~~kL~L~~~~app~~fRG~vs~--~~~~tsEAv~ld~~i~n~~i~i~aYV  111 (177)
T PF12384_consen   34 TAIVQLNCKGTPIKVLFDSGSPTSFIRSDIVEKLELPTHDAPPFRFRGFVSG--ESATTSEAVTLDFYIDNKLIDIAAYV  111 (177)
T ss_pred             EEEEEEeecCcEEEEEEeCCCccceeehhhHHhhCCccccCCCEEEeeeccC--CceEEEEeEEEEEEECCeEEEEEEEE
Confidence            45678899999999999999999999999999999976544333  233222  33334444555899999999999999


Q ss_pred             ecCCCCceeeeHHHHhhcCeE
Q 016931          274 LDSPNMEFLFGLDMLRKHQCI  294 (380)
Q Consensus       274 l~~~~~d~iLG~D~L~~~~~~  294 (380)
                      ++..+.|+|+|-.+|++|.-.
T Consensus       112 ~d~m~~dlIIGnPiL~ryp~l  132 (177)
T PF12384_consen  112 TDNMDHDLIIGNPILDRYPTL  132 (177)
T ss_pred             eccCCcceEeccHHHhhhHHH
Confidence            999999999999999998755

Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Ty3 is a gypsy-type, retrovirus-like, element found in the budding yeast. The Ty3 aspartyl protease is required for processing of the viral polyprotein into its mature species [].

>PF13975 gag-asp_proteas: gag-polyprotein putative aspartyl protease

Probab=98.96  E-value=1.9e-09  Score=83.01  Aligned_cols=65  Identities=31%  Similarity=0.346  Sum_probs=49.5

Q ss_pred             ccceeEEeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCC-cceeEeecCcceeEEeEEEE
Q 016931          193 RVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDD-RYRGVAHGVGQSEILGRIHV  257 (380)
Q Consensus       193 ~~~~lyv~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~-~~~~~~~gvg~~~~~g~i~~  257 (380)
                      ....+|++|.|||+.+.+||||||+++|||.++|+|||++..... +......+.....+.|.++.
T Consensus         5 ~~g~~~v~~~I~g~~~~alvDtGat~~fis~~~a~rLgl~~~~~~~~~~v~~a~g~~~~~~g~~~~   70 (72)
T PF13975_consen    5 DPGLMYVPVSIGGVQVKALVDTGATHNFISESLAKRLGLPLEKPPSPIRVKLANGSVIEIRGVAEN   70 (72)
T ss_pred             cCCEEEEEEEECCEEEEEEEeCCCcceecCHHHHHHhCCCcccCCCCEEEEECCCCccccceEEEe
Confidence            345789999999999999999999999999999999999766554 34333333334555555543

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

Probab=98.91  E-value=4.4e-09  Score=83.89  Aligned_cols=72  Identities=19%  Similarity=0.328  Sum_probs=57.9

Q ss_pred             EEEEEeCCC--CEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecC----C---eecC-CcccchhcCCCCCcEEEEee
Q 016931            2 RITVMTADE--QIISLDVDPHETVENVKALLEVETQVPLQQQQLLYN----G---REMN-NAEKLSALGVKDEDLVMMVS   71 (380)
Q Consensus         2 ~ItVk~~~g--~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~----G---k~L~-D~~tL~~~gI~dg~~I~l~~   71 (380)
                      +|+|.....  ...+..++.+.||.+||.+|+..+|+|++.|+|.+.    +   ..+. |.++|+.||+++|++|||..
T Consensus         3 ~l~It~~~~~~~~~ekr~~~~~Tv~eLK~kl~~~~Gi~~~~m~L~l~~~~~~~~~~~~~dd~~~L~~y~~~dg~~i~V~D   82 (87)
T PF14560_consen    3 KLFITSSNSKQRSVEKRFPKSITVSELKQKLEKLTGIPPSDMRLQLKSDKDDSKIEELDDDDATLGSYGIKDGMRIHVVD   82 (87)
T ss_dssp             EEEEEESSSSSSEEEEEEETTSBHHHHHHHHHHHHTS-TTTEEEEEE-TSSSSEEEESSGSSSBCCHHT-STTEEEEEEE
T ss_pred             EEEEEeCCCCCeeEEEEcCCCCCHHHHHHHHHHHhCCCcccEEEEEEecCCCccccccCCCccEeecCCCCCCCEEEEEe
Confidence            567776554  488899999999999999999999999999999865    2   1243 56899999999999999997


Q ss_pred             cC
Q 016931           72 NA   73 (380)
Q Consensus        72 ~~   73 (380)
                      ..
T Consensus        83 ~~   84 (87)
T PF14560_consen   83 TN   84 (87)
T ss_dssp             -T
T ss_pred             CC
Confidence            63

>COG5550 Predicted aspartyl protease [Posttranslational modification, protein turnover, chaperones]

Probab=98.88  E-value=2.3e-08  Score=83.64  Aligned_cols=94  Identities=20%  Similarity=0.235  Sum_probs=76.3

Q ss_pred             eEEEEEcCCcc-ccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEeEEEEEecCCCCceeeeH
Q 016931          207 PLKAFVDSGAQ-STIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGL  285 (380)
Q Consensus       207 ~v~alVDTGA~-~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~~~~~Vl~~~~~d~iLG~  285 (380)
                      -..+|||||++ ..+++++.|+++|+...-..+......|    ...-.++.+.++|+|........+.+....+ ++|+
T Consensus        26 ~~~~LiDTGFtg~lvlp~~vaek~~~~~~~~~~~~~a~~~----~v~t~V~~~~iki~g~e~~~~Vl~s~~~~~~-liG~  100 (125)
T COG5550          26 VYDELIDTGFTGYLVLPPQVAEKLGLPLFSTIRIVLADGG----VVKTSVALATIKIDGVEKVAFVLASDNLPEP-LIGV  100 (125)
T ss_pred             EeeeEEecCCceeEEeCHHHHHhcCCCccCChhhhhhcCC----EEEEEEEEEEEEECCEEEEEEEEccCCCccc-chhh
Confidence            35569999999 9999999999999976644343222222    5566789999999998888877887777777 9999


Q ss_pred             HHHhhcCeEEEcCCCEEEEc
Q 016931          286 DMLRKHQCIIDLKENVLRVG  305 (380)
Q Consensus       286 D~L~~~~~~ID~~~~~l~i~  305 (380)
                      +||+.++.++|+++++|+-.
T Consensus       101 ~~lk~l~~~vn~~~g~LEk~  120 (125)
T COG5550         101 NLLKLLGLVVNPKTGKLEKP  120 (125)
T ss_pred             hhhhhccEEEcCCcceEecc
Confidence            99999999999999999864

>PLN02560 enoyl-CoA reductase

Probab=98.77  E-value=2.3e-08  Score=97.69  Aligned_cols=72  Identities=22%  Similarity=0.352  Sum_probs=65.2

Q ss_pred             CEEEEEeCCCCEE---EEEeCCCCCHHHHHHHHHHHhCC-CCcCeEEecC---C----eecCCcccchhcCCCCCcEEEE
Q 016931            1 MRITVMTADEQII---SLDVDPHETVENVKALLEVETQV-PLQQQQLLYN---G----REMNNAEKLSALGVKDEDLVMM   69 (380)
Q Consensus         1 M~ItVk~~~g~~~---~i~V~~~~TV~~LK~~I~~~~gi-p~~~q~Li~~---G----k~L~D~~tL~~~gI~dg~~I~l   69 (380)
                      |+|+|+..+|+.+   +++++++.||+|||+.|+++.++ ++++|+|++.   |    +.|+|+++|+++|+++|++|++
T Consensus         1 M~I~Vk~~~Gk~i~~~~lev~~~aTV~dLK~~Isk~~~~~~~~RqRL~~~~~~gk~~g~~L~d~ktL~d~gv~~gstLy~   80 (308)
T PLN02560          1 MKVTVVSRSGREIIKGGLEVPDSATVADLKKAIHKRKKKYYPSRQRLTLPLPPGKTRPTVLDDSKSLKDYGLGDGGTVVF   80 (308)
T ss_pred             CEEEEEcCCCCeecceeEEcCCCCcHHHHHHHHHHHcCCCChhheEEEEecCCCCcCccccCCCCCHHhcCCCCCceEEE
Confidence            8999998888886   79999999999999999999986 8999999972   3    4789999999999999999999


Q ss_pred             eec
Q 016931           70 VSN   72 (380)
Q Consensus        70 ~~~   72 (380)
                      .+-
T Consensus        81 kDL   83 (308)
T PLN02560         81 KDL   83 (308)
T ss_pred             EeC
Confidence            875

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

Probab=98.76  E-value=9.5e-09  Score=110.55  Aligned_cols=73  Identities=21%  Similarity=0.440  Sum_probs=69.4

Q ss_pred             EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeecCCC
Q 016931            2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNAAS   75 (380)
Q Consensus         2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~~~~   75 (380)
                      .|+||+++.++.++.|...+||.+||..|..+.+|+.+.|||||.|++|.|++++.+|+| ||-+|||+.++++
T Consensus         4 ~v~vktld~r~~t~~ig~q~ti~~~~d~~r~~~ni~s~~qr~i~~grvl~~~k~vq~~~v-dgk~~hlverppp   76 (1143)
T KOG4248|consen    4 NVLVKTLDSRTRTFIIGAQMTIKEFKDHIRASVNIPSEKQRLIYQGRVLQDDKKVQEYNV-DGKVIHLVERPPP   76 (1143)
T ss_pred             ceeeeecccceeEEEechHHHHHHHHHHHHHhcccccccceeeecceeeccchhhhhccC-CCeEEEeeccCCC
Confidence            478999999999999999999999999999999999999999999999999999999999 9999999977544

>cd01801 Tsc13_N Ubiquitin-like domain of Tsc13

Probab=98.59  E-value=1.7e-07  Score=73.04  Aligned_cols=69  Identities=20%  Similarity=0.323  Sum_probs=55.0

Q ss_pred             EEEEEeCC-CCEEEEEe-CCCCCHHHHHHHHHHHhC-CCCcCeEEe--cCCeecCCcccchhcCCCCCcEEEEe
Q 016931            2 RITVMTAD-EQIISLDV-DPHETVENVKALLEVETQ-VPLQQQQLL--YNGREMNNAEKLSALGVKDEDLVMMV   70 (380)
Q Consensus         2 ~ItVk~~~-g~~~~i~V-~~~~TV~~LK~~I~~~~g-ip~~~q~Li--~~Gk~L~D~~tL~~~gI~dg~~I~l~   70 (380)
                      +|.++..+ .....+++ +++.||.+||..|+...+ +++++|+|.  +.|+.|.|+++|.+||+++|++|++-
T Consensus         2 ~i~~~~~~~k~~~~~~~~~~~aTV~dlk~~i~~~~~~~~~~Rqrl~~~~~g~~L~d~~tL~~~gv~~g~~lyvK   75 (77)
T cd01801           2 EILDAKRSDKPIGKLKVSSGDATIADLKKLIAKSSPQLTVNRQSLRLEPKGKSLKDDDTLVDLGVGAGATLYVR   75 (77)
T ss_pred             eeeccccCcCceeecccCCCCccHHHHHHHHHHHcCCCCcceeEEEeCCCCcccCCcccHhhcCCCCCCEEEEe
Confidence            35555544 23323444 488999999999999986 578999985  89999999999999999999999974

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.

>cd06094 RP_Saci_like RP_Saci_like, retropepsin family

Probab=98.55  E-value=2.5e-07  Score=73.52  Aligned_cols=79  Identities=23%  Similarity=0.338  Sum_probs=58.2

Q ss_pred             eEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEEEcC-EEEeEEEEEecCCCCceeeeH
Q 016931          207 PLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGN-VFYPCSFVVLDSPNMEFLFGL  285 (380)
Q Consensus       207 ~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~-~~~~~~~~Vl~~~~~d~iLG~  285 (380)
                      .++|||||||.+|+|.....++-    .....+...+++.-..++.| .+...+.+|. ..+...|.|.|..  ..|||.
T Consensus         9 ~~~fLVDTGA~vSviP~~~~~~~----~~~~~~~l~AANgt~I~tyG-~~~l~ldlGlrr~~~w~FvvAdv~--~pIlGa   81 (89)
T cd06094           9 GLRFLVDTGAAVSVLPASSTKKS----LKPSPLTLQAANGTPIATYG-TRSLTLDLGLRRPFAWNFVVADVP--HPILGA   81 (89)
T ss_pred             CcEEEEeCCCceEeecccccccc----ccCCceEEEeCCCCeEeeee-eEEEEEEcCCCcEEeEEEEEcCCC--cceecH
Confidence            47999999999999998877653    12222323333323458888 4555899998 5899999998874  479999


Q ss_pred             HHHhhcC
Q 016931          286 DMLRKHQ  292 (380)
Q Consensus       286 D~L~~~~  292 (380)
                      |||++|+
T Consensus        82 DfL~~~~   88 (89)
T cd06094          82 DFLQHYG   88 (89)
T ss_pred             HHHHHcC
Confidence            9999987

Retropepsin on retrotransposons with long terminal repeats (LTR) including Saci-1, -2 and -3 of Schistosoma mansoni. Retropepsins are related to fungal and mammalian pepsins. While fungal and mammalian pepsins are bilobal proteins with structurally related N- and C-termini, retropepsins are half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and retropepsins function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. Retroviral aspartyl protease is synthesized as part of the POL polyprotein that contains an aspartyl protease, a reverse transcriptase, RNase H, and an integrase. The POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples where catalytic residues have been identified

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

Probab=98.55  E-value=4.9e-07  Score=67.65  Aligned_cols=70  Identities=29%  Similarity=0.549  Sum_probs=65.9

Q ss_pred             EEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            3 ITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         3 ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      +++++..|+.+.+++.+..++..+|.+|+...|+|.++|++.+.|+.|.|+.+|.+|+|..+.++++...
T Consensus         2 ~~~~~~~gk~~~~~~~~~~~i~~~k~~i~~~~~~~~~~q~~~~~~~~l~d~~~l~~~~i~~~~~~~l~~~   71 (75)
T KOG0001|consen    2 IFVKTLDGKTITLEVSPSDTIEVVKAKIRDKEGIPVDQQRLIFGGKPLEDGRTLADYNIQEGSTLHLVLS   71 (75)
T ss_pred             EEEEecCCCEEEEEecCCCHHHHHHHHHHhhcCCCCeeEEEEECCEECcCCCcHHHhCCCCCCEEEEEEe
Confidence            5677788999999999999999999999999999999999999999999999999999999999998754

>cd01788 ElonginB Ubiquitin-like domain of Elongin B

Probab=98.42  E-value=7.5e-07  Score=73.38  Aligned_cols=71  Identities=20%  Similarity=0.267  Sum_probs=60.2

Q ss_pred             CEEEEEeCCCC-EEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCC-------CCCcEEEEee
Q 016931            1 MRITVMTADEQ-IISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGV-------KDEDLVMMVS   71 (380)
Q Consensus         1 M~ItVk~~~g~-~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI-------~dg~~I~l~~   71 (380)
                      |.+++.....+ ++.++..++.||-+||..|+.-...||++|+|+..+.+|+|++||++||+       +...+|-|.-
T Consensus         1 MdvFlmIrR~KTTiF~dakes~tVlelK~~iegI~k~pp~dQrL~kd~qvLeD~kTL~d~g~t~~~akaq~pA~vgLa~   79 (119)
T cd01788           1 MDVFLMIRRHKTTIFTDAKESTTVYELKRIVEGILKRPPEDQRLYKDDQLLDDGKTLGDCGFTSQTARPQAPATVGLAF   79 (119)
T ss_pred             CceEEEEEecceEEEeecCCcccHHHHHHHHHHHhcCChhHheeecCceeecccccHHHcCccccccccCCCCeEEEEE
Confidence            56666655444 57789999999999999999999999999999977888999999999999       5577776653

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

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

Probab=98.39  E-value=5.5e-07  Score=70.77  Aligned_cols=69  Identities=25%  Similarity=0.463  Sum_probs=43.1

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCC---eec--CCcccchhcCCCCCcEEEEe
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNG---REM--NNAEKLSALGVKDEDLVMMV   70 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~G---k~L--~D~~tL~~~gI~dg~~I~l~   70 (380)
                      |-|.|++.+| .+.|++++++|+.+||++|++.+++|.+.|.|..+-   ..+  .++++|+++||+.||+|+|.
T Consensus         5 milRvrS~dG-~~Rie~~~~~t~~~L~~kI~~~l~~~~~~~~L~~~~~~~~~l~s~~~~tl~~lglkHGdmlyL~   78 (80)
T PF11543_consen    5 MILRVRSKDG-MKRIEVSPSSTLSDLKEKISEQLSIPDSSQSLSKDRNNKEELKSSDSKTLSSLGLKHGDMLYLK   78 (80)
T ss_dssp             -EEEEE-SSE-EEEEEE-TTSBHHHHHHHHHHHS---TTT---BSSGGGGGCSSS-TT-CCCCT---TT-EEE--
T ss_pred             EEEEEECCCC-CEEEEcCCcccHHHHHHHHHHHcCCCCcceEEEecCCCCcccccCCcCCHHHcCCCCccEEEEe
Confidence            5677888665 467899999999999999999999999999886432   334  35689999999999999984

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.

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

Probab=98.36  E-value=2.9e-06  Score=70.77  Aligned_cols=73  Identities=22%  Similarity=0.335  Sum_probs=54.6

Q ss_pred             EEEEEeCCCC-EEEEEeCCCCCHHHHHHHHHHHhC-------CCCcCeEEecCCeecCCcccchhcCCCCCc------EE
Q 016931            2 RITVMTADEQ-IISLDVDPHETVENVKALLEVETQ-------VPLQQQQLLYNGREMNNAEKLSALGVKDED------LV   67 (380)
Q Consensus         2 ~ItVk~~~g~-~~~i~V~~~~TV~~LK~~I~~~~g-------ip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~------~I   67 (380)
                      .|++...+|. +..+.+++++||.+||+.|..+..       ..++..||||.||.|.|++||+++++..|+      ++
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            3556666888 788999999999999999997641       244678999999999999999999998877      57


Q ss_pred             EEeecCC
Q 016931           68 MMVSNAA   74 (380)
Q Consensus        68 ~l~~~~~   74 (380)
                      ||+..+.
T Consensus        84 Hlvvrp~   90 (111)
T PF13881_consen   84 HLVVRPN   90 (111)
T ss_dssp             EEEE-SS
T ss_pred             EEEecCC
Confidence            8876543

>PF02160 Peptidase_A3: Cauliflower mosaic virus peptidase (A3); InterPro: IPR000588 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families

Probab=98.31  E-value=2.1e-06  Score=78.31  Aligned_cols=102  Identities=18%  Similarity=0.353  Sum_probs=75.9

Q ss_pred             eeEEeeee--cC---eeEEEEEcCCccccccCHHHH-----HHcCCccccCCcceeEeecC-cc-eeEEeEEEEEeEEEc
Q 016931          196 MLYVDMEV--NG---IPLKAFVDSGAQSTIISKSCA-----ERCGLLRLLDDRYRGVAHGV-GQ-SEILGRIHVAPIKIG  263 (380)
Q Consensus       196 ~lyv~v~I--ng---~~v~alVDTGA~~siIs~~~a-----~rlgL~~~~~~~~~~~~~gv-g~-~~~~g~i~~~~i~ig  263 (380)
                      ..||.+++  .|   ..+.++|||||+.-+++..+.     +++        .......|. +. ..+.-++....|.|+
T Consensus         4 siyI~~~i~~~gy~~~~~~~~vDTGAt~C~~~~~iiP~e~we~~--------~~~i~v~~an~~~~~i~~~~~~~~i~I~   75 (201)
T PF02160_consen    4 SIYIKVKISFPGYKKFNYHCYVDTGATICCASKKIIPEEYWEKS--------KKPIKVKGANGSIIQINKKAKNGKIQIA   75 (201)
T ss_pred             cEEEEEEEEEcCceeEEEEEEEeCCCceEEecCCcCCHHHHHhC--------CCcEEEEEecCCceEEEEEecCceEEEc
Confidence            46777765  44   347889999999988776543     332        222344444 33 567778888999999


Q ss_pred             CEEEeEEEEEecCCCCceeeeHHHHhhcCeEEEcCCCEEEEcC
Q 016931          264 NVFYPCSFVVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRVGG  306 (380)
Q Consensus       264 ~~~~~~~~~Vl~~~~~d~iLG~D~L~~~~~~ID~~~~~l~i~~  306 (380)
                      +..|..++.-.-..+.|+|||++||+.++..|.+.+ .+.|..
T Consensus        76 ~~~F~IP~iYq~~~g~d~IlG~NF~r~y~Pfiq~~~-~I~f~~  117 (201)
T PF02160_consen   76 DKIFRIPTIYQQESGIDIILGNNFLRLYEPFIQTED-RIQFHK  117 (201)
T ss_pred             cEEEeccEEEEecCCCCEEecchHHHhcCCcEEEcc-EEEEEe
Confidence            999998886666679999999999999999999974 677754

Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This group of sequences contain an aspartic peptidase signature that belongs to MEROPS peptidase family A3, subfamily A3A (cauliflower mosaic virus-type endopeptidase, clan AA). Cauliflower mosaic virus belongs to the Retro-transcribing viruses, which have a double-stranded DNA genome. The genome includes an open reading frame (ORF V) that shows similarities to the pol gene of retroviruses. This ORF codes for a polyprotein that includes a reverse transcriptase, which, on the basis of a DTG triplet near the N terminus, was suggested to include an aspartic protease. The presence of an aspartic protease has been confirmed by mutational studies, implicating Asp-45 in catalysis. The protease releases itself from the polyprotein and is involved in reactions required to process the ORF IV polyprotein, which includes the viral coat protein []. The viral aspartic peptidase signature has also been found associated with a polyprotein encoded by integrated pararetrovirus-like sequences in the genome of Nicotiana tabacum (Common tobacco) []. ; GO: 0004190 aspartic-type endopeptidase activity, 0006508 proteolysis

>cd00196 UBQ Ubiquitin-like proteins

Probab=98.31  E-value=2.9e-06  Score=60.30  Aligned_cols=67  Identities=30%  Similarity=0.436  Sum_probs=60.7

Q ss_pred             EEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931            5 VMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS   71 (380)
Q Consensus         5 Vk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~   71 (380)
                      |+..++....+.++++.|+.+||..|..++|++++.+.|+++|..+.+...+..+++.+|++|++..
T Consensus         2 v~~~~~~~~~~~~~~~~tv~~l~~~i~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~   68 (69)
T cd00196           2 VKLNDGKTVELLVPSGTTVADLKEKLAKKLGLPPEQQRLLVNGKILPDSLTLEDYGLQDGDELVLVP   68 (69)
T ss_pred             eEecCCCEEEEEcCCCCcHHHHHHHHHHHHCcChHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEe
Confidence            3444678888999999999999999999999999999999999999999888999999999999863

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.

>PF05585 DUF1758: Putative peptidase (DUF1758); InterPro: IPR008737 This is a family of nematode proteins of unknown function []

Probab=98.23  E-value=3.9e-06  Score=74.57  Aligned_cols=69  Identities=17%  Similarity=0.134  Sum_probs=41.8

Q ss_pred             eEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEE-EEEeEEEcCEEEeEEEEEec
Q 016931          207 PLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRI-HVAPIKIGNVFYPCSFVVLD  275 (380)
Q Consensus       207 ~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i-~~~~i~ig~~~~~~~~~Vl~  275 (380)
                      .+++|+|||||.|||+.++|++|+|.....+.......|....+....+ ..+.+.+++..+.+.+.+++
T Consensus        12 ~~~~LlDsGSq~SfIt~~la~~L~L~~~~~~~~~~~~~g~~~~~~~~~~~~~i~~~~~~~~~~i~alvv~   81 (164)
T PF05585_consen   12 EARALLDSGSQRSFITESLANKLNLPGTGEKILVIGTFGSSSPKSKKCVRVKISSRTSNNSLEIEALVVP   81 (164)
T ss_pred             EEEEEEecCCchhHHhHHHHHHhCCCCCCceEEEEeccCccCccceeEEEEEEEEecCCCceEEEEEecC
Confidence            5899999999999999999999999654332121111121111222211 12345556655777776666

However, it seems likely that these proteins act as aspartic peptidases.

>cd05482 HIV_retropepsin_like Retropepsins, pepsin-like aspartate proteases

Probab=98.22  E-value=4.8e-06  Score=66.46  Aligned_cols=86  Identities=19%  Similarity=0.189  Sum_probs=59.9

Q ss_pred             eeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEeEEEEEecCCCC
Q 016931          200 DMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPNM  279 (380)
Q Consensus       200 ~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~~~~~Vl~~~~~  279 (380)
                      .++|+|+.+.+|+||||..|+|+.....+--  ...  .......|+|.....-+...+.+++.+......+.|.+..-.
T Consensus         2 ~~~i~g~~~~~llDTGAd~Tvi~~~~~p~~w--~~~--~~~~~i~GIGG~~~~~~~~~v~i~i~~~~~~g~vlv~~~~~P   77 (87)
T cd05482           2 TLYINGKLFEGLLDTGADVSIIAENDWPKNW--PIQ--PAPSNLTGIGGAITPSQSSVLLLEIDGEGHLGTILVYVLSLP   77 (87)
T ss_pred             EEEECCEEEEEEEccCCCCeEEcccccCCCC--ccC--CCCeEEEeccceEEEEEEeeEEEEEcCCeEEEEEEEccCCCc
Confidence            5789999999999999999999975443211  011  122366677755444455567899998877778888775233


Q ss_pred             ceeeeHHHHh
Q 016931          280 EFLFGLDMLR  289 (380)
Q Consensus       280 d~iLG~D~L~  289 (380)
                      .-|||-|.|.
T Consensus        78 ~nllGRd~L~   87 (87)
T cd05482          78 VNLWGRDILS   87 (87)
T ss_pred             ccEEccccCC
Confidence            4699988873

This is a subfamily of retropepsins. The family includes pepsin-like aspartate proteases from retroviruses, retrotransposons and retroelements. While fungal and mammalian pepsins are bilobal proteins with structurally related N- and C-termini, retropepsins are half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and retropepsins function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. Retroviral aspartyl protease is synthesized as part of the POL polyprotein that contains an aspartyl protease, a reverse transcriptase, RNase H, and an integrase. The POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples where catalytic residues have been identified. This gro

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

Probab=97.98  E-value=1.3e-05  Score=80.65  Aligned_cols=71  Identities=24%  Similarity=0.310  Sum_probs=65.2

Q ss_pred             EEEEeCCCCEEEEE-eCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeecCC
Q 016931            3 ITVMTADEQIISLD-VDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNAA   74 (380)
Q Consensus         3 ItVk~~~g~~~~i~-V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~~~   74 (380)
                      |.|+. .|+.|.++ ++.+.|+..||+++...+|++|++|+++++|+.+.|+-.++..+||+|.+|+++-.+.
T Consensus         6 v~VKW-~gk~y~v~~l~~d~t~~vlKaqlf~LTgV~PeRQKv~vKGg~a~dd~~~~al~iKpn~~lmMmGt~e   77 (473)
T KOG1872|consen    6 VIVKW-GGKKYPVETLSTDETPSVLKAQLFALTGVPPERQKVMVKGGLAKDDVDWGALQIKPNETLMMMGTAE   77 (473)
T ss_pred             Eeeee-cCccccceeccCCCchHHHHHHHHHhcCCCccceeEEEecccccccccccccccCCCCEEEeecccc
Confidence            66777 77889988 9999999999999999999999999999999999999899999999999999995543

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

Probab=97.89  E-value=5.4e-06  Score=61.25  Aligned_cols=68  Identities=12%  Similarity=0.129  Sum_probs=60.4

Q ss_pred             EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEE
Q 016931            2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMM   69 (380)
Q Consensus         2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l   69 (380)
                      ++.+...-|+...+...+++||+|||++|+.++|..++..+|--.+.+++|.-+|++|.|++|.-+.+
T Consensus         3 ev~~nDrLGKKVRvKCn~dDtiGD~KKliaaQtGT~~~kivl~k~~~i~kd~I~L~dyeihdg~~lel   70 (73)
T KOG3493|consen    3 EVVLNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTRPEKIVLKKWYTIFKDHITLSDYEIHDGMNLEL   70 (73)
T ss_pred             eehhhhhcCceEEEEeCCcccccCHHHHHHHhhCCChhHhHHHhhhhhhhcccceeeEEeccCccEEE
Confidence            45566666899999999999999999999999999999999987788899999999999999987755

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

Probab=97.70  E-value=6.5e-05  Score=72.11  Aligned_cols=71  Identities=15%  Similarity=0.338  Sum_probs=61.6

Q ss_pred             CEEEEEeCC-C--CEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931            1 MRITVMTAD-E--QIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS   71 (380)
Q Consensus         1 M~ItVk~~~-g--~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~   71 (380)
                      |.+.|.... |  ..++++|+.+.+|.+||+.++.+.|+|+++.+++|.||.|.|+.|+..+.+.--+.+|++.
T Consensus         1 m~~lvqf~~~~~~h~l~v~v~~~t~I~~lke~Vak~~gvp~D~L~viFaGKeLs~~ttv~~cDL~qqs~~hi~~   74 (446)
T KOG0006|consen    1 MIVLVQFNKTGSSHGLPVEVDSDTSIFQLKEVVAKRQGVPADQLRVIFAGKELSNDTTVQNCDLSQQSATHIML   74 (446)
T ss_pred             CeEEEEeCCccccCceeEEEecCCCHHHHHHHHHHhhCCChhheEEEEeccccccCceeecccccccchhhhhc
Confidence            566776542 2  3478899999999999999999999999999999999999999999988888888888873

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

Probab=97.62  E-value=0.00015  Score=56.61  Aligned_cols=69  Identities=23%  Similarity=0.337  Sum_probs=50.3

Q ss_pred             EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCc------CeEEe-cCCeecCCcccchhcCCCCCcEEEEe
Q 016931            2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQ------QQQLL-YNGREMNNAEKLSALGVKDEDLVMMV   70 (380)
Q Consensus         2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~------~q~Li-~~Gk~L~D~~tL~~~gI~dg~~I~l~   70 (380)
                      +|+|...+|+.+.+.++.+.+|.+|...|...++.+..      ..+|. -+|..|+++.||+++||.||+++++.
T Consensus         4 rVtv~~~~~~~~Dl~lP~~vpv~~li~~l~~~~~~~~~~~~~~~~~~L~~~~g~~L~~~~tL~~~gV~dGd~L~L~   79 (79)
T PF08817_consen    4 RVTVDAGNGRQVDLALPADVPVAELIPELVELLGLPGDDPPGHGQWVLARAGGRPLDPDQTLADAGVRDGDVLVLR   79 (79)
T ss_dssp             EEEEE-TT--EEEEEEETTSBTTHHHHHHHHHS---S---TT-E-EEEG-GGTEEEETTSBCGGGT--TT-EEEE-
T ss_pred             EEEEEcCCCcEEEEEcCCCCcHHHHHHHHHHHhCCccCCCCCcceEEEEecCCcccCCcCcHhHcCCCCCCEEEeC
Confidence            56777755688999999999999999999998886432      35666 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.

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

Probab=97.49  E-value=0.00069  Score=51.79  Aligned_cols=71  Identities=15%  Similarity=0.290  Sum_probs=60.3

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecC---C--eecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYN---G--REMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~---G--k~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      ++|+|+-.++....+.|+|..+|..+|++|....+++- .|+|.|.   |  ..|.+..+|++|||=.+-.|.|+..
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            47999987888899999999999999999999999986 9999982   3  3477889999999987777776643

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.

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

Probab=97.28  E-value=0.0016  Score=52.61  Aligned_cols=71  Identities=13%  Similarity=0.337  Sum_probs=64.0

Q ss_pred             EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      .|.|+..++....+.|..++++..|+..-+.+.|++.+..+++|+|+.++..+|=++++.++||.|-+...
T Consensus        22 ~LKV~gqd~~~~~Fkikr~t~LkKLM~aYc~r~Gl~~~s~RFlFdG~rI~~~~TP~~L~mEd~D~Iev~~~   92 (99)
T KOG1769|consen   22 NLKVKGQDGSVVVFKIKRHTPLKKLMKAYCERQGLSMNSLRFLFDGQRIRETHTPADLEMEDGDEIEVVQE   92 (99)
T ss_pred             EEEEecCCCCEEEEEeecCChHHHHHHHHHHHcCCccceEEEEECCcCcCCCCChhhhCCcCCcEEEEEee
Confidence            35566656777889999999999999999999999999999999999999999999999999999998753

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

Probab=97.14  E-value=0.0006  Score=54.53  Aligned_cols=62  Identities=21%  Similarity=0.277  Sum_probs=50.3

Q ss_pred             CEEEEEeC-CCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEec-CC-eecCCcccchhcCCC
Q 016931            1 MRITVMTA-DEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLY-NG-REMNNAEKLSALGVK   62 (380)
Q Consensus         1 M~ItVk~~-~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~-~G-k~L~D~~tL~~~gI~   62 (380)
                      |.++++.. +..++.++..++.||-+||.+++.-+.-|++.|+|+. .. ..|.|.+||+++|..
T Consensus         1 ~~~f~~VrR~kttif~da~es~tV~elK~~l~gi~~~Pvn~qrL~kmd~eqlL~D~ktL~d~gft   65 (110)
T KOG4495|consen    1 MDVFLRVRRHKTTIFTDAKESSTVFELKRKLEGILKRPVNEQRLYKMDTEQLLDDGKTLGDCGFT   65 (110)
T ss_pred             CceeeeeeecceeEEeecCccccHHHHHHHHHHHHhCCCcchheeecCHHHHhhccchhhhcccc
Confidence            44555443 3445788999999999999999999999999999986 33 678899999999653

>COG5417 Uncharacterized small protein [Function unknown]

Probab=96.95  E-value=0.0033  Score=48.04  Aligned_cols=69  Identities=12%  Similarity=0.246  Sum_probs=56.2

Q ss_pred             CEEEEEeC--CCCEEEEEeCCCCCHHHHHHHHHHHhCCCC-----cCeEEecCCeecCCcccchhcCCCCCcEEEE
Q 016931            1 MRITVMTA--DEQIISLDVDPHETVENVKALLEVETQVPL-----QQQQLLYNGREMNNAEKLSALGVKDEDLVMM   69 (380)
Q Consensus         1 M~ItVk~~--~g~~~~i~V~~~~TV~~LK~~I~~~~gip~-----~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l   69 (380)
                      |+|||-..  +|+.|.+.++.-.++..|-..+.+...+..     .+.+..-+++.|.++..|.+|||.+||.+.+
T Consensus         5 ikVTvD~t~y~g~~yDLrl~d~~pikklIdivwe~~kis~~~reg~~Ikv~nKa~llsgd~kL~d~~IadGD~Lei   80 (81)
T COG5417           5 IKVTVDFTNYNGGTYDLRLPDYLPIKKLIDIVWESLKISIFDREGTQIKVMNKAQLLSGDDKLIDYQIADGDILEI   80 (81)
T ss_pred             EEEEEEeEecCCceEEEeccccchHHHHHHHHHHHhhccccccCCCEEEEeccceEecCCceEEeccccCCCEEEe
Confidence            45666433  589999999999999999998888765432     4567778999999999999999999999865

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

Probab=96.91  E-value=0.0064  Score=47.46  Aligned_cols=69  Identities=17%  Similarity=0.319  Sum_probs=59.9

Q ss_pred             EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcC-eEEe--cCCeecCCc--ccchhcCCCCCcEEEEe
Q 016931            2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQ-QQLL--YNGREMNNA--EKLSALGVKDEDLVMMV   70 (380)
Q Consensus         2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~-q~Li--~~Gk~L~D~--~tL~~~gI~dg~~I~l~   70 (380)
                      +|.|+.++|+.+.-.+.+++||.+|...|......+... ..|+  |-.+.+.++  .||+++|+.++.+|+|.
T Consensus         8 ~I~vRlpdG~~l~~~F~~~~tl~~l~~~v~~~~~~~~~~~f~L~~~~Pr~~l~~~~~~tl~e~~l~p~~~l~v~   81 (82)
T PF00789_consen    8 RIQVRLPDGSRLQRRFPKSDTLQDLYDFVESQLFSPEESDFELITAFPRRELTDEDSKTLEEAGLLPSATLIVE   81 (82)
T ss_dssp             EEEEEETTSTEEEEEEETTSBHHHHHHHHHHHHHCTTTSSEEEEESSSTEECCSTTTSBTCCCTTSSCEEEEEE
T ss_pred             EEEEECCCCCEEEEEECCcchHHHHHHHHHHhcCCCCCccEEEEeCCCCcCCCccccccHHHhcCCCCeEEEEE
Confidence            578899999999999999999999999999998877765 6775  677888754  69999999999999874

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 ....

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

Probab=96.75  E-value=0.0058  Score=46.05  Aligned_cols=63  Identities=10%  Similarity=0.078  Sum_probs=46.6

Q ss_pred             eCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEE
Q 016931            7 TADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMM   69 (380)
Q Consensus         7 ~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l   69 (380)
                      +.+++.+.+.+.++.++.++-+....++|+++++..|.|++|.|+-+.++.-.|+.+|..+.|
T Consensus         3 ~~~~rr~~vkvtp~~~l~~VL~eac~k~~l~~~~~~L~h~~k~ldlslp~R~snL~n~akLeL   65 (65)
T PF11470_consen    3 CYNFRRFKVKVTPNTTLNQVLEEACKKFGLDPSSYDLKHNNKPLDLSLPFRLSNLPNNAKLEL   65 (65)
T ss_dssp             -TTS-EEEE---TTSBHHHHHHHHHHHTT--GGG-EEEETTEEESSS-BHHHH---SS-EEEE
T ss_pred             ccCCcEEEEEECCCCCHHHHHHHHHHHcCCCccceEEEECCEEeccccceeecCCCCCCEEeC
Confidence            347888999999999999999999999999999999999999999999999999999998754

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.

>smart00166 UBX Domain present in ubiquitin-regulatory proteins

Probab=96.74  E-value=0.012  Score=45.96  Aligned_cols=69  Identities=12%  Similarity=0.168  Sum_probs=58.1

Q ss_pred             EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEe--cCCeecCC---cccchhcCCCCCcEEEEe
Q 016931            2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLL--YNGREMNN---AEKLSALGVKDEDLVMMV   70 (380)
Q Consensus         2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li--~~Gk~L~D---~~tL~~~gI~dg~~I~l~   70 (380)
                      +|.|+.++|+.+.-.+..+.||++|.+.|....+.......|+  |-.+.+.+   +.||.+.|+.+..+|.|.
T Consensus         6 ~I~iRlPdG~ri~~~F~~~~tl~~v~~~v~~~~~~~~~~f~L~t~~Prk~l~~~d~~~tL~e~gL~p~~~l~v~   79 (80)
T smart00166        6 RLQIRLPDGSRLVRRFPSSDTLRTVYEFVSAALTDGNDPFTLNSPFPRRTFTKDDYSKTLLELALLPSSTLVLE   79 (80)
T ss_pred             EEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHcccCCCCCEEEEeCCCCcCCccccccCCHHHCCCCCceEEEEe
Confidence            5788999999999999999999999999977666666677776  67788864   479999999999888763

Present in FAF1 and Shp1p.

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

Probab=96.64  E-value=0.0053  Score=55.95  Aligned_cols=74  Identities=19%  Similarity=0.258  Sum_probs=57.9

Q ss_pred             EEEEEeCCCC-EEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEe-cCC-----eecCC-cccchhcCCCCCcEEEEeecC
Q 016931            2 RITVMTADEQ-IISLDVDPHETVENVKALLEVETQVPLQQQQLL-YNG-----REMNN-AEKLSALGVKDEDLVMMVSNA   73 (380)
Q Consensus         2 ~ItVk~~~g~-~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li-~~G-----k~L~D-~~tL~~~gI~dg~~I~l~~~~   73 (380)
                      +|.|.+..-. .....+++++||.+||.+++..+|.+++.+.|. |+|     -.|+| +..|..|+..||..||++...
T Consensus         3 ~v~Iss~~~~~~~Ekr~~~~ltl~q~K~KLe~~~G~~~~~M~l~l~~~~d~~~~~lsn~d~~lg~~~~~Dg~rihviD~~   82 (234)
T KOG3206|consen    3 RVVISSSLNDFRTEKRLSNSLTLAQFKDKLELLTGTEAESMELELYDGDDKKVSALSNEDADLGFYKVEDGLRIHVIDSN   82 (234)
T ss_pred             EEEEecccccchhhhhcCCcCcHHHHHhhhhhhhCCCccceEEEEEcCCCceeeeccCCcccccccCCCCceEEEEEecC
Confidence            4555543322 245678899999999999999999999999987 555     23655 589999999999999999864


Q ss_pred             CC
Q 016931           74 AS   75 (380)
Q Consensus        74 ~~   75 (380)
                      +.
T Consensus        83 ~~   84 (234)
T KOG3206|consen   83 AQ   84 (234)
T ss_pred             cc
Confidence            43

>cd01772 SAKS1_UBX SAKS1-like UBX domain

Probab=96.41  E-value=0.026  Score=44.03  Aligned_cols=68  Identities=16%  Similarity=0.315  Sum_probs=56.7

Q ss_pred             EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEe--cCCeecCC---cccchhcCCCCCcEEEEe
Q 016931            2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLL--YNGREMNN---AEKLSALGVKDEDLVMMV   70 (380)
Q Consensus         2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li--~~Gk~L~D---~~tL~~~gI~dg~~I~l~   70 (380)
                      +|.|+.++|+.+.-.++.++|+.++.+.|....+.+ ....|+  |-.|.+.+   +.||.+.|+.+..+|+|-
T Consensus         6 ~i~iRlp~G~~~~~~F~~~~tl~~v~~fV~~~~~~~-~~f~L~t~fPrk~~~~~d~~~TL~elgL~Psa~L~v~   78 (79)
T cd01772           6 RIQIRLLDGTTLKQTFKAREQLAAVRLFVELNTGNG-GPFTLMTPFPRKVFTEDDMEKPLQELGLVPSAVLIVT   78 (79)
T ss_pred             EEEEECCCCCEEEEEeCCCChHHHHHHHHHHcCCCC-CCEEEEeCCCCeECCcccccCCHHHCCCCCceEEEEe
Confidence            578899999999999999999999999999776543 456666  77888864   479999999999998874

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.

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

Probab=96.36  E-value=0.009  Score=55.99  Aligned_cols=72  Identities=17%  Similarity=0.260  Sum_probs=55.8

Q ss_pred             CEEEEEeCCC-CEEE-EEeCCCCCHHHHHHHHHH-HhCCCCcCeEEe----cCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADE-QIIS-LDVDPHETVENVKALLEV-ETQVPLQQQQLL----YNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g-~~~~-i~V~~~~TV~~LK~~I~~-~~gip~~~q~Li----~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |.|++...++ -... .+.+...|+.|+++.+.. ...+.+..+|+.    -+|+.|.|+.+|++||...|++|.+.+-
T Consensus         1 m~It~~srs~~~~~~~~~~s~~~ti~d~~~~~~~~~~k~~~~~~r~tlr~e~kgkpl~~~s~l~e~~~~s~~~i~vKDL   79 (297)
T KOG1639|consen    1 MEITIASRSKGLRIKEKDLSGSETIDDLLKAISAKNLKITPYRIRLTLRVEPKGKPLIDNSKLQEYGDGSGATIYVKDL   79 (297)
T ss_pred             CceeeeccCCCceeeeecCCCCCcHHHHHHHHHHhhhccCccchhheeeccCCCccccchhHHHHhccCCCCEEEEecc
Confidence            8899988665 2333 678889999999965555 456777554443    4799999999999999999999998764

>cd01767 UBX UBX (ubiquitin regulatory X) domain

Probab=96.35  E-value=0.034  Score=42.97  Aligned_cols=66  Identities=14%  Similarity=0.315  Sum_probs=53.1

Q ss_pred             EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEe--cCCeecCC---cccchhcCCCCCcEEEE
Q 016931            2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLL--YNGREMNN---AEKLSALGVKDEDLVMM   69 (380)
Q Consensus         2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li--~~Gk~L~D---~~tL~~~gI~dg~~I~l   69 (380)
                      +|.|+.++|+.+.-.+..++||.+|.+.|.....- .....|+  |-.+.+.+   +.||.+.|+.+ +++.+
T Consensus         4 ~i~iRlpdG~~~~~~F~~~~tl~~l~~fv~~~~~~-~~~f~L~t~~Pr~~~~~~~~~~TL~e~gL~~-s~~~~   74 (77)
T cd01767           4 KIQIRLPDGKRLEQRFNSTHKLSDVRDFVESNGPP-AEPFTLMTSFPRRVLTDLDYELTLQEAGLVN-EVVFQ   74 (77)
T ss_pred             EEEEEcCCCCEEEEEeCCCCCHHHHHHHHHHcCCC-CCCEEEEeCCCCccCCCCCccCcHHHcCCcc-ceEEE
Confidence            57889999999999999999999999999887543 4556666  66788865   58999999994 55444

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.

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

Probab=96.29  E-value=0.011  Score=48.22  Aligned_cols=59  Identities=25%  Similarity=0.338  Sum_probs=44.8

Q ss_pred             EEEEEeCCC-CEEEEEeC--CCCCHHHHHHHHHHHhC--CCCcCeEEecCCeecCCcccchhcC
Q 016931            2 RITVMTADE-QIISLDVD--PHETVENVKALLEVETQ--VPLQQQQLLYNGREMNNAEKLSALG   60 (380)
Q Consensus         2 ~ItVk~~~g-~~~~i~V~--~~~TV~~LK~~I~~~~g--ip~~~q~Li~~Gk~L~D~~tL~~~g   60 (380)
                      .|+|+..++ --..++++  ...||..||.+|....+  ..-.+++|||+||.|.|...|+..-
T Consensus         2 ~l~IRFs~sipDl~L~I~~~~~~Tv~~LK~lIR~~~p~~~s~~rLRlI~~Gr~L~d~t~l~~~l   65 (97)
T PF10302_consen    2 YLTIRFSDSIPDLPLDIPSPNTTTVAWLKQLIRERLPPEPSRRRLRLIYAGRLLNDHTDLSSEL   65 (97)
T ss_pred             eEEEEECCCCCCceeecCCCCcccHHHHHHHHHhhcCCCCccccEEeeecCcccCccchhhhhh
Confidence            366776552 22567776  78999999999999983  3446789999999999987776653

They contain a characteristic GFDRL sequence motif.

>PF12382 Peptidase_A2E: Retrotransposon peptidase; InterPro: IPR024648 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families

Probab=96.29  E-value=0.014  Score=47.31  Aligned_cols=74  Identities=19%  Similarity=0.253  Sum_probs=53.3

Q ss_pred             EEEEEcCCccccccCHHHHHHcCCccccCCcce-eEe-ecCcceeEEeEEEEEeEEEcCEEEeEEEEEecCCCCceeee
Q 016931          208 LKAFVDSGAQSTIISKSCAERCGLLRLLDDRYR-GVA-HGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFG  284 (380)
Q Consensus       208 v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~-~~~-~gvg~~~~~g~i~~~~i~ig~~~~~~~~~Vl~~~~~d~iLG  284 (380)
                      +..|+|||||.++|..+.++...|+..   .|. .+. .|+--.++-.+.....|.+.|+.+...|.|+..-....-+.
T Consensus        48 ipclidtgaq~niiteetvrahklptr---pw~~sviyggvyp~kinrkt~kl~i~lngisikteflvvkkfshpaais  123 (137)
T PF12382_consen   48 IPCLIDTGAQVNIITEETVRAHKLPTR---PWSQSVIYGGVYPNKINRKTIKLNINLNGISIKTEFLVVKKFSHPAAIS  123 (137)
T ss_pred             ceeEEccCceeeeeehhhhhhccCCCC---cchhheEeccccccccccceEEEEEEecceEEEEEEEEEEeccCcceEE
Confidence            567999999999999999998877432   222 133 33434566667777788999999999999998654444333

Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. This entry represents a small family of fungal retroviral aspartyl peptidases.

>cd01770 p47_UBX p47-like ubiquitin domain

Probab=96.11  E-value=0.045  Score=42.81  Aligned_cols=66  Identities=14%  Similarity=0.220  Sum_probs=53.6

Q ss_pred             EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCC-CcCeEEe--cCCeecCC-cccchhcCCCCCcEE
Q 016931            2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVP-LQQQQLL--YNGREMNN-AEKLSALGVKDEDLV   67 (380)
Q Consensus         2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip-~~~q~Li--~~Gk~L~D-~~tL~~~gI~dg~~I   67 (380)
                      +|-|+.++|+.+...+..+.||.+|.+.|..+.+-+ .....|.  |-.|.|.| +.||++.|+.+..++
T Consensus         6 ~iqiRlpdG~r~~~rF~~~~tv~~l~~~v~~~~~~~~~~~f~L~t~fP~k~l~~~~~Tl~eagL~~s~v~   75 (79)
T cd01770           6 SIQIRLADGKRLVQKFNSSHRVSDVRDFIVNARPEFAARPFTLMTAFPVKELSDESLTLKEANLLNAVIV   75 (79)
T ss_pred             EEEEECCCCCEEEEEeCCCCcHHHHHHHHHHhCCCCCCCCEEEecCCCCcccCCCCCcHHHCCCcCcEEE
Confidence            578899999999999999999999999999876432 3456675  77888876 589999999865443

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.

>cd01773 Faf1_like1_UBX Faf1 ike-1 UBX domain

Probab=95.88  E-value=0.079  Score=41.79  Aligned_cols=69  Identities=13%  Similarity=0.240  Sum_probs=60.1

Q ss_pred             EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEe--cCCeecCC---cccchhcCCCCCcEEEEee
Q 016931            2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLL--YNGREMNN---AEKLSALGVKDEDLVMMVS   71 (380)
Q Consensus         2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li--~~Gk~L~D---~~tL~~~gI~dg~~I~l~~   71 (380)
                      +|.|+.++|+...-.+..+.++.+|...|.. .|.+++...|+  |--|.+..   +.||.+.|+.+..+|.|-.
T Consensus         7 ~i~vRlP~G~r~~rrF~~~~~L~~v~~fv~~-~g~~~~~f~L~t~FPRr~~~~~d~~~TL~e~GL~P~~~LfVq~   80 (82)
T cd01773           7 RLMLRYPDGKREQIALPEQAKLLALVRHVQS-KGYPNERFELLTNFPRRKLSHLDYDITLQEAGLCPQETVFVQE   80 (82)
T ss_pred             EEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-cCCCCCCEEEecCCCCcccCCcccCCCHHHcCCCCCcEEEEec
Confidence            6889999999999999999999999999998 57788888888  67788753   4799999999999998853

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

>cd01774 Faf1_like2_UBX Faf1 ike-2 UBX domain

Probab=95.49  E-value=0.12  Score=40.95  Aligned_cols=68  Identities=9%  Similarity=0.129  Sum_probs=55.8

Q ss_pred             EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEec--CCeecC--------CcccchhcCCCCCcEEEEe
Q 016931            2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLY--NGREMN--------NAEKLSALGVKDEDLVMMV   70 (380)
Q Consensus         2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~--~Gk~L~--------D~~tL~~~gI~dg~~I~l~   70 (380)
                      +|-|+.++|+.+.-.+..+.||++|...|... +-.++...|+.  --|.+.        .+.||++.|+.+..+|.|.
T Consensus         6 ~I~iRlp~G~Rl~rrF~~~~tl~~l~~fv~~~-~~~~~~f~L~t~FPrr~~~~~~~~~~~~~~TL~eaGL~~s~~L~V~   83 (85)
T cd01774           6 KIVFKLPNGTRVERRFLFTQSLRVIHDFLFSL-KETPEKFQIVTNFPRRVLPCLPSEGDPPPPTLLEAGLSNSEVLFVQ   83 (85)
T ss_pred             EEEEECCCCCEEEEEeCCCCcHHHHHHHHHhC-CCCCCcEEEecCCCCccccccccccCcCCCCHHHcCCCCccEEEEe
Confidence            57889999999989999999999999999654 45567788874  447775        2579999999988888774

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.

>COG4067 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]

Probab=95.45  E-value=0.04  Score=48.16  Aligned_cols=100  Identities=25%  Similarity=0.343  Sum_probs=65.8

Q ss_pred             eeecCe--eEEEEEcCCccccccCHHHHHHc---CC-------c---cccCC---------cceeEeecCcceeEEeEEE
Q 016931          201 MEVNGI--PLKAFVDSGAQSTIISKSCAERC---GL-------L---RLLDD---------RYRGVAHGVGQSEILGRIH  256 (380)
Q Consensus       201 v~Ing~--~v~alVDTGA~~siIs~~~a~rl---gL-------~---~~~~~---------~~~~~~~gvg~~~~~g~i~  256 (380)
                      +.++|-  .++|=+||||..|.++..-.++.   |-       .   .....         +...+-.+.|.....-.|-
T Consensus        31 ~~l~~l~~~~kAkiDTGA~TSsL~A~dI~~fkRdGe~WVRF~~~~~~~~~~~~~~~e~pvi~~ikvR~s~~~~~e~RpVV  110 (162)
T COG4067          31 VSLPGLKIQLKAKIDTGAVTSSLSASDIERFKRDGERWVRFRLADTDNLDQRSEECEAPVIRKIKVRSSSGSRAERRPVV  110 (162)
T ss_pred             EEcCcccceeeeeecccceeeeEEeecceeeeeCCceEEEEEeecccCccccceeeccceEEEEEEecCCCCccccccEE
Confidence            345554  48999999999999987665543   11       0   00000         0111112222212223344


Q ss_pred             EEeEEEcCEEEeEEEEEecC--CCCceeeeHHHHhhcCeEEEcCCC
Q 016931          257 VAPIKIGNVFYPCSFVVLDS--PNMEFLFGLDMLRKHQCIIDLKEN  300 (380)
Q Consensus       257 ~~~i~ig~~~~~~~~~Vl~~--~~~d~iLG~D~L~~~~~~ID~~~~  300 (380)
                      ...|++|+...+..|..-|.  ..+.+|||--+|+++++.+|..+.
T Consensus       111 ~~~l~lG~~~~~~E~tLtDR~~m~Yp~LlGrk~l~~~~~~VDpSr~  156 (162)
T COG4067         111 RLTLCLGGRILPIEFTLTDRSNMRYPVLLGRKALRHFGAVVDPSRK  156 (162)
T ss_pred             EEEEeeCCeeeeEEEEeecccccccceEecHHHHhhCCeEECchhh
Confidence            45899999999999999994  468999999999999999998754

>cd01771 Faf1_UBX Faf1 UBX domain

Probab=95.40  E-value=0.14  Score=40.11  Aligned_cols=68  Identities=12%  Similarity=0.263  Sum_probs=58.3

Q ss_pred             EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEe--cCCeecC--C-cccchhcCCCCCcEEEEe
Q 016931            2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLL--YNGREMN--N-AEKLSALGVKDEDLVMMV   70 (380)
Q Consensus         2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li--~~Gk~L~--D-~~tL~~~gI~dg~~I~l~   70 (380)
                      +|-|+.++|+...-.+..+.++++|...|..+ |.++...+|+  |--|.+.  | +.||.+.|+.+..+|.|-
T Consensus         6 ~i~iRlP~G~r~~rrF~~t~~L~~l~~fv~~~-~~~~~~f~L~t~fPRk~~~~~d~~~TL~e~gL~p~~~L~Ve   78 (80)
T cd01771           6 KLRVRTPSGDFLERRFLGDTPLQVLLNFVASK-GYPIDEYKLLSSWPRRDLTQLDPNFTLLELKLYPQETLILE   78 (80)
T ss_pred             EEEEECCCCCEEEEEeCCCCcHHHHHHHHHhc-CCCCCCEEEecCCCCCCCcCCCCCCcHHHcCCCCCcEEEEE
Confidence            57889999999989999999999999999875 7777888887  6778885  2 479999999999998874

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

>PF09280 XPC-binding: XPC-binding domain; InterPro: IPR015360 Members of this entry adopt a structure consisting of four alpha helices, arranged in an array

Probab=95.31  E-value=0.03  Score=41.39  Aligned_cols=41  Identities=29%  Similarity=0.491  Sum_probs=33.7

Q ss_pred             HHHHHHHhcCHH----HHHHHhhcCHHHHHHhcCCCHHHHHHHHHH
Q 016931           94 AAFQQHIRNDAN----LMTQLFQSDPELAQVLLGNDLNKLQDLLRE  135 (380)
Q Consensus        94 ~~~~q~~l~nP~----~l~qL~~~nP~La~ai~~~d~~~~~~~l~~  135 (380)
                      ..+|+.+.+||+    ++++|.++||+|++.|. .|++.|-+++..
T Consensus        11 ~~lR~~vq~NP~lL~~lLqql~~~nP~l~q~I~-~n~e~Fl~ll~~   55 (59)
T PF09280_consen   11 QQLRQLVQQNPQLLPPLLQQLGQSNPQLLQLIQ-QNPEEFLRLLNE   55 (59)
T ss_dssp             HHHHHHHHC-GGGHHHHHHHHHCCSHHHHHHHH-HTHHHHHHHHHS
T ss_pred             HHHHHHHHHCHHHHHHHHHHHhccCHHHHHHHH-HCHHHHHHHHcC
Confidence            678999999975    67788889999999996 699999888764

They bind specifically and directly to the xeroderma pigmentosum group C protein (XPC) to initiate nucleotide excision repair []. ; GO: 0003684 damaged DNA binding, 0006289 nucleotide-excision repair, 0043161 proteasomal ubiquitin-dependent protein catabolic process; PDB: 1PVE_A 1QZE_A 1OQY_A 1TP4_A 1X3W_B 3ESW_B 2QSG_X 2QSF_X 1X3Z_B 2QSH_X ....

>PF00026 Asp: Eukaryotic aspartyl protease The Prosite entry also includes Pfam:PF00077

Probab=95.14  E-value=0.11  Score=50.09  Aligned_cols=88  Identities=18%  Similarity=0.488  Sum_probs=57.5

Q ss_pred             eEEeeeec--CeeEEEEEcCCccccccC-HHHHHH--cCCccccCC----cce------eEeecCcceeEEeEEEEEeEE
Q 016931          197 LYVDMEVN--GIPLKAFVDSGAQSTIIS-KSCAER--CGLLRLLDD----RYR------GVAHGVGQSEILGRIHVAPIK  261 (380)
Q Consensus       197 lyv~v~In--g~~v~alVDTGA~~siIs-~~~a~r--lgL~~~~~~----~~~------~~~~gvg~~~~~g~i~~~~i~  261 (380)
                      .|++++|.  +++++++||||+..+.+. ..|...  |......+.    .+.      ....|  .....|.+....+.
T Consensus         2 Y~~~v~iGtp~q~~~~~iDTGS~~~wv~~~~c~~~~~~~~~~~y~~~~S~t~~~~~~~~~~~y~--~g~~~G~~~~D~v~   79 (317)
T PF00026_consen    2 YYINVTIGTPPQTFRVLIDTGSSDTWVPSSNCNSCSSCASSGFYNPSKSSTFSNQGKPFSISYG--DGSVSGNLVSDTVS   79 (317)
T ss_dssp             EEEEEEETTTTEEEEEEEETTBSSEEEEBTTECSHTHHCTSC-BBGGGSTTEEEEEEEEEEEET--TEEEEEEEEEEEEE
T ss_pred             eEEEEEECCCCeEEEEEEecccceeeeceeccccccccccccccccccccccccceeeeeeecc--CcccccccccceEe
Confidence            48899997  899999999999988775 333332  222111111    111      12233  33488999999999


Q ss_pred             EcCEEEe-EEEEEecC--------CCCceeeeHH
Q 016931          262 IGNVFYP-CSFVVLDS--------PNMEFLFGLD  286 (380)
Q Consensus       262 ig~~~~~-~~~~Vl~~--------~~~d~iLG~D  286 (380)
                      ||+..+. ..|..+..        ...|+||||-
T Consensus        80 ig~~~~~~~~f~~~~~~~~~~~~~~~~~GilGLg  113 (317)
T PF00026_consen   80 IGGLTIPNQTFGLADSYSGDPFSPIPFDGILGLG  113 (317)
T ss_dssp             ETTEEEEEEEEEEEEEEESHHHHHSSSSEEEE-S
T ss_pred             eeeccccccceecccccccccccccccccccccc
Confidence            9997666 66666654        3579999998

; InterPro: IPR001461 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This group of aspartic peptidases belong to MEROPS peptidase family A1 (pepsin family, clan AA). The type example is pepsin A from Homo sapiens (Human) . More than 70 aspartic peptidases, from all from eukaryotic organisms, have been identified. These include pepsins, cathepsins, and renins. The enzymes are synthesised with signal peptides, and the proenzymes are secreted or passed into the lysosomal/endosomal system, where acidification leads to autocatalytic activation. Most members of the pepsin family specifically cleave bonds in peptides that are at least six residues in length, with hydrophobic residues in both the P1 and P1' positions []. Crystallography has shown the active site to form a groove across the junction of the two lobes, with an extended loop projecting over the cleft to form an 11-residue flap, which encloses substrates and inhibitors within the active site []. Specificity is determined by several hydrophobic residues surrounding the catalytic aspartates, and by three residues in the flap. Cysteine residues are well conserved within the pepsin family, pepsin itself containing three disulphide loops. The first loop is found in all but the fungal enzymes, and is usually around five residues in length, but is longer in barrierpepsin and candidapepsin; the second loop is also small and found only in the animal enzymes; and the third loop is the largest, found in all members of the family, except for the cysteine-free polyporopepsin. The loops are spread unequally throughout the two lobes, suggesting that they formed after the initial gene duplication and fusion event []. This family does not include the retroviral nor retrotransposon aspartic proteases which are much smaller and appear to be homologous to the single domain aspartic proteases.; GO: 0004190 aspartic-type endopeptidase activity, 0006508 proteolysis; PDB: 1CZI_E 3CMS_A 1CMS_A 4CMS_A 1YG9_A 2NR6_A 3LIZ_A 1FLH_A 3UTL_A 1QRP_E ....

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

Probab=94.96  E-value=0.092  Score=41.77  Aligned_cols=69  Identities=13%  Similarity=0.298  Sum_probs=61.1

Q ss_pred             EEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931            3 ITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS   71 (380)
Q Consensus         3 ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~   71 (380)
                      +.|...+|..+.+.|..+++...|....+.+-|-..+..|++|+|+-++-++|=++++..++|.|-++.
T Consensus        27 Lkvv~qd~telfFkiKktT~f~klm~af~~rqGK~m~slRfL~dG~rI~~dqTP~dldmEdnd~iEav~   95 (103)
T COG5227          27 LKVVDQDGTELFFKIKKTTTFKKLMDAFSRRQGKNMSSLRFLFDGKRIDLDQTPGDLDMEDNDEIEAVT   95 (103)
T ss_pred             eEEecCCCCEEEEEEeccchHHHHHHHHHHHhCcCcceeEEEEcceecCCCCChhhcCCccchHHHHHH
Confidence            445555677788899999999999999999999999999999999999999999999999999886653

>cd05470 pepsin_retropepsin_like Cellular and retroviral pepsin-like aspartate proteases

Probab=94.79  E-value=0.1  Score=42.29  Aligned_cols=85  Identities=13%  Similarity=0.296  Sum_probs=49.8

Q ss_pred             EeeeecC--eeEEEEEcCCccccccCHHHHHHcCCcc--cc-C----------CcceeEeecCcceeEEeEEEEEeEEEc
Q 016931          199 VDMEVNG--IPLKAFVDSGAQSTIISKSCAERCGLLR--LL-D----------DRYRGVAHGVGQSEILGRIHVAPIKIG  263 (380)
Q Consensus       199 v~v~Ing--~~v~alVDTGA~~siIs~~~a~rlgL~~--~~-~----------~~~~~~~~gvg~~~~~g~i~~~~i~ig  263 (380)
                      +++.|..  +++.+++|||++.+.+..+-+..|+...  .. +          .....+..|-|  ...|.+....|.||
T Consensus         1 ~~i~vGtP~q~~~~~~DTGSs~~Wv~~~~c~~~~~~~~~~~~~~~~sst~~~~~~~~~~~Y~~g--~~~g~~~~D~v~ig   78 (109)
T cd05470           1 IEIGIGTPPQTFNVLLDTGSSNLWVPSVDCQSLAIYSHSSYDDPSASSTYSDNGCTFSITYGTG--SLSGGLSTDTVSIG   78 (109)
T ss_pred             CEEEeCCCCceEEEEEeCCCCCEEEeCCCCCCcccccccccCCcCCCCCCCCCCcEEEEEeCCC--eEEEEEEEEEEEEC
Confidence            4677765  8899999999999888655434333210  00 0          01112334434  34577777888888


Q ss_pred             CEEE-eEEEEEecC--------CCCceeeeH
Q 016931          264 NVFY-PCSFVVLDS--------PNMEFLFGL  285 (380)
Q Consensus       264 ~~~~-~~~~~Vl~~--------~~~d~iLG~  285 (380)
                      +..+ ...|.+...        ...|+||||
T Consensus        79 ~~~~~~~~fg~~~~~~~~~~~~~~~~GilGL  109 (109)
T cd05470          79 DIEVVGQAFGCATDEPGATFLPALFDGILGL  109 (109)
T ss_pred             CEEECCEEEEEEEecCCccccccccccccCC
Confidence            8543 244444432        356888886

This family includes both cellular and retroviral pepsin-like aspartate proteases. The cellular pepsin and pepsin-like enzymes are twice as long as their retroviral counterparts. The cellular pepsin-like aspartic proteases are found in mammals, plants, fungi and bacteria. These well known and extensively characterized enzymes include pepsins, chymosin, rennin, cathepsins, and fungal aspartic proteases. Several have long been known to be medically (rennin, cathepsin D and E, pepsin) or commercially (chymosin) important. The eukaryotic pepsin-like proteases contain two domains possessing similar topological features. The N- and C-terminal domains, although structurally related by a 2-fold axis, have only limited sequence homology except in the vicinity of the active site. This suggests that the enzymes evolved by an ancient duplication event. The eukaryotic pepsin-like proteases have two active site

>cd05476 pepsin_A_like_plant Chroloplast Nucleoids DNA-binding Protease and Nucellin, pepsin-like aspartic proteases from plants

Probab=94.62  E-value=0.084  Score=50.19  Aligned_cols=84  Identities=14%  Similarity=0.103  Sum_probs=48.5

Q ss_pred             EEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEEE-cCEEEeEEEEEecC-CCCceeeeH
Q 016931          208 LKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKI-GNVFYPCSFVVLDS-PNMEFLFGL  285 (380)
Q Consensus       208 v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~i-g~~~~~~~~~Vl~~-~~~d~iLG~  285 (380)
                      ..++||||++.+.++.+..        .  .+. ...+.|..   -.+.....-+ ......| +..+.. ...-.|||.
T Consensus       177 ~~ai~DTGTs~~~lp~~~~--------P--~i~-~~f~~~~~---~~i~~~~y~~~~~~~~~C-~~~~~~~~~~~~ilG~  241 (265)
T cd05476         177 GGTIIDSGTTLTYLPDPAY--------P--DLT-LHFDGGAD---LELPPENYFVDVGEGVVC-LAILSSSSGGVSILGN  241 (265)
T ss_pred             CcEEEeCCCcceEcCcccc--------C--CEE-EEECCCCE---EEeCcccEEEECCCCCEE-EEEecCCCCCcEEECh
Confidence            3489999999999998876        1  111 11111110   0000000000 1111123 233333 344689999


Q ss_pred             HHHhhcCeEEEcCCCEEEEcC
Q 016931          286 DMLRKHQCIIDLKENVLRVGG  306 (380)
Q Consensus       286 D~L~~~~~~ID~~~~~l~i~~  306 (380)
                      .||+.+-.+.|+++++|-|..
T Consensus       242 ~fl~~~~~vFD~~~~~iGfa~  262 (265)
T cd05476         242 IQQQNFLVEYDLENSRLGFAP  262 (265)
T ss_pred             hhcccEEEEEECCCCEEeeec
Confidence            999999999999999998864

This family contains pepsin like aspartic proteases from plants including Chloroplast Nucleoids DNA-binding Protease and Nucellin. Chloroplast Nucleoids DNA-binding Protease catalyzes the degradation of ribulose-1,5-bisphosphate carboxylase/oxygenase (Rubisco) in senescent leaves of tobacco and Nucellins are important regulators of nucellar cell's progressive degradation after ovule fertilization. Structurally, aspartic proteases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localized between the two lobes of the molecule. The N- and C-terminal domains, although structurally related by a 2-fold axis, have only limited sequence homology except the vicinity of the active site. This suggests that the enzymes evolved by an ancient duplication event. The enzymes specifically cleave bonds in peptides which

>PF13019 Telomere_Sde2: Telomere stability and silencing

Probab=94.55  E-value=0.2  Score=44.50  Aligned_cols=65  Identities=23%  Similarity=0.300  Sum_probs=50.9

Q ss_pred             CEEEEEeCCC----CEEEEEeCCCCCHHHHHHHHHHHhCCCCcCe-EEec-CCeec--CCcccchhcCCCCCc
Q 016931            1 MRITVMTADE----QIISLDVDPHETVENVKALLEVETQVPLQQQ-QLLY-NGREM--NNAEKLSALGVKDED   65 (380)
Q Consensus         1 M~ItVk~~~g----~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q-~Li~-~Gk~L--~D~~tL~~~gI~dg~   65 (380)
                      |+|.|++.+|    .++.+.++++.||.+|+..|...++++...| .|.+ .++.|  .++..++.+.-.+++
T Consensus         1 i~Vlvss~~g~~lp~tl~~~lp~~ttv~dL~~~l~~~~~~~~~~~~~L~~~~n~~l~~~~~~~~s~l~~~~~~   73 (162)
T PF13019_consen    1 INVLVSSFDGLTLPPTLSLSLPSTTTVSDLKDRLSERLPIPSSSQLYLTTNSNGQLSPSSDIPLSSLLSSSQD   73 (162)
T ss_pred             CeEEEecCCCCCCCCeEEeeCCCCCcHHHHHHHHHhhcCCCccceeEEEEeCCCeeCCCccccHHhhccCcCC
Confidence            6899999999    5788999999999999999999999999884 4554 34455  355667777655543

>PTZ00013 plasmepsin 4 (PM4); Provisional

Probab=94.34  E-value=0.14  Score=52.91  Aligned_cols=91  Identities=22%  Similarity=0.459  Sum_probs=59.7

Q ss_pred             ceeEEeeeec--CeeEEEEEcCCccccccC-HHHHH-HcCCccccCC----------cceeEeecCcceeEEeEEEEEeE
Q 016931          195 VMLYVDMEVN--GIPLKAFVDSGAQSTIIS-KSCAE-RCGLLRLLDD----------RYRGVAHGVGQSEILGRIHVAPI  260 (380)
Q Consensus       195 ~~lyv~v~In--g~~v~alVDTGA~~siIs-~~~a~-rlgL~~~~~~----------~~~~~~~gvg~~~~~g~i~~~~i  260 (380)
                      .+.|.+++|.  ++++++++|||++.+.+. ..|.. .|......+.          ....+..|-|  ...|.+....|
T Consensus       137 ~~Yy~~i~IGTP~Q~f~vi~DTGSsdlWV~s~~C~~~~C~~~~~yd~s~SsT~~~~~~~~~i~YG~G--sv~G~~~~Dtv  214 (450)
T PTZ00013        137 IMFYGEGEVGDNHQKFMLIFDTGSANLWVPSKKCDSIGCSIKNLYDSSKSKSYEKDGTKVDITYGSG--TVKGFFSKDLV  214 (450)
T ss_pred             CEEEEEEEECCCCeEEEEEEeCCCCceEEecccCCccccccCCCccCccCcccccCCcEEEEEECCc--eEEEEEEEEEE
Confidence            4778899996  789999999999999885 33421 2221111111          1112345544  46899999999


Q ss_pred             EEcCEEEeEEEEEec----------CCCCceeeeHHH
Q 016931          261 KIGNVFYPCSFVVLD----------SPNMEFLFGLDM  287 (380)
Q Consensus       261 ~ig~~~~~~~~~Vl~----------~~~~d~iLG~D~  287 (380)
                      .||+..++..|..+.          ....|+||||-|
T Consensus       215 ~iG~~~~~~~f~~~~~~~~~~~~~~~~~~dGIlGLg~  251 (450)
T PTZ00013        215 TLGHLSMPYKFIEVTDTDDLEPIYSSSEFDGILGLGW  251 (450)
T ss_pred             EECCEEEccEEEEEEeccccccceecccccceecccC
Confidence            999977665554432          124799999964

>PTZ00147 plasmepsin-1; Provisional

Probab=94.31  E-value=0.18  Score=52.17  Aligned_cols=91  Identities=22%  Similarity=0.416  Sum_probs=59.9

Q ss_pred             ceeEEeeeec--CeeEEEEEcCCccccccC-HHHHH-HcCCccccCCc----------ceeEeecCcceeEEeEEEEEeE
Q 016931          195 VMLYVDMEVN--GIPLKAFVDSGAQSTIIS-KSCAE-RCGLLRLLDDR----------YRGVAHGVGQSEILGRIHVAPI  260 (380)
Q Consensus       195 ~~lyv~v~In--g~~v~alVDTGA~~siIs-~~~a~-rlgL~~~~~~~----------~~~~~~gvg~~~~~g~i~~~~i  260 (380)
                      .+.|.+++|.  ++++.+++|||++.+.+. ..|.. .|.-....+..          ...+..|-|  ...|.+-...|
T Consensus       138 ~~Y~~~I~IGTP~Q~f~Vi~DTGSsdlWVps~~C~~~~C~~~~~yd~s~SsT~~~~~~~f~i~Yg~G--svsG~~~~DtV  215 (453)
T PTZ00147        138 VMSYGEAKLGDNGQKFNFIFDTGSANLWVPSIKCTTEGCETKNLYDSSKSKTYEKDGTKVEMNYVSG--TVSGFFSKDLV  215 (453)
T ss_pred             CEEEEEEEECCCCeEEEEEEeCCCCcEEEeecCCCcccccCCCccCCccCcceEECCCEEEEEeCCC--CEEEEEEEEEE
Confidence            4678999997  788999999999999884 44431 23222222211          112334444  46799999999


Q ss_pred             EEcCEEEeEEEEEec----------CCCCceeeeHHH
Q 016931          261 KIGNVFYPCSFVVLD----------SPNMEFLFGLDM  287 (380)
Q Consensus       261 ~ig~~~~~~~~~Vl~----------~~~~d~iLG~D~  287 (380)
                      .||+..++..|..+.          ....|+||||-|
T Consensus       216 tiG~~~v~~qF~~~~~~~~f~~~~~~~~~DGILGLG~  252 (453)
T PTZ00147        216 TIGNLSVPYKFIEVTDTNGFEPFYTESDFDGIFGLGW  252 (453)
T ss_pred             EECCEEEEEEEEEEEeccCcccccccccccceecccC
Confidence            999976665554332          125799999975

>KOG0013 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.26  E-value=0.095  Score=48.08  Aligned_cols=63  Identities=14%  Similarity=0.245  Sum_probs=55.1

Q ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCc--EEEEee
Q 016931            9 DEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDED--LVMMVS   71 (380)
Q Consensus         9 ~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~--~I~l~~   71 (380)
                      .++.+.+.+..-.|+.++|..++.+.|+.+-.|+++|+|++|-|...|..++|..|.  .|.+..
T Consensus       155 T~~d~~lta~~~Dtv~eik~~L~Aaeg~D~~sQrif~Sg~~l~dkt~LeEc~iekg~rYvlqviV  219 (231)
T KOG0013|consen  155 TREDFWLTAPHYDTVGEIKRALRAAEGVDPLSQRIFFSGGVLVDKTDLEECKIEKGQRYVLQVIV  219 (231)
T ss_pred             hhhheeecccCcCcHHHHHHHHHHhhccchhhheeeccCCceeccccceeeeecCCCEEEEEEEe
Confidence            356677888888999999999999999999999999999999999999999999994  444443

>cd06097 Aspergillopepsin_like Aspergillopepsin_like, aspartic proteases of fungal origin

Probab=93.94  E-value=0.21  Score=47.69  Aligned_cols=89  Identities=18%  Similarity=0.238  Sum_probs=54.6

Q ss_pred             EEeeeecC--eeEEEEEcCCccccccCHHHHHHcCCc--cccC-----------CcceeEeecCcceeEEeEEEEEeEEE
Q 016931          198 YVDMEVNG--IPLKAFVDSGAQSTIISKSCAERCGLL--RLLD-----------DRYRGVAHGVGQSEILGRIHVAPIKI  262 (380)
Q Consensus       198 yv~v~Ing--~~v~alVDTGA~~siIs~~~a~rlgL~--~~~~-----------~~~~~~~~gvg~~~~~g~i~~~~i~i  262 (380)
                      |++++|+.  +++.++||||+..+.+...-+..|...  ...+           .....+..|-|+ ...|.+....|.|
T Consensus         2 ~~~i~vGtP~Q~~~v~~DTGS~~~wv~~~~c~~~~~~~~~~y~~~~Sst~~~~~~~~~~i~Y~~G~-~~~G~~~~D~v~i   80 (278)
T cd06097           2 LTPVKIGTPPQTLNLDLDTGSSDLWVFSSETPAAQQGGHKLYDPSKSSTAKLLPGATWSISYGDGS-SASGIVYTDTVSI   80 (278)
T ss_pred             eeeEEECCCCcEEEEEEeCCCCceeEeeCCCCchhhccCCcCCCccCccceecCCcEEEEEeCCCC-eEEEEEEEEEEEE
Confidence            78999988  889999999999998854322223221  0011           011112333332 4678888889999


Q ss_pred             cCEEEe-EEEEEec--------CCCCceeeeHHH
Q 016931          263 GNVFYP-CSFVVLD--------SPNMEFLFGLDM  287 (380)
Q Consensus       263 g~~~~~-~~~~Vl~--------~~~~d~iLG~D~  287 (380)
                      |+..++ ..|.+..        ....|+||||-+
T Consensus        81 g~~~~~~~~fg~~~~~~~~~~~~~~~dGilGLg~  114 (278)
T cd06097          81 GGVEVPNQAIELATAVSASFFSDTASDGLLGLAF  114 (278)
T ss_pred             CCEEECCeEEEEEeecCccccccccccceeeecc
Confidence            985543 3343332        236899999954

The members of this family are aspartic proteases of fungal origin, including aspergillopepsin, rhizopuspepsin, endothiapepsin, and rodosporapepsin. The various fungal species in this family may be the most economically important genus of fungi. They may serve as virulence factors or as industrial aids. For example, Aspergillopepsin from A. fumigatus is involved in invasive aspergillosis owing to its elastolytic activity and Aspergillopepsins from the mold A. saitoi are used in fermentation industry. Aspartic proteinases are a group of proteolytic enzymes in which the scissile peptide bond is attacked by a nucleophilic water molecule activated by two aspartic residues in a DT(S)G motif at the active site. They have a similar fold composed of two beta-barrel domains. Between the N-terminal and C-terminal domains, each of which contributes one catalytic aspartic residue, there is an extended active-

>cd05487 renin_like Renin stimulates production of angiotensin and thus affects blood pressure

Probab=93.14  E-value=0.38  Score=47.14  Aligned_cols=90  Identities=14%  Similarity=0.304  Sum_probs=56.8

Q ss_pred             eeEEeeeec--CeeEEEEEcCCccccccC-HHHHH---HcCCccccCC----------cceeEeecCcceeEEeEEEEEe
Q 016931          196 MLYVDMEVN--GIPLKAFVDSGAQSTIIS-KSCAE---RCGLLRLLDD----------RYRGVAHGVGQSEILGRIHVAP  259 (380)
Q Consensus       196 ~lyv~v~In--g~~v~alVDTGA~~siIs-~~~a~---rlgL~~~~~~----------~~~~~~~gvg~~~~~g~i~~~~  259 (380)
                      -.|++++|.  +++++++||||++.+.+. ..|..   .|......+.          ....+..|-|  ...|.+....
T Consensus         8 ~y~~~i~iGtP~q~~~v~~DTGSs~~Wv~~~~C~~~~~~c~~~~~y~~~~SsT~~~~~~~~~~~Yg~g--~~~G~~~~D~   85 (326)
T cd05487           8 QYYGEIGIGTPPQTFKVVFDTGSSNLWVPSSKCSPLYTACVTHNLYDASDSSTYKENGTEFTIHYASG--TVKGFLSQDI   85 (326)
T ss_pred             eEEEEEEECCCCcEEEEEEeCCccceEEccCCCcCcchhhcccCcCCCCCCeeeeECCEEEEEEeCCc--eEEEEEeeeE
Confidence            457899997  788999999999999885 33432   2332222211          1111334434  4689898899


Q ss_pred             EEEcCEEEeEEEEEecC--------CCCceeeeHHH
Q 016931          260 IKIGNVFYPCSFVVLDS--------PNMEFLFGLDM  287 (380)
Q Consensus       260 i~ig~~~~~~~~~Vl~~--------~~~d~iLG~D~  287 (380)
                      |.+|+......|.++..        ...|+||||-+
T Consensus        86 v~~g~~~~~~~fg~~~~~~~~~~~~~~~dGilGLg~  121 (326)
T cd05487          86 VTVGGIPVTQMFGEVTALPAIPFMLAKFDGVLGMGY  121 (326)
T ss_pred             EEECCEEeeEEEEEEEeccCCccceeecceEEecCC
Confidence            99998654433333321        25799999975

Renin, also known as angiotensinogenase, is a circulating enzyme that participates in the renin-angiotensin system that mediates extracellular volume, arterial vasoconstriction, and consequently mean arterial blood pressure. The enzyme is secreted by the kidneys from specialized juxtaglomerular cells in response to decreases in glomerular filtration rate (a consequence of low blood volume), diminished filtered sodium chloride and sympathetic nervous system innervation. The enzyme circulates in the blood stream and hydrolyzes angiotensinogen secreted from the liver into the peptide angiotensin I. Angiotensin I is further cleaved in the lungs by endothelial bound angiotensin converting enzyme (ACE) into angiotensin II, the final active peptide. Renin is a member of the aspartic protease family. Structurally, aspartic proteases are bilobal enzymes, each lobe contributing a catalytic Aspartate r

>cd05478 pepsin_A Pepsin A, aspartic protease produced in gastric mucosa of mammals

Probab=92.85  E-value=0.97  Score=44.05  Aligned_cols=101  Identities=16%  Similarity=0.175  Sum_probs=60.4

Q ss_pred             eeecCeeE------EEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeE--EeEEEEEeEEEcCEEEeEE--
Q 016931          201 MEVNGIPL------KAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEI--LGRIHVAPIKIGNVFYPCS--  270 (380)
Q Consensus       201 v~Ing~~v------~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~--~g~i~~~~i~ig~~~~~~~--  270 (380)
                      +.|||+.+      .++||||++.+.++.+..+++--.  +....  ...|.-...+  ........+.+++..+.++  
T Consensus       194 v~v~g~~~~~~~~~~~iiDTGts~~~lp~~~~~~l~~~--~~~~~--~~~~~~~~~C~~~~~~P~~~f~f~g~~~~i~~~  269 (317)
T cd05478         194 VTINGQVVACSGGCQAIVDTGTSLLVGPSSDIANIQSD--IGASQ--NQNGEMVVNCSSISSMPDVVFTINGVQYPLPPS  269 (317)
T ss_pred             EEECCEEEccCCCCEEEECCCchhhhCCHHHHHHHHHH--hCCcc--ccCCcEEeCCcCcccCCcEEEEECCEEEEECHH
Confidence            56788754      689999999999999988765210  00000  0001000011  1122233556666554432  


Q ss_pred             -----------EEEecCC-CCceeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931          271 -----------FVVLDSP-NMEFLFGLDMLRKHQCIIDLKENVLRVG  305 (380)
Q Consensus       271 -----------~~Vl~~~-~~d~iLG~D~L~~~~~~ID~~~~~l~i~  305 (380)
                                 ..+.... ....|||-.||+.+-.+.|+++++|-|.
T Consensus       270 ~y~~~~~~~C~~~~~~~~~~~~~IlG~~fl~~~y~vfD~~~~~iG~A  316 (317)
T cd05478         270 AYILQDQGSCTSGFQSMGLGELWILGDVFIRQYYSVFDRANNKVGLA  316 (317)
T ss_pred             HheecCCCEEeEEEEeCCCCCeEEechHHhcceEEEEeCCCCEEeec
Confidence                       2222221 2458999999999999999999998874

Pepsin, a well-known aspartic protease, is produced by the human gastric mucosa in seven different zymogen isoforms, subdivided into two types: pepsinogen A and pepsinogen C. The prosequence of the zymogens are self cleaved under acidic pH. The mature enzymes are called pepsin A and pepsin C, correspondingly. The well researched porcine pepsin is also in this pepsin A family. Pepsins play an integral role in the digestion process of vertebrates. Pepsins are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localized between the two lobes of the molecule. One lobe may be evolved from the other through ancient gene-duplication event. More recently evolved enzymes have similar three-dimensional structures, however their amino acid sequences are more divergent except for the conserved catalytic site motif. Pepsins specifically cleave bonds in peptides which

>cd06096 Plasmepsin_5 Plasmepsins are a class of aspartic proteinases produced by the plasmodium parasite

Probab=92.74  E-value=0.48  Score=46.46  Aligned_cols=90  Identities=16%  Similarity=0.152  Sum_probs=51.3

Q ss_pred             eEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEe--EEEcCEEEeEEEEEecCCCCceeee
Q 016931          207 PLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAP--IKIGNVFYPCSFVVLDSPNMEFLFG  284 (380)
Q Consensus       207 ~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~--i~ig~~~~~~~~~Vl~~~~~d~iLG  284 (380)
                      ...++||||.+.++++.+..+++--. +.  .+. ...+.|. ++.  +....  +...+.  .|-+..... ..-.|||
T Consensus       231 ~~~aivDSGTs~~~lp~~~~~~l~~~-~P--~i~-~~f~~g~-~~~--i~p~~y~~~~~~~--~c~~~~~~~-~~~~ILG  300 (326)
T cd06096         231 GLGMLVDSGSTLSHFPEDLYNKINNF-FP--TIT-IIFENNL-KID--WKPSSYLYKKESF--WCKGGEKSV-SNKPILG  300 (326)
T ss_pred             CCCEEEeCCCCcccCCHHHHHHHHhh-cC--cEE-EEEcCCc-EEE--ECHHHhccccCCc--eEEEEEecC-CCceEEC
Confidence            35689999999999999999876321 10  111 1111111 000  00000  011111  122222222 2347999


Q ss_pred             HHHHhhcCeEEEcCCCEEEEcC
Q 016931          285 LDMLRKHQCIIDLKENVLRVGG  306 (380)
Q Consensus       285 ~D~L~~~~~~ID~~~~~l~i~~  306 (380)
                      -.||+.+-.+.|+.+++|-|..
T Consensus       301 ~~flr~~y~vFD~~~~riGfa~  322 (326)
T cd06096         301 ASFFKNKQIIFDLDNNRIGFVE  322 (326)
T ss_pred             hHHhcCcEEEEECcCCEEeeEc
Confidence            9999999999999999998853

The family contains a group of aspartic proteinases homologous to plasmepsin 5. Plasmepsins are a class of at least 10 enzymes produced by the plasmodium parasite. Through their haemoglobin-degrading activity, they are an important cause of symptoms in malaria sufferers. This family of enzymes is a potential target for anti-malarial drugs. Plasmepsins are aspartic acid proteases, which means their active site contains two aspartic acid residues. These two aspartic acid residue act respectively as proton donor and proton acceptor, catalyzing the hydrolysis of peptide bond in proteins. Aspartic proteinases are composed of two structurally similar beta barrel lobes, each lobe contributing an aspartic acid residue to form a catalytic dyad that acts to cleave the substrate peptide bond. The catalytic Asp residues are contained in an Asp-Thr-Gly-Ser/thr motif in both N- and C-terminal l

>cd05477 gastricsin Gastricsins, asparate proteases produced in gastric mucosa

Probab=92.64  E-value=0.53  Score=45.87  Aligned_cols=101  Identities=17%  Similarity=0.233  Sum_probs=58.7

Q ss_pred             eeecCee-------EEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEE--eEEEEEeEEEcCEEEe---
Q 016931          201 MEVNGIP-------LKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEIL--GRIHVAPIKIGNVFYP---  268 (380)
Q Consensus       201 v~Ing~~-------v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~--g~i~~~~i~ig~~~~~---  268 (380)
                      +.|+|..       ..++||||.+.+.++.+.++++--  .+....  ...|.-...+.  .......+.+++..+.   
T Consensus       188 i~v~g~~~~~~~~~~~~iiDSGtt~~~lP~~~~~~l~~--~~~~~~--~~~~~~~~~C~~~~~~p~l~~~f~g~~~~v~~  263 (318)
T cd05477         188 FQINGQATGWCSQGCQAIVDTGTSLLTAPQQVMSTLMQ--SIGAQQ--DQYGQYVVNCNNIQNLPTLTFTINGVSFPLPP  263 (318)
T ss_pred             EEECCEEecccCCCceeeECCCCccEECCHHHHHHHHH--HhCCcc--ccCCCEEEeCCccccCCcEEEEECCEEEEECH
Confidence            4577664       368999999999999988887521  011000  00010000000  1112334555654443   


Q ss_pred             ----------EEEEEec------CCCCceeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931          269 ----------CSFVVLD------SPNMEFLFGLDMLRKHQCIIDLKENVLRVG  305 (380)
Q Consensus       269 ----------~~~~Vl~------~~~~d~iLG~D~L~~~~~~ID~~~~~l~i~  305 (380)
                                |-+.+.+      ......|||..||+.+-.+.|++++++-|.
T Consensus       264 ~~y~~~~~~~C~~~i~~~~~~~~~~~~~~ilG~~fl~~~y~vfD~~~~~ig~a  316 (318)
T cd05477         264 SAYILQNNGYCTVGIEPTYLPSQNGQPLWILGDVFLRQYYSVYDLGNNQVGFA  316 (318)
T ss_pred             HHeEecCCCeEEEEEEecccCCCCCCceEEEcHHHhhheEEEEeCCCCEEeee
Confidence                      2223322      112358999999999999999999999885

Gastricsin is also called pepsinogen C. Gastricsins are produced in gastric mucosa of mammals. It is synthesized by the chief cells in the stomach as an inactive zymogen. It is self-converted to a mature enzyme under acidic conditions. Human gastricsin is distributed throughout all parts of the stomach. Gastricsin is synthesized as an inactive progastricsin that has an approximately 40 residue prosequence. It is self-converting to a mature enzyme being triggered by a drop in pH from neutrality to acidic conditions. Like other aspartic proteases, gastricsin are characterized by two catalytic aspartic residues at the active site, and display optimal activity at acidic pH. Mature enzyme has a pseudo-2-fold symmetry that passes through the active site between the catalytic aspartate residues. Structurally, aspartic proteases are bilobal enzymes, each lobe contributing a catalytic aspartate residue, with an exten

>cd05474 SAP_like SAPs, pepsin-like proteinases secreted from pathogens to degrade host proteins

Probab=92.53  E-value=0.69  Score=44.27  Aligned_cols=74  Identities=15%  Similarity=0.319  Sum_probs=53.4

Q ss_pred             eeEEeeeecC--eeEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEe-EEEE
Q 016931          196 MLYVDMEVNG--IPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYP-CSFV  272 (380)
Q Consensus       196 ~lyv~v~Ing--~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~-~~~~  272 (380)
                      ..|+++.|..  +++.+++|||+..+.+.               .+ .+..|-| ....|.+....|.+|+..++ ..|.
T Consensus         2 ~Y~~~i~iGtp~q~~~v~~DTgS~~~wv~---------------~~-~~~Y~~g-~~~~G~~~~D~v~~g~~~~~~~~fg   64 (295)
T cd05474           2 YYSAELSVGTPPQKVTVLLDTGSSDLWVP---------------DF-SISYGDG-TSASGTWGTDTVSIGGATVKNLQFA   64 (295)
T ss_pred             eEEEEEEECCCCcEEEEEEeCCCCcceee---------------ee-EEEeccC-CcEEEEEEEEEEEECCeEecceEEE
Confidence            3578999977  78999999999999998               11 2333332 35778888889999986554 4555


Q ss_pred             Eec-CCCCceeeeHH
Q 016931          273 VLD-SPNMEFLFGLD  286 (380)
Q Consensus       273 Vl~-~~~~d~iLG~D  286 (380)
                      +.. ....|+||||-
T Consensus        65 ~~~~~~~~~GilGLg   79 (295)
T cd05474          65 VANSTSSDVGVLGIG   79 (295)
T ss_pred             EEecCCCCcceeeEC
Confidence            554 34678999976

SAPs (Secreted aspartic proteinases) are secreted from a group of pathogenic fungi, predominantly Candida species. They are secreted from the pathogen to degrade host proteins. SAP is one of the most significant extracellular hydrolytic enzymes produced by C. albicans. SAP proteins, encoded by a family of 10 SAP genes. All 10 SAP genes of C. albicans encode preproenzymes, approximately 60 amino acid longer than the mature enzyme, which are processed when transported via the secretory pathway. The mature enzymes contain sequence motifs typical for all aspartyl proteinases, including the two conserved aspartate residues other active site and conserved cysteine residues implicated in the maintenance of the three-dimensional structure. Most Sap proteins contain putative N-glycosylation sites, but it remains to be determined which Sap proteins are glycosylated. This family of aspartate proteases

>PF14453 ThiS-like: ThiS-like ubiquitin

Probab=92.21  E-value=0.62  Score=34.13  Aligned_cols=56  Identities=18%  Similarity=0.345  Sum_probs=42.0

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|.   |+  .+++..+.|+.+||..+.....      .++++|-+.+++.     -+++||.|.+.++
T Consensus         1 M~I~vN---~k--~~~~~~~~tl~~lr~~~k~~~D------I~I~NGF~~~~d~-----~L~e~D~v~~Ikk   56 (57)
T PF14453_consen    1 MKIKVN---EK--EIETEENTTLFELRKESKPDAD------IVILNGFPTKEDI-----ELKEGDEVFLIKK   56 (57)
T ss_pred             CEEEEC---CE--EEEcCCCcCHHHHHHhhCCCCC------EEEEcCcccCCcc-----ccCCCCEEEEEeC
Confidence            666664   34  4778888999999988665432      6789999887755     4678999998765

>PRK06437 hypothetical protein; Provisional

Probab=92.14  E-value=0.99  Score=34.01  Aligned_cols=54  Identities=19%  Similarity=0.243  Sum_probs=44.0

Q ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931            9 DEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS   71 (380)
Q Consensus         9 ~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~   71 (380)
                      +++...++++...||.+|-+.    .|+++....+..||+.+.     .++-+++||.|-++.
T Consensus         9 g~~~~~~~i~~~~tv~dLL~~----Lgi~~~~vaV~vNg~iv~-----~~~~L~dgD~Veiv~   62 (67)
T PRK06437          9 GHINKTIEIDHELTVNDIIKD----LGLDEEEYVVIVNGSPVL-----EDHNVKKEDDVLILE   62 (67)
T ss_pred             CCcceEEEcCCCCcHHHHHHH----cCCCCccEEEEECCEECC-----CceEcCCCCEEEEEe
Confidence            455577888888999988765    588888888889999997     556788999998875

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

Probab=91.68  E-value=0.34  Score=49.80  Aligned_cols=40  Identities=28%  Similarity=0.477  Sum_probs=20.2

Q ss_pred             hHHHHHHHhcCHHHHHHHhhcCHHHHHHhcCCCHHHHHHHHHH
Q 016931           93 PAAFQQHIRNDANLMTQLFQSDPELAQVLLGNDLNKLQDLLRE  135 (380)
Q Consensus        93 p~~~~q~~l~nP~~l~qL~~~nP~La~ai~~~d~~~~~~~l~~  135 (380)
                      |+.|+++++.||++++ ++++||++...+  +||+.+|+.++.
T Consensus       175 pd~mrq~I~anPqmq~-lm~~npei~h~l--n~p~i~rQtle~  214 (493)
T KOG0010|consen  175 PDLMRQLIMANPQMQD-LMQRNPEIGHLL--NNPLILRQTLES  214 (493)
T ss_pred             hHHHHHHHhcCHHHHH-HHhhCCcchhhh--cChHHHHHHHHh
Confidence            4444444444443322 334455553333  567777777765

>cd05476 pepsin_A_like_plant Chroloplast Nucleoids DNA-binding Protease and Nucellin, pepsin-like aspartic proteases from plants

Probab=91.67  E-value=0.5  Score=44.84  Aligned_cols=76  Identities=20%  Similarity=0.309  Sum_probs=52.9

Q ss_pred             eEEeeeec--CeeEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEEEcCE--EE-eEEE
Q 016931          197 LYVDMEVN--GIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNV--FY-PCSF  271 (380)
Q Consensus       197 lyv~v~In--g~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~--~~-~~~~  271 (380)
                      .|++++|.  .+++.+++|||++.+-+..     |        .+ ....+- ...+.|.+....|.||+.  .+ ...|
T Consensus         2 Y~~~i~iGtP~q~~~v~~DTGSs~~wv~~-----~--------~~-~~~Y~d-g~~~~G~~~~D~v~~g~~~~~~~~~~F   66 (265)
T cd05476           2 YLVTLSIGTPPQPFSLIVDTGSDLTWTQC-----C--------SY-EYSYGD-GSSTSGVLATETFTFGDSSVSVPNVAF   66 (265)
T ss_pred             eEEEEecCCCCcceEEEecCCCCCEEEcC-----C--------ce-EeEeCC-CceeeeeEEEEEEEecCCCCccCCEEE
Confidence            47899997  6789999999999988853     2        11 233332 236778888888999886  33 2455


Q ss_pred             EEecC------CCCceeeeHHH
Q 016931          272 VVLDS------PNMEFLFGLDM  287 (380)
Q Consensus       272 ~Vl~~------~~~d~iLG~D~  287 (380)
                      .+...      ...|+||||.+
T Consensus        67 g~~~~~~~~~~~~~~GIlGLg~   88 (265)
T cd05476          67 GCGTDNEGGSFGGADGILGLGR   88 (265)
T ss_pred             EecccccCCccCCCCEEEECCC
Confidence            55543      25899999875

This family contains pepsin like aspartic proteases from plants including Chloroplast Nucleoids DNA-binding Protease and Nucellin. Chloroplast Nucleoids DNA-binding Protease catalyzes the degradation of ribulose-1,5-bisphosphate carboxylase/oxygenase (Rubisco) in senescent leaves of tobacco and Nucellins are important regulators of nucellar cell's progressive degradation after ovule fertilization. Structurally, aspartic proteases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localized between the two lobes of the molecule. The N- and C-terminal domains, although structurally related by a 2-fold axis, have only limited sequence homology except the vicinity of the active site. This suggests that the enzymes evolved by an ancient duplication event. The enzymes specifically cleave bonds in peptides which

>PF05618 Zn_protease: Putative ATP-dependant zinc protease; InterPro: IPR008503 This family consists of several hypothetical proteins from different archaeal and bacterial species

Probab=91.53  E-value=0.54  Score=40.76  Aligned_cols=45  Identities=13%  Similarity=0.314  Sum_probs=32.2

Q ss_pred             EEeEEEcCEEEeEEEEEecC--CCCceeeeHHHHhhcCeEEEcCCCE
Q 016931          257 VAPIKIGNVFYPCSFVVLDS--PNMEFLFGLDMLRKHQCIIDLKENV  301 (380)
Q Consensus       257 ~~~i~ig~~~~~~~~~Vl~~--~~~d~iLG~D~L~~~~~~ID~~~~~  301 (380)
                      ...+.||+..+...|...+.  ..+.+|||.--+.+.++.+|..+.-
T Consensus        87 ~~~~~lg~~~~~~e~tL~dR~~m~yp~LlGrR~~l~~~~lVD~s~~~  133 (138)
T PF05618_consen   87 ETTLCLGGKTWKIEFTLTDRSNMKYPMLLGRRNFLRGRFLVDVSRSF  133 (138)
T ss_dssp             EEEEEETTEEEEEEEEEE-S--SS-SEEE-HHHHHHTTEEEETT---
T ss_pred             EEEEEECCEEEEEEEEEcCCCcCcCCEEEEehHHhcCCEEECCChhh
Confidence            45789999999999999994  4689999966666778999987653

; PDB: 2PMA_B.

>cd05478 pepsin_A Pepsin A, aspartic protease produced in gastric mucosa of mammals

Probab=91.49  E-value=0.79  Score=44.69  Aligned_cols=91  Identities=13%  Similarity=0.322  Sum_probs=55.2

Q ss_pred             ceeEEeeeec--CeeEEEEEcCCccccccCH-HHHH-HcCCccccCC----c------ceeEeecCcceeEEeEEEEEeE
Q 016931          195 VMLYVDMEVN--GIPLKAFVDSGAQSTIISK-SCAE-RCGLLRLLDD----R------YRGVAHGVGQSEILGRIHVAPI  260 (380)
Q Consensus       195 ~~lyv~v~In--g~~v~alVDTGA~~siIs~-~~a~-rlgL~~~~~~----~------~~~~~~gvg~~~~~g~i~~~~i  260 (380)
                      ...|+++.|.  .+++.++||||+..+.+.. .|.. .|.-....+.    .      ......|-|.  ..|.+....|
T Consensus         9 ~~Y~~~i~vGtp~q~~~v~~DTGS~~~wv~~~~C~~~~c~~~~~f~~~~Sst~~~~~~~~~~~yg~gs--~~G~~~~D~v   86 (317)
T cd05478           9 MEYYGTISIGTPPQDFTVIFDTGSSNLWVPSVYCSSQACSNHNRFNPRQSSTYQSTGQPLSIQYGTGS--MTGILGYDTV   86 (317)
T ss_pred             CEEEEEEEeCCCCcEEEEEEeCCCccEEEecCCCCcccccccCcCCCCCCcceeeCCcEEEEEECCce--EEEEEeeeEE
Confidence            3567889996  6789999999999998853 3321 2221111111    0      0113344443  5788888899


Q ss_pred             EEcCEEEe-EEEEEecC--------CCCceeeeHHH
Q 016931          261 KIGNVFYP-CSFVVLDS--------PNMEFLFGLDM  287 (380)
Q Consensus       261 ~ig~~~~~-~~~~Vl~~--------~~~d~iLG~D~  287 (380)
                      .||+..++ ..|.+...        ...|+||||-+
T Consensus        87 ~ig~~~i~~~~fg~~~~~~~~~~~~~~~dGilGLg~  122 (317)
T cd05478          87 QVGGISDTNQIFGLSETEPGSFFYYAPFDGILGLAY  122 (317)
T ss_pred             EECCEEECCEEEEEEEecCccccccccccceeeecc
Confidence            99985543 33433331        23689999864

Pepsin, a well-known aspartic protease, is produced by the human gastric mucosa in seven different zymogen isoforms, subdivided into two types: pepsinogen A and pepsinogen C. The prosequence of the zymogens are self cleaved under acidic pH. The mature enzymes are called pepsin A and pepsin C, correspondingly. The well researched porcine pepsin is also in this pepsin A family. Pepsins play an integral role in the digestion process of vertebrates. Pepsins are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localized between the two lobes of the molecule. One lobe may be evolved from the other through ancient gene-duplication event. More recently evolved enzymes have similar three-dimensional structures, however their amino acid sequences are more divergent except for the conserved catalytic site motif. Pepsins specifically cleave bonds in peptides which

>cd06098 phytepsin Phytepsin, a plant homolog of mammalian lysosomal pepsins

Probab=91.34  E-value=1.2  Score=43.50  Aligned_cols=96  Identities=11%  Similarity=0.121  Sum_probs=54.8

Q ss_pred             eeecCee-------EEEEEcCCccccccCHHHHHHcCCccccCC--cceeEeecCcceeEEeEEEEEeEEEcC--EE---
Q 016931          201 MEVNGIP-------LKAFVDSGAQSTIISKSCAERCGLLRLLDD--RYRGVAHGVGQSEILGRIHVAPIKIGN--VF---  266 (380)
Q Consensus       201 v~Ing~~-------v~alVDTGA~~siIs~~~a~rlgL~~~~~~--~~~~~~~gvg~~~~~g~i~~~~i~ig~--~~---  266 (380)
                      +.|+|..       ..++||||.+.+.++.++++++.....-..  ....+....|.         ..+.|..  ..   
T Consensus       197 i~v~g~~~~~~~~~~~aivDTGTs~~~lP~~~~~~i~~~~~C~~~~~~P~i~f~f~g---------~~~~l~~~~yi~~~  267 (317)
T cd06098         197 VLIGGKSTGFCAGGCAAIADSGTSLLAGPTTIVTQINSAVDCNSLSSMPNVSFTIGG---------KTFELTPEQYILKV  267 (317)
T ss_pred             EEECCEEeeecCCCcEEEEecCCcceeCCHHHHHhhhccCCccccccCCcEEEEECC---------EEEEEChHHeEEee
Confidence            5677764       468999999999999999887642110000  00011111111         1111111  11   


Q ss_pred             -----EeEEEEEe--cC---CCCceeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931          267 -----YPCSFVVL--DS---PNMEFLFGLDMLRKHQCIIDLKENVLRVG  305 (380)
Q Consensus       267 -----~~~~~~Vl--~~---~~~d~iLG~D~L~~~~~~ID~~~~~l~i~  305 (380)
                           -.|-+.+.  +.   .+...|||-.||+.+-.+.|+++++|-|.
T Consensus       268 ~~~~~~~C~~~~~~~~~~~~~~~~~IlGd~Flr~~y~VfD~~~~~iGfA  316 (317)
T cd06098         268 GEGAAAQCISGFTALDVPPPRGPLWILGDVFMGAYHTVFDYGNLRVGFA  316 (317)
T ss_pred             cCCCCCEEeceEEECCCCCCCCCeEEechHHhcccEEEEeCCCCEEeec
Confidence                 12322222  21   12347999999999999999999998774

Phytepsin, a plant homolog of mammalian lysosomal pepsins, resides in grains, roots, stems, leaves and flowers. Phytepsin may participate in metabolic turnover and in protein processing events. In addition, it highly expressed in several plant tissues undergoing apoptosis. Phytepsin contains an internal region consisting of about 100 residues not present in animal or microbial pepsins. This region is thus called a plant specific insert. The insert is highly similar to saponins, which are lysosomal sphingolipid-activating proteins in mammalian cells. The saponin-like domain may have a role in the vacuolar targeting of phytepsin. Phytepsin, as its animal counterparts, possesses a topology typical of all aspartic proteases. They are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localized between the two lobes of the molecule. One lobe has probably evolved fro

>cd05474 SAP_like SAPs, pepsin-like proteinases secreted from pathogens to degrade host proteins

Probab=91.16  E-value=1.9  Score=41.18  Aligned_cols=96  Identities=19%  Similarity=0.255  Sum_probs=55.9

Q ss_pred             EEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEE-EEEeEEEcCEEEe------------------
Q 016931          208 LKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRI-HVAPIKIGNVFYP------------------  268 (380)
Q Consensus       208 v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i-~~~~i~ig~~~~~------------------  268 (380)
                      ..++||||++.+.++.+.++++--  .+....... .+.....+.-.. ....+.+++..+.                  
T Consensus       179 ~~~iiDSGt~~~~lP~~~~~~l~~--~~~~~~~~~-~~~~~~~C~~~~~p~i~f~f~g~~~~i~~~~~~~~~~~~~~~~~  255 (295)
T cd05474         179 LPALLDSGTTLTYLPSDIVDAIAK--QLGATYDSD-EGLYVVDCDAKDDGSLTFNFGGATISVPLSDLVLPASTDDGGDG  255 (295)
T ss_pred             ccEEECCCCccEeCCHHHHHHHHH--HhCCEEcCC-CcEEEEeCCCCCCCEEEEEECCeEEEEEHHHhEeccccCCCCCC
Confidence            588999999999999998886521  011000000 010000000000 2344555553333                  


Q ss_pred             -EEEEEecCCCCceeeeHHHHhhcCeEEEcCCCEEEEcC
Q 016931          269 -CSFVVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRVGG  306 (380)
Q Consensus       269 -~~~~Vl~~~~~d~iLG~D~L~~~~~~ID~~~~~l~i~~  306 (380)
                       |-+.+........|||..||+.+-.+.|++++++-|..
T Consensus       256 ~C~~~i~~~~~~~~iLG~~fl~~~y~vfD~~~~~ig~a~  294 (295)
T cd05474         256 ACYLGIQPSTSDYNILGDTFLRSAYVVYDLDNNEISLAQ  294 (295)
T ss_pred             CeEEEEEeCCCCcEEeChHHhhcEEEEEECCCCEEEeec
Confidence             22333333224689999999999999999999998853

SAPs (Secreted aspartic proteinases) are secreted from a group of pathogenic fungi, predominantly Candida species. They are secreted from the pathogen to degrade host proteins. SAP is one of the most significant extracellular hydrolytic enzymes produced by C. albicans. SAP proteins, encoded by a family of 10 SAP genes. All 10 SAP genes of C. albicans encode preproenzymes, approximately 60 amino acid longer than the mature enzyme, which are processed when transported via the secretory pathway. The mature enzymes contain sequence motifs typical for all aspartyl proteinases, including the two conserved aspartate residues other active site and conserved cysteine residues implicated in the maintenance of the three-dimensional structure. Most Sap proteins contain putative N-glycosylation sites, but it remains to be determined which Sap proteins are glycosylated. This family of aspartate proteases

>cd06098 phytepsin Phytepsin, a plant homolog of mammalian lysosomal pepsins

Probab=90.96  E-value=0.69  Score=45.19  Aligned_cols=91  Identities=13%  Similarity=0.318  Sum_probs=56.6

Q ss_pred             ceeEEeeeec--CeeEEEEEcCCccccccC-HHHH--HHcCCccccCCc----------ceeEeecCcceeEEeEEEEEe
Q 016931          195 VMLYVDMEVN--GIPLKAFVDSGAQSTIIS-KSCA--ERCGLLRLLDDR----------YRGVAHGVGQSEILGRIHVAP  259 (380)
Q Consensus       195 ~~lyv~v~In--g~~v~alVDTGA~~siIs-~~~a--~rlgL~~~~~~~----------~~~~~~gvg~~~~~g~i~~~~  259 (380)
                      ...|+++.|.  ++++++++|||++.+.+. ..|.  ..|......+..          ...+..|-|  .+.|.+....
T Consensus         9 ~~Y~~~i~iGtP~Q~~~v~~DTGSs~lWv~~~~C~~~~~C~~~~~y~~~~SsT~~~~~~~~~i~Yg~G--~~~G~~~~D~   86 (317)
T cd06098           9 AQYFGEIGIGTPPQKFTVIFDTGSSNLWVPSSKCYFSIACYFHSKYKSSKSSTYKKNGTSASIQYGTG--SISGFFSQDS   86 (317)
T ss_pred             CEEEEEEEECCCCeEEEEEECCCccceEEecCCCCCCccccccCcCCcccCCCcccCCCEEEEEcCCc--eEEEEEEeeE
Confidence            3568899997  688999999999988774 4442  234322122111          112334444  3578888889


Q ss_pred             EEEcCEEEe-EEEEEec--------CCCCceeeeHHH
Q 016931          260 IKIGNVFYP-CSFVVLD--------SPNMEFLFGLDM  287 (380)
Q Consensus       260 i~ig~~~~~-~~~~Vl~--------~~~~d~iLG~D~  287 (380)
                      |.||+..++ ..|.+..        ....|+||||-+
T Consensus        87 v~ig~~~v~~~~f~~~~~~~~~~~~~~~~dGilGLg~  123 (317)
T cd06098          87 VTVGDLVVKNQVFIEATKEPGLTFLLAKFDGILGLGF  123 (317)
T ss_pred             EEECCEEECCEEEEEEEecCCccccccccceeccccc
Confidence            999985544 3343332        234699999975

Phytepsin, a plant homolog of mammalian lysosomal pepsins, resides in grains, roots, stems, leaves and flowers. Phytepsin may participate in metabolic turnover and in protein processing events. In addition, it highly expressed in several plant tissues undergoing apoptosis. Phytepsin contains an internal region consisting of about 100 residues not present in animal or microbial pepsins. This region is thus called a plant specific insert. The insert is highly similar to saponins, which are lysosomal sphingolipid-activating proteins in mammalian cells. The saponin-like domain may have a role in the vacuolar targeting of phytepsin. Phytepsin, as its animal counterparts, possesses a topology typical of all aspartic proteases. They are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localized between the two lobes of the molecule. One lobe has probably evolved fro

>cd05485 Cathepsin_D_like Cathepsin_D_like, pepsin family of proteinases

Probab=90.96  E-value=1.9  Score=42.43  Aligned_cols=101  Identities=13%  Similarity=0.129  Sum_probs=56.3

Q ss_pred             eeecCee-----EEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeE--EeEEEEEeEEEcCEEEe-----
Q 016931          201 MEVNGIP-----LKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEI--LGRIHVAPIKIGNVFYP-----  268 (380)
Q Consensus       201 v~Ing~~-----v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~--~g~i~~~~i~ig~~~~~-----  268 (380)
                      +.|+|..     ..++||||.+.+.++.+.++.+.-  .+....  ...+.-...+  ........+.+|+..+.     
T Consensus       199 i~v~~~~~~~~~~~~iiDSGtt~~~lP~~~~~~l~~--~~~~~~--~~~~~~~~~C~~~~~~p~i~f~fgg~~~~i~~~~  274 (329)
T cd05485         199 VSVGEGEFCSGGCQAIADTGTSLIAGPVDEIEKLNN--AIGAKP--IIGGEYMVNCSAIPSLPDITFVLGGKSFSLTGKD  274 (329)
T ss_pred             EEECCeeecCCCcEEEEccCCcceeCCHHHHHHHHH--HhCCcc--ccCCcEEEeccccccCCcEEEEECCEEeEEChHH
Confidence            3466654     369999999999999987776421  111000  0001000000  01112234445553333     


Q ss_pred             ------------EEEEEec-----CCCCceeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931          269 ------------CSFVVLD-----SPNMEFLFGLDMLRKHQCIIDLKENVLRVG  305 (380)
Q Consensus       269 ------------~~~~Vl~-----~~~~d~iLG~D~L~~~~~~ID~~~~~l~i~  305 (380)
                                  |-..+..     ......|||..||+.+-.+.|+++++|-|.
T Consensus       275 yi~~~~~~~~~~C~~~~~~~~~~~~~~~~~IlG~~fl~~~y~vFD~~~~~ig~a  328 (329)
T cd05485         275 YVLKVTQMGQTICLSGFMGIDIPPPAGPLWILGDVFIGKYYTEFDLGNNRVGFA  328 (329)
T ss_pred             eEEEecCCCCCEEeeeEEECcCCCCCCCeEEEchHHhccceEEEeCCCCEEeec
Confidence                        2222221     112347999999999999999999998874

Cathepsin D is the major aspartic proteinase of the lysosomal compartment where it functions in protein catabolism. It is a member of the pepsin family of proteinases. This enzyme is distinguished from other members of the pepsin family by two features that are characteristic of lysosomal hydrolases. First, mature Cathepsin D is found predominantly in a two-chain form due to a posttranslational cleavage event. Second, it contains phosphorylated, N-linked oligosaccharides that target the enzyme to lysosomes via mannose-6-phosphate receptors. Cathepsin D preferentially attacks peptide bonds flanked by bulky hydrophobic amino acids and its pH optimum is between pH 2.8 and 4.0. Two active site aspartic acid residues are essential for the catalytic activity of aspartic proteinases. Like other aspartic proteinases, Cathepsin D is a bilobed molecule; the two evolutionary related lobes are mostly made up of beta-sheets an

>cd05477 gastricsin Gastricsins, asparate proteases produced in gastric mucosa

Probab=90.74  E-value=1.3  Score=43.13  Aligned_cols=90  Identities=12%  Similarity=0.306  Sum_probs=56.8

Q ss_pred             eeEEeeeecC--eeEEEEEcCCccccccCH-HHHH-HcCCccccCC----------cceeEeecCcceeEEeEEEEEeEE
Q 016931          196 MLYVDMEVNG--IPLKAFVDSGAQSTIISK-SCAE-RCGLLRLLDD----------RYRGVAHGVGQSEILGRIHVAPIK  261 (380)
Q Consensus       196 ~lyv~v~Ing--~~v~alVDTGA~~siIs~-~~a~-rlgL~~~~~~----------~~~~~~~gvg~~~~~g~i~~~~i~  261 (380)
                      ..|+++.|..  +++.++||||++.+.+.. .|.. .|.-....+.          ....+..|-|  ...|.+....|.
T Consensus         3 ~y~~~i~iGtP~q~~~v~~DTGS~~~wv~~~~C~~~~C~~~~~f~~~~SsT~~~~~~~~~~~Yg~G--s~~G~~~~D~i~   80 (318)
T cd05477           3 SYYGEISIGTPPQNFLVLFDTGSSNLWVPSVLCQSQACTNHTKFNPSQSSTYSTNGETFSLQYGSG--SLTGIFGYDTVT   80 (318)
T ss_pred             EEEEEEEECCCCcEEEEEEeCCCccEEEccCCCCCccccccCCCCcccCCCceECCcEEEEEECCc--EEEEEEEeeEEE
Confidence            4578889974  789999999999998853 3321 2332112211          1112334444  357888888999


Q ss_pred             EcCEEEe-EEEEEecC--------CCCceeeeHHH
Q 016931          262 IGNVFYP-CSFVVLDS--------PNMEFLFGLDM  287 (380)
Q Consensus       262 ig~~~~~-~~~~Vl~~--------~~~d~iLG~D~  287 (380)
                      +|+..++ ..|.+...        ...|+||||-+
T Consensus        81 ~g~~~i~~~~Fg~~~~~~~~~~~~~~~~GilGLg~  115 (318)
T cd05477          81 VQGIIITNQEFGLSETEPGTNFVYAQFDGILGLAY  115 (318)
T ss_pred             ECCEEEcCEEEEEEEecccccccccceeeEeecCc
Confidence            9986654 45555542        23589999964

Gastricsin is also called pepsinogen C. Gastricsins are produced in gastric mucosa of mammals. It is synthesized by the chief cells in the stomach as an inactive zymogen. It is self-converted to a mature enzyme under acidic conditions. Human gastricsin is distributed throughout all parts of the stomach. Gastricsin is synthesized as an inactive progastricsin that has an approximately 40 residue prosequence. It is self-converting to a mature enzyme being triggered by a drop in pH from neutrality to acidic conditions. Like other aspartic proteases, gastricsin are characterized by two catalytic aspartic residues at the active site, and display optimal activity at acidic pH. Mature enzyme has a pseudo-2-fold symmetry that passes through the active site between the catalytic aspartate residues. Structurally, aspartic proteases are bilobal enzymes, each lobe contributing a catalytic aspartate residue, with an exten

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

Probab=90.71  E-value=0.45  Score=36.90  Aligned_cols=56  Identities=29%  Similarity=0.487  Sum_probs=46.1

Q ss_pred             eCCCCCHHHHHHHHHHHhC-CCCcCeEEecCCeecCCcccchhc-CCCCCcEEEEeec
Q 016931           17 VDPHETVENVKALLEVETQ-VPLQQQQLLYNGREMNNAEKLSAL-GVKDEDLVMMVSN   72 (380)
Q Consensus        17 V~~~~TV~~LK~~I~~~~g-ip~~~q~Li~~Gk~L~D~~tL~~~-gI~dg~~I~l~~~   72 (380)
                      |+++++|.|++..+..... ..-....|.++|+.|++...|+++ |+++|..+.|+..
T Consensus         1 v~~~d~v~dvrq~L~~~~~t~~~Tn~~L~~~g~~L~~~~el~~i~~~~~~~~L~lve~   58 (76)
T PF15044_consen    1 VSPTDTVQDVRQVLAESPETCYLTNFSLEHNGQRLDDFVELSEIEGIKDGCVLELVEE   58 (76)
T ss_pred             CChhhHHHHHHHHHHhCccccceeEEEEEECCCccCCchhhhhhhCCCCCcEEEEEec
Confidence            5788999999999988765 344667889999999888888776 4889999999865

>PF00026 Asp: Eukaryotic aspartyl protease The Prosite entry also includes Pfam:PF00077

Probab=90.04  E-value=0.52  Score=45.32  Aligned_cols=98  Identities=14%  Similarity=0.259  Sum_probs=59.2

Q ss_pred             eeecCe------eEEEEEcCCccccccCHHHHHHc----CCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEe--
Q 016931          201 MEVNGI------PLKAFVDSGAQSTIISKSCAERC----GLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYP--  268 (380)
Q Consensus       201 v~Ing~------~v~alVDTGA~~siIs~~~a~rl----gL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~--  268 (380)
                      +.+++.      ...++||||++...++.+..+++    +..... ..   ....+...   .......+.+++..+.  
T Consensus       187 i~i~~~~~~~~~~~~~~~Dtgt~~i~lp~~~~~~i~~~l~~~~~~-~~---~~~~c~~~---~~~p~l~f~~~~~~~~i~  259 (317)
T PF00026_consen  187 ISIGGESVFSSSGQQAILDTGTSYIYLPRSIFDAIIKALGGSYSD-GV---YSVPCNST---DSLPDLTFTFGGVTFTIP  259 (317)
T ss_dssp             EEETTEEEEEEEEEEEEEETTBSSEEEEHHHHHHHHHHHTTEEEC-SE---EEEETTGG---GGSEEEEEEETTEEEEEE
T ss_pred             ccccccccccccceeeecccccccccccchhhHHHHhhhcccccc-ee---EEEecccc---cccceEEEeeCCEEEEec
Confidence            555555      36899999999999999887765    221110 00   00000000   0112233444443332  


Q ss_pred             ---------------EEEEEec----CCCCceeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931          269 ---------------CSFVVLD----SPNMEFLFGLDMLRKHQCIIDLKENVLRVG  305 (380)
Q Consensus       269 ---------------~~~~Vl~----~~~~d~iLG~D~L~~~~~~ID~~~~~l~i~  305 (380)
                                     |-+.+..    ......+||..||+++=.+.|++++++-|.
T Consensus       260 ~~~~~~~~~~~~~~~C~~~i~~~~~~~~~~~~iLG~~fl~~~y~vfD~~~~~ig~A  315 (317)
T PF00026_consen  260 PSDYIFKIEDGNGGYCYLGIQPMDSSDDSDDWILGSPFLRNYYVVFDYENNRIGFA  315 (317)
T ss_dssp             HHHHEEEESSTTSSEEEESEEEESSTTSSSEEEEEHHHHTTEEEEEETTTTEEEEE
T ss_pred             chHhcccccccccceeEeeeecccccccCCceEecHHHhhceEEEEeCCCCEEEEe
Confidence                           3233332    456789999999999999999999999875

; InterPro: IPR001461 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This group of aspartic peptidases belong to MEROPS peptidase family A1 (pepsin family, clan AA). The type example is pepsin A from Homo sapiens (Human) . More than 70 aspartic peptidases, from all from eukaryotic organisms, have been identified. These include pepsins, cathepsins, and renins. The enzymes are synthesised with signal peptides, and the proenzymes are secreted or passed into the lysosomal/endosomal system, where acidification leads to autocatalytic activation. Most members of the pepsin family specifically cleave bonds in peptides that are at least six residues in length, with hydrophobic residues in both the P1 and P1' positions []. Crystallography has shown the active site to form a groove across the junction of the two lobes, with an extended loop projecting over the cleft to form an 11-residue flap, which encloses substrates and inhibitors within the active site []. Specificity is determined by several hydrophobic residues surrounding the catalytic aspartates, and by three residues in the flap. Cysteine residues are well conserved within the pepsin family, pepsin itself containing three disulphide loops. The first loop is found in all but the fungal enzymes, and is usually around five residues in length, but is longer in barrierpepsin and candidapepsin; the second loop is also small and found only in the animal enzymes; and the third loop is the largest, found in all members of the family, except for the cysteine-free polyporopepsin. The loops are spread unequally throughout the two lobes, suggesting that they formed after the initial gene duplication and fusion event []. This family does not include the retroviral nor retrotransposon aspartic proteases which are much smaller and appear to be homologous to the single domain aspartic proteases.; GO: 0004190 aspartic-type endopeptidase activity, 0006508 proteolysis; PDB: 1CZI_E 3CMS_A 1CMS_A 4CMS_A 1YG9_A 2NR6_A 3LIZ_A 1FLH_A 3UTL_A 1QRP_E ....

>PRK08364 sulfur carrier protein ThiS; Provisional

Probab=90.00  E-value=1.9  Score=32.63  Aligned_cols=51  Identities=16%  Similarity=0.115  Sum_probs=40.4

Q ss_pred             EEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931           12 IISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS   71 (380)
Q Consensus        12 ~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~   71 (380)
                      ...++++...|+.+|-+.+    ++++....+..||..+..     +.-+++||.|-++.
T Consensus        15 ~~~~~~~~~~tv~~ll~~l----~~~~~~v~v~vNg~iv~~-----~~~l~~gD~Veii~   65 (70)
T PRK08364         15 EKEIEWRKGMKVADILRAV----GFNTESAIAKVNGKVALE-----DDPVKDGDYVEVIP   65 (70)
T ss_pred             ceEEEcCCCCcHHHHHHHc----CCCCccEEEEECCEECCC-----CcCcCCCCEEEEEc
Confidence            4678888889999998764    777777777789998853     55688999998874

>cd05490 Cathepsin_D2 Cathepsin_D2, pepsin family of proteinases

Probab=89.83  E-value=1  Score=44.03  Aligned_cols=90  Identities=14%  Similarity=0.290  Sum_probs=55.8

Q ss_pred             eeEEeeeec--CeeEEEEEcCCccccccC-HHHH---HHcCCccccCCc----------ceeEeecCcceeEEeEEEEEe
Q 016931          196 MLYVDMEVN--GIPLKAFVDSGAQSTIIS-KSCA---ERCGLLRLLDDR----------YRGVAHGVGQSEILGRIHVAP  259 (380)
Q Consensus       196 ~lyv~v~In--g~~v~alVDTGA~~siIs-~~~a---~rlgL~~~~~~~----------~~~~~~gvg~~~~~g~i~~~~  259 (380)
                      ..|++++|.  ++++.+++|||++.+-+. ..|.   ..|+.....+..          ...+..|-|  ...|.+....
T Consensus         6 ~Y~~~i~iGtP~q~~~v~~DTGSs~~Wv~~~~C~~~~~~C~~~~~y~~~~SsT~~~~~~~~~i~Yg~G--~~~G~~~~D~   83 (325)
T cd05490           6 QYYGEIGIGTPPQTFTVVFDTGSSNLWVPSVHCSLLDIACWLHHKYNSSKSSTYVKNGTEFAIQYGSG--SLSGYLSQDT   83 (325)
T ss_pred             EEEEEEEECCCCcEEEEEEeCCCccEEEEcCCCCCCCccccCcCcCCcccCcceeeCCcEEEEEECCc--EEEEEEeeeE
Confidence            468899996  488999999999988874 4443   234322222111          112334444  4579999999


Q ss_pred             EEEcCEEEe-EEEEEec--------CCCCceeeeHHH
Q 016931          260 IKIGNVFYP-CSFVVLD--------SPNMEFLFGLDM  287 (380)
Q Consensus       260 i~ig~~~~~-~~~~Vl~--------~~~~d~iLG~D~  287 (380)
                      |.+|+..++ ..|.+..        ....|+||||-+
T Consensus        84 v~~g~~~~~~~~Fg~~~~~~~~~~~~~~~dGilGLg~  120 (325)
T cd05490          84 VSIGGLQVEGQLFGEAVKQPGITFIAAKFDGILGMAY  120 (325)
T ss_pred             EEECCEEEcCEEEEEEeeccCCcccceeeeEEEecCC
Confidence            999986544 3343332        124699999953

Cathepsin D is the major aspartic proteinase of the lysosomal compartment where it functions in protein catabolism. It is a member of the pepsin family of proteinases. This enzyme is distinguished from other members of the pepsin family by two features that are characteristic of lysosomal hydrolases. First, mature Cathepsin D is found predominantly in a two-chain form due to a posttranslational cleavage event. Second, it contains phosphorylated, N-linked oligosaccharides that target the enzyme to lysosomes via mannose-6-phosphate receptors. Cathepsin D preferentially attacks peptide bonds flanked by bulky hydrophobic amino acids and its pH optimum is between pH 2.8 and 4.0. Two active site aspartic acid residues are essential for the catalytic activity of aspartic proteinases. Like other aspartic proteinases, Cathepsin D is a bilobed molecule; the two evolutionary related lobes are mostly made up of beta-sheets and flank

>PTZ00165 aspartyl protease; Provisional

Probab=89.79  E-value=1  Score=47.03  Aligned_cols=100  Identities=20%  Similarity=0.291  Sum_probs=59.7

Q ss_pred             cCCccccc--cceeEEeeeecC--eeEEEEEcCCccccccC-HHHHH-HcCCccccCC----cc-----------eeEee
Q 016931          186 HNPEAFAR--VVMLYVDMEVNG--IPLKAFVDSGAQSTIIS-KSCAE-RCGLLRLLDD----RY-----------RGVAH  244 (380)
Q Consensus       186 ~~Pe~f~~--~~~lyv~v~Ing--~~v~alVDTGA~~siIs-~~~a~-rlgL~~~~~~----~~-----------~~~~~  244 (380)
                      ..||.+..  -...|.++.|..  +++++++|||++.+-+. ..|.. .|......+.    .+           ..+..
T Consensus       108 ~~~~~l~n~~d~~Y~~~I~IGTPpQ~f~Vv~DTGSS~lWVps~~C~~~~C~~~~~yd~s~SSTy~~~~~~~~~~~~~i~Y  187 (482)
T PTZ00165        108 YLQQDLLNFHNSQYFGEIQVGTPPKSFVVVFDTGSSNLWIPSKECKSGGCAPHRKFDPKKSSTYTKLKLGDESAETYIQY  187 (482)
T ss_pred             ccceecccccCCeEEEEEEeCCCCceEEEEEeCCCCCEEEEchhcCcccccccCCCCccccCCcEecCCCCccceEEEEe
Confidence            35565432  336688999976  88999999999988774 45532 1222111111    00           11234


Q ss_pred             cCcceeEEeEEEEEeEEEcCEEEe-EEEEEec--------CCCCceeeeHHH
Q 016931          245 GVGQSEILGRIHVAPIKIGNVFYP-CSFVVLD--------SPNMEFLFGLDM  287 (380)
Q Consensus       245 gvg~~~~~g~i~~~~i~ig~~~~~-~~~~Vl~--------~~~~d~iLG~D~  287 (380)
                      |-|  ...|.+-...|.||+..++ ..|.+..        ....|+||||-|
T Consensus       188 GsG--s~~G~l~~DtV~ig~l~i~~q~FG~a~~~s~~~f~~~~~DGILGLg~  237 (482)
T PTZ00165        188 GTG--ECVLALGKDTVKIGGLKVKHQSIGLAIEESLHPFADLPFDGLVGLGF  237 (482)
T ss_pred             CCC--cEEEEEEEEEEEECCEEEccEEEEEEEeccccccccccccceeecCC
Confidence            444  4568888888999986554 2333322        224799999986

>TIGR02958 sec_mycoba_snm4 secretion protein snm4

Probab=89.42  E-value=2.1  Score=44.31  Aligned_cols=70  Identities=19%  Similarity=0.280  Sum_probs=56.1

Q ss_pred             EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCC------CCcCeEEe-cCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            2 RITVMTADEQIISLDVDPHETVENVKALLEVETQV------PLQQQQLL-YNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gi------p~~~q~Li-~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      +|||...+ +..++-++.+..|.+|-..|-...+-      .+...+|. .+|.+|+.+.||.+.||.||+++++...
T Consensus         4 RVtV~~~~-~~~DlaLPa~~PvaellP~ll~~~~~~~~~~~~~~~w~L~r~gG~pL~~~~sL~~~gV~DG~~L~L~p~   80 (452)
T TIGR02958         4 RVTVLAGR-RAVDVALPADVPVAELIPDLVDLLDDRGAAELGAVRWALARAGGSPLDPDASLAEAGVRDGELLVLVPA   80 (452)
T ss_pred             EEEEeeCC-eeeeeecCCCCcHHHHHHHHHHHhCcccccCCCCcceEEecCCCCCCCCCCCHHHcCCCCCCeEEEeeC
Confidence            57777744 45788889999999999988888764      22334554 5889999999999999999999999864

Members of this family are the 12-transmembrane domain protein snm4, where snm stands for secretion in mycocbacteria. This system acts on Mycobacterium tuberculosis related pair of virulence factors ESAT-6 and CFP-10 and on other homologs. The system is conserved in many Actinobacteria, including the non-pathogenic Mycobacterium smegmatis.

>cd05473 beta_secretase_like Beta-secretase, aspartic-acid protease important in the pathogenesis of Alzheimer's disease

Probab=89.35  E-value=1.1  Score=44.53  Aligned_cols=87  Identities=17%  Similarity=0.272  Sum_probs=53.0

Q ss_pred             eeEEeeeec--CeeEEEEEcCCccccccCHH-HHHHcCCccccCC----------cceeEeecCcceeEEeEEEEEeEEE
Q 016931          196 MLYVDMEVN--GIPLKAFVDSGAQSTIISKS-CAERCGLLRLLDD----------RYRGVAHGVGQSEILGRIHVAPIKI  262 (380)
Q Consensus       196 ~lyv~v~In--g~~v~alVDTGA~~siIs~~-~a~rlgL~~~~~~----------~~~~~~~gvg~~~~~g~i~~~~i~i  262 (380)
                      -.|+++.|.  ++++.+++|||++.+-+... |.   ......+.          ....+..|-|  ...|.+....|.|
T Consensus         3 ~Y~~~i~iGtP~Q~~~v~~DTGSs~lWv~~~~~~---~~~~~f~~~~SsT~~~~~~~~~i~Yg~G--s~~G~~~~D~v~i   77 (364)
T cd05473           3 GYYIEMLIGTPPQKLNILVDTGSSNFAVAAAPHP---FIHTYFHRELSSTYRDLGKGVTVPYTQG--SWEGELGTDLVSI   77 (364)
T ss_pred             ceEEEEEecCCCceEEEEEecCCcceEEEcCCCc---cccccCCchhCcCcccCCceEEEEECcc--eEEEEEEEEEEEE
Confidence            468899996  68899999999998877533 32   11111111          1112344544  3579999999999


Q ss_pred             cC---EEEeEEEEEec--------CCCCceeeeHHH
Q 016931          263 GN---VFYPCSFVVLD--------SPNMEFLFGLDM  287 (380)
Q Consensus       263 g~---~~~~~~~~Vl~--------~~~~d~iLG~D~  287 (380)
                      |+   ..+...+....        ....|+||||-|
T Consensus        78 g~~~~~~~~~~~~~~~~~~~~~~~~~~~dGIlGLg~  113 (364)
T cd05473          78 PKGPNVTFRANIAAITESENFFLNGSNWEGILGLAY  113 (364)
T ss_pred             CCCCccceEEeeEEEeccccceecccccceeeeecc
Confidence            85   23332222221        124699999974

Beta-secretase also called BACE (beta-site of APP cleaving enzyme) or memapsin-2. Beta-secretase is an aspartic-acid protease important in the pathogenesis of Alzheimer's disease, and in the formation of myelin sheaths in peripheral nerve cells. It cleaves amyloid precursor protein (APP) to reveal the N-terminus of the beta-amyloid peptides. The beta-amyloid peptides are the major components of the amyloid plaques formed in the brain of patients with Alzheimer's disease (AD). Since BACE mediates one of the cleavages responsible for generation of AD, it is regarded as a potential target for pharmacological intervention in AD. Beta-secretase is a member of pepsin family of aspartic proteases. Same as other aspartic proteases, beta-secretase is a bilobal enzyme, each lobe contributing a catalytic Asp residue, with an extended active site cleft localized between the two

>cd05485 Cathepsin_D_like Cathepsin_D_like, pepsin family of proteinases

Probab=89.34  E-value=1.5  Score=43.07  Aligned_cols=91  Identities=19%  Similarity=0.371  Sum_probs=56.6

Q ss_pred             ceeEEeeeec--CeeEEEEEcCCccccccC-HHHH---HHcCCccccCC----cc------eeEeecCcceeEEeEEEEE
Q 016931          195 VMLYVDMEVN--GIPLKAFVDSGAQSTIIS-KSCA---ERCGLLRLLDD----RY------RGVAHGVGQSEILGRIHVA  258 (380)
Q Consensus       195 ~~lyv~v~In--g~~v~alVDTGA~~siIs-~~~a---~rlgL~~~~~~----~~------~~~~~gvg~~~~~g~i~~~  258 (380)
                      ...|+++.|.  ++++++++|||+..+.+. ..|.   ..|+.....+.    .+      ..+..|.|.  ..|.+...
T Consensus        10 ~~Y~~~i~vGtP~q~~~v~~DTGSs~~Wv~~~~C~~~~~~c~~~~~y~~~~Sst~~~~~~~~~i~Y~~g~--~~G~~~~D   87 (329)
T cd05485          10 AQYYGVITIGTPPQSFKVVFDTGSSNLWVPSKKCSWTNIACLLHNKYDSTKSSTYKKNGTEFAIQYGSGS--LSGFLSTD   87 (329)
T ss_pred             CeEEEEEEECCCCcEEEEEEcCCCccEEEecCCCCCCCccccCCCeECCcCCCCeEECCeEEEEEECCce--EEEEEecC
Confidence            4678999997  588999999999988775 3332   13443221111    11      112344443  57888888


Q ss_pred             eEEEcCEEEe-EEEEEec--------CCCCceeeeHHH
Q 016931          259 PIKIGNVFYP-CSFVVLD--------SPNMEFLFGLDM  287 (380)
Q Consensus       259 ~i~ig~~~~~-~~~~Vl~--------~~~~d~iLG~D~  287 (380)
                      .+.||+..++ ..|.+..        ....|+||||-+
T Consensus        88 ~v~ig~~~~~~~~fg~~~~~~~~~~~~~~~~GilGLg~  125 (329)
T cd05485          88 TVSVGGVSVKGQTFAEAINEPGLTFVAAKFDGILGMGY  125 (329)
T ss_pred             cEEECCEEECCEEEEEEEecCCccccccccceEEEcCC
Confidence            9999986543 3444332        124689999875

Cathepsin D is the major aspartic proteinase of the lysosomal compartment where it functions in protein catabolism. It is a member of the pepsin family of proteinases. This enzyme is distinguished from other members of the pepsin family by two features that are characteristic of lysosomal hydrolases. First, mature Cathepsin D is found predominantly in a two-chain form due to a posttranslational cleavage event. Second, it contains phosphorylated, N-linked oligosaccharides that target the enzyme to lysosomes via mannose-6-phosphate receptors. Cathepsin D preferentially attacks peptide bonds flanked by bulky hydrophobic amino acids and its pH optimum is between pH 2.8 and 4.0. Two active site aspartic acid residues are essential for the catalytic activity of aspartic proteinases. Like other aspartic proteinases, Cathepsin D is a bilobed molecule; the two evolutionary related lobes are mostly made up of beta-sheets an

>cd05488 Proteinase_A_fungi Fungal Proteinase A , aspartic proteinase superfamily

Probab=89.28  E-value=1.5  Score=42.78  Aligned_cols=90  Identities=18%  Similarity=0.337  Sum_probs=56.0

Q ss_pred             eeEEeeeec--CeeEEEEEcCCccccccC-HHHHH-HcCCccccC----------CcceeEeecCcceeEEeEEEEEeEE
Q 016931          196 MLYVDMEVN--GIPLKAFVDSGAQSTIIS-KSCAE-RCGLLRLLD----------DRYRGVAHGVGQSEILGRIHVAPIK  261 (380)
Q Consensus       196 ~lyv~v~In--g~~v~alVDTGA~~siIs-~~~a~-rlgL~~~~~----------~~~~~~~~gvg~~~~~g~i~~~~i~  261 (380)
                      ..|+++.|+  ++++.+++|||++.+.+. ..|.. .|......+          .....+..|-|  ...|.+....|.
T Consensus        10 ~Y~~~i~iGtp~q~~~v~~DTGSs~~wv~~~~C~~~~C~~~~~y~~~~Sst~~~~~~~~~~~y~~g--~~~G~~~~D~v~   87 (320)
T cd05488          10 QYFTDITLGTPPQKFKVILDTGSSNLWVPSVKCGSIACFLHSKYDSSASSTYKANGTEFKIQYGSG--SLEGFVSQDTLS   87 (320)
T ss_pred             EEEEEEEECCCCcEEEEEEecCCcceEEEcCCCCCcccCCcceECCCCCcceeeCCCEEEEEECCc--eEEEEEEEeEEE
Confidence            468999997  488999999999999884 34421 333211111          01112334434  467888888999


Q ss_pred             EcCEEEe-EEEEEec--------CCCCceeeeHHH
Q 016931          262 IGNVFYP-CSFVVLD--------SPNMEFLFGLDM  287 (380)
Q Consensus       262 ig~~~~~-~~~~Vl~--------~~~~d~iLG~D~  287 (380)
                      ||+..++ ..|....        ....|+||||-+
T Consensus        88 ig~~~~~~~~f~~a~~~~g~~~~~~~~dGilGLg~  122 (320)
T cd05488          88 IGDLTIKKQDFAEATSEPGLAFAFGKFDGILGLAY  122 (320)
T ss_pred             ECCEEECCEEEEEEecCCCcceeeeeeceEEecCC
Confidence            9986543 2343332        124699999985

Fungal Proteinase A, a proteolytic enzyme distributed among a variety of organisms, is a member of the aspartic proteinase superfamily. In Saccharomyces cerevisiae, targeted to the vacuole as a zymogen, activation of proteinases A at acidic pH can occur by two different pathways: a one-step process to release mature proteinase A, involving the intervention of proteinase B, or a step-wise pathway via the auto-activation product known as pseudo-proteinase A. Once active, S. cerevisiae proteinase A is essential to the activities of other yeast vacuolar hydrolases, including proteinase B and carboxypeptidase Y. The mature enzyme is bilobal, with each lobe providing one of the two catalytically essential aspartic acid residues in the active site. The crystal structure of free proteinase A shows that flap loop is atypically pointing directly into the S(1) pocket of the enzyme. Proteinase A preferentially hydro

>cd05486 Cathespin_E Cathepsin E, non-lysosomal aspartic protease

Probab=88.99  E-value=1.1  Score=43.72  Aligned_cols=88  Identities=13%  Similarity=0.309  Sum_probs=53.9

Q ss_pred             EEeeeec--CeeEEEEEcCCccccccC-HHHHH-HcCCccccCC----------cceeEeecCcceeEEeEEEEEeEEEc
Q 016931          198 YVDMEVN--GIPLKAFVDSGAQSTIIS-KSCAE-RCGLLRLLDD----------RYRGVAHGVGQSEILGRIHVAPIKIG  263 (380)
Q Consensus       198 yv~v~In--g~~v~alVDTGA~~siIs-~~~a~-rlgL~~~~~~----------~~~~~~~gvg~~~~~g~i~~~~i~ig  263 (380)
                      |++++|.  +++++++||||++...+. ..|.. .|.-....+.          ....+..|-|  ...|.+-...|.||
T Consensus         2 ~~~i~iGtP~Q~~~v~~DTGSs~~Wv~s~~C~~~~C~~~~~y~~~~SsT~~~~~~~~~i~Yg~g--~~~G~~~~D~v~ig   79 (316)
T cd05486           2 FGQISIGTPPQNFTVIFDTGSSNLWVPSIYCTSQACTKHNRFQPSESSTYVSNGEAFSIQYGTG--SLTGIIGIDQVTVE   79 (316)
T ss_pred             eEEEEECCCCcEEEEEEcCCCccEEEecCCCCCcccCccceECCCCCcccccCCcEEEEEeCCc--EEEEEeeecEEEEC
Confidence            7888996  678999999999988774 44431 2322111111          1112334444  46788888899999


Q ss_pred             CEEEe-EEEEEe--------cCCCCceeeeHHH
Q 016931          264 NVFYP-CSFVVL--------DSPNMEFLFGLDM  287 (380)
Q Consensus       264 ~~~~~-~~~~Vl--------~~~~~d~iLG~D~  287 (380)
                      +..++ ..|.+.        .....|+||||-+
T Consensus        80 ~~~~~~~~fg~~~~~~~~~~~~~~~dGilGLg~  112 (316)
T cd05486          80 GITVQNQQFAESVSEPGSTFQDSEFDGILGLAY  112 (316)
T ss_pred             CEEEcCEEEEEeeccCcccccccccceEeccCc
Confidence            85433 334332        1235799999964

Cathepsin E is an intracellular, non-lysosomal aspartic protease expressed in a variety of cells and tissues. The protease has proposed physiological roles in antigen presentation by the MHC class II system, in the biogenesis of the vasoconstrictor peptide endothelin, and in neurodegeneration associated with brain ischemia and aging. Cathepsin E is the only A1 aspartic protease that exists as a homodimer with a disulfide bridge linking the two monomers. Like many other aspartic proteases, it is synthesized as a zymogen which is catalytically inactive towards its natural substrates at neutral pH and which auto-activates in an acidic environment. The overall structure follows the general fold of aspartic proteases of the A1 family, it is composed of two structurally similar beta barrel lobes, each lobe contributing an aspartic acid residue to form a catalytic dyad that acts to cleave the substrate peptide bond. The catalyt

>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=88.96  E-value=1.5  Score=34.34  Aligned_cols=37  Identities=11%  Similarity=0.251  Sum_probs=34.6

Q ss_pred             EEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCe
Q 016931           12 IISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGR   48 (380)
Q Consensus        12 ~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk   48 (380)
                      ++.|+|+++.+..+|.++|..++++|++..+|.|+..
T Consensus        12 tIaIrvp~~~~y~~L~~ki~~kLkl~~e~i~LsYkde   48 (80)
T cd06406          12 TVAIQVARGLSYATLLQKISSKLELPAEHITLSYKSE   48 (80)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhCCCchhcEEEeccC
Confidence            8899999999999999999999999999999999653

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

>cd05472 cnd41_like Chloroplast Nucleoids DNA-binding Protease, catalyzes the degradation of ribulose-1,5-bisphosphate carboxylase/oxygenase

Probab=88.95  E-value=1.4  Score=42.50  Aligned_cols=79  Identities=20%  Similarity=0.301  Sum_probs=52.8

Q ss_pred             eEEeeeec--CeeEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEEEcCE-EEe-EEEE
Q 016931          197 LYVDMEVN--GIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNV-FYP-CSFV  272 (380)
Q Consensus       197 lyv~v~In--g~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~-~~~-~~~~  272 (380)
                      .|+++.|.  .+++.+++|||++.+-+.-   ..|        ....+..|-|+ ...|.+....+.||+. .++ ..|.
T Consensus         2 Y~~~i~iGtP~q~~~v~~DTGSs~~Wv~c---~~c--------~~~~i~Yg~Gs-~~~G~~~~D~v~ig~~~~~~~~~Fg   69 (299)
T cd05472           2 YVVTVGLGTPARDQTVIVDTGSDLTWVQC---QPC--------CLYQVSYGDGS-YTTGDLATDTLTLGSSDVVPGFAFG   69 (299)
T ss_pred             eEEEEecCCCCcceEEEecCCCCcccccC---CCC--------CeeeeEeCCCc-eEEEEEEEEEEEeCCCCccCCEEEE
Confidence            47888997  6789999999999888831   122        11224455443 3468888889999975 433 4555


Q ss_pred             EecCC-----CCceeeeHHH
Q 016931          273 VLDSP-----NMEFLFGLDM  287 (380)
Q Consensus       273 Vl~~~-----~~d~iLG~D~  287 (380)
                      +....     ..|+||||-+
T Consensus        70 ~~~~~~~~~~~~~GilGLg~   89 (299)
T cd05472          70 CGHDNEGLFGGAAGLLGLGR   89 (299)
T ss_pred             CCccCCCccCCCCEEEECCC
Confidence            54422     4789999953

Chloroplast Nucleoids DNA-binding Protease catalyzes the degradation of ribulose-1,5-bisphosphate carboxylase/oxygenase (Rubisco) in senescent leaves of tobacco. Antisense tobacco with reduced amount of CND41 maintained green leaves and constant protein levels, especially Rubisco. CND41 has DNA-binding as well as aspartic protease activities. The pepsin-like aspartic protease domain is located at the C-terminus of the protein. The enzyme is characterized by having two aspartic protease catalytic site motifs, the Asp-Thr-Gly-Ser in the N-terminal and Asp-Ser-Gly-Ser in the C-terminal region. Aspartic proteases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localized between the two lobes of the molecule. One lobe may be evolved from the other through ancient gene-duplication event. This fami

>TIGR00601 rad23 UV excision repair protein Rad23

Probab=88.44  E-value=0.63  Score=47.07  Aligned_cols=42  Identities=21%  Similarity=0.404  Sum_probs=32.6

Q ss_pred             HHHHHHHhcCHHH----HHHHhhcCHHHHHHhcCCCHHHHHHHHHHh
Q 016931           94 AAFQQHIRNDANL----MTQLFQSDPELAQVLLGNDLNKLQDLLRER  136 (380)
Q Consensus        94 ~~~~q~~l~nP~~----l~qL~~~nP~La~ai~~~d~~~~~~~l~~~  136 (380)
                      .+||+.+.+||++    |++|.+.||+|.+.|. .|++.|.++|..-
T Consensus       258 ~~lR~~vq~NP~~L~~lLqql~~~nP~l~q~I~-~n~e~Fl~ll~~~  303 (378)
T TIGR00601       258 QQLRQVVQQNPQLLPPLLQQIGQENPQLLQQIS-QHPEQFLQMLNEP  303 (378)
T ss_pred             HHHHHHHHHCHHHHHHHHHHHHhhCHHHHHHHH-HCHHHHHHHhcCc
Confidence            5578888889875    5566668999999886 6888888888654

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).

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

Probab=87.99  E-value=2  Score=34.35  Aligned_cols=62  Identities=15%  Similarity=0.256  Sum_probs=43.7

Q ss_pred             CCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEec----CCe-ecCC-cccchhcCCCCCcEEEEeec
Q 016931           10 EQIISLDVDPHETVENVKALLEVETQVPLQQQQLLY----NGR-EMNN-AEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus        10 g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~----~Gk-~L~D-~~tL~~~gI~dg~~I~l~~~   72 (380)
                      ...++..++..+||..++..+.+.+.| ..+-||.-    ++. .|.+ +.||.+.|+.+|.+|.+-.+
T Consensus        13 ~~~~t~~FSk~DTI~~v~~~~rklf~i-~~E~RLW~~~~~~~~e~L~~~~~Tv~da~L~~gQ~vliE~r   80 (88)
T PF14836_consen   13 QSVLTKQFSKTDTIGFVEKEMRKLFNI-QEETRLWNKYSENSYELLNNPEITVEDAGLYDGQVVLIEER   80 (88)
T ss_dssp             CEEEEEEE-TTSBHHHHHHHHHHHCT--TS-EEEEEECTTTCEEEE--TTSBTTTTT--TTEEEEEEE-
T ss_pred             ccHhHhhccccChHHHHHHHHHHHhCC-CccceehhccCCcchhhhCCCCccHHHccCcCCCEEEEEee
Confidence            346778899999999999999999999 66788873    222 3555 47999999999998888643

>PF03539 Spuma_A9PTase: Spumavirus aspartic protease (A9); InterPro: IPR001641 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families

Probab=87.83  E-value=1.3  Score=38.68  Aligned_cols=80  Identities=23%  Similarity=0.291  Sum_probs=44.7

Q ss_pred             ecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEeEEEEEecCCCCcee
Q 016931          203 VNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFL  282 (380)
Q Consensus       203 Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~~~~~Vl~~~~~d~i  282 (380)
                      |.|..+++.-||||+.|+|...+.+.   +..+.+.......|    ...+.+.-+.++|.|..+.+.++--+   +|-+
T Consensus         1 ikg~~l~~~wDsga~ITCiP~~fl~~---E~Pi~~~~i~Tihg----~~~~~vYYl~fKi~grkv~aEVi~s~---~dy~   70 (163)
T PF03539_consen    1 IKGTKLKGHWDSGAQITCIPESFLEE---EQPIGKTLIKTIHG----EKEQDVYYLTFKINGRKVEAEVIASP---YDYI   70 (163)
T ss_dssp             ETTEEEEEEE-TT-SSEEEEGGGTTT------SEEEEEE-SS-----EEEEEEEEEEEEESS-EEEEEEEEES---SSSE
T ss_pred             CCCceeeEEecCCCeEEEccHHHhCc---cccccceEEEEecC----ceeccEEEEEEEEcCeEEEEEEecCc---cceE
Confidence            56889999999999999999988542   11111111122223    44566777789999988776544333   2222


Q ss_pred             e----eHHHHhhcC
Q 016931          283 F----GLDMLRKHQ  292 (380)
Q Consensus       283 L----G~D~L~~~~  292 (380)
                      |    -+.|++..-
T Consensus        71 li~p~diPw~~~~p   84 (163)
T PF03539_consen   71 LISPSDIPWYKKKP   84 (163)
T ss_dssp             EE-TTT-HHHHS--
T ss_pred             EEcccccccccCCC
Confidence            2    367888654

Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This group of aspartic peptidases belong to MEROPS peptidase family A9 (spumapepsin family, clan AA). Foamy viruses are single-stranded enveloped retroviruses that have been noted to infect monkeys, cats and humans. In the human virus, the aspartic protease is encoded by the retroviral gag gene [], and in monkeys by the pol gene []. At present, the virus has not been proven to cause any particular disease. However, studies have shown Human foamy virus causes neurological disorders in infected mice []. It is not clear whether the Foamy virus/spumavirus proteases share a common evolutionary origin with other aspartic proteases. ; GO: 0004190 aspartic-type endopeptidase activity, 0006508 proteolysis; PDB: 2JYS_A.

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

Probab=87.52  E-value=2.5  Score=31.61  Aligned_cols=66  Identities=14%  Similarity=0.240  Sum_probs=54.1

Q ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHh---CCCCcCeEEe-cCCeecCCcccchhcCCCCCcEEEEeecCC
Q 016931            9 DEQIISLDVDPHETVENVKALLEVET---QVPLQQQQLL-YNGREMNNAEKLSALGVKDEDLVMMVSNAA   74 (380)
Q Consensus         9 ~g~~~~i~V~~~~TV~~LK~~I~~~~---gip~~~q~Li-~~Gk~L~D~~tL~~~gI~dg~~I~l~~~~~   74 (380)
                      +|+...++......+.-+.++--..+   |-|++...|- -+|..|+-++.+++||+.+|-++++.-+++
T Consensus         4 NGqPv~VEANvnaPLh~v~akALe~sgNvgQP~ENWElkDe~G~vlD~~kKveD~GftngvkLFLsLKAG   73 (76)
T PF10790_consen    4 NGQPVQVEANVNAPLHPVRAKALEQSGNVGQPPENWELKDESGQVLDVNKKVEDFGFTNGVKLFLSLKAG   73 (76)
T ss_pred             CCCceeeecCCCCcchHHHHHHHhhccccCCCcccceeeccCCcEeeccchhhhccccccceEEEEeecc
Confidence            57888888888888887777666665   4788888876 578999989999999999999999986644

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

Probab=87.42  E-value=2.9  Score=31.88  Aligned_cols=66  Identities=18%  Similarity=0.146  Sum_probs=50.3

Q ss_pred             EEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCC-cCeEEec----CC--eecCCcccchhcCCC--CCcEEEEe
Q 016931            5 VMTADEQIISLDVDPHETVENVKALLEVETQVPL-QQQQLLY----NG--REMNNAEKLSALGVK--DEDLVMMV   70 (380)
Q Consensus         5 Vk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~-~~q~Li~----~G--k~L~D~~tL~~~gI~--dg~~I~l~   70 (380)
                      |..++|...++++++++|+.+|-..|..+.|+.. +-.-|.|    +|  .-|+.+++|.++..+  ...++++.
T Consensus         1 V~llD~~~~~~~v~~~~t~~~l~~~v~~~l~l~e~~~FgL~~~~~~~~~~~wL~~~k~l~~q~~~~~~~~~l~fr   75 (80)
T PF09379_consen    1 VRLLDGTTKTFEVDPKTTGQDLLEQVCDKLGLKEKEYFGLQYQVDKDGEHHWLDLDKKLKKQLKKNNPPFTLYFR   75 (80)
T ss_dssp             EEESSEEEEEEEEETTSBHHHHHHHHHHHHTTSSGGGEEEEE-EBTTSSEEEE-SSSBGGGSTBTSSSSEEEEEE
T ss_pred             CCCcCCCcEEEEEcCCCcHHHHHHHHHHHcCCCCccEEEEEEeecCCCcceeccCcccHHHHcCCCCCCEEEEEE
Confidence            5678899999999999999999999999999865 4456767    22  336778899998777  44455554

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 ....

>cd06097 Aspergillopepsin_like Aspergillopepsin_like, aspartic proteases of fungal origin

Probab=87.24  E-value=0.93  Score=43.26  Aligned_cols=80  Identities=15%  Similarity=0.190  Sum_probs=47.0

Q ss_pred             eEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEeEEEEEecCCCCceeeeHH
Q 016931          207 PLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLD  286 (380)
Q Consensus       207 ~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~~~~~Vl~~~~~d~iLG~D  286 (380)
                      ...++||||++.+.++.+.++++-- .+..... ....  |    ...+.+.. .+-...    |.+      ..|||-.
T Consensus       198 ~~~~iiDSGTs~~~lP~~~~~~l~~-~l~g~~~-~~~~--~----~~~~~C~~-~~P~i~----f~~------~~ilGd~  258 (278)
T cd06097         198 GFSAIADTGTTLILLPDAIVEAYYS-QVPGAYY-DSEY--G----GWVFPCDT-TLPDLS----FAV------FSILGDV  258 (278)
T ss_pred             CceEEeecCCchhcCCHHHHHHHHH-hCcCCcc-cCCC--C----EEEEECCC-CCCCEE----EEE------EEEEcch
Confidence            4679999999999999888776521 0000000 0000  0    01111110 011111    111      4799999


Q ss_pred             HHhhcCeEEEcCCCEEEEc
Q 016931          287 MLRKHQCIIDLKENVLRVG  305 (380)
Q Consensus       287 ~L~~~~~~ID~~~~~l~i~  305 (380)
                      ||+++=.+.|+.+++|-|.
T Consensus       259 fl~~~y~vfD~~~~~ig~A  277 (278)
T cd06097         259 FLKAQYVVFDVGGPKLGFA  277 (278)
T ss_pred             hhCceeEEEcCCCceeeec
Confidence            9999999999999988764

The members of this family are aspartic proteases of fungal origin, including aspergillopepsin, rhizopuspepsin, endothiapepsin, and rodosporapepsin. The various fungal species in this family may be the most economically important genus of fungi. They may serve as virulence factors or as industrial aids. For example, Aspergillopepsin from A. fumigatus is involved in invasive aspergillosis owing to its elastolytic activity and Aspergillopepsins from the mold A. saitoi are used in fermentation industry. Aspartic proteinases are a group of proteolytic enzymes in which the scissile peptide bond is attacked by a nucleophilic water molecule activated by two aspartic residues in a DT(S)G motif at the active site. They have a similar fold composed of two beta-barrel domains. Between the N-terminal and C-terminal domains, each of which contributes one catalytic aspartic residue, there is an extended active-

>cd05471 pepsin_like Pepsin-like aspartic proteases, bilobal enzymes that cleave bonds in peptides at acidic pH

Probab=87.23  E-value=1  Score=42.33  Aligned_cols=81  Identities=17%  Similarity=0.148  Sum_probs=48.4

Q ss_pred             eEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEeEEEEEecCCCCceeeeHH
Q 016931          207 PLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLD  286 (380)
Q Consensus       207 ~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~~~~~Vl~~~~~d~iLG~D  286 (380)
                      ...++||||.+.+.++.+.++.+--  .+......     .  ........  ..... .-.+.|..      ..|||..
T Consensus       202 ~~~~iiDsGt~~~~lp~~~~~~l~~--~~~~~~~~-----~--~~~~~~~~--~~~~~-~p~i~f~f------~~ilG~~  263 (283)
T cd05471         202 GGGAIVDSGTSLIYLPSSVYDAILK--ALGAAVSS-----S--DGGYGVDC--SPCDT-LPDITFTF------LWILGDV  263 (283)
T ss_pred             CcEEEEecCCCCEeCCHHHHHHHHH--HhCCcccc-----c--CCcEEEeC--cccCc-CCCEEEEE------EEEccHh
Confidence            5789999999999999998887522  11100000     0  00000000  00000 00011111      7899999


Q ss_pred             HHhhcCeEEEcCCCEEEEc
Q 016931          287 MLRKHQCIIDLKENVLRVG  305 (380)
Q Consensus       287 ~L~~~~~~ID~~~~~l~i~  305 (380)
                      ||+.+-.+.|+++++|-|.
T Consensus       264 fl~~~y~vfD~~~~~igfa  282 (283)
T cd05471         264 FLRNYYTVFDLDNNRIGFA  282 (283)
T ss_pred             hhhheEEEEeCCCCEEeec
Confidence            9999999999999998774

Pepsin-like aspartic proteases are found in mammals, plants, fungi and bacteria. These well known and extensively characterized enzymes include pepsins, chymosin, renin, cathepsins, and fungal aspartic proteases. Several have long been known to be medically (renin, cathepsin D and E, pepsin) or commercially (chymosin) important. Structurally, aspartic proteases are bilobal enzymes, each lobe contributing a catalytic Aspartate residue, with an extended active site cleft localized between the two lobes of the molecule. The N- and C-terminal domains, although structurally related by a 2-fold axis, have only limited sequence homology except the vicinity of the active site. This suggests that the enzymes evolved by an ancient duplication event. Most members of the pepsin family specifically cleave bonds in peptides that are at least six residues in length, with hydrophobic residu

>PLN02799 Molybdopterin synthase sulfur carrier subunit

Probab=87.10  E-value=3  Score=32.29  Aligned_cols=66  Identities=17%  Similarity=0.163  Sum_probs=44.8

Q ss_pred             CEEEEEeC------CC-CEEEEEeCCCCCHHHHHHHHHHHhC-CCC--cCeEEecCCeecCCcccchhcCCCCCcEEEEe
Q 016931            1 MRITVMTA------DE-QIISLDVDPHETVENVKALLEVETQ-VPL--QQQQLLYNGREMNNAEKLSALGVKDEDLVMMV   70 (380)
Q Consensus         1 M~ItVk~~------~g-~~~~i~V~~~~TV~~LK~~I~~~~g-ip~--~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~   70 (380)
                      |+|+|+.-      .| ....++++...|+.+|++.+..+.. +..  ....+..||+...     .+.-+++||.|.+.
T Consensus         2 m~i~V~~fa~~re~~g~~~~~~~~~~~~tv~~L~~~l~~~~p~l~~~~~~~~vavN~~~v~-----~~~~l~dgDeVai~   76 (82)
T PLN02799          2 VEIKVLFFARARELTGVSDMTLELPAGSTTADCLAELVAKFPSLEEVRSCCVLALNEEYTT-----ESAALKDGDELAII   76 (82)
T ss_pred             eEEEEEehHHHHHHhCCCeEEEECCCCCcHHHHHHHHHHHChhHHHHhhCcEEEECCEEcC-----CCcCcCCCCEEEEe
Confidence            67888753      24 4567888889999999999977651 111  1123556887764     33457899999987


Q ss_pred             e
Q 016931           71 S   71 (380)
Q Consensus        71 ~   71 (380)
                      .
T Consensus        77 P   77 (82)
T PLN02799         77 P   77 (82)
T ss_pred             C
Confidence            4

>PRK06488 sulfur carrier protein ThiS; Validated

Probab=86.95  E-value=2.6  Score=31.25  Aligned_cols=60  Identities=17%  Similarity=0.194  Sum_probs=42.1

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS   71 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~   71 (380)
                      |+|+|   +|+.+.+  + ..|+.+|.+.+    ++++....+-.|++.+. .....+.-+++||.|-++.
T Consensus         1 m~i~~---Ng~~~~~--~-~~tl~~Ll~~l----~~~~~~vavavN~~iv~-~~~~~~~~L~dgD~Ieiv~   60 (65)
T PRK06488          1 MKLFV---NGETLQT--E-ATTLALLLAEL----DYEGNWLATAVNGELVH-KEARAQFVLHEGDRIEILS   60 (65)
T ss_pred             CEEEE---CCeEEEc--C-cCcHHHHHHHc----CCCCCeEEEEECCEEcC-HHHcCccccCCCCEEEEEE
Confidence            55555   4566555  3 46899888764    66666666778998876 3345667789999998874

>PRK05863 sulfur carrier protein ThiS; Provisional

Probab=86.64  E-value=3.2  Score=30.90  Aligned_cols=60  Identities=17%  Similarity=0.212  Sum_probs=43.3

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS   71 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~   71 (380)
                      |+|+|.   |+.+  +++...|+.+|-..    .++++....+.+++..+..+.- +.+ +++||.|-++.
T Consensus         1 m~i~vN---G~~~--~~~~~~tl~~ll~~----l~~~~~~vav~~N~~iv~r~~~-~~~-L~~gD~ieIv~   60 (65)
T PRK05863          1 MIVVVN---EEQV--EVDEQTTVAALLDS----LGFPEKGIAVAVDWSVLPRSDW-ATK-LRDGARLEVVT   60 (65)
T ss_pred             CEEEEC---CEEE--EcCCCCcHHHHHHH----cCCCCCcEEEEECCcCcChhHh-hhh-cCCCCEEEEEe
Confidence            556554   5544  45567888877664    6889999999999998875432 345 89999998874

>cd05488 Proteinase_A_fungi Fungal Proteinase A , aspartic proteinase superfamily

Probab=86.62  E-value=7.5  Score=37.90  Aligned_cols=94  Identities=15%  Similarity=0.171  Sum_probs=54.1

Q ss_pred             EEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeE--EeEEEEEeEEEcCEEEe-------------EEEE
Q 016931          208 LKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEI--LGRIHVAPIKIGNVFYP-------------CSFV  272 (380)
Q Consensus       208 v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~--~g~i~~~~i~ig~~~~~-------------~~~~  272 (380)
                      ..++||||++.+.++.++++.+.-  .+....  ...+.-...+  ........+.+++..+.             |-..
T Consensus       206 ~~~ivDSGtt~~~lp~~~~~~l~~--~~~~~~--~~~~~~~~~C~~~~~~P~i~f~f~g~~~~i~~~~y~~~~~g~C~~~  281 (320)
T cd05488         206 TGAAIDTGTSLIALPSDLAEMLNA--EIGAKK--SWNGQYTVDCSKVDSLPDLTFNFDGYNFTLGPFDYTLEVSGSCISA  281 (320)
T ss_pred             CeEEEcCCcccccCCHHHHHHHHH--HhCCcc--ccCCcEEeeccccccCCCEEEEECCEEEEECHHHheecCCCeEEEE
Confidence            468999999999999998886421  010000  0000000000  01122344555554433             2222


Q ss_pred             Eec-----CCCCceeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931          273 VLD-----SPNMEFLFGLDMLRKHQCIIDLKENVLRVG  305 (380)
Q Consensus       273 Vl~-----~~~~d~iLG~D~L~~~~~~ID~~~~~l~i~  305 (380)
                      +..     ..+...|||-.||+.+-.+.|+.+++|-|.
T Consensus       282 ~~~~~~~~~~~~~~ilG~~fl~~~y~vfD~~~~~iG~a  319 (320)
T cd05488         282 FTGMDFPEPVGPLAIVGDAFLRKYYSVYDLGNNAVGLA  319 (320)
T ss_pred             EEECcCCCCCCCeEEEchHHhhheEEEEeCCCCEEeec
Confidence            222     112358999999999999999999998874

Fungal Proteinase A, a proteolytic enzyme distributed among a variety of organisms, is a member of the aspartic proteinase superfamily. In Saccharomyces cerevisiae, targeted to the vacuole as a zymogen, activation of proteinases A at acidic pH can occur by two different pathways: a one-step process to release mature proteinase A, involving the intervention of proteinase B, or a step-wise pathway via the auto-activation product known as pseudo-proteinase A. Once active, S. cerevisiae proteinase A is essential to the activities of other yeast vacuolar hydrolases, including proteinase B and carboxypeptidase Y. The mature enzyme is bilobal, with each lobe providing one of the two catalytically essential aspartic acid residues in the active site. The crystal structure of free proteinase A shows that flap loop is atypically pointing directly into the S(1) pocket of the enzyme. Proteinase A preferentially hydro

>cd00754 MoaD Ubiquitin domain of MoaD-like proteins

Probab=86.61  E-value=3  Score=31.77  Aligned_cols=55  Identities=22%  Similarity=0.216  Sum_probs=41.8

Q ss_pred             EEEEEeCCCCCHHHHHHHHHHHhCC----CCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931           12 IISLDVDPHETVENVKALLEVETQV----PLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS   71 (380)
Q Consensus        12 ~~~i~V~~~~TV~~LK~~I~~~~gi----p~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~   71 (380)
                      ...++++...||.+|.+.+..+++-    ......+..||+...     .+.-+++||.|.+..
T Consensus        17 ~~~~~~~~~~tv~~ll~~l~~~~~~~~~~~~~~~~v~vNg~~v~-----~~~~l~~gD~v~i~p   75 (80)
T cd00754          17 EEELELPEGATVGELLDALEARYPGLLEELLARVRIAVNGEYVR-----LDTPLKDGDEVAIIP   75 (80)
T ss_pred             eEEEECCCCCcHHHHHHHHHHHCchHHHhhhhcEEEEECCeEcC-----CCcccCCCCEEEEeC
Confidence            3667888889999999999988642    234455667998887     345689999999874

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

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

Probab=86.23  E-value=0.44  Score=46.73  Aligned_cols=69  Identities=20%  Similarity=0.285  Sum_probs=50.1

Q ss_pred             EEEEEeCCCCE--EEEEeCCCCCHHHHHHHHHHHhCCC--CcCeEEecCCeecCCcccchhcCCCC--CcEEEEe
Q 016931            2 RITVMTADEQI--ISLDVDPHETVENVKALLEVETQVP--LQQQQLLYNGREMNNAEKLSALGVKD--EDLVMMV   70 (380)
Q Consensus         2 ~ItVk~~~g~~--~~i~V~~~~TV~~LK~~I~~~~gip--~~~q~Li~~Gk~L~D~~tL~~~gI~d--g~~I~l~   70 (380)
                      .+.||..+.+-  .+|+.+...||++||..++.-+--.  ..+|||+|.||.|.|...|.+.=+|.  -.++|++
T Consensus        11 ~lliks~Nq~y~dl~i~~dl~wtv~~Lk~hls~VyPskpl~~dqrliYsgkllld~qcl~d~lrkq~k~Hv~hlv   85 (391)
T KOG4583|consen   11 TLLIKSPNQSYKDLSISLDLKWTVGDLKVHLSQVYPSKPLELDQRLIYSGKLLLDHQCLTDWLRKQVKEHVKHLV   85 (391)
T ss_pred             EEEecCCCccccceeeehhhhhhHHHHhhhHhhcCCCCCchhhHHHHhhccccccchhHHHHHHHHHHHHHHHHh
Confidence            35667766443  5566677889999999998876422  25799999999999988887765543  3466666

>cd06096 Plasmepsin_5 Plasmepsins are a class of aspartic proteinases produced by the plasmodium parasite

Probab=85.93  E-value=2  Score=42.06  Aligned_cols=91  Identities=15%  Similarity=0.227  Sum_probs=55.6

Q ss_pred             eeEEeeeec--CeeEEEEEcCCccccccCHHHHHHcCCc--cccC--------------------------CcceeEeec
Q 016931          196 MLYVDMEVN--GIPLKAFVDSGAQSTIISKSCAERCGLL--RLLD--------------------------DRYRGVAHG  245 (380)
Q Consensus       196 ~lyv~v~In--g~~v~alVDTGA~~siIs~~~a~rlgL~--~~~~--------------------------~~~~~~~~g  245 (380)
                      ..|+++.|.  .+++.++||||+..+.+...-...|+..  ...+                          .....+..|
T Consensus         3 ~Y~~~i~vGtP~Q~~~v~~DTGS~~~wv~~~~C~~c~~~~~~~y~~~~Sst~~~~~C~~~~c~~~~~~~~~~~~~~i~Y~   82 (326)
T cd06096           3 YYFIDIFIGNPPQKQSLILDTGSSSLSFPCSQCKNCGIHMEPPYNLNNSITSSILYCDCNKCCYCLSCLNNKCEYSISYS   82 (326)
T ss_pred             eEEEEEEecCCCeEEEEEEeCCCCceEEecCCCCCcCCCCCCCcCcccccccccccCCCccccccCcCCCCcCcEEEEEC
Confidence            458899997  6889999999999998864433345431  0110                          001123344


Q ss_pred             CcceeEEeEEEEEeEEEcCEEEe--------EEEEEec-------CCCCceeeeHHH
Q 016931          246 VGQSEILGRIHVAPIKIGNVFYP--------CSFVVLD-------SPNMEFLFGLDM  287 (380)
Q Consensus       246 vg~~~~~g~i~~~~i~ig~~~~~--------~~~~Vl~-------~~~~d~iLG~D~  287 (380)
                      -| ..+.|......+.||+...+        ..|.+..       ....|+||||-+
T Consensus        83 ~g-s~~~G~~~~D~v~lg~~~~~~~~~~~~~~~fg~~~~~~~~~~~~~~~GilGLg~  138 (326)
T cd06096          83 EG-SSISGFYFSDFVSFESYLNSNSEKESFKKIFGCHTHETNLFLTQQATGILGLSL  138 (326)
T ss_pred             CC-CceeeEEEEEEEEeccCCCCccccccccEEeccCccccCcccccccceEEEccC
Confidence            33 25678888889999875432        1232222       124689999986

The family contains a group of aspartic proteinases homologous to plasmepsin 5. Plasmepsins are a class of at least 10 enzymes produced by the plasmodium parasite. Through their haemoglobin-degrading activity, they are an important cause of symptoms in malaria sufferers. This family of enzymes is a potential target for anti-malarial drugs. Plasmepsins are aspartic acid proteases, which means their active site contains two aspartic acid residues. These two aspartic acid residue act respectively as proton donor and proton acceptor, catalyzing the hydrolysis of peptide bond in proteins. Aspartic proteinases are composed of two structurally similar beta barrel lobes, each lobe contributing an aspartic acid residue to form a catalytic dyad that acts to cleave the substrate peptide bond. The catalytic Asp residues are contained in an Asp-Thr-Gly-Ser/thr motif in both N- and C-terminal l

>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=85.90  E-value=1.3  Score=35.00  Aligned_cols=59  Identities=22%  Similarity=0.315  Sum_probs=42.0

Q ss_pred             EEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEe
Q 016931           12 IISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMV   70 (380)
Q Consensus        12 ~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~   70 (380)
                      .+...++-..++..||.+++.+.++..+...++.-+..|.++++|-+.||+-..+|.+.
T Consensus         4 vI~q~mDI~epl~~Lk~lLe~Rl~~~L~~~~f~LQD~~L~~~k~L~dQcVqgeGlVQln   62 (88)
T PF11620_consen    4 VIMQHMDIREPLSTLKKLLERRLGISLSDYEFWLQDIQLEPHKSLVDQCVQGEGLVQLN   62 (88)
T ss_dssp             EEEEEEESSSBGGGHHHHSHHHH-S--SS-EEEETTEE--TTSBTTTSS----SEEEEE
T ss_pred             eEEEEEecCCcHHHHHHHHHHhhCCCcCCCeEEeccceecCCccHHHhhccccCEEEEE
Confidence            34556667788999999999999999999999988877999999999999988888775

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.

>PRK05659 sulfur carrier protein ThiS; Validated

Probab=85.77  E-value=3.9  Score=30.24  Aligned_cols=61  Identities=16%  Similarity=0.228  Sum_probs=43.6

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS   71 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~   71 (380)
                      |+|+|.   |+.  +++....||.++-..    .++++....+.+||..+.-.. ..+.-+++||.|-++.
T Consensus         1 m~i~vN---G~~--~~~~~~~tl~~lL~~----l~~~~~~vav~vNg~iv~r~~-~~~~~l~~gD~vei~~   61 (66)
T PRK05659          1 MNIQLN---GEP--RELPDGESVAALLAR----EGLAGRRVAVEVNGEIVPRSQ-HASTALREGDVVEIVH   61 (66)
T ss_pred             CEEEEC---CeE--EEcCCCCCHHHHHHh----cCCCCCeEEEEECCeEeCHHH-cCcccCCCCCEEEEEE
Confidence            555553   554  466677898887764    688888888889998876433 3344589999998874

>cd05472 cnd41_like Chloroplast Nucleoids DNA-binding Protease, catalyzes the degradation of ribulose-1,5-bisphosphate carboxylase/oxygenase

Probab=85.46  E-value=6.5  Score=37.79  Aligned_cols=27  Identities=7%  Similarity=0.079  Sum_probs=24.3

Q ss_pred             ceeeeHHHHhhcCeEEEcCCCEEEEcC
Q 016931          280 EFLFGLDMLRKHQCIIDLKENVLRVGG  306 (380)
Q Consensus       280 d~iLG~D~L~~~~~~ID~~~~~l~i~~  306 (380)
                      -.|||-.||+.+-.+.|+++++|-|..
T Consensus       270 ~~ilG~~fl~~~~vvfD~~~~~igfa~  296 (299)
T cd05472         270 LSIIGNVQQQTFRVVYDVAGGRIGFAP  296 (299)
T ss_pred             CEEEchHHccceEEEEECCCCEEeEec
Confidence            469999999999999999999998853

Chloroplast Nucleoids DNA-binding Protease catalyzes the degradation of ribulose-1,5-bisphosphate carboxylase/oxygenase (Rubisco) in senescent leaves of tobacco. Antisense tobacco with reduced amount of CND41 maintained green leaves and constant protein levels, especially Rubisco. CND41 has DNA-binding as well as aspartic protease activities. The pepsin-like aspartic protease domain is located at the C-terminus of the protein. The enzyme is characterized by having two aspartic protease catalytic site motifs, the Asp-Thr-Gly-Ser in the N-terminal and Asp-Ser-Gly-Ser in the C-terminal region. Aspartic proteases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localized between the two lobes of the molecule. One lobe may be evolved from the other through ancient gene-duplication event. This fami

>cd05471 pepsin_like Pepsin-like aspartic proteases, bilobal enzymes that cleave bonds in peptides at acidic pH

Probab=85.19  E-value=3.8  Score=38.43  Aligned_cols=89  Identities=15%  Similarity=0.260  Sum_probs=52.9

Q ss_pred             EEeeeecCe--eEEEEEcCCccccccCHHHHHHcCCccc--------------cCCcceeEeecCcceeEEeEEEEEeEE
Q 016931          198 YVDMEVNGI--PLKAFVDSGAQSTIISKSCAERCGLLRL--------------LDDRYRGVAHGVGQSEILGRIHVAPIK  261 (380)
Q Consensus       198 yv~v~Ing~--~v~alVDTGA~~siIs~~~a~rlgL~~~--------------~~~~~~~~~~gvg~~~~~g~i~~~~i~  261 (380)
                      |+++.|..-  ++.++||||+..+.+...-...|.....              ..........+.  ....|.+....+.
T Consensus         2 ~~~i~iGtp~q~~~l~~DTGS~~~wv~~~~c~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~Y~~--g~~~g~~~~D~v~   79 (283)
T cd05471           2 YGEITIGTPPQKFSVIFDTGSSLLWVPSSNCTSCSCQKHPRFKYDSSKSSTYKDTGCTFSITYGD--GSVTGGLGTDTVT   79 (283)
T ss_pred             EEEEEECCCCcEEEEEEeCCCCCEEEecCCCCccccccCCCCccCccCCceeecCCCEEEEEECC--CeEEEEEEEeEEE
Confidence            678888654  7999999999998885544333332100              011111233333  3456777778899


Q ss_pred             EcCEEE-eEEEEEec-------CCCCceeeeHHHH
Q 016931          262 IGNVFY-PCSFVVLD-------SPNMEFLFGLDML  288 (380)
Q Consensus       262 ig~~~~-~~~~~Vl~-------~~~~d~iLG~D~L  288 (380)
                      +++... ...|....       ....++||||.+=
T Consensus        80 ~~~~~~~~~~fg~~~~~~~~~~~~~~~GilGLg~~  114 (283)
T cd05471          80 IGGLTIPNQTFGCATSESGDFSSSGFDGILGLGFP  114 (283)
T ss_pred             ECCEEEeceEEEEEeccCCcccccccceEeecCCc
Confidence            998542 23343333       2468899998654

Pepsin-like aspartic proteases are found in mammals, plants, fungi and bacteria. These well known and extensively characterized enzymes include pepsins, chymosin, renin, cathepsins, and fungal aspartic proteases. Several have long been known to be medically (renin, cathepsin D and E, pepsin) or commercially (chymosin) important. Structurally, aspartic proteases are bilobal enzymes, each lobe contributing a catalytic Aspartate residue, with an extended active site cleft localized between the two lobes of the molecule. The N- and C-terminal domains, although structurally related by a 2-fold axis, have only limited sequence homology except the vicinity of the active site. This suggests that the enzymes evolved by an ancient duplication event. Most members of the pepsin family specifically cleave bonds in peptides that are at least six residues in length, with hydrophobic residu

>smart00727 STI1 Heat shock chaperonin-binding motif

Probab=84.40  E-value=1.3  Score=29.65  Aligned_cols=22  Identities=27%  Similarity=0.699  Sum_probs=10.9

Q ss_pred             HHHhcCHHHHHHHhhcCHHHHH
Q 016931           98 QHIRNDANLMTQLFQSDPELAQ  119 (380)
Q Consensus        98 q~~l~nP~~l~qL~~~nP~La~  119 (380)
                      +.+.+||+.++.+.+.||.++.
T Consensus        18 ~~~~~nP~~~~~~~~~nP~~~~   39 (41)
T smart00727       18 QDMQQNPDMLAQMLQENPQLLQ   39 (41)
T ss_pred             HHHHHCHHHHHHHHHhCHHhHh
Confidence            3344455555555544555543

>cd05487 renin_like Renin stimulates production of angiotensin and thus affects blood pressure

Probab=84.20  E-value=6.3  Score=38.54  Aligned_cols=26  Identities=19%  Similarity=0.353  Sum_probs=23.8

Q ss_pred             ceeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931          280 EFLFGLDMLRKHQCIIDLKENVLRVG  305 (380)
Q Consensus       280 d~iLG~D~L~~~~~~ID~~~~~l~i~  305 (380)
                      ..|||-.||+.+-.+.|+.+++|-|.
T Consensus       299 ~~ilG~~flr~~y~vfD~~~~~IGfA  324 (326)
T cd05487         299 LWVLGATFIRKFYTEFDRQNNRIGFA  324 (326)
T ss_pred             eEEEehHHhhccEEEEeCCCCEEeee
Confidence            47999999999999999999998875

Renin, also known as angiotensinogenase, is a circulating enzyme that participates in the renin-angiotensin system that mediates extracellular volume, arterial vasoconstriction, and consequently mean arterial blood pressure. The enzyme is secreted by the kidneys from specialized juxtaglomerular cells in response to decreases in glomerular filtration rate (a consequence of low blood volume), diminished filtered sodium chloride and sympathetic nervous system innervation. The enzyme circulates in the blood stream and hydrolyzes angiotensinogen secreted from the liver into the peptide angiotensin I. Angiotensin I is further cleaved in the lungs by endothelial bound angiotensin converting enzyme (ACE) into angiotensin II, the final active peptide. Renin is a member of the aspartic protease family. Structurally, aspartic proteases are bilobal enzymes, each lobe contributing a catalytic Aspartate r

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

Probab=84.16  E-value=4.3  Score=31.94  Aligned_cols=45  Identities=16%  Similarity=0.186  Sum_probs=36.3

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCC-cCeEEecC
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPL-QQQQLLYN   46 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~-~~q~Li~~   46 (380)
                      |+|++.. +|..+.+.++++.+..+|+..|..++++.. ....|-|.
T Consensus         1 ~~vK~~~-~~d~~r~~l~~~~~~~~L~~~i~~r~~~~~~~~f~LkY~   46 (82)
T cd06407           1 VRVKATY-GEEKIRFRLPPSWGFTELKQEIAKRFKLDDMSAFDLKYL   46 (82)
T ss_pred             CEEEEEe-CCeEEEEEcCCCCCHHHHHHHHHHHhCCCCCCeeEEEEE
Confidence            4566666 677899999999999999999999999865 45666663

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

>cd05475 nucellin_like Nucellins, plant aspartic proteases specifically expressed in nucellar cells during degradation

Probab=83.74  E-value=1.9  Score=41.17  Aligned_cols=27  Identities=11%  Similarity=0.000  Sum_probs=23.9

Q ss_pred             ceeeeHHHHhhcCeEEEcCCCEEEEcC
Q 016931          280 EFLFGLDMLRKHQCIIDLKENVLRVGG  306 (380)
Q Consensus       280 d~iLG~D~L~~~~~~ID~~~~~l~i~~  306 (380)
                      -.|||-.||+.+-.+.|+++++|-|..
T Consensus       244 ~~ilG~~~l~~~~~vfD~~~~riGfa~  270 (273)
T cd05475         244 TNIIGDISMQGLMVIYDNEKQQIGWVR  270 (273)
T ss_pred             eEEECceEEEeeEEEEECcCCEeCccc
Confidence            479999999999999999999887753

Nucellins are important regulators of nucellar cell's progressive degradation after ovule fertilization. This degradation is a characteristic of programmed cell death. Nucellins are plant aspartic proteases specifically expressed in nucellar cells during degradation. The enzyme is characterized by having two aspartic protease catalytic site motifs, the Asp-Thr-Gly-Ser in the N-terminal and Asp-Ser-Gly-Ser in the C-terminal region, and two other regions nearly identical to two regions of plant aspartic proteases. Aspartic proteases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localized between the two lobes of the molecule. One lobe may be evolved from the other through ancient gene-duplication event. Although the three-dimensional structures of the two lobes are very similar, the amino acid sequences are more d

>cd05486 Cathespin_E Cathepsin E, non-lysosomal aspartic protease

Probab=82.26  E-value=6.7  Score=38.13  Aligned_cols=26  Identities=15%  Similarity=0.280  Sum_probs=23.1

Q ss_pred             ceeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931          280 EFLFGLDMLRKHQCIIDLKENVLRVG  305 (380)
Q Consensus       280 d~iLG~D~L~~~~~~ID~~~~~l~i~  305 (380)
                      ..|||-.||+++-.+.|+++++|-|.
T Consensus       290 ~~ILGd~flr~~y~vfD~~~~~IGfA  315 (316)
T cd05486         290 LWILGDVFIRQYYSVFDRGNNRVGFA  315 (316)
T ss_pred             eEEEchHHhcceEEEEeCCCCEeecc
Confidence            47999999999999999999988764

Cathepsin E is an intracellular, non-lysosomal aspartic protease expressed in a variety of cells and tissues. The protease has proposed physiological roles in antigen presentation by the MHC class II system, in the biogenesis of the vasoconstrictor peptide endothelin, and in neurodegeneration associated with brain ischemia and aging. Cathepsin E is the only A1 aspartic protease that exists as a homodimer with a disulfide bridge linking the two monomers. Like many other aspartic proteases, it is synthesized as a zymogen which is catalytically inactive towards its natural substrates at neutral pH and which auto-activates in an acidic environment. The overall structure follows the general fold of aspartic proteases of the A1 family, it is composed of two structurally similar beta barrel lobes, each lobe contributing an aspartic acid residue to form a catalytic dyad that acts to cleave the substrate peptide bond. The catalyt

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

Probab=82.01  E-value=4.6  Score=32.13  Aligned_cols=43  Identities=14%  Similarity=0.224  Sum_probs=36.9

Q ss_pred             EEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCc---CeEEec
Q 016931            3 ITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQ---QQQLLY   45 (380)
Q Consensus         3 ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~---~q~Li~   45 (380)
                      .+++.+.|+++.+.+.++..+.+|+..|.+++|+...   ...|.|
T Consensus         3 FK~~~~~GrvhRf~~~~s~~~~~L~~~I~~Rl~~d~~~~~~~~L~Y   48 (86)
T cd06409           3 FKFKDPKGRVHRFRLRPSESLEELRTLISQRLGDDDFETHLYALSY   48 (86)
T ss_pred             EEeeCCCCCEEEEEecCCCCHHHHHHHHHHHhCCccccCCcccEEE
Confidence            5678889999999999999999999999999999874   455555

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

>smart00666 PB1 PB1 domain

Probab=81.72  E-value=5.9  Score=30.34  Aligned_cols=45  Identities=13%  Similarity=0.150  Sum_probs=36.9

Q ss_pred             EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCC
Q 016931            2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNG   47 (380)
Q Consensus         2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~G   47 (380)
                      +|.++. ++..+.+.++.+.|..+|+.+|..+++++.....|-|..
T Consensus         3 ~vK~~~-~~~~~~~~~~~~~s~~dL~~~i~~~~~~~~~~~~l~Y~D   47 (81)
T smart00666        3 DVKLRY-GGETRRLSVPRDISFEDLRSKVAKRFGLDNQSFTLKYQD   47 (81)
T ss_pred             cEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHhCCCCCCeEEEEEC
Confidence            345555 567889999999999999999999999887777777753

Phox and Bem1p domain, present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.

>cd05490 Cathepsin_D2 Cathepsin_D2, pepsin family of proteinases

Probab=81.66  E-value=8.1  Score=37.65  Aligned_cols=94  Identities=14%  Similarity=0.189  Sum_probs=52.6

Q ss_pred             EEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEE--eEEEEEeEEEcCEEEe-----------------
Q 016931          208 LKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEIL--GRIHVAPIKIGNVFYP-----------------  268 (380)
Q Consensus       208 v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~--g~i~~~~i~ig~~~~~-----------------  268 (380)
                      ..++||||.+.+.++.+.++.+.-  .+.. . ....|.....+.  .......+.+|+..+.                 
T Consensus       207 ~~aiiDSGTt~~~~p~~~~~~l~~--~~~~-~-~~~~~~~~~~C~~~~~~P~i~f~fgg~~~~l~~~~y~~~~~~~~~~~  282 (325)
T cd05490         207 CEAIVDTGTSLITGPVEEVRALQK--AIGA-V-PLIQGEYMIDCEKIPTLPVISFSLGGKVYPLTGEDYILKVSQRGTTI  282 (325)
T ss_pred             CEEEECCCCccccCCHHHHHHHHH--HhCC-c-cccCCCEEecccccccCCCEEEEECCEEEEEChHHeEEeccCCCCCE
Confidence            579999999999999988876521  0000 0 000010000110  1112233445553333                 


Q ss_pred             EEEEEe--cC---CCCceeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931          269 CSFVVL--DS---PNMEFLFGLDMLRKHQCIIDLKENVLRVG  305 (380)
Q Consensus       269 ~~~~Vl--~~---~~~d~iLG~D~L~~~~~~ID~~~~~l~i~  305 (380)
                      |-+.+.  +.   .....|||-.||+.+-.+.|+++++|-|.
T Consensus       283 C~~~~~~~~~~~~~~~~~ilGd~flr~~y~vfD~~~~~IGfA  324 (325)
T cd05490         283 CLSGFMGLDIPPPAGPLWILGDVFIGRYYTVFDRDNDRVGFA  324 (325)
T ss_pred             EeeEEEECCCCCCCCceEEEChHhheeeEEEEEcCCcEeecc
Confidence            322222  11   12347999999999999999999998764

Cathepsin D is the major aspartic proteinase of the lysosomal compartment where it functions in protein catabolism. It is a member of the pepsin family of proteinases. This enzyme is distinguished from other members of the pepsin family by two features that are characteristic of lysosomal hydrolases. First, mature Cathepsin D is found predominantly in a two-chain form due to a posttranslational cleavage event. Second, it contains phosphorylated, N-linked oligosaccharides that target the enzyme to lysosomes via mannose-6-phosphate receptors. Cathepsin D preferentially attacks peptide bonds flanked by bulky hydrophobic amino acids and its pH optimum is between pH 2.8 and 4.0. Two active site aspartic acid residues are essential for the catalytic activity of aspartic proteinases. Like other aspartic proteinases, Cathepsin D is a bilobed molecule; the two evolutionary related lobes are mostly made up of beta-sheets and flank

>PRK08053 sulfur carrier protein ThiS; Provisional

Probab=81.49  E-value=9.1  Score=28.46  Aligned_cols=61  Identities=18%  Similarity=0.200  Sum_probs=42.2

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS   71 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~   71 (380)
                      |+|+|.   |+.  +++....||.+|...    .+.+.....+-.|+..+.. ...+++-+++||.|-++.
T Consensus         1 m~i~vN---g~~--~~~~~~~tl~~ll~~----l~~~~~~vaVavN~~iv~r-~~w~~~~L~~gD~Ieii~   61 (66)
T PRK08053          1 MQILFN---DQP--MQCAAGQTVHELLEQ----LNQLQPGAALAINQQIIPR-EQWAQHIVQDGDQILLFQ   61 (66)
T ss_pred             CEEEEC---CeE--EEcCCCCCHHHHHHH----cCCCCCcEEEEECCEEeCh-HHcCccccCCCCEEEEEE
Confidence            566664   554  455677899988865    4555566777789988752 234455689999998874

>PLN03146 aspartyl protease family protein; Provisional

Probab=81.45  E-value=3  Score=42.81  Aligned_cols=27  Identities=15%  Similarity=0.054  Sum_probs=24.3

Q ss_pred             ceeeeHHHHhhcCeEEEcCCCEEEEcC
Q 016931          280 EFLFGLDMLRKHQCIIDLKENVLRVGG  306 (380)
Q Consensus       280 d~iLG~D~L~~~~~~ID~~~~~l~i~~  306 (380)
                      ..|||-.+++.+..+.|+++++|-|..
T Consensus       399 ~~IlG~~~q~~~~vvyDl~~~~igFa~  425 (431)
T PLN03146        399 IAIFGNLAQMNFLVGYDLESKTVSFKP  425 (431)
T ss_pred             ceEECeeeEeeEEEEEECCCCEEeeec
Confidence            379999999999999999999998864

>cd06408 PB1_NoxR The PB1 domain is present in the Epichloe festucae NoxR protein (NADPH oxidase regulator), a key regulator of NADPH oxidase isoform, NoxA

Probab=81.24  E-value=6.9  Score=31.15  Aligned_cols=43  Identities=7%  Similarity=0.182  Sum_probs=33.2

Q ss_pred             EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecC
Q 016931            2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYN   46 (380)
Q Consensus         2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~   46 (380)
                      +|.|.. .|.++.+.|+++.+..+|..+|..++++. ....|-|.
T Consensus         4 kVKv~~-~~Dv~~i~v~~~i~f~dL~~kIrdkf~~~-~~~~iKyk   46 (86)
T cd06408           4 RVKVHA-QDDTRYIMIGPDTGFADFEDKIRDKFGFK-RRLKIKMK   46 (86)
T ss_pred             EEEEEe-cCcEEEEEcCCCCCHHHHHHHHHHHhCCC-CceEEEEE
Confidence            344443 67899999999999999999999999985 34444443

NoxA is essential for growth control of the fungal endophyte in plant tissue in the process of symbiotic interaction between a fungi and its plant host. The Epichloe festucae p67(phox)-like regulator, NoxR, dispensable in culture but essential in plants for the symbiotic interaction. Plants infected with a noxR deletion mutant show severe stunting and premature senescence, whereas hyphae in the meristematic tissues show increased branching leading to increased fungal colonization of pseudostem and leaf blade tissue. The PB1 domain is a modular domain mediating specific protein-protein interactions which a play role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is

>PF09280 XPC-binding: XPC-binding domain; InterPro: IPR015360 Members of this entry adopt a structure consisting of four alpha helices, arranged in an array

Probab=80.22  E-value=2.5  Score=31.14  Aligned_cols=23  Identities=35%  Similarity=0.652  Sum_probs=14.7

Q ss_pred             HHhcCHHH--HHHHhhcCHHHHHHh
Q 016931           99 HIRNDANL--MTQLFQSDPELAQVL  121 (380)
Q Consensus        99 ~~l~nP~~--l~qL~~~nP~La~ai  121 (380)
                      .++++|.+  |+++.++||++...+
T Consensus         3 ~Lr~~Pqf~~lR~~vq~NP~lL~~l   27 (59)
T PF09280_consen    3 FLRNNPQFQQLRQLVQQNPQLLPPL   27 (59)
T ss_dssp             GGTTSHHHHHHHHHHHC-GGGHHHH
T ss_pred             HHHcChHHHHHHHHHHHCHHHHHHH
Confidence            35567764  788888898855443

They bind specifically and directly to the xeroderma pigmentosum group C protein (XPC) to initiate nucleotide excision repair []. ; GO: 0003684 damaged DNA binding, 0006289 nucleotide-excision repair, 0043161 proteasomal ubiquitin-dependent protein catabolic process; PDB: 1PVE_A 1QZE_A 1OQY_A 1TP4_A 1X3W_B 3ESW_B 2QSG_X 2QSF_X 1X3Z_B 2QSH_X ....

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	380
2i1a_A	148	A Retroviral Protease-Like Domain In The Eukaryotic		4e-36
3s8i_A	148	The Retroviral-Like Protease (Rvp) Domain Of Human		3e-34
2xk5_B	76	Crystal Structure Of K6-Linked Diubiquitin Length =		3e-07
1zgu_B	76	Solution Structure Of The Human Mms2-Ubiquitin Comp		5e-07
2o6v_D	76	Crystal Structure And Solution Nmr Studies Of Lys48		6e-07
2fcs_A	76	X-Ray Crystal Structure Of A Chemically Synthesized		6e-07
2ojr_A	111	Structure Of Ubiquitin Solved By Sad Using The Lant		8e-07
3jvz_X	81	E2~ubiquitin-Hect Length = 81		1e-06
4ap4_C	80	Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex Le		1e-06
2khw_B	79	Solution Structure Of The Human Polymerase Iota Ubm		1e-06
2k25_A	103	Automated Nmr Structure Of The Ubb By Fapsy Length		1e-06
2ld9_A	77	Backbone Structure Of Ubiquitin Determined Using Ba		1e-06
3dvg_X	80	Crystal Structure Of K63-Specific Fab Apu.3a8 Bound		1e-06
2k6d_B	76	Cin85 Sh3-C Domain In Complex With Ubiquitin Length		1e-06
3nob_A	78	Structure Of K11-Linked Di-Ubiquitin Length = 78		1e-06
3ai5_A	307	Crystal Structure Of Yeast Enhanced Green Fluoresce		1e-06
1aar_A	76	Structure Of A Diubiquitin Conjugate And A Model Fo		1e-06
3dvg_Y	79	Crystal Structure Of K63-Specific Fab Apu.3a8 Bound		1e-06
3vdz_A	111	Tailoring Encodable Lanthanide-Binding Tags As Mri		1e-06
2znv_C	77	Crystal Structure Of Human Amsh-Lp Dub Domain In Co		1e-06
3rul_A	79	New Strategy To Analyze Structures Of Glycopeptide-		1e-06
1xd3_B	75	Crystal Structure Of Uchl3-Ubvme Complex Length = 7		2e-06
1cmx_B	76	Structural Basis For The Specificity Of Ubiquitin C		2e-06
3k9o_B	96	The Crystal Structure Of E2-25k And Ubb+1 Complex L		2e-06
2znv_B	76	Crystal Structure Of Human Amsh-Lp Dub Domain In Co		2e-06
3ons_A	72	Crystal Structure Of Human Ubiquitin In A New Cryst		2e-06
3ldz_F	73	Crystal Structure Of Human Stam1 Vhs Domain In Comp		2e-06
1yx5_B	98	Solution Structure Of S5a Uim-1UBIQUITIN COMPLEX Le		2e-06
1yj1_A	76	X-Ray Crystal Structure Of A Chemically Synthesized		3e-06
1yiw_A	76	X-Ray Crystal Structure Of A Chemically Synthesized		3e-06
2o6v_B	76	Crystal Structure And Solution Nmr Studies Of Lys48		4e-06
3u30_A	172	Crystal Structure Of A Linear-Specific Ubiquitin Fa		4e-06
2zvn_A	154	Nemo Cozi Domain Incomplex With Diubiquitin In P212		4e-06
3q3f_A	189	Engineering Domain-Swapped Binding Interfaces By Mu		4e-06
1ogw_A	76	Synthetic Ubiquitin With Fluoro-Leu At 50 And 67 Le		5e-06
4a18_K	129	T.Thermophila 60s Ribosomal Subunit In Complex With		5e-06
2w9n_A	152	Crystal Structure Of Linear Di-Ubiquitin Length = 1		5e-06
3b08_A	152	Crystal Structure Of The Mouse Hoil1-L-Nzf In Compl		5e-06
4i6l_B	76	Crystal Structure Of Otub1 In Complex With Ubiquiti		5e-06
2y5b_B	152	Structure Of Usp21 In Complex With Linear Diubiquit		6e-06
1s1q_B	76	Tsg101(Uev) Domain In Complex With Ubiquitin Length		6e-06
3v6c_B	91	Crystal Structure Of Usp2 In Complex With Mutated U		7e-06
3v6e_B	91	Crystal Structure Of Usp2 And A Mutant Form Of Ubiq		7e-06
3mtn_B	85	Usp21 In Complex With A Ubiquitin-based, Usp21-spec		8e-06
2zcb_A	76	Crystal Structure Of Ubiquitin P37aP38A Length = 76		8e-06
3h7s_B	76	Crystal Structures Of K63-Linked Di- And Tri-Ubiqui		1e-05
3n3k_B	85	The Catalytic Domain Of Usp8 In Complex With A Usp8		2e-05
3dbh_I	88	Structural Dissection Of A Gating Mechanism Prevent		2e-05
1ud7_A	76	Solution Structure Of The Designed Hydrophobic Core		2e-05
3dbl_I	88	Structural Dissection Of A Gating Mechanism Prevent		2e-05
2nvu_I	81	Structure Of Appbp1-Uba3~nedd8-Nedd8-Mgatp-Ubc12(C1		3e-05
4f8c_B	88	Structure Of The Cif:nedd8 Complex - Yersinia Pseud		3e-05
2gbk_A	83	Crystal Structure Of The 9-10 Moad Insertion Mutant		3e-05
2gbj_A	84	Crystal Structure Of The 9-10 8 Glycine Insertion M		3e-05
1ndd_B	76	Structure Of Nedd8 Length = 76		4e-05
3gzn_I	82	Structure Of Nedd8-Activating Enzyme In Complex Wit		4e-05
2bkr_B	77	Nedd8 Nedp1 Complex Length = 77		4e-05
4hcp_B	78	Crystal Structure Of Burkholderia Pseudomallei Effe		4e-05
1uel_A	95	Solution Structure Of Ubiquitin-Like Domain Of Hhr2		5e-05
2gbr_A	81	Crystal Structure Of The 35-36 Moad Insertion Mutan		5e-05
1c3t_A	76	Rotamer Strain As A Determinant Of Protein Structur		5e-05
4ii3_B	96	Crystal Structure Of S. Pombe Ubiquitin Activating		5e-05
4hcn_B	98	Crystal Structure Of Burkholderia Pseudomallei Effe		6e-05
4ii2_B	83	Crystal Structure Of Ubiquitin Activating Enzyme 1		6e-05
4gsw_A	80	Crystal Structure Of Ubiquitin From Entamoeba Histo		7e-05
3u5e_m	128	The Structure Of The Eukaryotic Ribosome At 3.0 A R		7e-05
1otr_B	76	Solution Structure Of A Cue-Ubiquitin Complex Lengt		7e-05
3u5g_f	152	The Structure Of The Eukaryotic Ribosome At 3.0 A R		7e-05
3u5c_f	152	The Structure Of The Eukaryotic Ribosome At 3.0 A R		8e-05
3olm_D	79	Structure And Function Of A Ubiquitin Binding Site		8e-05
3l0w_B	169	Structure Of Split Monoubiquitinated Pcna With Ubiq		8e-05
1zw7_A	82	Elimination Of The C-Cap In Ubiquitin Structure, Dy		9e-05
3zf7_s	128	High-resolution Cryo-electron Microscopy Structure		1e-04
2gbm_A	84	Crystal Structure Of The 35-36 8 Glycine Insertion		1e-04
4hk2_A	78	U7ub25.2540 Length = 78		2e-04
1p1a_A	85	Nmr Structure Of Ubiquitin-Like Domain Of Hhr23b Le		2e-04
2jwz_A	76	Mutations In The Hydrophobic Core Of Ubiquitin Diff		2e-04
4hjk_A	77	U7ub7 Disulfide Variant Length = 77		2e-04
2jvc_A	82	Nmr Solution Structure Of Ubiquitin Like Protein Le		2e-04
1gjz_A	53	Solution Structure Of A Dimeric N-Terminal Fragment		2e-04
3dqv_A	81	Structural Insights Into Nedd8 Activation Of Cullin		3e-04
1sif_A	88	Crystal Structure Of A Multiple Hydrophobic Core Mu		4e-04

>pdb|2I1A|A Chain A, A Retroviral Protease-Like Domain In The Eukaryotic Protein Ddi1 Length = 148

Iteration: 1
 Score =  148 bits (374), Expect = 4e-36,   Method: Compositional matrix adjust.
 Identities = 71/151 (47%), Positives = 101/151 (66%), Gaps = 3/151 (1%)
Query: 171 IRQKGIDENWAAALEHNPEAFARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCG 230
           ++Q+ IDE    A+E+ PE F +V MLY+++E+N  P+KAFVD+GAQ+TI+S   A++ G
Sbjct: 1   MKQQAIDEQLRNAIEYTPEMFTQVPMLYINIEINNYPVKAFVDTGAQTTIMSTRLAKKTG 60
Query: 231 XXXXXXXXYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLDMLRK 290
                   + G A GVG  +I+GRIH A +KI   + PCSF VLD+ +++ L GLDML++
Sbjct: 61  LSRMIDKRFIGEARGVGTGKIIGRIHQAQVKIETQYIPCSFTVLDT-DIDVLIGLDMLKR 119
Query: 291 HQCIIDLKENVLRVGGGEVSVPFLQEKDIPS 321
           H   +DLKENVLR+   EV   FL E +IP 
Sbjct: 120 HLACVDLKENVLRI--AEVETSFLSEAEIPK 148

>pdb|3S8I|A Chain A, The Retroviral-Like Protease (Rvp) Domain Of Human Ddi1 Length = 148

Iteration: 1
 Score =  142 bits (358), Expect = 3e-34,   Method: Compositional matrix adjust.
 Identities = 68/133 (51%), Positives = 88/133 (66%)
Query: 188 PEAFARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGXXXXXXXXYRGVAHGVG 247
           P    +V MLY++ +VNG PLKAFVDSGAQ TI+S++CAERC         + GVA GVG
Sbjct: 16  PRGSGQVTMLYINCKVNGHPLKAFVDSGAQMTIMSQACAERCNIMRLVDRRWAGVAKGVG 75
Query: 248 QSEILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRVGGG 307
              I+GR+H+A I+I   F  CSF +L+   M+ L GLDMLR+HQC IDLK+NVL +G  
Sbjct: 76  TQRIIGRVHLAQIQIEGDFLQCSFSILEDQPMDMLLGLDMLRRHQCSIDLKKNVLVIGTT 135
Query: 308 EVSVPFLQEKDIP 320
                FL E ++P
Sbjct: 136 GTQTYFLPEGELP 148

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

Iteration: 1
 Score = 52.8 bits (125), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 24/70 (34%), Positives = 46/70 (65%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+P +T+ENVKA ++ +  +P QQQ+L++ G+++ +   LS   
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPQQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 61 IQKESTLHLV 70

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

Iteration: 1
 Score = 52.0 bits (123), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 24/70 (34%), Positives = 45/70 (64%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ GR++ +   LS   
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGRQLEDGRTLSDYN 60
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 61 IQKESTLHLV 70

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

Iteration: 1
 Score = 52.0 bits (123), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 24/70 (34%), Positives = 45/70 (64%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ GR++ +   LS   
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGRQLEDGRTLSDYN 60
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 61 IQRESTLHLV 70

>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 = 51.6 bits (122), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 23/70 (32%), Positives = 46/70 (65%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          ++I V T   + I+L+V+P +T+ENVKA ++ + Q+P  QQ+L++ G+++ +   LS   
Sbjct: 1  LQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEQIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 61 IQKESTLHLV 70

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

Iteration: 1
 Score = 51.6 bits (122), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 23/70 (32%), Positives = 45/70 (64%)
Query: 1   MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
           M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 36  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 95
Query: 61  VKDEDLVMMV 70
           ++ E  + +V
Sbjct: 96  IQKESTLHLV 105

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

Iteration: 1
 Score = 51.2 bits (121), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 23/70 (32%), Positives = 45/70 (64%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 6  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 65
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 66 IQKESTLHLV 75

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

Iteration: 1
 Score = 50.8 bits (120), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 23/70 (32%), Positives = 45/70 (64%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 5  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 64
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 65 IQKESTLHLV 74

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

Iteration: 1
 Score = 50.8 bits (120), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 23/70 (32%), Positives = 45/70 (64%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 4  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 63
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 64 IQKESTLHLV 73

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

Iteration: 1
 Score = 50.8 bits (120), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 23/70 (32%), Positives = 45/70 (64%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 9  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSEYN 68
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 69 IQKESTLHLV 78

>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 = 50.8 bits (120), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 23/70 (32%), Positives = 45/70 (64%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 2  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 61
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 62 IQKESTLHLV 71

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

Iteration: 1
 Score = 50.8 bits (120), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 23/70 (32%), Positives = 45/70 (64%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 4  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 63
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 64 IQKESTLHLV 73

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

Iteration: 1
 Score = 50.8 bits (120), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 23/70 (32%), Positives = 45/70 (64%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 61 IQKESTLHLV 70

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

Iteration: 1
 Score = 50.8 bits (120), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 23/70 (32%), Positives = 45/70 (64%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 3  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 62
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 63 IQKESTLHLV 72

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

Iteration: 1
 Score = 50.8 bits (120), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 23/70 (32%), Positives = 45/70 (64%)
Query: 1   MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
           M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 234 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 293
Query: 61  VKDEDLVMMV 70
           ++ E  + +V
Sbjct: 294 IQKESTLHLV 303

>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 = 50.8 bits (120), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 23/70 (32%), Positives = 45/70 (64%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 61 IQKESTLHLV 70

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

Iteration: 1
 Score = 50.4 bits (119), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 23/70 (32%), Positives = 45/70 (64%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 4  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 63
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 64 IQRESTLHLV 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 = 50.4 bits (119), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 23/70 (32%), Positives = 45/70 (64%)
Query: 1   MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
           M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 36  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 95
Query: 61  VKDEDLVMMV 70
           ++ E  + +V
Sbjct: 96  IQKESTLHLV 105

>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 = 50.4 bits (119), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 23/70 (32%), Positives = 45/70 (64%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 61 IQKESTLHLV 70

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

Iteration: 1
 Score = 50.4 bits (119), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 23/70 (32%), Positives = 45/70 (64%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 61 IQKESTLHLV 70

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

Iteration: 1
 Score = 50.4 bits (119), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 23/70 (32%), Positives = 45/70 (64%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 61 IQKESTLHLV 70

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

Iteration: 1
 Score = 50.4 bits (119), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 23/70 (32%), Positives = 45/70 (64%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 61 IQKESTLHLV 70

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

Iteration: 1
 Score = 50.4 bits (119), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 23/70 (32%), Positives = 45/70 (64%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 2  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 61
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 62 IQKESTLHLV 71

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

Iteration: 1
 Score = 50.4 bits (119), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 23/70 (32%), Positives = 45/70 (64%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 61 IQRESTLHLV 70

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

Iteration: 1
 Score = 50.1 bits (118), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 23/70 (32%), Positives = 45/70 (64%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 61 IQKESTLHLV 70

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

Iteration: 1
 Score = 50.1 bits (118), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 23/70 (32%), Positives = 45/70 (64%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 61 IQKESTLHLV 70

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

Iteration: 1
 Score = 50.1 bits (118), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 23/70 (32%), Positives = 45/70 (64%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 61 IQKESTLHLV 70

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

Iteration: 1
 Score = 49.7 bits (117), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 22/70 (31%), Positives = 45/70 (64%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          ++I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 1  LQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEXIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 61 IQKESTLHLV 70

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

Iteration: 1
 Score = 49.3 bits (116), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 22/70 (31%), Positives = 45/70 (64%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          ++I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 1  LQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 61 IQKESTLHLV 70

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

Iteration: 1
 Score = 49.3 bits (116), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 23/70 (32%), Positives = 44/70 (62%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G ++ +   LS   
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGXQLEDGRTLSDYN 60
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 61 IQRESTLHLV 70

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

Iteration: 1
 Score = 49.3 bits (116), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 23/70 (32%), Positives = 45/70 (64%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 21 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 80
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 81 IQKESTLHLV 90

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

Iteration: 1
 Score = 48.9 bits (115), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 23/70 (32%), Positives = 45/70 (64%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 3  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 62
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 63 IQKESTLHLV 72

>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 = 48.9 bits (115), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 22/69 (31%), Positives = 44/69 (63%)
Query: 2   RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGV 61
           +I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   +
Sbjct: 107 QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNI 166
Query: 62  KDEDLVMMV 70
           + E  + +V
Sbjct: 167 QKESTLHLV 175

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

Iteration: 1
 Score = 48.9 bits (115), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 23/70 (32%), Positives = 43/70 (61%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G++  +   LS   
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQXEDGRTLSDYN 60
Query: 61 VKDEDLVMMV 70
          ++ E    +V
Sbjct: 61 IQKESTXHLV 70

>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 = 48.9 bits (115), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 23/70 (32%), Positives = 44/70 (62%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+LDV+  +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 1  MQIFVKTLTGKTITLDVEASDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 61 IQKESTLHLV 70

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

Iteration: 1
 Score = 48.9 bits (115), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 23/70 (32%), Positives = 45/70 (64%)
Query: 1   MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
           M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 77  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 136
Query: 61  VKDEDLVMMV 70
           ++ E  + +V
Sbjct: 137 IQKESTLHLV 146

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

Iteration: 1
 Score = 48.9 bits (115), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 23/70 (32%), Positives = 45/70 (64%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 61 IQKESTLHLV 70

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

Iteration: 1
 Score = 48.5 bits (114), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 23/70 (32%), Positives = 43/70 (61%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+LL+  +++ +   LS   
Sbjct: 3  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQKLLFARKQLEDGRTLSDYN 62
Query: 61 VKDEDLVMMV 70
          +  E  + +V
Sbjct: 63 IHKESFLYLV 72

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

Iteration: 1
 Score = 48.5 bits (114), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 23/70 (32%), Positives = 45/70 (64%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 61 IQKESTLHLV 70

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

Iteration: 1
 Score = 48.5 bits (114), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 22/69 (31%), Positives = 44/69 (63%)
Query: 2  RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGV 61
          +I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   +
Sbjct: 2  QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNI 61
Query: 62 KDEDLVMMV 70
          + E  + +V
Sbjct: 62 QKESTLHLV 70

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

Iteration: 1
 Score = 48.1 bits (113), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 23/70 (32%), Positives = 44/70 (62%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T     I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 18 MQIFVNTLTGTHITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 77
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 78 IQKESTLHLV 87

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

Iteration: 1
 Score = 48.1 bits (113), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 23/70 (32%), Positives = 45/70 (64%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 18 MQIFVNTLSGKHITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 77
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 78 IQKESTLHLV 87

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

Iteration: 1
 Score = 48.1 bits (113), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 21/62 (33%), Positives = 41/62 (66%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 4  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 63
Query: 61 VK 62
          ++
Sbjct: 64 IQ 65

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

Iteration: 1
 Score = 48.1 bits (113), Expect = 8e-06,   Method: Composition-based stats.
 Identities = 22/70 (31%), Positives = 44/70 (62%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+P +T+ENVKA ++ +  +   QQ+L++ G+++ +   LS   
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIAADQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 61 IQKESTLHLV 70

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

Iteration: 1
 Score = 47.0 bits (110), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 22/57 (38%), Positives = 38/57 (66%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLS 57
          MRI V T   + I L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS
Sbjct: 4  MRIVVKTLMGRTIILEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLS 60

>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 = 47.0 bits (110), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 23/58 (39%), Positives = 39/58 (67%), Gaps = 1/58 (1%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSA 58
          M I V T   + I +D++P + VE +K  +E +  +P QQQ+L+Y+G++MN+ EK +A
Sbjct: 13 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMND-EKTAA 69

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

Iteration: 1
 Score = 47.0 bits (110), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 44/70 (62%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M++ + T   + ++++V+P +TVEN KA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 1  MQVFLKTLTGKTVTIEVEPSDTVENFKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 61 IQKESTIHLV 70

>pdb|3DBL|I Chain I, Structural Dissection Of A Gating Mechanism Preventing Misactivation Of Ubiquitin By Nedd8's E1 (Appbp1- Uba3arg190wt-Nedd8ala72gln) Length = 88

Iteration: 1
 Score = 46.6 bits (109), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 23/58 (39%), Positives = 39/58 (67%), Gaps = 1/58 (1%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSA 58
          M I V T   + I +D++P + VE +K  +E +  +P QQQ+L+Y+G++MN+ EK +A
Sbjct: 13 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMND-EKTAA 69

>pdb|2NVU|I Chain I, Structure Of Appbp1-Uba3~nedd8-Nedd8-Mgatp-Ubc12(C111a), A Trapped Ubiquitin-Like Protein Activation Complex Length = 81

Iteration: 1
 Score = 46.6 bits (109), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 23/58 (39%), Positives = 39/58 (67%), Gaps = 1/58 (1%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSA 58
          M I V T   + I +D++P + VE +K  +E +  +P QQQ+L+Y+G++MN+ EK +A
Sbjct: 6  MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMND-EKTAA 62

>pdb|4F8C|B Chain B, Structure Of The Cif:nedd8 Complex - Yersinia Pseudotuberculosis Cycle Inhibiting Factor In Complex With Human Nedd8 Length = 88

Iteration: 1
 Score = 46.2 bits (108), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 23/58 (39%), Positives = 39/58 (67%), Gaps = 1/58 (1%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSA 58
          M I V T   + I +D++P + VE +K  +E +  +P QQQ+L+Y+G++MN+ EK +A
Sbjct: 1  MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMND-EKTAA 57

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

Iteration: 1
 Score = 46.2 bits (108), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/60 (31%), Positives = 40/60 (66%)
Query: 11 QIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMV 70
          + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   ++ E  + +V
Sbjct: 18 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 77

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

Iteration: 1
 Score = 46.2 bits (108), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/60 (31%), Positives = 40/60 (66%)
Query: 11 QIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMV 70
          + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   ++ E  + +V
Sbjct: 19 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 78

>pdb|1NDD|B Chain B, Structure Of Nedd8 Length = 76

Iteration: 1
 Score = 45.8 bits (107), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 23/58 (39%), Positives = 39/58 (67%), Gaps = 1/58 (1%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSA 58
          M I V T   + I +D++P + VE +K  +E +  +P QQQ+L+Y+G++MN+ EK +A
Sbjct: 1  MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMND-EKTAA 57

>pdb|3GZN|I Chain I, Structure Of Nedd8-Activating Enzyme In Complex With Nedd8 And Mln4924 Length = 82

Iteration: 1
 Score = 45.8 bits (107), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 23/58 (39%), Positives = 39/58 (67%), Gaps = 1/58 (1%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSA 58
          M I V T   + I +D++P + VE +K  +E +  +P QQQ+L+Y+G++MN+ EK +A
Sbjct: 7  MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMND-EKTAA 63

>pdb|2BKR|B Chain B, Nedd8 Nedp1 Complex Length = 77

Iteration: 1
 Score = 45.8 bits (107), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 23/58 (39%), Positives = 39/58 (67%), Gaps = 1/58 (1%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSA 58
          M I V T   + I +D++P + VE +K  +E +  +P QQQ+L+Y+G++MN+ EK +A
Sbjct: 2  MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMND-EKTAA 58

>pdb|4HCP|B Chain B, Crystal Structure Of Burkholderia Pseudomallei Effector Protein Chbp In Complex With Nedd8 Length = 78

Iteration: 1
 Score = 45.8 bits (107), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 23/58 (39%), Positives = 39/58 (67%), Gaps = 1/58 (1%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSA 58
          M I V T   + I +D++P + VE +K  +E +  +P QQQ+L+Y+G++MN+ EK +A
Sbjct: 3  MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMND-EKTAA 59

>pdb|1UEL|A Chain A, Solution Structure Of Ubiquitin-Like Domain Of Hhr23b Complexed With Ubiquitin-Interacting Motif Of Proteasome Subunit S5a Length = 95

Iteration: 1
 Score = 45.4 bits (106), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 26/88 (29%), Positives = 49/88 (55%), Gaps = 6/88 (6%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVET---QVPLQQQQLLYNGREMNNAEKLS 57
          M++T+ T  +Q   +D+DP ETV+ +K  +E E      P+  Q+L+Y G+ +N+   L 
Sbjct: 1  MQVTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALK 60
Query: 58 ALGVKDEDLVMMV---SNAASSPATNNL 82
             + +++ V+++     A S+PA   L
Sbjct: 61 EYKIDEKNFVVVMVTKPKAVSTPAPATL 88

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

Iteration: 1
 Score = 45.4 bits (106), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 23/75 (30%), Positives = 45/75 (60%), Gaps = 5/75 (6%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVET-----QVPLQQQQLLYNGREMNNAEK 55
          M+I V T   + I+L+V+P +T+ENVKA ++ +       +P  QQ+L++ G+++ +   
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGRWALAIPPDQQRLIFAGKQLEDGRT 60
Query: 56 LSALGVKDEDLVMMV 70
          LS   ++ E  + +V
Sbjct: 61 LSDYNIQKESTLHLV 75

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

Iteration: 1
 Score = 45.4 bits (106), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 45/70 (64%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M++ V T   + ++++++P +TVEN+KA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 1  MQLFVKTLTGKTLTVELEPSDTVENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 61 LQKESTIHLV 70

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

Iteration: 1
 Score = 45.4 bits (106), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 20/70 (28%), Positives = 44/70 (62%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+  +T++NVK+ ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 21 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 80
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 81 IQKESTLHLV 90

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

Iteration: 1
 Score = 45.4 bits (106), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 20/70 (28%), Positives = 44/70 (62%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+  +T++NVK+ ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 23 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 82
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 83 IQKESTLHLV 92

>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 = 45.1 bits (105), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 20/70 (28%), Positives = 43/70 (61%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+  +T++NV+A ++    +P  QQ+L++ GR++ +   L+   
Sbjct: 8  MQIFVRTLTGRTITLEVESSDTIDNVRARIQDREGIPPDQQRLIFAGRQLEDGRTLADYN 67
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 68 IQRESTLHLV 77

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

Iteration: 1
 Score = 45.1 bits (105), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 45/70 (64%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+P+++++ +KA ++ +  +P  QQ+L++ G+++   + LS   
Sbjct: 4  MQIFVKTLTGKTITLEVEPNDSIDAIKAKIQEKEGIPPDQQRLIFAGKQLEEGKTLSDYN 63
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 64 IQKESTLHLV 73

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

Iteration: 1
 Score = 45.1 bits (105), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 26/97 (26%), Positives = 53/97 (54%), Gaps = 5/97 (5%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+  +T++NVK+ ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 1  MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 VKDED---LVMMVSNAASSPATNNLS--FNPDGSAVN 92
          ++ E    LV+ +      P+   L+  +N D S   
Sbjct: 61 IQKESTLHLVLRLRGGIIEPSLKALASKYNCDKSVCR 97

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

Iteration: 1
 Score = 45.1 bits (105), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 20/70 (28%), Positives = 44/70 (62%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+  +T++NVK+ ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 1  MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 61 IQKESTLHLV 70

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

Iteration: 1
 Score = 45.1 bits (105), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 20/70 (28%), Positives = 44/70 (62%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+  +T++NVK+ ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 1  MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 61 IQKESTLHLV 70

>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 = 44.7 bits (104), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 20/70 (28%), Positives = 44/70 (62%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+  +T++NVK+ ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 1  MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 61 IQKESTLHLV 70

>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 = 44.7 bits (104), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 20/70 (28%), Positives = 44/70 (62%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+  +T++NVK+ ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 4  MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 63
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 64 IQKESTLHLV 73

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

Iteration: 1
 Score = 44.7 bits (104), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 20/70 (28%), Positives = 44/70 (62%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+  +T++NVK+ ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 1  MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 61 IQKESTLHLV 70

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

Iteration: 1
 Score = 44.7 bits (104), Expect = 9e-05,   Method: Composition-based stats.
 Identities = 20/70 (28%), Positives = 42/70 (60%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T     I+L+V+  +T++NVK+ ++    +P  QQ+L++ G+++ +   LS   
Sbjct: 1  MQIFVKTLTGATITLEVESSDTIDNVKSKIQAAPGIPPDQQELIFAGKQLEDGRTLSDYN 60
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 61 IQKESTLHLV 70

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

Iteration: 1
 Score = 44.7 bits (104), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 21/70 (30%), Positives = 43/70 (61%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+  +T+ENVKA ++ +  +P  QQ+L++ G+++     L+   
Sbjct: 1  MQIFVKTLTGKTIALEVEASDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEEGRTLADYN 60
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 61 IQKESTLHLV 70

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

Iteration: 1
 Score = 44.3 bits (103), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 23/78 (29%), Positives = 44/78 (56%), Gaps = 8/78 (10%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLE--------VETQVPLQQQQLLYNGREMNN 52
          M+I V T   + I+L+V+P +T+ENVKA ++            +P  QQ+L++ G+++ +
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGGGGGGGGGIPPDQQRLIFAGKQLED 60
Query: 53 AEKLSALGVKDEDLVMMV 70
             LS   ++ E  + +V
Sbjct: 61 GRTLSDYNIQKESTLHLV 78

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

Iteration: 1
 Score = 43.9 bits (102), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 20/64 (31%), Positives = 38/64 (59%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V     +  +L+V+P +T+ENVKA ++ +  +P  QQ L++ G+ + +   LS   
Sbjct: 3  MQIFVKFRTGKTYTLEVEPSDTIENVKAKIQDKLGIPPDQQWLIFAGKRLEDGRTLSDYN 62
Query: 61 VKDE 64
          ++ E
Sbjct: 63 IQKE 66

>pdb|1P1A|A Chain A, Nmr Structure Of Ubiquitin-Like Domain Of Hhr23b Length = 85

Iteration: 1
 Score = 43.5 bits (101), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 22/82 (26%), Positives = 46/82 (56%), Gaps = 3/82 (3%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVET---QVPLQQQQLLYNGREMNNAEKLS 57
          M++T+ T  +Q   +D+DP ETV+ +K  +E E      P+  Q+L+Y G+ +N+   L 
Sbjct: 4  MQVTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALK 63
Query: 58 ALGVKDEDLVMMVSNAASSPAT 79
             + +++ V+++     + +T
Sbjct: 64 EYKIDEKNFVVVMVTKPKAVST 85

>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 = 2e-04,   Method: Composition-based stats.
 Identities = 20/70 (28%), Positives = 43/70 (61%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+  +T++NVK+ ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 1  MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 61 VKDEDLVMMV 70
          ++ E  +  V
Sbjct: 61 IQKESTLHSV 70

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

Iteration: 1
 Score = 43.5 bits (101), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 21/70 (30%), Positives = 41/70 (58%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V     +  +L+V+P +T+ENVKA ++ +   P  QQ+L++ G+++ +   LS   
Sbjct: 2  MQIFVKCLTGKTNTLEVEPSDTIENVKAKIQDKIGYPPDQQRLIFAGKQLEDGRTLSDYN 61
Query: 61 VKDEDLVMMV 70
          ++ E  +  V
Sbjct: 62 IQKESTLHCV 71

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

Iteration: 1
 Score = 43.5 bits (101), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 22/70 (31%), Positives = 42/70 (60%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I++DVD  +TV  VKA +  +  +P  QQ+L++ G+++ ++  +S   
Sbjct: 6  MQIFVKTLTGKTITIDVDHADTVGAVKAKIYDKEGIPPDQQRLIFGGKQLEDSNAMSDYN 65
Query: 61 VKDEDLVMMV 70
          V+ E  + +V
Sbjct: 66 VQKESTLHLV 75

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

Iteration: 1
 Score = 43.1 bits (100), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 19/50 (38%), Positives = 36/50 (72%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREM 50
          M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++
Sbjct: 3  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL 52

>pdb|3DQV|A Chain A, Structural Insights Into Nedd8 Activation Of Cullin-Ring Ligases: Conformational Control Of Conjugation Length = 81

Iteration: 1
 Score = 42.7 bits (99), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 20/58 (34%), Positives = 39/58 (67%), Gaps = 3/58 (5%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSA 58
          +++  +T  E  I +D++P + VE +K  +E +  +P QQQ+L+Y+G++ N+ EK +A
Sbjct: 8  IKVKTLTGKE--IEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQXND-EKTAA 62

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

Iteration: 1
 Score = 42.7 bits (99), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 16/70 (22%), Positives = 44/70 (62%)
Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          +++ + T   +  +++++P +T+EN+KA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 10 LQLFIKTLTGKTFTVEMEPSDTIENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 69
Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 70 IQKESTLHLV 79

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	380
2i1a_A	148	DNA damage-inducible protein DDI1; acid protease f	5e-58
3s8i_A	148	Protein DDI1 homolog 1; protease, structural genom	7e-53
1v5o_A	102	1700011N24RIK protein; hypothetical protein, ubiqu	3e-21
3m62_B	106	UV excision repair protein RAD23; armadillo-like r	3e-18
1uel_A	95	HHR23B, UV excision repair protein RAD23 homolog B	3e-16
2kd0_A	85	LRR repeats and ubiquitin-like domain-containing p	5e-15
2wyq_A	85	HHR23A, UV excision repair protein RAD23 homolog A	9e-15
4dwf_A	90	HLA-B-associated transcript 3; ubiquitin-like doma	1e-14
2kk8_A	84	Uncharacterized protein AT4G05270; solution arabid	2e-14
3u5c_F	225	RP14, S2, YS8, 40S ribosomal protein S5; translati	3e-14
1wh3_A	87	59 kDa 2'-5'-oligoadenylate synthetase like protei	4e-14
1wgg_A	96	Ubiquitin carboxyl-terminal hydrolase 14; ubiquiti	7e-14
2kan_A	94	Uncharacterized protein AR3433A; ubiquitin fold, a	8e-14
2dzi_A	81	Ubiquitin-like protein 4A; GDX, structural genomic	9e-14
1wx8_A	96	Riken cDNA 4931431F19; ubiquitin-like domain, ubiq	1e-13
1ndd_A	76	NEDD8, protein (ubiquitin-like protein NEDD8); pro	1e-13
4fbj_B	88	NEDD8; effector-HOST target complex, glutamine dea	2e-13
1ttn_A	106	DC-UBP, dendritic cell-derived ubiquitin-like prot	4e-13
3n3k_B	85	Ubiquitin; hydrolase, protease, thiol protease, DU	4e-13
1wx7_A	106	Ubiquilin 3; ubiquitin-like domain, structural gen	5e-13
3mtn_B	85	UBA80, ubcep1, ubiquitin variant UBV.21.4; ubiquit	6e-13
3dbh_I	88	NEDD8; cell cycle, activating enzyme, apoptosis, m	7e-13
4eew_A	88	Large proline-rich protein BAG6; ubiquitin-like fo	7e-13
2klc_A	101	Ubiquilin-1; ubiquitin-like, structural genomics,	7e-13
3b1l_X	76	E3 ubiquitin-protein ligase parkin; proteasome, AL	8e-13
3a9j_A	76	Ubiquitin; protein complex, cytoplasm, isopeptide	3e-12
2bwf_A	77	Ubiquitin-like protein DSK2; signaling protein, UB	3e-12
2kdi_A	114	Ubiquitin, vacuolar protein sorting-associated pro	3e-12
3u5e_m	128	60S ribosomal protein L40; translation, ribosome,	4e-12
1yqb_A	100	Ubiquilin 3; structural genomics consortium, ubiqu	4e-12
3m63_B	101	Ubiquitin domain-containing protein DSK2; armadill	4e-12
1sif_A	88	Ubiquitin; hydrophobic mutants, folding, stability	5e-12
1yx5_B	98	Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo s	5e-12
2xzm_9	189	RPS31E; ribosome, translation; 3.93A {Tetrahymena	6e-12
1wy8_A	89	NP95-like ring finger protein, isoform A; ubiquiti	7e-12
2hj8_A	88	Interferon-induced 17 kDa protein; HR2873B, human	8e-12
3k9o_B	96	Ubiquitin, UBB+1; E2-25K, complex structure, ATP-b	8e-12
2ojr_A	111	Ubiquitin; lanthide-binding TAG, terbium, TB, SAD	9e-12
1j8c_A	125	Ubiquitin-like protein hplic-2; ubiquitin-like dom	1e-11
1v86_A	95	DNA segment, CHR 7, wayne state university 128, ex	1e-11
3phx_B	79	Ubiquitin-like protein ISG15; OTU domain, DE-ubiqu	1e-11
2faz_A	78	Ubiquitin-like containing PHD and ring finger DOM	4e-11
1v5t_A	90	8430435I17RIK protein; hypothetical protein, ubiqu	1e-10
1oqy_A	368	HHR23A, UV excision repair protein RAD23 homolog A	2e-10
3l0w_B	169	Monoubiquitinated proliferating cell nuclear antig	2e-10
2l7r_A	93	Ubiquitin-like protein FUBI; structural genomics,	3e-10
3rt3_B	159	Ubiquitin-like protein ISG15; ubiquitin-like domai	7e-10
3rt3_B	159	Ubiquitin-like protein ISG15; ubiquitin-like domai	1e-09
3b08_A	152	Polyubiquitin-C, ubiquitin; protein complex, signa	8e-10
3b08_A	152	Polyubiquitin-C, ubiquitin; protein complex, signa	3e-07
1we7_A	115	SF3A1 protein; structural genomics, ubiquitin-like	1e-09
3u30_A	172	Ubiquitin, linear DI-ubiquitin; immune system; 2.4	3e-09
3u30_A	172	Ubiquitin, linear DI-ubiquitin; immune system; 2.4	1e-07
1wxv_A	92	BAG-family molecular chaperone regulator-1; struct	7e-09
3q3f_A	189	Ribonuclease/ubiquitin chimeric protein; domain SW	2e-08
1we6_A	111	Splicing factor, putative; structural genomics, ub	2e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-06
2fnj_B	118	Transcription elongation factor B polypeptide 2; b	3e-07
1wgd_A	93	Homocysteine-responsive endoplasmic reticulum- res	4e-07
2dzm_A	100	FAS-associated factor 1; ubiquitin-like domain, HF	5e-06
4dbg_A	105	Ranbp-type and C3HC4-type zinc finger-containing;	7e-06
1v2y_A	105	3300001G02RIK protein; hypothetical protein, ubiqu	2e-05
3shq_A	320	UBLCP1; phosphatase, hydrolase; 1.96A {Drosophila	4e-05
1x1m_A	107	Ubiquitin-like protein SB132; structural genomics,	7e-05
1t0y_A	122	Tubulin folding cofactor B; ubiquitin-like, cytosk	7e-05

>2i1a_A DNA damage-inducible protein DDI1; acid protease fold, dimer, retroviral protease domain, protein turnover; HET: DNA; 2.30A {Saccharomyces cerevisiae} Length = 148

 Score =  184 bits (469), Expect = 5e-58
 Identities = 74/150 (49%), Positives = 105/150 (70%), Gaps = 3/150 (2%)

Query: 171 IRQKGIDENWAAALEHNPEAFARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCG 230
           ++Q+ IDE    A+E+ PE F +V MLY+++E+N  P+KAFVD+GAQ+TI+S   A++ G
Sbjct: 1   MKQQAIDEQLRNAIEYTPEMFTQVPMLYINIEINNYPVKAFVDTGAQTTIMSTRLAKKTG 60

Query: 231 LLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLDMLRK 290
           L R++D R+ G A GVG  +I+GRIH A +KI   + PCSF VLD+  ++ L GLDML++
Sbjct: 61  LSRMIDKRFIGEARGVGTGKIIGRIHQAQVKIETQYIPCSFTVLDTD-IDVLIGLDMLKR 119

Query: 291 HQCIIDLKENVLRVGGGEVSVPFLQEKDIP 320
           H   +DLKENVLR+    V   FL E +IP
Sbjct: 120 HLACVDLKENVLRIAE--VETSFLSEAEIP 147

>3s8i_A Protein DDI1 homolog 1; protease, structural genomics, structural genomics consortiu retropepsin-like domain, protein turnover, hydrolase; 1.70A {Homo sapiens} Length = 148

 Score =  171 bits (435), Expect = 7e-53
 Identities = 72/145 (49%), Positives = 97/145 (66%)

Query: 176 IDENWAAALEHNPEAFARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLL 235
              +   +    P    +V MLY++ +VNG PLKAFVDSGAQ TI+S++CAERC ++RL+
Sbjct: 4   SHHHHHHSSGLVPRGSGQVTMLYINCKVNGHPLKAFVDSGAQMTIMSQACAERCNIMRLV 63

Query: 236 DDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQCII 295
           D R+ GVA GVG   I+GR+H+A I+I   F  CSF +L+   M+ L GLDMLR+HQC I
Sbjct: 64  DRRWAGVAKGVGTQRIIGRVHLAQIQIEGDFLQCSFSILEDQPMDMLLGLDMLRRHQCSI 123

Query: 296 DLKENVLRVGGGEVSVPFLQEKDIP 320
           DLK+NVL +G       FL E ++P
Sbjct: 124 DLKKNVLVIGTTGTQTYFLPEGELP 148

>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 = 86.6 bits (214), Expect = 3e-21
 Identities = 25/95 (26%), Positives = 45/95 (47%), Gaps = 5/95 (5%)

Query: 1   MRITVMTA----DEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEK- 55
           M ITV        E   SL V+P   + N + L E+E+ VP ++ Q++Y  + + +    
Sbjct: 8   MLITVYCVRRDLTEVTFSLQVNPDFELSNFRVLCELESGVPAEEAQIVYMEQLLTDDHCS 67

Query: 56  LSALGVKDEDLVMMVSNAASSPATNNLSFNPDGSA 90
           L + G+KD D+V+++        T   + +   S 
Sbjct: 68  LGSYGLKDGDMVVLLQKDNVGLRTPGRTPSGPSSG 102

>3m62_B UV excision repair protein RAD23; armadillo-like repeats, UBL conjugation pathway, DNA damage, nucleus, phosphoprotein; HET: 1PE; 2.40A {Saccharomyces cerevisiae} Length = 106

 Score = 78.6 bits (194), Expect = 3e-18
 Identities = 25/103 (24%), Positives = 47/103 (45%), Gaps = 1/103 (0%)

Query: 1   MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
           + +T     ++ + LD++P  T+   K  L         Q +L+Y+G+ + +++ +S  G
Sbjct: 2   VSLTFKNFKKEKVPLDLEPSNTILETKTKLAQSISCEESQIKLIYSGKVLQDSKTVSECG 61

Query: 61  VKDED-LVMMVSNAASSPATNNLSFNPDGSAVNPAAFQQHIRN 102
           +KD D +V MVS   S+            S    AA  +H  +
Sbjct: 62  LKDGDQVVFMVSQKKSTKTKVTERDPNSSSVDKLAAALEHHHH 104

>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 = 72.7 bits (179), Expect = 3e-16
 Identities = 28/92 (30%), Positives = 52/92 (56%), Gaps = 6/92 (6%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVET---QVPLQQQQLLYNGREMNNAEKLS 57
          M++T+ T  +Q   +D+DP ETV+ +K  +E E      P+  Q+L+Y G+ +N+   L 
Sbjct: 1  MQVTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALK 60

Query: 58 ALGVKDED-LVMMVS--NAASSPATNNLSFNP 86
             + +++ +V+MV+   A S+PA   L  + 
Sbjct: 61 EYKIDEKNFVVVMVTKPKAVSTPAPATLEHHH 92

>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 = 68.9 bits (169), Expect = 5e-15
 Identities = 18/70 (25%), Positives = 36/70 (51%), Gaps = 1/70 (1%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          +++TV    + I  L V P  TV+++K+ L+  T V  + Q+L++ G+ +     L    
Sbjct: 13 IKLTVKFGGKSI-PLSVSPDCTVKDLKSQLQPITNVLPRGQKLIFKGKVLVETSTLKQSD 71

Query: 61 VKDEDLVMMV 70
          V     +M++
Sbjct: 72 VGSGAKLMLM 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 = 68.0 bits (167), Expect = 9e-15
 Identities = 19/75 (25%), Positives = 43/75 (57%), Gaps = 4/75 (5%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVE---TQVPLQQQQLLYNGREMNNAEKLS 57
          + IT+ T  +Q   + ++P ETV+ +K  +E E      P+  Q+L+Y G+ +++   + 
Sbjct: 6  VTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIR 65

Query: 58 ALGVKDED-LVMMVS 71
             + +++ +V+MV+
Sbjct: 66 DYRIDEKNFVVVMVT 80

>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 = 68.1 bits (167), Expect = 1e-14
 Identities = 17/83 (20%), Positives = 36/83 (43%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          + + V T D Q  +  V     V+  K  +     +P ++Q+L+Y GR + + +KL    
Sbjct: 6  LEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEYN 65

Query: 61 VKDEDLVMMVSNAASSPATNNLS 83
          V  + + ++      +   +  S
Sbjct: 66 VGGKVIHLVERAPPQTHLPSGAS 88

>2kk8_A Uncharacterized protein AT4G05270; solution arabidopsis thaliana, uncharacterized putative protein, NESG, structural genomics; NMR {Arabidopsis thaliana} Length = 84

 Score = 67.3 bits (165), Expect = 2e-14
 Identities = 15/73 (20%), Positives = 31/73 (42%), Gaps = 2/73 (2%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGRE-MNNAEKLSAL 59
          M+  V   +     L+VD  +T+  VK  +E    +P+ +Q L+ +G   +     +   
Sbjct: 11 MKFLVENLNGSSFELEVDYRDTLLVVKQKIERSQHIPVSKQTLIVDGIVILREDLTVEQC 70

Query: 60 GVKDED-LVMMVS 71
           +     + + VS
Sbjct: 71 QIVPTSDIQLEVS 83

>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 = 68.7 bits (168), Expect = 3e-14
 Identities = 10/70 (14%), Positives = 18/70 (25%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M  T    + Q     V+    V     + E   Q   + +       E    +  S + 
Sbjct: 1  MSDTEAPVEVQEDFEVVEEFTPVVLATPIPEEVQQAQTEIKLFNKWSFEEVEVKDASLVD 60

Query: 61 VKDEDLVMMV 70
                 + V
Sbjct: 61 YVQVRQPIFV 70

>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 = 66.3 bits (162), Expect = 4e-14
 Identities = 15/70 (21%), Positives = 37/70 (52%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          +++ V   D    +  ++P+  +  +K  +E +  +P +QQQL + G+ + +   L   G
Sbjct: 8  IQVFVKNPDGGSYAYAINPNSFILGLKQQIEDQQGLPKKQQQLEFQGQVLQDWLGLGIYG 67

Query: 61 VKDEDLVMMV 70
          ++D D +++ 
Sbjct: 68 IQDSDTLILS 77

>1wgg_A Ubiquitin carboxyl-terminal hydrolase 14; ubiquitin specific protease 14, USP14, ubiquitin-like fold, structural genomics; NMR {Mus musculus} SCOP: d.15.1.1 Length = 96

 Score = 66.0 bits (161), Expect = 7e-14
 Identities = 16/78 (20%), Positives = 36/78 (46%), Gaps = 1/78 (1%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
            +TV    E+   ++++  E     KA L   T V   +Q+++  G  + + +    + 
Sbjct: 8  YSVTVKWGKEKFEGVELNTDEPPMVFKAQLFALTGVQPARQKVMVKGGTLKD-DDWGNIK 66

Query: 61 VKDEDLVMMVSNAASSPA 78
          +K+   V+M+ +A + P 
Sbjct: 67 MKNGMTVLMMGSADALPE 84

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

 Score = 65.5 bits (160), Expect = 8e-14
 Identities = 18/78 (23%), Positives = 42/78 (53%), Gaps = 3/78 (3%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMN-NAEKLSAL 59
          + +TV    +Q  +++VD  ETV ++K  + +    P+++ QL Y+G E+  +   L+  
Sbjct: 16 IHVTVKFPSKQF-TVEVDRTETVSSLKDKIHIVENTPIKRMQLYYSGIELADDYRNLNEY 74

Query: 60 GVKDED-LVMMVSNAASS 76
          G+ +   +V+ + +   +
Sbjct: 75 GITEFSEIVVFLKSINRA 92

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

 Score = 65.0 bits (159), Expect = 9e-14
 Identities = 20/70 (28%), Positives = 38/70 (54%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M++TV     +  SL V   E V  +K L+  +  VP++QQ+LL+ G+ + + ++LS   
Sbjct: 8  MQLTVKALQGRECSLQVPEDELVSTLKQLVSEKLNVPVRQQRLLFKGKALADGKRLSDYS 67

Query: 61 VKDEDLVMMV 70
          +     + +V
Sbjct: 68 IGPNSKLNLV 77

>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 = 65.5 bits (160), Expect = 1e-13
 Identities = 15/79 (18%), Positives = 34/79 (43%), Gaps = 1/79 (1%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          +R++V T  +      +  +  V   K  +         +  L++ G+ + + + LS  G
Sbjct: 18 IRVSVKTPQDCH-EFFLAENSNVRRFKKQISKYLHCNADRLVLIFTGKILRDQDILSQRG 76

Query: 61 VKDEDLVMMVSNAASSPAT 79
          + D   V +V  + S P++
Sbjct: 77 ILDGSTVHVVVRSHSGPSS 95

>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 = 64.6 bits (158), Expect = 1e-13
 Identities = 21/70 (30%), Positives = 42/70 (60%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M I V T   + I +D++P + VE +K  +E +  +P QQQ+L+Y+G++MN+ +  +   
Sbjct: 1  MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYK 60

Query: 61 VKDEDLVMMV 70
          +    ++ +V
Sbjct: 61 ILGGSVLHLV 70

>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 = 64.3 bits (157), Expect = 2e-13
 Identities = 21/70 (30%), Positives = 42/70 (60%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M I V T   + I +D++P + VE +K  +E +  +P QQQ+L+Y+G++MN+ +  +   
Sbjct: 1  MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYK 60

Query: 61 VKDEDLVMMV 70
          +    ++ +V
Sbjct: 61 ILGGSVLHLV 70

>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 = 64.4 bits (157), Expect = 4e-13
 Identities = 14/83 (16%), Positives = 34/83 (40%), Gaps = 3/83 (3%)

Query: 1   MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
            ++ +  +  + + L V   +TV ++K  L     V    Q+  ++GR + +  K   L 
Sbjct: 24  CQLRLRLSTGKDLKLVVRSTDTVFHMKRRLHAAEGVEPGSQRWFFSGRPLTDKMKFEELK 83

Query: 61  VKDED---LVMMVSNAASSPATN 80
           +  +    +++       +P  N
Sbjct: 84  IPKDYVVQVIVSQPVQNPTPVEN 106

>3n3k_B Ubiquitin; hydrolase, protease, thiol protease, DUB, zinc ribbon, inhibitor, ubiqu acetylation, cytoplasm, isopeptide bond, nucleus; 2.60A {Homo sapiens} Length = 85

 Score = 63.5 bits (155), Expect = 4e-13
 Identities = 23/71 (32%), Positives = 44/71 (61%), Gaps = 1/71 (1%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          MRI V T   + I L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 4  MRIVVKTLMGRTIILEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 63

Query: 61 VKDED-LVMMV 70
          + +   L +++
Sbjct: 64 IHNHSALYLLL 74

>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 = 63.9 bits (156), Expect = 5e-13
 Identities = 17/90 (18%), Positives = 37/90 (41%), Gaps = 1/90 (1%)

Query: 1   MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
           +++TV T  ++     V    T++ +K  +    +    Q  L++ G+ + + + L+  G
Sbjct: 18  IKVTVKTPKDKE-DFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQCG 76

Query: 61  VKDEDLVMMVSNAASSPATNNLSFNPDGSA 90
           V+D   V +V         N    +   S 
Sbjct: 77  VRDGLTVHLVIKRQHRAMGNECPASGPSSG 106

>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 = 63.1 bits (154), Expect = 6e-13
 Identities = 21/70 (30%), Positives = 44/70 (62%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 4  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 63

Query: 61 VKDEDLVMMV 70
          ++    + ++
Sbjct: 64 IQKWSTLFLL 73

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

 Score = 62.8 bits (153), Expect = 7e-13
 Identities = 21/70 (30%), Positives = 42/70 (60%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M I V T   + I +D++P + VE +K  +E +  +P QQQ+L+Y+G++MN+ +  +   
Sbjct: 13 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYK 72

Query: 61 VKDEDLVMMV 70
          +    ++ +V
Sbjct: 73 ILGGSVLHLV 82

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

 Score = 62.7 bits (153), Expect = 7e-13
 Identities = 16/64 (25%), Positives = 30/64 (46%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          + + V T D Q  +  V     V+  K  +     +P ++Q+L+Y GR + + +KL    
Sbjct: 18 LEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEYN 77

Query: 61 VKDE 64
          V  +
Sbjct: 78 VGGK 81

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

 Score = 63.2 bits (154), Expect = 7e-13
 Identities = 18/77 (23%), Positives = 35/77 (45%), Gaps = 1/77 (1%)

Query: 1   MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
           M++TV T  E+     V  + +V+  K  +    +    Q  L++ G+ + + + LS  G
Sbjct: 26  MKVTVKTPKEKEE-FAVPENSSVQQFKEEISKRFKSHTDQLVLIFAGKILKDQDTLSQHG 84

Query: 61  VKDEDLVMMVSNAASSP 77
           + D   V +V    + P
Sbjct: 85  IHDGLTVHLVIKTQNRP 101

>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 = 62.3 bits (152), Expect = 8e-13
 Identities = 13/70 (18%), Positives = 34/70 (48%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M + V         ++VD   ++  +K ++  +  VP  Q ++++ G+E+ N   +    
Sbjct: 1  MIVFVRFNSSYGFPVEVDSDTSILQLKEVVAKQQGVPADQLRVIFAGKELPNHLTVQNCD 60

Query: 61 VKDEDLVMMV 70
          ++ + +V +V
Sbjct: 61 LEQQSIVHIV 70

>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 = 60.8 bits (148), Expect = 3e-12
 Identities = 23/71 (32%), Positives = 46/71 (64%), Gaps = 1/71 (1%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60

Query: 61 VKDED-LVMMV 70
          ++ E  L +++
Sbjct: 61 IQRESTLHLVL 71

>2bwf_A Ubiquitin-like protein DSK2; signaling protein, UBA, signaling proteins; 1.15A {Saccharomyces cerevisiae} SCOP: d.15.1.1 PDB: 2bwe_S Length = 77

 Score = 60.7 bits (148), Expect = 3e-12
 Identities = 14/74 (18%), Positives = 36/74 (48%), Gaps = 1/74 (1%)

Query: 1  MRITVMT-ADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSAL 59
          M + +   + +    ++V P  TV   K  +     +P+  Q+L+Y+G+ + + + + + 
Sbjct: 3  MSLNIHIKSGQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESY 62

Query: 60 GVKDEDLVMMVSNA 73
           ++D   V +V + 
Sbjct: 63 HIQDGHSVHLVKSQ 76

>2kdi_A Ubiquitin, vacuolar protein sorting-associated protein 27 fusion protein; ubiquitin interacting motif, UIM, protein domain interface; NMR {Saccharomyces cerevisiae} Length = 114

 Score = 61.8 bits (150), Expect = 3e-12
 Identities = 18/70 (25%), Positives = 42/70 (60%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
           +I   T   + I+L+V+  +T++NVK+ ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 10 FQIFAKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIWAGKQLEDGRTLSDYN 69

Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 70 IQRESTLHLV 79

>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 = 62.0 bits (150), Expect = 4e-12
 Identities = 20/70 (28%), Positives = 44/70 (62%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+  +T++NVK+ ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 1  MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60

Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 61 IQKESTLHLV 70

>1yqb_A Ubiquilin 3; structural genomics consortium, ubiquitin, ubiquitin-like domain, structural genomics, signaling protein SGC; 2.00A {Homo sapiens} SCOP: d.15.1.1 Length = 100

 Score = 61.2 bits (149), Expect = 4e-12
 Identities = 15/78 (19%), Positives = 34/78 (43%), Gaps = 1/78 (1%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          +++TV T  ++     V    T++ +K  +    +    Q  L++ G+ + + + L+  G
Sbjct: 23 IKVTVKTPKDKE-DFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQCG 81

Query: 61 VKDEDLVMMVSNAASSPA 78
          V+D   V +V        
Sbjct: 82 VRDGLTVHLVIKRQHRAM 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 = 61.2 bits (149), Expect = 4e-12
 Identities = 14/73 (19%), Positives = 37/73 (50%), Gaps = 1/73 (1%)

Query: 1   MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
           + I + +  ++   ++V P  TV   K  +     +P+  Q+L+Y+G+ + + + + +  
Sbjct: 29  LNIHIKSGQDKW-EVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESYH 87

Query: 61  VKDEDLVMMVSNA 73
           ++D   V +V + 
Sbjct: 88  IQDGHSVHLVKSQ 100

>1sif_A Ubiquitin; hydrophobic mutants, folding, stability, structural protein; 2.18A {Homo sapiens} SCOP: d.15.1.1 Length = 88

 Score = 60.5 bits (147), Expect = 5e-12
 Identities = 16/71 (22%), Positives = 45/71 (63%), Gaps = 1/71 (1%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          +++ + T   +  +++++P +T+EN+KA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 10 LQLFIKTLTGKTFTVEMEPSDTIENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 69

Query: 61 VKDED-LVMMV 70
          ++ E  L +++
Sbjct: 70 IQKESTLHLVL 80

>1yx5_B Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo sapiens} SCOP: d.15.1.1 PDB: 1yx6_B Length = 98

 Score = 61.0 bits (148), Expect = 5e-12
 Identities = 23/70 (32%), Positives = 45/70 (64%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60

Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 61 IQKESTLHLV 70

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

 Score = 63.2 bits (153), Expect = 6e-12
 Identities = 10/56 (17%), Positives = 25/56 (44%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKL 56
          M++ V T + +     ++   +V ++K+ +  +    +    L+ NG    N E +
Sbjct: 1  MQVQVKTLEGETKIYTLEQGTSVLDLKSQISQDMGFEIDMMTLVNNGFIAPNTELV 56

>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 = 60.1 bits (146), Expect = 7e-12
 Identities = 16/72 (22%), Positives = 31/72 (43%), Gaps = 2/72 (2%)

Query: 1  MRITV--MTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSA 58
          M I V  +   +     DV    T+E ++  +     V  + Q+L Y G+++ N   L  
Sbjct: 8  MWIQVRTIDGSKTCTIEDVSRKATIEELRERVWALFDVRPECQRLFYRGKQLENGYTLFD 67

Query: 59 LGVKDEDLVMMV 70
            V   D++ ++
Sbjct: 68 YDVGLNDIIQLL 79

>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 = 60.1 bits (146), Expect = 8e-12
 Identities = 14/70 (20%), Positives = 27/70 (38%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          + I V     +  + +V   +TV ++K  +     V      L + G+ + +   L   G
Sbjct: 5  LSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYG 64

Query: 61 VKDEDLVMMV 70
          +K    V M 
Sbjct: 65 LKPLSTVFMN 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 = 60.2 bits (146), Expect = 8e-12
 Identities = 23/70 (32%), Positives = 45/70 (64%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 2  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 61

Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 62 IQKESTLHLV 71

>2ojr_A Ubiquitin; lanthide-binding TAG, terbium, TB, SAD phasing, protein binding; 2.60A {Homo sapiens} Length = 111

 Score = 60.6 bits (147), Expect = 9e-12
 Identities = 23/70 (32%), Positives = 45/70 (64%)

Query: 1   MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
           M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 36  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 95

Query: 61  VKDEDLVMMV 70
           ++ E  + +V
Sbjct: 96  IQKESTLHLV 105

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

 Score = 60.6 bits (147), Expect = 1e-11
 Identities = 14/91 (15%), Positives = 39/91 (42%), Gaps = 2/91 (2%)

Query: 1   MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
           +++TV T  E+     V  + +V+  K  +    +    Q  L++ G+ + + + L   G
Sbjct: 33  IKVTVKTPKEKE-EFAVPENSSVQQFKEAISKRFKSQTDQLVLIFAGKILKDQDTLIQHG 91

Query: 61  VKDED-LVMMVSNAASSPATNNLSFNPDGSA 90
           + D   + +++    +S + +  +   +   
Sbjct: 92  IHDGLTVHLVIKRDPNSSSVDKYAAALEHHH 122

>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 = 59.8 bits (145), Expect = 1e-11
 Identities = 14/79 (17%), Positives = 33/79 (41%), Gaps = 2/79 (2%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          + + ++        + V    T   +K  +   T +P   Q+++Y G    + + L  + 
Sbjct: 18 VDLKIIWNK-TKHDVKVPLDSTGSELKQKIHSITGLPPAMQKVMYKGLVPED-KTLREIK 75

Query: 61 VKDEDLVMMVSNAASSPAT 79
          V     +M+V +  S P++
Sbjct: 76 VTSGAKIMVVGSTISGPSS 94

>3phx_B Ubiquitin-like protein ISG15; OTU domain, DE-ubiquitinase, DE-isgylase, hydrolase-protein complex; 1.60A {Homo sapiens} Length = 79

 Score = 58.9 bits (143), Expect = 1e-11
 Identities = 14/70 (20%), Positives = 27/70 (38%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          + I V     +  + +V   +TV ++K  +     V      L + G+ + +   L   G
Sbjct: 5  LSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYG 64

Query: 61 VKDEDLVMMV 70
          +K    V M 
Sbjct: 65 LKPLSTVFMN 74

>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 = 57.7 bits (140), Expect = 4e-11
 Identities = 16/72 (22%), Positives = 30/72 (41%), Gaps = 2/72 (2%)

Query: 1  MRITVMTAD--EQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSA 58
          M I V T D  +      +     VE ++  ++    V    Q+L Y G++M +   L  
Sbjct: 3  MWIQVRTMDGRQTHTVDSLSRLTKVEELRRKIQELFHVEPGLQRLFYRGKQMEDGHTLFD 62

Query: 59 LGVKDEDLVMMV 70
            V+  D + ++
Sbjct: 63 YEVRLNDTIQLL 74

>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 Length = 90

 Score = 56.4 bits (136), Expect = 1e-10
 Identities = 22/82 (26%), Positives = 39/82 (47%), Gaps = 3/82 (3%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLY---NGREMNNAEKLS 57
          + I V    ++     +   +TV ++K  L+  T V  ++Q+LL     G+   N  KL 
Sbjct: 8  LPIIVKWGGQEYSVTTLSEDDTVLDLKQFLKTLTGVLPERQKLLGLKVKGKPAENDVKLG 67

Query: 58 ALGVKDEDLVMMVSNAASSPAT 79
          AL +K    +MM+    S P++
Sbjct: 68 ALKLKPNTKIMMMGTRESGPSS 89

>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 = 61.2 bits (147), Expect = 2e-10
 Identities = 18/101 (17%), Positives = 47/101 (46%), Gaps = 3/101 (2%)

Query: 1   MRITVMTADEQIISLDVDPHETVENVKALLEVE---TQVPLQQQQLLYNGREMNNAEKLS 57
           + IT+ T  +Q   + ++P ETV+ +K  +E E      P+  Q+L+Y G+ +++   + 
Sbjct: 8   VTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIR 67

Query: 58  ALGVKDEDLVMMVSNAASSPATNNLSFNPDGSAVNPAAFQQ 98
              + +++ V+++     +    +       +A   ++   
Sbjct: 68  DYRIDEKNFVVVMVTKTKAGQGTSAPPEASPTAAPESSTSF 108

>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 = 58.0 bits (140), Expect = 2e-10
 Identities = 20/70 (28%), Positives = 44/70 (62%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+  +T++NVK+ ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 1  MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60

Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 61 IQKESTLHLV 70

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

 Score = 55.6 bits (134), Expect = 3e-10
 Identities = 14/70 (20%), Positives = 31/70 (44%), Gaps = 2/70 (2%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M++ V    +++ + +V   ETV  +KA +     +  + Q +L  G  + +   L   G
Sbjct: 20 MQLFVRA--QELHTFEVTGQETVAQIKAHVASLEGIAPEDQVVLLAGAPLEDEATLGQCG 77

Query: 61 VKDEDLVMMV 70
          V+    + + 
Sbjct: 78 VEALTTLEVA 87

>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 = 56.5 bits (136), Expect = 7e-10
 Identities = 14/72 (19%), Positives = 30/72 (41%), Gaps = 2/72 (2%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYN--GREMNNAEKLSA 58
            +TV         + +    +V  +KA +  +  V   QQ+L  +  G  + +   L++
Sbjct: 3  WDLTVKMLAGNEFQVSLSSSMSVSELKAQITQKIGVHAFQQRLAVHPSGVALQDRVPLAS 62

Query: 59 LGVKDEDLVMMV 70
           G+     V++V
Sbjct: 63 QGLGPGSTVLLV 74

>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 = 55.7 bits (134), Expect = 1e-09
 Identities = 14/70 (20%), Positives = 27/70 (38%)

Query: 1   MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
           + I V     +  + +V   +TV ++K  +     V      L + G+ + +   L   G
Sbjct: 82  LSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYG 141

Query: 61  VKDEDLVMMV 70
           +K    V M 
Sbjct: 142 LKPLSTVFMN 151

>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 = 56.2 bits (135), Expect = 8e-10
 Identities = 23/70 (32%), Positives = 45/70 (64%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60

Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 61 IQKESTLHLV 70

>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 = 48.5 bits (115), Expect = 3e-07
 Identities = 23/70 (32%), Positives = 45/70 (64%)

Query: 1   MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
           M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 77  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 136

Query: 61  VKDEDLVMMV 70
           ++ E  + +V
Sbjct: 137 IQKESTLHLV 146

>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 = 54.8 bits (132), Expect = 1e-09
 Identities = 10/64 (15%), Positives = 27/64 (42%)

Query: 7   TADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDL 66
             + Q +   +   + V  +K  +   T +P  +Q+L Y G  + ++  L+   +    +
Sbjct: 42  KLNGQGLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDSNSLAYYNMASGAV 101

Query: 67  VMMV 70
           + + 
Sbjct: 102 IHLA 105

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

 Score = 55.1 bits (132), Expect = 3e-09
 Identities = 23/70 (32%), Positives = 45/70 (64%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 21 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 80

Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 81 IQKESTLHLV 90

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

 Score = 50.1 bits (119), Expect = 1e-07
 Identities = 23/70 (32%), Positives = 45/70 (64%)

Query: 1   MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
           M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 97  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 156

Query: 61  VKDEDLVMMV 70
           ++ E  + +V
Sbjct: 157 IQKESTLHLV 166

>1wxv_A BAG-family molecular chaperone regulator-1; structural genomics, apoptosis, riken structural genomics/proteomics initiative, RSGI, NPPSFA; NMR {Homo sapiens} SCOP: d.15.1.1 Length = 92

 Score = 51.7 bits (123), Expect = 7e-09
 Identities = 20/72 (27%), Positives = 37/72 (51%), Gaps = 1/72 (1%)

Query: 9  DEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEK-LSALGVKDEDLV 67
          D  + S        V+++  ++E    VP   Q+L++ G+ +   E  LSALG++D   V
Sbjct: 20 DLHVTSQQGSSEPVVQDLAQVVEEVIGVPQSFQKLIFKGKSLKEMETPLSALGIQDGCRV 79

Query: 68 MMVSNAASSPAT 79
          M++    S P++
Sbjct: 80 MLIGKKNSGPSS 91

>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 = 2e-08
 Identities = 22/70 (31%), Positives = 44/70 (62%)

Query: 1   MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
            +I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 106 GQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 165

Query: 61  VKDEDLVMMV 70
           ++ E  + +V
Sbjct: 166 IQKESTLHLV 175

>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 = 51.0 bits (122), Expect = 2e-08
 Identities = 13/72 (18%), Positives = 33/72 (45%), Gaps = 2/72 (2%)

Query: 1   MRITVMTADE-QIISLDVDP-HETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSA 58
           +R++    ++ Q + + V    E V ++K  +  E Q+P  +Q+L      + +   L+ 
Sbjct: 30  IRVSKPNENDGQFMEITVQSLSENVGSLKEKIAGEIQIPANKQKLSGKAGFLKDNMSLAH 89

Query: 59  LGVKDEDLVMMV 70
             V   +++ + 
Sbjct: 90  YNVGAGEILTLS 101

>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 = 51.4 bits (122), Expect = 3e-07
 Identities = 56/341 (16%), Positives = 97/341 (28%), Gaps = 88/341 (25%)

Query: 30  LEVETQVPLQQQQLLYNGREMNNAEKLSA-LGVKD-EDLVMMVSNAASSPATNNLSFNPD 87
           ++ ET     + Q  Y        +        KD +D   M  +  S    +++  + D
Sbjct: 7   MDFETG----EHQYQYKDILSVFEDAFVDNFDCKDVQD---MPKSILSKEEIDHIIMSKD 59

Query: 88  GSAVNPAAFQQHIRNDANLMTQLFQSDPELAQVLLGNDLNK----LQDLLRERSRQRSEL 143
                  A    +R    L   L     E+ Q  +   L      L   ++   RQ S +
Sbjct: 60  -------AVSGTLR----LFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMM 108

Query: 144 RRRQEEEMALLYAD-----PFDVEAQKKIEAAIRQKGIDENWAAALEHNPEAFARVVMLY 198
            R   E+   LY D      ++V   +     +RQ        A LE  P     V+   
Sbjct: 109 TRMYIEQRDRLYNDNQVFAKYNVSRLQPYL-KLRQ--------ALLELRPAKN--VL--- 154

Query: 199 VDMEVNGIP------LKAFV--DSGAQST-------IISKSCAERCGLLRLLDDRYRGVA 243
               ++G+       +   V      Q         +  K+C     +L +L      + 
Sbjct: 155 ----IDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQID 210

Query: 244 HGVGQ-----SEILGRIHVAPIKIGNVF----YPCSFVVLD---SPNMEFLFGLDMLRKH 291
                     S I  RIH    ++  +     Y    +VL    +      F L      
Sbjct: 211 PNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNL------ 264

Query: 292 QCII-----DLKENVLRVGGGEVSVPFLQEKDIPSHFLDEE 327
            C I       K+    +     +   L    +      +E
Sbjct: 265 SCKILLTTRF-KQVTDFLSAATTTHISLDHHSMT--LTPDE 302

>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 = 49.5 bits (117), Expect = 1e-06
 Identities = 56/404 (13%), Positives = 118/404 (29%), Gaps = 155/404 (38%)

Query: 2   RITVMTADEQI---ISLDVDPHETVENV-KALLEVETQVPLQQQQLLYNGREMNNAEKLS 57
           +I + T  +Q+   +S     H ++++    L   E +       LL           L 
Sbjct: 267 KILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVK------SLL-----------LK 309

Query: 58  ALGVKDEDL-----------VMMVSNAAS---SPATNN---------------LSFNPDG 88
            L  + +DL           + ++  A S     AT +                S N   
Sbjct: 310 YLDCRPQDLPREVLTTNPRRLSII--AESIRDGLATWDNWKHVNCDKLTTIIESSLN--- 364

Query: 89  SAVNPAAFQQH------IRNDANLMTQLFQSDPELAQVLLGNDLNKLQDLLRERSRQRSE 142
             + PA +++           A++ T L         ++  + +     ++  +  + S 
Sbjct: 365 -VLEPAEYRKMFDRLSVFPPSAHIPTILLS-------LIWFDVIKSDVMVVVNKLHKYSL 416

Query: 143 LRRRQEEEMALLYADPFDVEAQKKIEAAIRQKGID--------ENWAAALE--------- 185
           + ++ +E    + +   +++ + + E A+ +  +D        ++               
Sbjct: 417 VEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSH 476

Query: 186 ---H-----NPEAFARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERC--GLLRLL 235
              H     +PE      M+++D          F+    +  I   S A      +L  L
Sbjct: 477 IGHHLKNIEHPERMTLFRMVFLDFR--------FL----EQKIRHDSTAWNASGSILNTL 524

Query: 236 DD--RYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFG--LDMLRKH 291
                Y+                              ++  + P  E L    LD L K 
Sbjct: 525 QQLKFYK-----------------------------PYICDNDPKYERLVNAILDFLPKI 555

Query: 292 --QCIIDLKENVLRVGGGEVSVPFLQEKDIPSHFLDEERYSKQA 333
               I     ++LR+         L         + EE + KQ 
Sbjct: 556 EENLICSKYTDLLRIA--------LMA---EDEAIFEEAH-KQV 587

>2fnj_B Transcription elongation factor B polypeptide 2; beta-sandwich, lectin-like, SPRY, protein transport/signaling protein complex; 1.80A {Mus musculus} SCOP: d.15.1.1 PDB: 1lm8_B 1lqb_A 1vcb_A 2c9w_B 2izv_B 2jz3_B 2xai_C 3dcg_A 3zrc_A* 3zrf_A Length = 118

 Score = 47.7 bits (113), Expect = 3e-07
 Identities = 19/90 (21%), Positives = 39/90 (43%), Gaps = 7/90 (7%)

Query: 1  MRITVMTA-DEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSAL 59
          M + +M    +  I  D     TV  +K ++E   + P ++Q+L  + + +++ + L   
Sbjct: 1  MDVFLMIRRHKTTIFTDAKESSTVFELKRIVEGILKRPPEEQRLYKDDQLLDDGKTLGEC 60

Query: 60 GVKDEDLVMMVSNAASSPATNNLSFNPDGS 89
          G   +           +PAT  L+F  D +
Sbjct: 61 GFTSQT------ARPQAPATVGLAFRADDT 84

>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 = 46.9 bits (111), Expect = 4e-07
 Identities = 19/85 (22%), Positives = 42/85 (49%), Gaps = 6/85 (7%)

Query: 1  MRITVMTADEQI--ISLDVDPHETVENVKALL--EVETQVPLQQQQLLYNGREMNNAEKL 56
          + + V + +++   + L  D   +V ++KA L      +   + Q+L+Y+G+ + + + L
Sbjct: 8  VTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLLDHQCL 67

Query: 57 SALGVKDEDL--VMMVSNAASSPAT 79
            L  K E    + +V N  S P++
Sbjct: 68 RDLLPKQEKRHVLHLVCNVKSGPSS 92

>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 = 43.9 bits (103), Expect = 5e-06
 Identities = 12/71 (16%), Positives = 37/71 (52%), Gaps = 1/71 (1%)

Query: 10 EQIISLDVDPHETVENVKALLEVETQVPLQQQQLL-YNGREMNNAEKLSALGVKDEDLVM 68
          ++ + + ++   TV  +K +LE E Q+P+ +  L  +   ++ ++  L +L +   + + 
Sbjct: 18 DRNVDVVLEDTCTVGEIKQILENELQIPVSKMLLKGWKTGDVEDSTVLKSLHLPKNNSLY 77

Query: 69 MVSNAASSPAT 79
          +++     P++
Sbjct: 78 VLTPDLPPPSS 88

>4dbg_A Ranbp-type and C3HC4-type zinc finger-containing; ubiquitin fold, ubiquitination, ligase; 2.71A {Homo sapiens} PDB: 2lgy_A Length = 105

 Score = 43.5 bits (102), Expect = 7e-06
 Identities = 15/65 (23%), Positives = 27/65 (41%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          + +         I L V P  TV ++K ++ ++   P   QQ +   R   + E L + G
Sbjct: 27 VSVEDAQMHTVTIWLTVRPDMTVASLKDMVFLDYGFPPVLQQWVIGQRLARDQETLHSHG 86

Query: 61 VKDED 65
          V+   
Sbjct: 87 VRQNG 91

>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 = 41.9 bits (98), Expect = 2e-05
 Identities = 15/86 (17%), Positives = 37/86 (43%), Gaps = 16/86 (18%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQ---------------LLY 45
          M + V   D +++ + V  + TV ++K  ++   Q+  +++                L  
Sbjct: 8  MTVRVCKMDGEVMPVVVVQNATVLDLKKAIQRYVQLKQEREGGVQHISWSYVWRTYHLTS 67

Query: 46 NGREM-NNAEKLSALGVKDEDLVMMV 70
           G ++  + +KL   G+++ D V  +
Sbjct: 68 AGEKLTEDRKKLRDYGIRNRDEVSFI 93

>3shq_A UBLCP1; phosphatase, hydrolase; 1.96A {Drosophila melanogaster} Length = 320

 Score = 44.0 bits (103), Expect = 4e-05
 Identities = 22/120 (18%), Positives = 44/120 (36%), Gaps = 3/120 (2%)

Query: 11  QIISLDVDPHETVENVKALLEVETQVPLQQQQLLY---NGREMNNAEKLSALGVKDEDLV 67
           +   +D+   +TVE ++  +  +TQV  ++Q+LL     G+   +  K+SAL +K    +
Sbjct: 15  KEYPVDLTDQDTVEVLRHEIFRKTQVRPERQKLLNLKYKGKTAADNVKISALELKPNFKL 74

Query: 68  MMVSNAASSPATNNLSFNPDGSAVNPAAFQQHIRNDANLMTQLFQSDPELAQVLLGNDLN 127
           MMV +  +         +  G  V+                          +     +L 
Sbjct: 75  MMVGSTEADIEDACSLPDNIGEVVDDFDDADEREESVAHSAVYLAKVQRRVRDYKIKELA 134

>1x1m_A Ubiquitin-like protein SB132; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.15.1.1 Length = 107

 Score = 40.9 bits (95), Expect = 7e-05
 Identities = 12/68 (17%), Positives = 32/68 (47%), Gaps = 4/68 (5%)

Query: 16  DVDPHE-TVENVKALLEVETQVPL---QQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS 71
           +      ++  +K L+  + Q  +   +   L+Y GR++ + + L   G++    V ++ 
Sbjct: 39  EYSLGGYSISFLKQLIAGKLQESVPDPELIDLIYCGRKLKDDQTLDFYGIQPGSTVHVLR 98

Query: 72  NAASSPAT 79
            + S P++
Sbjct: 99  KSWSGPSS 106

>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 Length = 122

 Score = 41.1 bits (96), Expect = 7e-05
 Identities = 11/74 (14%), Positives = 26/74 (35%), Gaps = 7/74 (9%)

Query: 17 VDPHETVENVKALLEVETQVPLQQQQLLYNGRE-------MNNAEKLSALGVKDEDLVMM 69
               ++ ++K  LE+     +   ++     +        + A+ L  LGV+D   +  
Sbjct: 24 YPAGMSLNDLKKKLELVVGTTVDSMRIQLFDGDDQLKGELTDGAKSLKDLGVRDGYRIHA 83

Query: 70 VSNAASSPATNNLS 83
          V     +    + S
Sbjct: 84 VDVTGGNEDFKDES 97

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	380
3s8i_A	148	Protein DDI1 homolog 1; protease, structural genom	100.0
2i1a_A	148	DNA damage-inducible protein DDI1; acid protease f	100.0
3plu_A	93	Ubiquitin-like modifier HUB1; ubiquitin-like, HUB-	99.72
3phx_B	79	Ubiquitin-like protein ISG15; OTU domain, DE-ubiqu	99.71
2kk8_A	84	Uncharacterized protein AT4G05270; solution arabid	99.71
1uel_A	95	HHR23B, UV excision repair protein RAD23 homolog B	99.7
3m62_B	106	UV excision repair protein RAD23; armadillo-like r	99.7
4dwf_A	90	HLA-B-associated transcript 3; ubiquitin-like doma	99.69
1uh6_A	100	Ubiquitin-like 5; beta-grAsp fold, structural geno	99.69
4fbj_B	88	NEDD8; effector-HOST target complex, glutamine dea	99.69
2wyq_A	85	HHR23A, UV excision repair protein RAD23 homolog A	99.69
3v6c_B	91	Ubiquitin; structural genomics, structural genomic	99.67
1ndd_A	76	NEDD8, protein (ubiquitin-like protein NEDD8); pro	99.67
2faz_A	78	Ubiquitin-like containing PHD and ring finger DOM	99.67
2bwf_A	77	Ubiquitin-like protein DSK2; signaling protein, UB	99.67
3a9j_A	76	Ubiquitin; protein complex, cytoplasm, isopeptide	99.66
2lxa_A	87	Ubiquitin-like protein MDY2; ubiquitin-like domain	99.66
4eew_A	88	Large proline-rich protein BAG6; ubiquitin-like fo	99.66
3dbh_I	88	NEDD8; cell cycle, activating enzyme, apoptosis, m	99.65
4a20_A	98	Ubiquitin-like protein MDY2; protein binding, GET-	99.65
3k9o_B	96	Ubiquitin, UBB+1; E2-25K, complex structure, ATP-b	99.65
3n3k_B	85	Ubiquitin; hydrolase, protease, thiol protease, DU	99.65
4hcn_B	98	Polyubiquitin, ubiquitin; ubiquitin/NEDD8 deamidas	99.65
2hj8_A	88	Interferon-induced 17 kDa protein; HR2873B, human	99.65
2dzi_A	81	Ubiquitin-like protein 4A; GDX, structural genomic	99.65
1sif_A	88	Ubiquitin; hydrophobic mutants, folding, stability	99.64
3mtn_B	85	UBA80, ubcep1, ubiquitin variant UBV.21.4; ubiquit	99.64
2uyz_B	79	Small ubiquitin-related modifier 1; sumoylation, c	99.64
1ttn_A	106	DC-UBP, dendritic cell-derived ubiquitin-like prot	99.64
1wh3_A	87	59 kDa 2'-5'-oligoadenylate synthetase like protei	99.64
1wy8_A	89	NP95-like ring finger protein, isoform A; ubiquiti	99.63
1v5o_A	102	1700011N24RIK protein; hypothetical protein, ubiqu	99.63
1wju_A	100	NEDD8 ultimate buster-1; ubiquitin-like domain, st	99.63
1yx5_B	98	Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo s	99.62
2kan_A	94	Uncharacterized protein AR3433A; ubiquitin fold, a	99.62
2klc_A	101	Ubiquilin-1; ubiquitin-like, structural genomics,	99.62
1wgd_A	93	Homocysteine-responsive endoplasmic reticulum- res	99.61
1wyw_B	97	Ubiquitin-like protein SMT3C; hydrolase; 2.10A {Ho	99.61
1yqb_A	100	Ubiquilin 3; structural genomics consortium, ubiqu	99.61
1v2y_A	105	3300001G02RIK protein; hypothetical protein, ubiqu	99.6
3b1l_X	76	E3 ubiquitin-protein ligase parkin; proteasome, AL	99.39
1wx8_A	96	Riken cDNA 4931431F19; ubiquitin-like domain, ubiq	99.6
1wx7_A	106	Ubiquilin 3; ubiquitin-like domain, structural gen	99.6
3vdz_A	111	Ubiquitin-40S ribosomal protein S27A; gadolinium,	99.6
2l7r_A	93	Ubiquitin-like protein FUBI; structural genomics,	99.59
1v5t_A	90	8430435I17RIK protein; hypothetical protein, ubiqu	99.59
1wxv_A	92	BAG-family molecular chaperone regulator-1; struct	99.58
1x1m_A	107	Ubiquitin-like protein SB132; structural genomics,	99.58
1wia_A	95	Hypothetical ubiquitin-like protein (riken cDNA 20	99.58
2daf_A	118	FLJ35834 protein; hypothetical protein FLJ35834, u	99.57
3m63_B	101	Ubiquitin domain-containing protein DSK2; armadill	99.57
3l0w_B	169	Monoubiquitinated proliferating cell nuclear antig	99.57
2kdb_A	99	Homocysteine-responsive endoplasmic reticulum- res	99.57
1j8c_A	125	Ubiquitin-like protein hplic-2; ubiquitin-like dom	99.57
1oqy_A	368	HHR23A, UV excision repair protein RAD23 homolog A	99.56
1wgg_A	96	Ubiquitin carboxyl-terminal hydrolase 14; ubiquiti	99.56
1v86_A	95	DNA segment, CHR 7, wayne state university 128, ex	99.56
2ojr_A	111	Ubiquitin; lanthide-binding TAG, terbium, TB, SAD	99.56
2kd0_A	85	LRR repeats and ubiquitin-like domain-containing p	99.55
1wgh_A	116	Ubiquitin-like 3, HCG-1 protein; ubiquitin-like fo	99.55
2fnj_B	118	Transcription elongation factor B polypeptide 2; b	99.55
4dbg_A	105	Ranbp-type and C3HC4-type zinc finger-containing;	99.55
4ajy_B	118	Transcription elongation factor B polypeptide 2; E	99.54
2kdi_A	114	Ubiquitin, vacuolar protein sorting-associated pro	99.53
3rt3_B	159	Ubiquitin-like protein ISG15; ubiquitin-like domai	99.53
1we6_A	111	Splicing factor, putative; structural genomics, ub	99.53
3rt3_B	159	Ubiquitin-like protein ISG15; ubiquitin-like domai	99.53
2gow_A	125	HCG-1 protein, ubiquitin-like protein 3; BC059385,	99.52
3q3f_A	189	Ribonuclease/ubiquitin chimeric protein; domain SW	99.52
4b6w_A	86	Tubulin-specific chaperone; CAP-Gly, ubiquitin-lik	99.52
3b08_A	152	Polyubiquitin-C, ubiquitin; protein complex, signa	99.51
3u5e_m	128	60S ribosomal protein L40; translation, ribosome,	99.51
3u30_A	172	Ubiquitin, linear DI-ubiquitin; immune system; 2.4	99.5
1se9_A	126	Ubiquitin family; ubiquitin-like, cell-free, wheat	99.48
1wf9_A	107	NPL4 family protein; beta-grAsp fold like domain,	99.47
2dzj_A	88	Synaptic glycoprotein SC2; ubiquitin-like fold, st	99.47
2kjr_A	95	CG11242; UBL, ubiquitin, ubiquitin-like, structura	99.46
3u5c_f	152	40S ribosomal protein S31; translation, ribosome,	99.46
3b08_A	152	Polyubiquitin-C, ubiquitin; protein complex, signa	99.45
2kj6_A	97	Tubulin folding cofactor B; methods development, N	99.45
3u30_A	172	Ubiquitin, linear DI-ubiquitin; immune system; 2.4	99.45
2dzm_A	100	FAS-associated factor 1; ubiquitin-like domain, HF	99.45
1we7_A	115	SF3A1 protein; structural genomics, ubiquitin-like	99.45
1v6e_A	95	Cytoskeleton-associated protein 1; tubulin-specifi	99.43
3ai5_A	307	Yeast enhanced green fluorescent protein, ubiquit;	99.37
2kzr_A	86	Ubiquitin thioesterase OTU1; structural genomics,	99.34
1t0y_A	122	Tubulin folding cofactor B; ubiquitin-like, cytosk	99.33
2xzm_9	189	RPS31E; ribosome, translation; 3.93A {Tetrahymena	99.26
3shq_A	320	UBLCP1; phosphatase, hydrolase; 1.96A {Drosophila	99.26
3slz_A	132	GAG-Pro-POL polyprotein; beta sheet and dimer, pro	99.23
2io1_B	94	Small ubiquitin-related modifier 3 precursor; SUMO	99.22
1fmb_A	104	EIAV protease; hydrolase (acid proteinase), RNA-di	99.2
1wm3_A	72	Ubiquitin-like protein SMT3B; ubiquitin fold, half	99.2
3a4r_A	79	Nfatc2-interacting protein; ubiquitin fold, coiled	99.15
2io0_B	91	Small ubiquitin-related modifier 2 precursor; SUMO	99.13
1wjn_A	97	Tubulin-folding protein TBCE; ubiquitin-like domai	99.11
2d07_B	93	Ubiquitin-like protein SMT3B; hydrolase; 2.10A {Ho	99.07
1wz0_A	104	Ubiquitin-like protein SMT3B; SUMO-2, ubiquitin-li	99.06
2k8h_A	110	Small ubiquitin protein; SUMO, post-translational	99.0
3ec0_A	99	Protease; HIV-2, inhibitor, hydrolase; HET: GRL; 1	98.97
2eke_C	106	Ubiquitin-like protein SMT3; UBC9, SUMO binding mo	98.97
2hs1_A	99	HIV-1 protease; ultra-high resolution active site	98.94
3ka2_A	203	[L-Ala51;Gly51']HIV-1 protease; beta-barrel, hydro	98.78
2hah_A	116	Protease, retropepsin; retroviral, aspartyl, hydro	98.64
3kyd_D	115	Small ubiquitin-related modifier 1; SUMO, thioeste	98.64
2pjh_A	80	Protein NPL4, nuclear protein localization protein	98.54
3pge_A	200	SUMO-modified proliferating cell nuclear antigen;	98.38
3ka2_A	203	[L-Ala51;Gly51']HIV-1 protease; beta-barrel, hydro	98.32
3tix_A	207	Ubiquitin-like protein SMT3, RNA-induced transcri	98.31
3sqf_A	114	Protease; folded monomer, retropepsin, D-type retr	98.12
2rsp_A	124	RSV protease; hydrolase(aspartyl proteinase); 2.00	98.1
3goe_A	82	DNA repair protein RAD60; SUMO-like domain, sumoyl	98.09
3v7o_A	227	Minor nucleoprotein VP30; ssgcid, seattle structur	98.03
2jxx_A	97	Nfatc2-interacting protein; nuclear factor of acti	98.02
4efo_A	94	Serine/threonine-protein kinase TBK1; ubiquitin li	97.84
2kc2_A	128	Talin-1, F1; FERM, adhesion, cell membrane, cell p	97.74
2al3_A	90	TUG long isoform; TUG UBL1 insulin, endocytosis/ex	97.72
2bps_A	81	YUKD protein; ubiquitin-like protein, ubiquitin; 2	97.63
3uf8_A	209	Ubiquitin-like protein SMT3, peptidyl-prolyl CIS-	97.5
2l76_A	95	Nfatc2-interacting protein; ubiquitin-like domain,	97.44
3ix6_A	360	TS, tsase, thymidylate synthase; niaid, ssgcid, se	97.32
2pma_A	146	Uncharacterized protein; APC86035.2, protein LPG00	97.12
3qx1_A	84	FAS-associated factor 1; UBX, protein binding, P97	97.1
3liy_A	116	Protease; hydrolase, hydrolase-hydrolase inhibitor	97.04
4da1_A	389	Protein phosphatase 1K, mitochondrial; metal-ION-a	96.96
2dzk_A	109	UBX domain-containing protein 2; ubiquitin-like fo	96.82
1wj4_A	124	KIAA0794 protein; UBX domain, beta-grAsp fold, str	96.33
2l32_A	74	Small archaeal modifier protein 2; protein BIN; NM	96.1
2cr5_A	109	Reproduction 8; UBX domain, D0H8S2298E protein, st	95.54
2jys_A	107	Protease/reverse transcriptase; retroviral proteas	95.35
1s3s_G	127	P47 protein; AAA ATPase, protein-protein complex,	95.3
3qvc_A	451	Histo-aspartic protease; HAP, plasmepsin, zymogen,	95.11
2daj_A	91	KIAA0977 protein, COBL-like 1; ubiquitin-like doma	94.92
2qsf_X	171	RAD23, UV excision repair protein RAD23; alpha-bet	94.62
2x0b_A	383	Renin; hydrolase-hormone complex, hydrolase hormon	94.49
1pve_A	72	HHR23B, UV excision repair protein RAD23 homolog B	94.38
1ryj_A	70	Unknown; beta/alpha protein, structural genomics,	93.8
1yg9_A	330	Aspartic protease BLA G 2; allegren, hydrolase, al	93.33
4e71_A	111	Plexin-B2, MM1; transmembrane, signaling, RBD, str	93.29
1miq_A	375	Plasmepsin; aspartic proteinase zymogen, domain op	93.19
2bju_A	453	Plasmepsin II; aspartic proteinase, drug design, m	93.12
3k1w_A	341	Renin; protease, alternative splicing, aspartyl pr	92.93
2f4m_B	61	UV excision repair protein RAD23 homolog B; glycop	92.92
3cms_A	323	Chymosin B; hydrolase, acid proteinase; 2.00A {Bos	92.85
3ivf_A	371	Talin-1; FERM domain, cell membrane, cell projecti	92.82
1b5f_A	239	Protein (cardosin A); hydrolase, aspartic proteina	92.78
1oey_A	83	P67-PHOX, neutrophil cytosol factor 2; immune syst	92.5
1tzs_A	351	Cathepsin E; hydrolase, aspartic protease, activat	92.5
1bxo_A	323	Protein (penicillopepsin); hydrolase, phosphonate	92.47
3psg_A	370	Pepsinogen; hydrolase(acid proteinase zymogen); 1.	92.45
1izd_A	323	Aspartic proteinase; sugar binding, acid protease,	92.4
4aa9_A	320	Chymosin; hydrolase, aspartic peptidase, rennet; H	92.31
1ibq_A	325	Aspergillopepsin; aspartic proteinase, hydrolase;	92.18
1mpp_A	361	Pepsin; hydrolase(acid proteinase); 2.00A {Rhizomu	92.09
2r2o_A	138	Plexin-B1; effector domain, structural genomics, s	91.82
1dpj_A	329	Proteinase A; proteinase A, hydrolase-hydrolase in	91.76
1wkr_A	340	Polyporopepsin; hydrolase, hydrolase-hydrolase inh	91.66
3jyu_A	231	Ubiquitin carboxyl-terminal hydrolase; domain in u	91.59
3c9x_A	329	Trichoderma reesei aspartic protease; aspartic pro	91.5
4a3p_A	217	Ubiquitin carboxyl-terminal hydrolase 15; 1.40A {H	91.43
1htr_B	329	Gastricsin; aspartyl protease; 1.62A {Homo sapiens	90.79
3fv3_A	339	SAPP1P-secreted aspartic protease 1; secreted aspa	90.53
1oew_A	329	Endothiapepsin; hydrolase, aspartic proteinase mec	90.48
3qvc_A	451	Histo-aspartic protease; HAP, plasmepsin, zymogen,	90.37
3pvk_A	342	Candidapepsin-2; hydrolase; 1.27A {Candida albican	90.36
1qdm_A	478	Prophytepsin; aspartic proteinases, saposin-like d	90.22
3cms_A	323	Chymosin B; hydrolase, acid proteinase; 2.00A {Bos	90.06
1lya_B	241	Cathepsin D; lysosomal aspartic protease; HET: NAG	89.74
1ibq_A	325	Aspergillopepsin; aspartic proteinase, hydrolase;	89.73
1izd_A	323	Aspartic proteinase; sugar binding, acid protease,	89.6
2apr_A	325	Rhizopuspepsin; hydrolase (aspartic proteinase); 1	89.18
1lya_A	97	Cathepsin D; lysosomal aspartic protease; HET: NAG	89.16
2apr_A	325	Rhizopuspepsin; hydrolase (aspartic proteinase); 1	88.98
1am5_A	324	Pepsin, acid proteinase; aspartyl protease, hydrol	88.98
1am5_A	324	Pepsin, acid proteinase; aspartyl protease, hydrol	88.86
2qzx_A	342	Candidapepsin-5; aspartic proteinase, aspartyl pro	88.76
4aa9_A	320	Chymosin; hydrolase, aspartic peptidase, rennet; H	88.71
1j71_A	334	Candidapepsin, aspartic proteinase; candida tropic	88.57
1vjk_A	98	Molybdopterin converting factor, subunit 1; struct	88.48
4e74_A	117	Plexin-A4; RBD, structural genomics, structural ge	88.39
1dpj_A	329	Proteinase A; proteinase A, hydrolase-hydrolase in	88.01
1yg9_A	330	Aspartic protease BLA G 2; allegren, hydrolase, al	87.98
1bxo_A	323	Protein (penicillopepsin); hydrolase, phosphonate	87.9
1miq_A	375	Plasmepsin; aspartic proteinase zymogen, domain op	87.84
3h6n_A	127	Plexin-D1; structural genomics consortium, SGC, me	87.84
2juo_A	89	GA-binding protein alpha chain; OST, ubiquitin, tr	87.79
1oew_A	329	Endothiapepsin; hydrolase, aspartic proteinase mec	87.59
3c9x_A	329	Trichoderma reesei aspartic protease; aspartic pro	87.4
3k1w_A	341	Renin; protease, alternative splicing, aspartyl pr	87.32
3rpf_C	74	Molybdopterin converting factor, subunit 1 (MOAD);	87.25
3lpj_A	455	Beta-secretase 1; alzheimer'S, aspartyl protease,	87.24
3fv3_A	339	SAPP1P-secreted aspartic protease 1; secreted aspa	87.01
2llw_A	71	Heat shock protein STI1; DP domain, alpha helix, c	86.83
1wkr_A	340	Polyporopepsin; hydrolase, hydrolase-hydrolase inh	86.28
3aup_A	403	SBG7S, BG, basic 7S globulin; pepsin-like fold, pl	86.22
1htr_B	329	Gastricsin; aspartyl protease; 1.62A {Homo sapiens	85.92
3vf3_A	402	Beta-secretase 1; structure-based drug design, hyd	85.91
3aup_A	403	SBG7S, BG, basic 7S globulin; pepsin-like fold, pl	85.91
2bju_A	453	Plasmepsin II; aspartic proteinase, drug design, m	85.86
2x0b_A	383	Renin; hydrolase-hormone complex, hydrolase hormon	85.22
1tzs_A	351	Cathepsin E; hydrolase, aspartic protease, activat	85.13
2f4m_B	61	UV excision repair protein RAD23 homolog B; glycop	85.07
2kvr_A	130	Ubiquitin carboxyl-terminal hydrolase 7; USP7, ubi	84.97
2qzx_A	342	Candidapepsin-5; aspartic proteinase, aspartyl pro	84.85
2qp8_A	395	Beta-secretase 1; BACE1, protease, alternative spl	84.67
1tyg_B	87	YJBS; alpha beta barrel, protein-protein complex,	84.39
1mpp_A	361	Pepsin; hydrolase(acid proteinase); 2.00A {Rhizomu	84.35
1pve_A	72	HHR23B, UV excision repair protein RAD23 homolog B	84.27
2ewy_A	383	Beta-secretase 2; BACE2, aspartic protease, hydrol	84.23
1j71_A	334	Candidapepsin, aspartic proteinase; candida tropic	83.87
1f0z_A	66	THis protein; ubiquitin fold, transport protein; N	83.07
3pvk_A	342	Candidapepsin-2; hydrolase; 1.27A {Candida albican	82.75
3psg_A	370	Pepsinogen; hydrolase(acid proteinase zymogen); 1.	82.72
3kuz_A	126	Plexin-C1; structural genomics, structural genomic	82.12

>3s8i_A Protein DDI1 homolog 1; protease, structural genomics, structural genomics consortiu retropepsin-like domain, protein turnover, hydrolase; 1.70A {Homo sapiens}

Probab=100.00  E-value=5.3e-37  Score=267.53  Aligned_cols=136  Identities=53%  Similarity=0.942  Sum_probs=119.9

Q ss_pred             hcCCccccccceeEEeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEEEcC
Q 016931          185 EHNPEAFARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGN  264 (380)
Q Consensus       185 E~~Pe~f~~~~~lyv~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~  264 (380)
                      -..||+|+++.|+||+|+|||++++|||||||++|+||.+||+||||.++.+.++.+.+.|+|+.++.|+++.++|+||+
T Consensus        13 ~~~~~~~~~~~~l~v~~~Ing~~v~~LVDTGAs~s~Is~~~A~rlGL~~~~~~~~~~~a~g~G~~~~~g~v~~~~I~Ig~   92 (148)
T 3s8i_A           13 GLVPRGSGQVTMLYINCKVNGHPLKAFVDSGAQMTIMSQACAERCNIMRLVDRRWAGVAKGVGTQRIIGRVHLAQIQIEG   92 (148)
T ss_dssp             ---------CCCCEEEEEETTEEEEEEECTTCSSCEEEHHHHHHTTCGGGEEGGGCEECCC---CEEEEEEEEEEEEETT
T ss_pred             CcCceeccccCEEEEEEEECCEEEEEEEeCCCCcEeeCHHHHHHcCCccccCcceeEEEEcCCccEEEEEEEEEEEEECC
Confidence            34799999999999999999999999999999999999999999999888888888899999999999999999999999


Q ss_pred             EEEeEEEEEecCCCCceeeeHHHHhhcCeEEEcCCCEEEEcCCceeeeccCCCCCC
Q 016931          265 VFYPCSFVVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRVGGGEVSVPFLQEKDIP  320 (380)
Q Consensus       265 ~~~~~~~~Vl~~~~~d~iLG~D~L~~~~~~ID~~~~~l~i~~~~~~~pfl~~~e~~  320 (380)
                      ..++++|.|++...+|+|||||||++++|+|||++++|+|+++++++||++|+|||
T Consensus        93 ~~~~~~~~Vle~~~~d~LLGmD~L~~~~~~ID~~~~~L~l~~~~~~~pfl~~~~~~  148 (148)
T 3s8i_A           93 DFLQCSFSILEDQPMDMLLGLDMLRRHQCSIDLKKNVLVIGTTGTQTYFLPEGELP  148 (148)
T ss_dssp             EEEEEEEEEETTCSSSEEECHHHHHHTTCEEETTTTEEECTTTCCEEECCCGGGCC
T ss_pred             EEEEEEEEEeCCCCcCeeccHHHHHhCCEEEEcCCCEEEEccCCeEEeecCcccCc
Confidence            99999999999989999999999999999999999999999877899999999997

>2i1a_A DNA damage-inducible protein DDI1; acid protease fold, dimer, retroviral protease domain, protein turnover; HET: DNA; 2.30A {Saccharomyces cerevisiae}

Probab=100.00  E-value=5.7e-36  Score=260.53  Aligned_cols=148  Identities=50%  Similarity=0.898  Sum_probs=108.3

Q ss_pred             HHhhcHHHHHHHHHhcCCccccccceeEEeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCccee
Q 016931          171 IRQKGIDENWAAALEHNPEAFARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSE  250 (380)
Q Consensus       171 Irq~~i~en~~~A~E~~Pe~f~~~~~lyv~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~  250 (380)
                      |||++|+|||+.|+|++||.|.+..++||+|+|||++++|||||||++|+||.++|++|||....+.++.+.+.|+|...
T Consensus         1 ~~~~~i~~~~~~a~e~~p~~~~~~~~~~v~v~InG~~~~~LvDTGAs~s~is~~~a~~lgl~~~~~~~~~~~a~g~g~~~   80 (148)
T 2i1a_A            1 MKQQAIDEQLRNAIEYTPEMFTQVPMLYINIEINNYPVKAFVDTGAQTTIMSTRLAKKTGLSRMIDKRFIGEARGVGTGK   80 (148)
T ss_dssp             ----------------------CCCCCEEEEEETTEEEEEEECTTCSSCEEEHHHHHHHTGGGGCBCCCC----------
T ss_pred             CcHHHHHHHHHhhhhhCchhhcccceEEEEEEECCEEEEEEEECCCCccccCHHHHHHcCCCccCCcceEEEEecCCCcc
Confidence            79999999999999999999999999999999999999999999999999999999999998777767766778888777


Q ss_pred             EEeEEEEEeEEEcCEEEeEEEEEecCCCCceeeeHHHHhhcCeEEEcCCCEEEEcCCceeeeccCCCCCCc
Q 016931          251 ILGRIHVAPIKIGNVFYPCSFVVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRVGGGEVSVPFLQEKDIPS  321 (380)
Q Consensus       251 ~~g~i~~~~i~ig~~~~~~~~~Vl~~~~~d~iLG~D~L~~~~~~ID~~~~~l~i~~~~~~~pfl~~~e~~~  321 (380)
                      ..++++...++||+..++++|.|++ .++|+|||+|||+++++.|||++++|+|.+  .++||++++|+|+
T Consensus        81 ~~~~~~~~~i~ig~~~~~~~~~vl~-~~~d~iLG~d~L~~~~~~ID~~~~~l~l~~--~~~~f~~~~~~~~  148 (148)
T 2i1a_A           81 IIGRIHQAQVKIETQYIPCSFTVLD-TDIDVLIGLDMLKRHLACVDLKENVLRIAE--VETSFLSEAEIPK  148 (148)
T ss_dssp             -CEEEEEEEEEETTEEEEEEEEEEC-SSCSEEECHHHHHHTTCEEETTTTEEEETT--EEEECCCTTTCC-
T ss_pred             cccEEEEEEEEECCEEeceeEEEec-CCCCeEecHHHHhhCCEEEECCCCEEEEcc--EEEecCChhhCCC
Confidence            7899999999999999999999999 578999999999999999999999999986  6899999999985

>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=99.72  E-value=1.1e-17  Score=133.21  Aligned_cols=70  Identities=13%  Similarity=0.178  Sum_probs=68.3

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEe
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMV   70 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~   70 (380)
                      |+|+||++.|+++.+++++++||.+||++|+.+.|+|+++|+|+|+|++|+|+.||++|+|++|++|+|.
T Consensus        22 IqI~Vk~~~Gkk~~v~v~p~DTI~~LK~~I~~k~Gip~~qQrLif~Gk~LkD~~TL~dY~I~dgstLhL~   91 (93)
T 3plu_A           22 IEVVVNDRLGKKVRVKCLGEDSVGDFKKVLSLQIGTQPNKIVLQKGGSVLKDHISLEDYEVHDQTNLELY   91 (93)
T ss_dssp             EEEEEECTTSCEEEEEEETTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEE
T ss_pred             EEEEEECCCCCEEEEEECCcCHHHHHHHHHHHHhCCCHHHEEEEeCCEEccCcCCHHHcCCCCCCEEEEE
Confidence            6899999999999999999999999999999999999999999999999999999999999999999984

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

Probab=99.71  E-value=3.1e-17  Score=126.91  Aligned_cols=72  Identities=19%  Similarity=0.216  Sum_probs=69.7

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++.+|+.+.++|++++||.+||++|+.++|+|+++|+|+|+|+.|+|+.+|++|||++|++||++.+
T Consensus         5 m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~qrL~~~G~~L~d~~tL~~~~i~~~~~l~l~~r   76 (79)
T 3phx_B            5 LSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNLR   76 (79)
T ss_dssp             EEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEEC
T ss_pred             EEEEEEeCCCCEEEEEECCcChHHHHHHHHHhhcCCCHHHEEEEECCEECCCCCcHHHCCCCCCCEEEEEEe
Confidence            789999999999999999999999999999999999999999999999999999999999999999999854

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

Probab=99.71  E-value=2.5e-17  Score=129.61  Aligned_cols=72  Identities=18%  Similarity=0.280  Sum_probs=69.9

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCee-cCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGRE-MNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~-L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++.+|+.+.++|++++||++||++|+.++|+|+++|+|+|+|+. |+|+++|++|||++|++|+|+.+
T Consensus        11 ~~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           11 MKFLVENLNGSSFELEVDYRDTLLVVKQKIERSQHIPVSKQTLIVDGIVILREDLTVEQCQIVPTSDIQLEVS   83 (84)
T ss_dssp             EEEEEEETTSCEEEEEECTTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCCSSSBHHHHTCCTTSCEEEEEC
T ss_pred             eEEEEEecCCcEEEEEECCCChHHHHHHHHHHHHCcChHHEEEEECCEEecCCcCCHHHcCCCCCCEEEEEEc
Confidence            8999999999999999999999999999999999999999999999999 99999999999999999999864

>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=99.70  E-value=1.2e-16  Score=128.35  Aligned_cols=74  Identities=28%  Similarity=0.577  Sum_probs=70.5

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHH---hCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeecCC
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVE---TQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNAA   74 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~---~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~~~   74 (380)
                      |+|+|++.+|+.+.++|++++||.+||++|+.+   +|+|+++|+|+|+|+.|+|+++|++|||++|++|+|+....
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 MQVTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALKEYKIDEKNFVVVMVTKP   77 (95)
T ss_dssp             CEEEEEETTCCEEEEECCTTSBHHHHHHHHHHHHCTTTCCTTTEEEEETTEECCTTSBGGGGTCCSSSEEEEEESSC
T ss_pred             CEEEEEeCCCCEEEEEECCCCHHHHHHHHHHhhcccCCCChhhEEEEECCEECCCcCcHHHCCCCCCCEEEEEEeCC
Confidence            899999999999999999999999999999999   79999999999999999999999999999999999986543

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

Probab=99.70  E-value=3e-17  Score=134.75  Aligned_cols=75  Identities=23%  Similarity=0.430  Sum_probs=69.9

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeecCCC
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNAAS   75 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~~~~   75 (380)
                      |+|+|++.+|+.+.++|++++||.+||++|+.++|+|+++|+|+|+|+.|+|+.+|++|||++|++|+|+.+.+.
T Consensus         2 m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~~~i~~g~~i~lv~~~~~   76 (106)
T 3m62_B            2 VSLTFKNFKKEKVPLDLEPSNTILETKTKLAQSISCEESQIKLIYSGKVLQDSKTVSECGLKDGDQVVFMVSQKK   76 (106)
T ss_dssp             -CEEEECTTCCEEEECCCTTSBHHHHHHHHHHTTTSCGGGCEEEETTEECCTTSBTTTTTCCTTCEEEEECCC--
T ss_pred             EEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCChhhEEEEECCEECCCcCCHHHcCCCCCCEEEEEEcCCC
Confidence            899999999999999999999999999999999999999999999999999999999999999999999965443

>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=99.69  E-value=6e-17  Score=128.51  Aligned_cols=74  Identities=24%  Similarity=0.442  Sum_probs=70.7

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeecCCC
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNAAS   75 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~~~~   75 (380)
                      |+|+|++.+|+.+.++|++++||.+||++|+.++|+|+++|+|+|+|+.|+|+.+|++||| +|++|||+.+.++
T Consensus         6 m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~qrLi~~Gk~L~d~~tL~~~~i-~g~~i~l~~~~~~   79 (90)
T 4dwf_A            6 LEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEYNV-GGKVIHLVERAPP   79 (90)
T ss_dssp             EEEEEEETTCCEEEEEEETTCBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBGGGGTC-TTEEEEEEECCCC
T ss_pred             EEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHhCCCHHHEEEEECCeECCCCCCHHHcCC-CCcEEEEEecCCC
Confidence            7999999999999999999999999999999999999999999999999999999999999 8999999977544

>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=99.69  E-value=2.9e-17  Score=132.93  Aligned_cols=71  Identities=10%  Similarity=0.111  Sum_probs=68.8

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS   71 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~   71 (380)
                      |+|+|+++.|+.+.++|++++||.+||++|+.+.|+|+++|+|+|.|++|+|+.||++|||++|++|||+.
T Consensus        29 m~I~VKtl~Gk~i~lev~p~dTV~~lK~~Ia~k~Gip~~qQrLi~~Gk~L~D~~TL~dygI~~gstlhL~~   99 (100)
T 1uh6_A           29 IEVVCNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTRWNKIVLKKWYTIFKDHVSLGDYEIHDGMNLELYY   99 (100)
T ss_dssp             EEEEEECSSSSCEEEEEETTSBHHHHHHHHHHHHCCCGGGCEEEETTEECCSSCBHHHHTCCTTEEEEEEC
T ss_pred             EEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCHHHEEEEECCEECCCCCCHHHcCCCCCCEEEEEe
Confidence            78999999999999999999999999999999999999999999999999999999999999999999863

>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=99.69  E-value=7.9e-17  Score=127.69  Aligned_cols=72  Identities=29%  Similarity=0.517  Sum_probs=70.1

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++.+|+.+.++|++++||.+||++|+.++|+|+++|+|+|+|+.|+|+.+|++|||++|++|+|+.+
T Consensus         1 M~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~~i~~g~~l~l~~r   72 (88)
T 4fbj_B            1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLA   72 (88)
T ss_dssp             CEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTSBTTTTTCCTTCEEEEECB
T ss_pred             CEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHHCcChhHEEEEECCeECCCCCcHHHcCCCCCCEEEEEEE
Confidence            899999999999999999999999999999999999999999999999999999999999999999999854

>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=99.69  E-value=1e-16  Score=125.52  Aligned_cols=75  Identities=23%  Similarity=0.485  Sum_probs=69.6

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHH---hCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeecCCC
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVE---TQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNAAS   75 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~---~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~~~~   75 (380)
                      |+|+|++.+|+.+.++|++++||.+||++|+.+   +|+|+++|+|+|+|+.|+|+++|++|||++|++|||+.++++
T Consensus         6 m~i~vk~~~g~~~~~~v~~~~TV~~lK~~i~~~~~~~gip~~~qrLi~~Gk~L~D~~tL~~~~i~~g~~i~l~~~~~~   83 (85)
T 2wyq_A            6 VTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIRDYRIDEKNFVVVMVTKTK   83 (85)
T ss_dssp             EEEEEEETTSCEEEEEECTTSBHHHHHHHHHHHHCTTTCCGGGEEEEETTEECCTTSBGGGGCCCTTSEEEEEEC---
T ss_pred             EEEEEEECCCCEEEEEECCCCCHHHHHHHHHhhccccCCCHHHeEEEECCEECcCCCCHHHcCCCCCCEEEEEEcCCC
Confidence            789999999999999999999999999999998   899999999999999999999999999999999999976443

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

Probab=99.67  E-value=1.4e-16  Score=126.83  Aligned_cols=72  Identities=32%  Similarity=0.565  Sum_probs=69.7

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++.+|+.+.++|++++||.+||++|+.++|+|+++|+|+|+|+.|+|+.+|++|||++|++|||+.+
T Consensus        18 m~i~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~i~l~~r   89 (91)
T 3v6c_B           18 MQIFVNTLTGTHITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR   89 (91)
T ss_dssp             EEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTCBTGGGTCCTTCEEEEECC
T ss_pred             EEEEEEeCCCCEEEEEECCCCCHHHHHHHHHhhhCCChhhEEEEECCeECCCcCcHHHCCCCCCCEEEEEEe
Confidence            799999999999999999999999999999999999999999999999999999999999999999999854

>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=99.67  E-value=2.3e-16  Score=120.37  Aligned_cols=72  Identities=29%  Similarity=0.517  Sum_probs=69.8

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++.+|+.+.++|++++||.+||++|+.++|+|+++|+|+|+|+.|+|+.+|++|||++|++||++.+
T Consensus         1 M~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~~i~~~~q~L~~~g~~L~d~~tL~~~~i~~g~~i~l~~~   72 (76)
T 1ndd_A            1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLA   72 (76)
T ss_dssp             CEEEEECTTSCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEEC
T ss_pred             CEEEEECCCCCEEEEEECCCChHHHHHHHHHHHHCcChHHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEe
Confidence            899999999999999999999999999999999999999999999999999999999999999999999854

>2faz_A Ubiquitin-like containing PHD and ring finger DOM protein 1; cell cycle, DNA damage, DNA repair, DNA-binding, ligase, Met binding, nuclear protein; 2.00A {Homo sapiens} SCOP: d.15.1.1

Probab=99.67  E-value=1.8e-16  Score=122.24  Aligned_cols=72  Identities=24%  Similarity=0.359  Sum_probs=69.0

Q ss_pred             CEEEEEeCCCCEE-EEE-eCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQII-SLD-VDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~-~i~-V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++.+|+.+ .++ |++++||.+||++|+.++|+|+++|+|+|+|+.|+|+++|++|||++|++||++.+
T Consensus         3 m~i~Vk~~~g~~~~~l~~v~~~~tv~~lK~~i~~~~gip~~~qrL~~~g~~L~d~~tL~~~~i~~g~~i~l~~r   76 (78)
T 2faz_A            3 MWIQVRTMDGRQTHTVDSLSRLTKVEELRRKIQELFHVEPGLQRLFYRGKQMEDGHTLFDYEVRLNDTIQLLVR   76 (78)
T ss_dssp             EEEEEEETTSSCEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTCBTTTTTCCTTCEEEEEEC
T ss_pred             EEEEEEECCCCEEEEEeccCCCCCHHHHHHHHHHHHCcChhhEEEEECCEECCCCCCHHHcCCCCCCEEEEEEe
Confidence            8999999999885 999 99999999999999999999999999999999999999999999999999999865

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

Probab=99.67  E-value=2.1e-16  Score=121.23  Aligned_cols=72  Identities=19%  Similarity=0.445  Sum_probs=68.8

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeecC
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNA   73 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~~   73 (380)
                      |+|+|++ +|+.+.++|+++.||.+||++|+..+|+|+++|+|+|+|+.|+|+.+|++|||++|++||++.++
T Consensus         5 m~i~vk~-~g~~~~~~v~~~~tV~~LK~~i~~~~~i~~~~qrL~~~gk~L~d~~tL~~~~i~~g~~i~l~~~~   76 (77)
T 2bwf_A            5 LNIHIKS-GQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESYHIQDGHSVHLVKSQ   76 (77)
T ss_dssp             EEEEEEE-TTEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEECC
T ss_pred             EEEEEEE-CCEEEEEEECCCCcHHHHHHHHHHHhCCCHHHEEEEECCeEcCCCCCHHHcCCCCCCEEEEEEcC
Confidence            6899999 89999999999999999999999999999999999999999999999999999999999998753

>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=99.66  E-value=3.8e-16  Score=119.13  Aligned_cols=72  Identities=32%  Similarity=0.579  Sum_probs=69.9

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++.+|+.+.+++++++||.+||++|+.++|+|+++|+|+|+|+.|+|+.+|++|||++|++||++.+
T Consensus         1 M~i~vk~~~g~~~~i~v~~~~tv~~lK~~i~~~~~i~~~~q~L~~~g~~L~d~~tL~~~~i~~g~~i~l~~~   72 (76)
T 3a9j_A            1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQRESTLHLVLR   72 (76)
T ss_dssp             CEEEEEETTSCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTCBTGGGTCCTTCEEEEEEC
T ss_pred             CEEEEEcCCCCEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEEe
Confidence            899999999999999999999999999999999999999999999999999999999999999999999865

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

Probab=99.66  E-value=9.5e-17  Score=127.13  Aligned_cols=73  Identities=19%  Similarity=0.327  Sum_probs=68.0

Q ss_pred             CEEEEEeCCCCEEEEEe--CCCCCHHHHHHHH-HHHhCCCCcCeEEecCCeecCCcccchhcCC-CCCcEEEEeecC
Q 016931            1 MRITVMTADEQIISLDV--DPHETVENVKALL-EVETQVPLQQQQLLYNGREMNNAEKLSALGV-KDEDLVMMVSNA   73 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V--~~~~TV~~LK~~I-~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI-~dg~~I~l~~~~   73 (380)
                      |+|+||+.+|+.+.++|  ++++||.+||++| +.+.|+|+++|+|+|+||+|+|+.+|++|+| ++|++|+|+-.+
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 VHLTLKKIQAPKFSIEHDFSPSDTILQIKQHLISEEKASHISEIKLLLKGKVLHDNLFLSDLKVTPANSTITVMIKP   78 (87)
T ss_dssp             CEEEEEECSSSCEECCEECCTTCBHHHHHHHHHHTTSCSSSTTEEEEETTEECCTTCBHHHHCCCGGGCEEEEEECC
T ss_pred             EEEEEEcCCCCEEEEEEcCCCCCcHHHHHHHHHHHhcCCChHHEEEEECCEECcCcCCHHHcCCCCCCCEEEEEcCC
Confidence            89999999999888865  4999999999999 9999999999999999999999999999999 699999998653

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

Probab=99.66  E-value=2.3e-16  Score=124.61  Aligned_cols=70  Identities=24%  Similarity=0.451  Sum_probs=67.8

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS   71 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~   71 (380)
                      |+|+|++.+|+.+.++|++++||.+||++|+.++|+|+++|+|+|+|+.|+|+.+|++||| +|++|||+.
T Consensus        18 m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~qrLi~~Gk~L~D~~tL~~~~i-~g~~i~lv~   87 (88)
T 4eew_A           18 LEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEYNV-GGKVIHLVE   87 (88)
T ss_dssp             EEEEEEETTSCEEEEEEETTCBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBGGGGTC-TTEEEEEEE
T ss_pred             EEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHhCCCHHHEEEEECCEECCCCCcHHHcCC-CCcEEEEEE
Confidence            7899999999999999999999999999999999999999999999999999999999999 899999974

>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=99.65  E-value=2.8e-16  Score=123.77  Aligned_cols=72  Identities=29%  Similarity=0.520  Sum_probs=69.7

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++.+|+.+.++|++++||.+||++|+.++|+|+++|+|+|+|+.|+|+.+|++|||++|++|||+.+
T Consensus        13 m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~qrL~~~G~~L~d~~tL~~~~i~~~~~i~l~~r   84 (88)
T 3dbh_I           13 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLR   84 (88)
T ss_dssp             EEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCCEEETTEECCTTSBGGGGTCCTTCEEEECCC
T ss_pred             EEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHHCcCHHHEEEEECCeECCCCCcHHHcCCCCCCEEEEEEe
Confidence            789999999999999999999999999999999999999999999999999999999999999999999854

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

Probab=99.65  E-value=2.4e-16  Score=127.52  Aligned_cols=73  Identities=21%  Similarity=0.345  Sum_probs=67.9

Q ss_pred             CEEEEEeCCCCEEEE--EeCCCCCHHHHHHHH-HHHhCCCCcCeEEecCCeecCCcccchhcCC-CCCcEEEEeecC
Q 016931            1 MRITVMTADEQIISL--DVDPHETVENVKALL-EVETQVPLQQQQLLYNGREMNNAEKLSALGV-KDEDLVMMVSNA   73 (380)
Q Consensus         1 M~ItVk~~~g~~~~i--~V~~~~TV~~LK~~I-~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI-~dg~~I~l~~~~   73 (380)
                      |+|+||+.+|+.|++  +|++++||.+||++| +.+.|+|+++|+|+|+|++|+|+.+|++||| ++|++|+|+.+.
T Consensus        20 m~I~VKtl~g~~~~i~v~v~~~~TV~~lK~~I~~~~~gip~~~QrLi~~Gk~L~D~~tL~dy~I~~~g~ti~lmvsk   96 (98)
T 4a20_A           20 VHLTLKKIQAPKFSIEHDFSPSDTILQIKQHLISEEKASHISEIKLLLKGKVLHDNLFLSDLKVTPANSTITVMIKP   96 (98)
T ss_dssp             EEEEEEECSSSCEEEEEEECTTCBHHHHHHHHHHTTSCSCGGGEEEEETTEEECTTCBGGGSCCBTTBCEEEEEECC
T ss_pred             EEEEEEcCCCCEEEEEEecCCCChHHHHHHHHHHHhcCCChhhEEEEECCEECcCcCCHHHcCcCCCCCEEEEEEeC
Confidence            789999999997766  667999999999999 8889999999999999999999999999999 999999998754

>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=99.65  E-value=5.2e-16  Score=124.43  Aligned_cols=72  Identities=32%  Similarity=0.583  Sum_probs=70.0

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++.+|+.+.++|++++||.+||++|+.++|+|+++|+|+|+|+.|+|+.+|++|||++|++|||+.+
T Consensus         2 m~i~vk~~~g~~~~~~v~~~~TV~~LK~~i~~~~gip~~~qrL~~~G~~L~d~~tL~~~~i~~~~~i~l~~r   73 (96)
T 3k9o_B            2 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR   73 (96)
T ss_dssp             CEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEEC
T ss_pred             cEEEEEeCCCCEEEEEECCCCCHHHHHHHHHhhhCCChhHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEE
Confidence            899999999999999999999999999999999999999999999999999999999999999999999854

>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=99.65  E-value=3.5e-16  Score=122.23  Aligned_cols=72  Identities=31%  Similarity=0.568  Sum_probs=69.9

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++.+|+.+.++|++++||.+||++|+.++++|+++|+|+|+|+.|+|+.+|++|+|++|++|||+.+
T Consensus         4 m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~~ip~~~qrL~~~g~~L~d~~tL~~~~i~~~~~i~l~~r   75 (85)
T 3n3k_B            4 MRIVVKTLMGRTIILEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIHNHSALYLLLK   75 (85)
T ss_dssp             CEEEEECGGGCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETBEECCTTCBTTTTTCCTTCEEEEEEC
T ss_pred             EEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCeECCCCCCHHHCCCCCCCEEEEEEe
Confidence            899999999999999999999999999999999999999999999999999999999999999999999864

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

Probab=99.65  E-value=4.7e-16  Score=125.67  Aligned_cols=72  Identities=28%  Similarity=0.540  Sum_probs=69.9

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++.+|+.+.++|++++||.+||++|+.++|+|+++|+|+|+|+.|+|+++|++|||++|++|||+.+
T Consensus        23 m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~~i~~g~~i~l~~r   94 (98)
T 4hcn_B           23 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR   94 (98)
T ss_dssp             CEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTCBSGGGTCCTTEEEEEECB
T ss_pred             EEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHhCCChhHEEEEECCEECCCCCcHHHCCCCCCCEEEEEEe
Confidence            899999999999999999999999999999999999999999999999999999999999999999999854

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

Probab=99.65  E-value=2.5e-16  Score=124.73  Aligned_cols=72  Identities=19%  Similarity=0.216  Sum_probs=69.7

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++.+|+.+.++|++++||.+||++|+.++|+|+++|+|+|+|+.|+|+++|++|||++|++|+|+.+
T Consensus         5 m~I~Vk~~~g~~~~~~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~tL~~~~I~~g~~i~l~~~   76 (88)
T 2hj8_A            5 LSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNLR   76 (88)
T ss_dssp             EEEEEEETTSCEEEEEEESSSBHHHHHHHHHHHTCSCTTTEEEESSSSCCCTTSBHHHHHCSTTCEEEEEEC
T ss_pred             EEEEEECCCCCEEEEEECCCCcHHHHHHHHHHHhCCChhHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEE
Confidence            789999999999999999999999999999999999999999999999999999999999999999999865

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

Probab=99.65  E-value=4.8e-16  Score=120.39  Aligned_cols=72  Identities=28%  Similarity=0.473  Sum_probs=69.4

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++.+|+.+.++|++++||.+||++|+.++|+|+++|+|+|+|+.|+|+.+|++|||++|++||++.+
T Consensus         8 m~i~vk~~~g~~~~~~v~~~~tV~~LK~~i~~~~~i~~~~qrL~~~gk~L~d~~tL~~~~i~~g~~i~l~~~   79 (81)
T 2dzi_A            8 MQLTVKALQGRECSLQVPEDELVSTLKQLVSEKLNVPVRQQRLLFKGKALADGKRLSDYSIGPNSKLNLVVK   79 (81)
T ss_dssp             EEEEEEETTSCEEEEEECSSCBHHHHHHHHHHHTCCCTTTCEEEETTEECCTTSBGGGGTCCSSBCCEEECC
T ss_pred             EEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcCHHHEEEEECCeECCCCCcHHHcCCCCCCEEEEEEe
Confidence            789999999999999999999999999999999999999999999999999999999999999999999864

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

Probab=99.64  E-value=6.2e-16  Score=122.49  Aligned_cols=72  Identities=22%  Similarity=0.529  Sum_probs=69.5

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++.+|+.+.++|++++||.+||++|+.++|+|+++|+|+|+|+.|+|+.+|++|||++|++|+|+.+
T Consensus        10 ~~i~v~~~~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~i~l~~r   81 (88)
T 1sif_A           10 LQLFIKTLTGKTFTVEMEPSDTIENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR   81 (88)
T ss_dssp             CEEEEEETTSCEEEEECCTTSBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTSBSGGGTCCTTCEEEEEC-
T ss_pred             eEEEEEeCCCCEEEEEECCCChHHHHHHHHHHHHCcChhhEEEEECCEECCCCCcHHHcCCCCCCEEEEEEe
Confidence            899999999999999999999999999999999999999999999999999999999999999999999854

>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=99.64  E-value=6.1e-16  Score=120.78  Aligned_cols=72  Identities=29%  Similarity=0.553  Sum_probs=69.9

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++.+|+.+.+++++++||.+||++|+.++++|+++|+|+|+|+.|+|+.+|++|+|++|++|||+.+
T Consensus         4 m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~~i~~~~qrL~~~g~~L~d~~tL~~~~i~~~~~l~l~~r   75 (85)
T 3mtn_B            4 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKWSTLFLLLR   75 (85)
T ss_dssp             EEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTSBTGGGTCCTTCEEEEECC
T ss_pred             EEEEEEcCCCCEEEEEECCCCCHHHHHHHHHHHHCcChHHEEEEECCEECCCCCCHHHcCCCCCCEEEEEEE
Confidence            799999999999999999999999999999999999999999999999999999999999999999999854

>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=99.64  E-value=3.9e-16  Score=120.70  Aligned_cols=72  Identities=18%  Similarity=0.419  Sum_probs=69.7

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++.+|+.+.++|++++||.+||++|+.+.|+|+++|+|+|+|+.|+|++||++|||++|++||++.+
T Consensus         4 m~i~vk~~~g~~~~~~v~~~~tv~~lk~~i~~~~gi~~~~qrL~~~G~~L~d~~tl~~~~i~~~~~i~l~~~   75 (79)
T 2uyz_B            4 IKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQE   75 (79)
T ss_dssp             EEEEEECTTCCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCHHHHTCCTTEEEEEEEC
T ss_pred             EEEEEECCCCCEEEEEECCCChHHHHHHHHHHHHCCCcccEEEEECCEEeCCCCCHHHcCCCCCCEEEEEEe
Confidence            789999999999999999999999999999999999999999999999999999999999999999999864

>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=99.64  E-value=4.6e-16  Score=127.62  Aligned_cols=74  Identities=18%  Similarity=0.289  Sum_probs=70.8

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeecCC
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNAA   74 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~~~   74 (380)
                      |+|+|++.+|+.+.++|++++||.+||.+|+.++|+|+++|+|+|+|+.|+|+++|++|||++|++|||+.+.+
T Consensus        24 m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~g~ti~lv~~~~   97 (106)
T 1ttn_A           24 CQLRLRLSTGKDLKLVVRSTDTVFHMKRRLHAAEGVEPGSQRWFFSGRPLTDKMKFEELKIPKDYVVQVIVSQP   97 (106)
T ss_dssp             EEEEEEETTTEEEEEEECTTSHHHHHHHHHHHTTCCCSTTCEEEETTEECCTTSHHHHCCCSSSCEEEEECCCS
T ss_pred             EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHHCcCcccEEEEECCEECCCCCcHHHcCCCCCCEEEEEEeCC
Confidence            78999999999999999999999999999999999999999999999999999999999999999999997543

>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=99.64  E-value=6.5e-16  Score=121.54  Aligned_cols=72  Identities=21%  Similarity=0.406  Sum_probs=69.8

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++.+|+.+.++|++++||.+||++|+.++|+|+++|+|+|+|+.|+|+++|++|||++|++|||+.+
T Consensus         8 m~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi~~~~qrL~~~Gk~L~d~~tL~~~~i~~g~~i~l~~~   79 (87)
T 1wh3_A            8 IQVFVKNPDGGSYAYAINPNSFILGLKQQIEDQQGLPKKQQQLEFQGQVLQDWLGLGIYGIQDSDTLILSKK   79 (87)
T ss_dssp             EEEEEEETTTEEEEEEECSSSBHHHHHHHHHHHTCCCTTTEEEEETTEECCSSSBHHHHTCCTTEEEEEEEC
T ss_pred             EEEEEEcCCCCEEEEEeCCCChHHHHHHHHHHHhCCChHHEEEEECCEEccCCCCHHHCCCCCCCEEEEEEe
Confidence            789999999999999999999999999999999999999999999999999999999999999999999865

>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=99.63  E-value=1.3e-15  Score=120.48  Aligned_cols=72  Identities=25%  Similarity=0.373  Sum_probs=69.0

Q ss_pred             CEEEEEeCCC-CEEEE-EeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADE-QIISL-DVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g-~~~~i-~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++.+| +.+.+ +|++++||.+||++|+.++|+|+++|+|+|+|+.|+|+++|++|||++|++|||+.+
T Consensus         8 m~i~Vk~~~g~~~~~l~~v~~~~tV~~lK~~i~~~~gip~~~qrL~~~gk~L~d~~tL~~~~i~~g~~i~l~~~   81 (89)
T 1wy8_A            8 MWIQVRTIDGSKTCTIEDVSRKATIEELRERVWALFDVRPECQRLFYRGKQLENGYTLFDYDVGLNDIIQLLVR   81 (89)
T ss_dssp             EEEEEEETTCSCEEEEEEECTTCBHHHHHHHHHHHSCCCTTTEEEEETTEECCSSSBHHHHTCCTTCEEEEEEC
T ss_pred             EEEEEEECCCCceEEEEecCCCCCHHHHHHHHHHHHCcChhhEEEEECCeECCCCCCHHHCCCCCCCEEEEEEe
Confidence            7999999999 79999 599999999999999999999999999999999999999999999999999999865

>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=99.63  E-value=8.3e-16  Score=125.17  Aligned_cols=73  Identities=30%  Similarity=0.515  Sum_probs=68.0

Q ss_pred             CEEEEEeCCC----CEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCc-ccchhcCCCCCcEEEEeecC
Q 016931            1 MRITVMTADE----QIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNA-EKLSALGVKDEDLVMMVSNA   73 (380)
Q Consensus         1 M~ItVk~~~g----~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~-~tL~~~gI~dg~~I~l~~~~   73 (380)
                      |+|+|++..+    +.+.++|++++||++||++|+.++|+|+++|+|+|+|+.|+|+ ++|++|||++|++|||+.+.
T Consensus         8 m~I~Vk~~~~~~~~~~~~i~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~gk~L~D~~~tL~~ygI~~g~~l~l~~~~   85 (102)
T 1v5o_A            8 MLITVYCVRRDLTEVTFSLQVNPDFELSNFRVLCELESGVPAEEAQIVYMEQLLTDDHCSLGSYGLKDGDMVVLLQKD   85 (102)
T ss_dssp             EEEEEEECCCCCCCCEEEEEECTTCBHHHHHHHHHHHTCCCGGGBCEEETTEEECCSSSBHHHHTCCTTEEEEECBCC
T ss_pred             EEEEEEECCCCcCceEEEEEcCCCCCHHHHHHHHHHHHCcChHHeEEEECCEECCCCcccHHHCCCCCCCEEEEEECC
Confidence            7899999754    7899999999999999999999999999999999999999988 79999999999999998653

>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=99.63  E-value=6.7e-16  Score=124.96  Aligned_cols=73  Identities=15%  Similarity=0.181  Sum_probs=66.6

Q ss_pred             EEEEeCC----CCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeecCCC
Q 016931            3 ITVMTAD----EQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNAAS   75 (380)
Q Consensus         3 ItVk~~~----g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~~~~   75 (380)
                      |.|++.+    ++.+.++|++++||.+||++|+.++|+|+++|+|+|+||+|+|++||++|||++|++|+++...+.
T Consensus        18 i~V~~~~~~~~~~~~~lev~~~~TV~~lK~kI~~k~gip~~qQrLI~~GKiL~D~~TL~~y~I~~gsti~vl~lrg~   94 (100)
T 1wju_A           18 IEVFLPPRLKKDRKNLLETRLHITGRELRSKIAETFGLQENYIKIVINKKQLQLGKTLEEQGVAHNVKAMVLELKQS   94 (100)
T ss_dssp             EEEECCTTTCCSSSEEEEEESSSBHHHHHHHHHHHTTCCSTTCEEEETTEECCTTSBHHHHTCCSSEEEEEECCCCC
T ss_pred             EEEEecCCCCCCcEEEEEeCCcCHHHHHHHHHHHHHCcCHHHeEEEeCCeECCCCCcHHHcCCCCCCEEEEEEECCC
Confidence            5666666    778999999999999999999999999999999999999999999999999999999988865443

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

Probab=99.62  E-value=1.6e-15  Score=122.35  Aligned_cols=72  Identities=32%  Similarity=0.583  Sum_probs=70.0

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++.+|+.+.++|++++||.+||++|+.++|+|+++|+|+|+|+.|+|+.+|++|||++|++|+|+.+
T Consensus         1 M~I~Vk~~~g~~~~~~v~~~~TV~~LK~~I~~~~gi~~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~i~l~~~   72 (98)
T 1yx5_B            1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR   72 (98)
T ss_dssp             CEEEEEETTSCEEEEECCTTCBHHHHHHHHHHHTCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEEC
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcChhhEEEEECCEECCCCCCHHHcCCCCCCEEEEEEe
Confidence            999999999999999999999999999999999999999999999999999999999999999999999865

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

Probab=99.62  E-value=1.1e-15  Score=122.61  Aligned_cols=72  Identities=22%  Similarity=0.461  Sum_probs=68.4

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCc-ccchhcCCCCCcEEEEeecC
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNA-EKLSALGVKDEDLVMMVSNA   73 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~-~tL~~~gI~dg~~I~l~~~~   73 (380)
                      |+|+|++.++ .+.++|++++||.+||++|+.++|+|+++|+|+|+|+.|+|+ ++|++|||++|++|+|+.+.
T Consensus        16 ~~I~Vk~~~~-~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~~tL~~ygI~~gstl~lv~r~   88 (94)
T 2kan_A           16 IHVTVKFPSK-QFTVEVDRTETVSSLKDKIHIVENTPIKRMQLYYSGIELADDYRNLNEYGITEFSEIVVFLKS   88 (94)
T ss_dssp             EEEEEECSSC-EEEEEECTTCBHHHHHHHHHHHSSSCTTTEEEEETTEEECCTTSBHHHHTCCTTEEEEEEECC
T ss_pred             EEEEEEcCCc-EEEEEECCCCcHHHHHHHHHHHHCcCHHHEEEEECCEECCCCcccHHHCCCCCCCEEEEEEeC
Confidence            6899999877 899999999999999999999999999999999999999999 99999999999999998653

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

Probab=99.62  E-value=1.9e-15  Score=122.91  Aligned_cols=73  Identities=22%  Similarity=0.340  Sum_probs=69.2

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeecCC
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNAA   74 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~~~   74 (380)
                      |+|+|++. |+.+.++|++++||.+||++|+.++|+|+++|+|+|+|+.|+|+++|++|||++|++|+|+.+..
T Consensus        26 m~I~Vk~~-g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~gI~~g~~I~l~~~~~   98 (101)
T 2klc_A           26 MKVTVKTP-KEKEEFAVPENSSVQQFKEEISKRFKSHTDQLVLIFAGKILKDQDTLSQHGIHDGLTVHLVIKTQ   98 (101)
T ss_dssp             EEEEEECS-SCEEEEEECSCCCHHHHHHHHHHHHTCCGGGEEEEETTEEECTTCCTGGGTCCTTCEEEEEECCS
T ss_pred             EEEEEEeC-CcEEEEEECCCCCHHHHHHHHHHHHCcChhhEEEEECCEECCCcCcHHHcCCCCCCEEEEEEcCC
Confidence            78999998 88999999999999999999999999999999999999999999999999999999999987643

>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=99.61  E-value=2e-15  Score=120.71  Aligned_cols=72  Identities=21%  Similarity=0.303  Sum_probs=68.0

Q ss_pred             CEEEEEeCCCC--EEEEEeCCCCCHHHHHHHHHHHh--CCCCcCeEEecCCeecCCcccchhc--CCCCCcEEEEeec
Q 016931            1 MRITVMTADEQ--IISLDVDPHETVENVKALLEVET--QVPLQQQQLLYNGREMNNAEKLSAL--GVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~--~~~i~V~~~~TV~~LK~~I~~~~--gip~~~q~Li~~Gk~L~D~~tL~~~--gI~dg~~I~l~~~   72 (380)
                      |+|+|++.+++  .+.+++++++||.+||++|+.++  ++|+++|+|+|+|++|+|+.+|++|  +|++|++|||+.+
T Consensus         8 m~i~Vk~~~~~~~~~~v~v~~~~TV~~lK~~I~~~~~~~i~~~~QrLi~~Gk~L~D~~tL~~~~~~i~~~~~i~lv~~   85 (93)
T 1wgd_A            8 VTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLLDHQCLRDLLPKQEKRHVLHLVCN   85 (93)
T ss_dssp             CEEEEECSSSSCCCEEEECCTTSCHHHHHHHHHHHSTTCCCTTTCEEEETTEECCSSSCHHHHSCSSSCSEEEEEECC
T ss_pred             EEEEEEeCCCCeEEEEEecCCCCcHHHHHHHHHHHhcCCCChHHeEEEECCEECcCcCCHHHHhcCCCCCCEEEEEeC
Confidence            78999999888  67788889999999999999999  9999999999999999999999999  9999999999865

>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=99.61  E-value=1.2e-15  Score=123.20  Aligned_cols=72  Identities=18%  Similarity=0.419  Sum_probs=69.7

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++.+|+.+.++|.+++||.+||++|+.+.|+|+++|+|+|+|+.|.|+.||++|+|++|++|||+.+
T Consensus        22 m~I~Vk~~~g~~~~l~v~~~~tv~~lK~~i~~~~gip~~~qrLif~Gk~L~d~~tl~dy~i~~g~~I~l~~~   93 (97)
T 1wyw_B           22 IKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQE   93 (97)
T ss_dssp             EEEEEECTTCCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCHHHHTCCTTCEEEEEES
T ss_pred             EEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCChhhEEEEECCeEcCCCCCHHHCCCCCCCEEEEEEe
Confidence            789999999999999999999999999999999999999999999999999999999999999999999864

>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=99.61  E-value=1.7e-15  Score=122.96  Aligned_cols=74  Identities=20%  Similarity=0.347  Sum_probs=69.1

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeecCCC
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNAAS   75 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~~~~   75 (380)
                      |+|+|++.+|+ +.++|++++||.+||++|+.++|+|+++|+|+|+|+.|+|+++|++|||++|++|+|+.+..+
T Consensus        23 m~I~Vk~~~g~-~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~r~~~   96 (100)
T 1yqb_A           23 IKVTVKTPKDK-EDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQCGVRDGLTVHLVIKRQH   96 (100)
T ss_dssp             EEEEEECSSCE-EEEEEETTCBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBHHHHTCCTTCEEEEEECCCC
T ss_pred             EEEEEEcCCCc-EEEEECCCCcHHHHHHHHHHHHCcChhhEEEEECCEECCCcCcHHHCCCCCCCEEEEEEcCCC
Confidence            78999998886 799999999999999999999999999999999999999999999999999999999976433

>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=99.60  E-value=7.9e-16  Score=125.86  Aligned_cols=72  Identities=21%  Similarity=0.366  Sum_probs=67.4

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCC---------------cCeEEecCCeecC-CcccchhcCCCCC
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPL---------------QQQQLLYNGREMN-NAEKLSALGVKDE   64 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~---------------~~q~Li~~Gk~L~-D~~tL~~~gI~dg   64 (380)
                      |+|+|++++|+.++++|++++||.+||++|+.++++|+               ++|+|+|+|+.|. |++||++|||++|
T Consensus         8 M~I~Vk~l~g~~~~v~V~~~~TV~dLK~~I~~~~~i~~~~q~g~~~isw~~~w~q~~Li~~Gk~L~dD~~tL~dygI~~g   87 (105)
T 1v2y_A            8 MTVRVCKMDGEVMPVVVVQNATVLDLKKAIQRYVQLKQEREGGVQHISWSYVWRTYHLTSAGEKLTEDRKKLRDYGIRNR   87 (105)
T ss_dssp             EEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHHHHHHHTTCCCCCCHHHHHTTEEEESSSCEECCSSSBHHHHTCCSS
T ss_pred             EEEEEEecCCCEEEEEECCCChHHHHHHHHHHHhCCCcccccCcceeeeeecceeEEEEeCCcCccCCcCCHHHcCCCCC
Confidence            89999999999999999999999999999999999988               3579999999997 5699999999999


Q ss_pred             cEEEEeec
Q 016931           65 DLVMMVSN   72 (380)
Q Consensus        65 ~~I~l~~~   72 (380)
                      ++||++..
T Consensus        88 ~~l~lv~~   95 (105)
T 1v2y_A           88 DEVSFIKK   95 (105)
T ss_dssp             EEEEEEEC
T ss_pred             CEEEEEeh
Confidence            99999964

>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=99.39  E-value=7e-17  Score=123.81  Aligned_cols=72  Identities=18%  Similarity=0.357  Sum_probs=69.5

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++.+|+.+.++|++++||.+||++|+..+|+|+++|+|+|+|+.|+|+.+|++|||++|++||++.+
T Consensus         1 M~i~Vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi~~~~qrL~~~gk~L~d~~tL~~~~i~~g~~i~l~~r   72 (76)
T 3b1l_X            1 MIVFVRFNSSYGFPVEVDSDTSILQLKEVVAKQQGVPADQLRVIFAGKELPNHLTVQNCDLEQQSIVHIVQR   72 (76)
Confidence            899999999999999999999999999999999999999999999999999999999999999999999754

>1wx8_A Riken cDNA 4931431F19; ubiquitin-like domain, ubiquilin 1-like, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.15.1.1

Probab=99.60  E-value=1.7e-15  Score=121.71  Aligned_cols=72  Identities=18%  Similarity=0.299  Sum_probs=68.8

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeecC
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNA   73 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~~   73 (380)
                      |+|+|++. |+.+.++|++++||.+||++|+.++|+|+++|+|+|+|+.|+|+++|++|||++|++|||+.+.
T Consensus        18 m~i~Vk~~-g~~~~~~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~i~l~~~~   89 (96)
T 1wx8_A           18 IRVSVKTP-QDCHEFFLAENSNVRRFKKQISKYLHCNADRLVLIFTGKILRDQDILSQRGILDGSTVHVVVRS   89 (96)
T ss_dssp             EEEEEECS-SSEEEEEEETTCCHHHHHHHHHHHTCSCTTTBCCEETTEECCTTSCHHHHTCCTTEEEECCBCC
T ss_pred             EEEEEEEC-CeEEEEEECCCCCHHHHHHHHHHHhCCCHHHEEEEECCEECCCcCCHHHCCCCCCCEEEEEEeC
Confidence            78999998 8999999999999999999999999999999999999999999999999999999999998653

>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=99.60  E-value=4.4e-15  Score=121.63  Aligned_cols=72  Identities=21%  Similarity=0.358  Sum_probs=68.0

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeecC
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNA   73 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~~   73 (380)
                      |+|+|++.+|+ +.++|++++||.+||++|+.++|+|+++|+|+|+|+.|+|+++|++|||++|++|||+.+.
T Consensus        18 m~I~Vk~~~g~-~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~gi~~g~~i~l~~~~   89 (106)
T 1wx7_A           18 IKVTVKTPKDK-EDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQCGVRDGLTVHLVIKR   89 (106)
T ss_dssp             EEEEEECSSCE-EEEEEETTCCHHHHHHHHHHHHTCCTTTEEEEETTEECCTTSCHHHHTCCTTEEEEEEECC
T ss_pred             EEEEEEeCCCc-EEEEECCCCcHHHHHHHHHHHHCcChhhEEEEECCEECCCcCcHHHcCCCCCCEEEEEEcC
Confidence            78999998886 7899999999999999999999999999999999999999999999999999999999643

>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=99.60  E-value=2.8e-15  Score=123.98  Aligned_cols=72  Identities=32%  Similarity=0.583  Sum_probs=69.9

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++.+|+.+.++|++++||.+||.+|+.++|+|+++|+|+|+|+.|+|+++|++|||++|++|||+.+
T Consensus        36 m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~~gI~~gs~I~l~~r  107 (111)
T 3vdz_A           36 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR  107 (111)
T ss_dssp             EEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTTTTTCCTTCEEEEEEC
T ss_pred             EEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCChHHEEEEECCEECCCCCcHHHCCCCCCCEEEEEEe
Confidence            789999999999999999999999999999999999999999999999999999999999999999999864

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

Probab=99.59  E-value=2.5e-15  Score=120.28  Aligned_cols=70  Identities=20%  Similarity=0.332  Sum_probs=67.4

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++  |+.+.++|++++||.+||++|+.++|+|+++|+|+|+|+.|+|+++|++|||++|++|+|+.+
T Consensus        20 m~I~Vk~--g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~y~I~~gstI~lv~r   89 (93)
T 2l7r_A           20 MQLFVRA--QELHTFEVTGQETVAQIKAHVASLEGIAPEDQVVLLAGAPLEDEATLGQCGVEALTTLEVAGR   89 (93)
T ss_dssp             CEEEEES--SSEEEEECCSSCBHHHHHHHHHHHHTCCGGGCEEEETTEECCTTSBHHHHTCCSSCEEEEECC
T ss_pred             EEEEEEC--CCEEEEEeCCCCcHHHHHHHHHHHhCcChhHEEEEECCEECCCCCcHHHCCCCCCCEEEEEEe
Confidence            7999998  799999999999999999999999999999999999999999999999999999999999854

>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=99.59  E-value=2.6e-15  Score=119.47  Aligned_cols=73  Identities=30%  Similarity=0.373  Sum_probs=68.9

Q ss_pred             CEEEEEeCCCCEEEE-EeCCCCCHHHHHHHHHHHhCCCCcCeEEe---cCCeecCCcccchhcCCCCCcEEEEeecCC
Q 016931            1 MRITVMTADEQIISL-DVDPHETVENVKALLEVETQVPLQQQQLL---YNGREMNNAEKLSALGVKDEDLVMMVSNAA   74 (380)
Q Consensus         1 M~ItVk~~~g~~~~i-~V~~~~TV~~LK~~I~~~~gip~~~q~Li---~~Gk~L~D~~tL~~~gI~dg~~I~l~~~~~   74 (380)
                      |+|+|++ .|+.+.+ +|++++||.+||++|+.++|+|+++|+|+   |+|++|+|+.+|++|||++|++|||+..+.
T Consensus         8 m~i~Vk~-~g~~~~i~~v~~~~TV~~lK~~I~~~~gip~~~QkLi~~k~~Gk~L~D~~~L~~~~i~~g~~l~l~~~~~   84 (90)
T 1v5t_A            8 LPIIVKW-GGQEYSVTTLSEDDTVLDLKQFLKTLTGVLPERQKLLGLKVKGKPAENDVKLGALKLKPNTKIMMMGTRE   84 (90)
T ss_dssp             CCEEEEE-TTEEEEECSCCSSSBHHHHHHHHHHHTCCCTTTCEEESCEETTEECCTTSBHHHHTCCTTEEEEEECCCS
T ss_pred             EEEEEEE-CCEEEEEEEeCCCCCHHHHHHHHHHHHCcCHHHeEEEeeccCCcCcCCCCCHHHcCCCCCCEEEEEecCc
Confidence            7899997 7889999 99999999999999999999999999999   999999999999999999999999996543

>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=99.58  E-value=5.2e-15  Score=117.94  Aligned_cols=74  Identities=27%  Similarity=0.474  Sum_probs=67.7

Q ss_pred             CEEEEEeCCCCEEEEEeCCC-----CCHHHHHHHHHHHhCCCCcCeEEecCCeecCC-cccchhcCCCCCcEEEEeecCC
Q 016931            1 MRITVMTADEQIISLDVDPH-----ETVENVKALLEVETQVPLQQQQLLYNGREMNN-AEKLSALGVKDEDLVMMVSNAA   74 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~-----~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D-~~tL~~~gI~dg~~I~l~~~~~   74 (380)
                      |+|+|++ .|+.+.++|+++     .||.+||++|+..+|+|+++|+|+|+|+.|+| +.+|++|||++|++|||+..+.
T Consensus         8 ~~v~Vk~-~~~~~~i~v~~~~~~~~~TV~~LK~~i~~~~gip~~~qrL~~~Gk~L~D~~~~L~~~~i~~g~~i~l~~~~~   86 (92)
T 1wxv_A            8 LTVTVTH-SNEKHDLHVTSQQGSSEPVVQDLAQVVEEVIGVPQSFQKLIFKGKSLKEMETPLSALGIQDGCRVMLIGKKN   86 (92)
T ss_dssp             EEEEEEC-SSSEEEEEECCCSSSSSCBHHHHHHHHHHHTCCCTTTCEEEETTEEECCSSSBHHHHTCCSSEEEEEESCCS
T ss_pred             EEEEEEE-CCEEEEEEECCCcCcccCcHHHHHHHHHHHHCcCHHHEEEEECCeecCCCcccHHHCCCCCCCEEEEEecCC
Confidence            6899998 578899999995     99999999999999999999999999999998 5689999999999999997644


Q ss_pred             C
Q 016931           75 S   75 (380)
Q Consensus        75 ~   75 (380)
                      +
T Consensus        87 ~   87 (92)
T 1wxv_A           87 S   87 (92)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.58  E-value=4.9e-15  Score=121.66  Aligned_cols=75  Identities=21%  Similarity=0.335  Sum_probs=68.9

Q ss_pred             CEEEEEeCCC---CEEEEEeCC---------CCCHHHHHHHHHHHh--CCCCcC-eEEecCCeecCCcccchhcCCCCCc
Q 016931            1 MRITVMTADE---QIISLDVDP---------HETVENVKALLEVET--QVPLQQ-QQLLYNGREMNNAEKLSALGVKDED   65 (380)
Q Consensus         1 M~ItVk~~~g---~~~~i~V~~---------~~TV~~LK~~I~~~~--gip~~~-q~Li~~Gk~L~D~~tL~~~gI~dg~   65 (380)
                      |+|+||+.++   +.+.++|++         ++||.+||++|+.++  |+|+++ |+|+|+|+.|+|+++|++|||++|+
T Consensus        13 ~~i~Vk~~~~~~~~~~~l~v~~~~~~~v~~~~~TV~~LK~~i~~~~~~gip~~~~qrLi~~Gk~L~D~~tL~~y~i~~g~   92 (107)
T 1x1m_A           13 WHLAVKLADQPLAPKSILQLPETELGEYSLGGYSISFLKQLIAGKLQESVPDPELIDLIYCGRKLKDDQTLDFYGIQPGS   92 (107)
T ss_dssp             CCEEEEETTCTTSCCEEECCCCCSSCSSCCCCCBHHHHHHHHHHHCTTTCCCSSSEEEEETTEECCTTCBHHHHTCCTTC
T ss_pred             eEEEEEeCCCCCccEEEEEecCccccccCcccCCHHHHHHHHHHHhccCCChhhcEEEEECCeECCCCCcHHHcCCCCCC
Confidence            7899999888   789999554         599999999999999  999999 9999999999999999999999999


Q ss_pred             EEEEeecCCC
Q 016931           66 LVMMVSNAAS   75 (380)
Q Consensus        66 ~I~l~~~~~~   75 (380)
                      +|||+.+..+
T Consensus        93 ~i~lv~~~~~  102 (107)
T 1x1m_A           93 TVHVLRKSWS  102 (107)
T ss_dssp             EEEEEESSCC
T ss_pred             EEEEEeCCCC
Confidence            9999977544

>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=99.58  E-value=5.9e-15  Score=118.32  Aligned_cols=72  Identities=17%  Similarity=0.269  Sum_probs=67.5

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCc-ccchhcCCCCCcEEEEeecCCC
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNA-EKLSALGVKDEDLVMMVSNAAS   75 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~-~tL~~~gI~dg~~I~l~~~~~~   75 (380)
                      |+|+|++.+|+.+.++|++++||.+||++|+.++   +++|+|+|+|+.|+|+ ++|++|||++|++|||+...+.
T Consensus         8 m~i~Vk~~~g~~~~~~v~~~~TV~~LK~~i~~~~---~~~qrLi~~Gk~L~D~~~tL~~y~i~~g~~i~l~~~~~~   80 (95)
T 1wia_A            8 INVRLKFLNDTEELAVARPEDTVGTLKSKYFPGQ---ESQMKLIYQGRLLQDPARTLSSLNITNNCVIHCHRSPPG   80 (95)
T ss_dssp             EEEEEEETTTEEEEEEECSSSBHHHHHHHHSSST---TTTCEEEETTEECCCSSCBTTTTTCCTTEEEEEECCCCC
T ss_pred             EEEEEEeCCCCEEEEEECCCCcHHHHHHHHHhhC---cCcEEEEECCEEccCCcCCHHHcCCCCCCEEEEEECCCC
Confidence            7899999999999999999999999999999998   8999999999999999 9999999999999999976443

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

Probab=99.57  E-value=4.5e-15  Score=122.48  Aligned_cols=72  Identities=21%  Similarity=0.285  Sum_probs=66.2

Q ss_pred             EEEEE-eCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeecC
Q 016931            2 RITVM-TADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNA   73 (380)
Q Consensus         2 ~ItVk-~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~~   73 (380)
                      .|+|+ ...++.++++++++.||.+||+.++.++++|+++|+|+|+||+|+|+.||++|||++|.+|||+.+.
T Consensus        17 tvkv~l~~~~~k~tv~v~~d~TV~dLKe~ls~~~~iP~e~qrLIy~GKiLKD~eTL~~~gIk~g~TIhLvi~s   89 (118)
T 2daf_A           17 TVKVVLIPVGQEIVIPFKVDTILKYLKDHFSHLLGIPHSVLQIRYSGKILKNNETLVQHGVKPQEIVQVEIFS   89 (118)
T ss_dssp             EEEEEETTTCCEEEEEECSSSCSHHHHHHHHHHHTCCTTTEEEEETTEEECSSCCHHHHSCCSSCEEEEEEEE
T ss_pred             EEEEEEcCCCcEEEEEeCCCCcHHHHHHHHHhhhCCChHHEEEEECCeEcCCcchHHHcCCCCCCEEEEEEec
Confidence            34555 5568899999999999999999999999999999999999999999999999999999999999763

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

Probab=99.57  E-value=1.5e-15  Score=123.61  Aligned_cols=71  Identities=20%  Similarity=0.452  Sum_probs=67.2

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++ +|+.+.++|++++||.+||++|+.++|+|+++|+|+|+|+.|+|+.+|++|||++|++|+|+.+
T Consensus        29 i~I~Vk~-~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~~gI~~g~tI~lv~~   99 (101)
T 3m63_B           29 LNIHIKS-GQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESYHIQDGHSVHLVKS   99 (101)
T ss_dssp             CCEEEEC-SSCCCCBCCCTTSBHHHHHHHHHHHHSCCSTTCCEEETTEECCTTSBTTTTTCCTTEEEEECCC
T ss_pred             EEEEEEE-CCEEEEEEeCCCCCHHHHHHHHHHHHCcChHHEEEEECCEECCCcCcHHHCCCCCCCEEEEEeC
Confidence            4678887 8888999999999999999999999999999999999999999999999999999999999865

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

Probab=99.57  E-value=9e-15  Score=129.76  Aligned_cols=72  Identities=28%  Similarity=0.540  Sum_probs=70.2

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++.+|+.+.++|++++||.+||++|+.++|+|+++|+|+|+|+.|+|+++|++|||++|++|||+.+
T Consensus         1 MqI~Vk~~~Gk~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~y~I~~gstI~Lvlr   72 (169)
T 3l0w_B            1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR   72 (169)
T ss_dssp             CEEEEEETTSCEEEEECCTTCBHHHHHHHHHHHHCCCTTTEEEEETTEECCTTSBGGGGTCCTTCEEEEEEC
T ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHHCcCHHHEEEEECCccccCcCcHHHcCCCCCCEEEEEEE
Confidence            899999999999999999999999999999999999999999999999999999999999999999999854

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

Probab=99.57  E-value=3.2e-15  Score=121.17  Aligned_cols=70  Identities=19%  Similarity=0.292  Sum_probs=64.3

Q ss_pred             CEEEEEeCCCC--EEEEEeCCCCCHHHHHHHHHHHh-CCC-CcCeEEecCCeecCCcccchhc--CCCCCcEEEEe
Q 016931            1 MRITVMTADEQ--IISLDVDPHETVENVKALLEVET-QVP-LQQQQLLYNGREMNNAEKLSAL--GVKDEDLVMMV   70 (380)
Q Consensus         1 M~ItVk~~~g~--~~~i~V~~~~TV~~LK~~I~~~~-gip-~~~q~Li~~Gk~L~D~~tL~~~--gI~dg~~I~l~   70 (380)
                      |+|+||+++|+  .+.++|++++||.+||++|+.++ |+| +++|+|+|+||+|+|+++|++|  +|++|++|||+
T Consensus        24 m~I~VK~~~g~~~~i~l~v~~~~TV~~LK~~I~~~~~g~pp~~~QrLIy~Gk~L~D~~tL~~y~~~I~~~~tihLv   99 (99)
T 2kdb_A           24 VTLIIKAPNQKYSDQTISCFLNWTVGKLKTHLSNVYPSKPLTKDQRLVYSGRLLPDHLQLKDILRKQDEYHMVHLV   99 (99)
T ss_dssp             EEEEEECTTSSSCCEEEEECTTSBHHHHHHHHHHHSTTCCCTTTCCEEETTEEECTTSBTHHHHTTTCSEEEEEEC
T ss_pred             EEEEEEcCCCCEEEEEEEcCCCCHHHHHHHHHHHHhcCCCChhhEEEEECCEECCCCCCHHHHhcCCCCCCEEEeC
Confidence            68999999887  57899999999999999999974 665 5999999999999999999999  99999999985

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

Probab=99.57  E-value=8.1e-15  Score=123.76  Aligned_cols=72  Identities=19%  Similarity=0.325  Sum_probs=68.6

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeecC
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNA   73 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~~   73 (380)
                      |+|+|++. |+.+.++|++++||.+||.+|+.++|+|+++|+|+|+|+.|+|+++|++|||++|++|+|+.+.
T Consensus        33 m~I~Vk~~-g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~dygI~~gstI~lv~~~  104 (125)
T 1j8c_A           33 IKVTVKTP-KEKEEFAVPENSSVQQFKEAISKRFKSQTDQLVLIFAGKILKDQDTLIQHGIHDGLTVHLVIKR  104 (125)
T ss_dssp             EEEEEECS-SCEEEEEECTTCCHHHHHHHHHHHHCSCSSSEEEEETTEEESTTSCGGGTTCSSSEEEEEEEC-
T ss_pred             EEEEEEeC-CeEEEEEECCCCcHHHHHHHHHHHHCcCcceEEEEECCEEcCCCCCHHHcCCCCCCEEEEEecc
Confidence            78999998 8999999999999999999999999999999999999999999999999999999999999653

>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=99.56  E-value=1e-14  Score=143.97  Aligned_cols=71  Identities=25%  Similarity=0.527  Sum_probs=67.1

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHH---HhCCCCcCeEEecCCeecCCcccchhcCCCCCcEE-EEee
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEV---ETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLV-MMVS   71 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~---~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I-~l~~   71 (380)
                      |+|+||+.+|+.+.|+|++++||.+||++|+.   ++|+|+++|+|+|+||+|+|+++|++|||++|++| ||+.
T Consensus         8 M~I~VKtl~Gk~~~leV~~~~TV~~LK~~I~~~~~~~gip~~~QrLiy~GK~L~D~~tL~dygI~~gstIv~lv~   82 (368)
T 1oqy_A            8 VTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIRDYRIDEKNFVVVMVT   82 (368)
T ss_dssp             CCEEEEETTTEEEEECCCTTCBHHHHHHHHHHHTCSSSCCSTEEEEESSSSEECSSSBTTTTCCCTTSCEEEEEE
T ss_pred             EEEEEEeCCCCEEEEEeCCCChHHHHHHHHHHHhCcCCCChhheEEEECCeecCCcCCHHHcCCCCCCEEEEEEe
Confidence            89999999999999999999999999999999   57799999999999999999999999999999998 6653

>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=99.56  E-value=4.8e-15  Score=119.45  Aligned_cols=72  Identities=19%  Similarity=0.263  Sum_probs=67.4

Q ss_pred             CEEEEEeCCCCEE-EEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeecCC
Q 016931            1 MRITVMTADEQII-SLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNAA   74 (380)
Q Consensus         1 M~ItVk~~~g~~~-~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~~~   74 (380)
                      |+|+|++ .|+.+ .++|++++||.+||++|+.++|+|+++|+|+|+|+.|+|+ +|++|||++|++|||+..+.
T Consensus         8 m~i~Vk~-~g~~~~~l~v~~~~TV~~lK~~I~~~tgip~~~QkLi~~Gk~L~D~-tL~~~~I~~g~~i~l~~~~~   80 (96)
T 1wgg_A            8 YSVTVKW-GKEKFEGVELNTDEPPMVFKAQLFALTGVQPARQKVMVKGGTLKDD-DWGNIKMKNGMTVLMMGSAD   80 (96)
T ss_dssp             EEEEEEE-TTEEEEEEEEESSSCHHHHHHHHHHHTCCCTTTSCCEETTEECCSS-CCCSCCCCSSCEEECCCCCC
T ss_pred             EEEEEEE-CCEEEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCcCCCCC-CHHHCCCCCCCEEEEEecch
Confidence            6899997 68889 6999999999999999999999999999999999999999 99999999999999997644

>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=99.56  E-value=6.4e-15  Score=118.41  Aligned_cols=72  Identities=17%  Similarity=0.272  Sum_probs=66.0

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeecCC
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNAA   74 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~~~   74 (380)
                      |+|+|+. .++.+.++|++++||.+||++|+.++|+|+++|+|+|+|+.| |+.+|++|||++|++|||+..+.
T Consensus        18 ~~i~Vk~-~g~~~~i~v~~~~TV~~LK~~I~~~tgip~~~QrL~~~Gk~L-dd~tL~~~~i~~g~~i~lv~~~~   89 (95)
T 1v86_A           18 VDLKIIW-NKTKHDVKVPLDSTGSELKQKIHSITGLPPAMQKVMYKGLVP-EDKTLREIKVTSGAKIMVVGSTI   89 (95)
T ss_dssp             EEEEEEE-TTEEEEEEECTTSBHHHHHHHHHHHHCSCSTTCCCBSSSBCC-SSSBHHHHCCCTTEEEEECCSSC
T ss_pred             EEEEEEE-CCEEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCeeC-CcCcHHHCCCCCCCEEEEEeccc
Confidence            5788885 688999999999999999999999999999999999999999 55699999999999999997643

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

Probab=99.56  E-value=1.3e-14  Score=119.96  Aligned_cols=72  Identities=32%  Similarity=0.583  Sum_probs=69.6

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++.+|+.+.++|+++.||.+||++|+.++|+|+++|+|+|+|+.|+|+++|++|||++|++|||+.+
T Consensus        36 m~I~Vk~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~gI~~gs~I~l~~r  107 (111)
T 2ojr_A           36 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR  107 (111)
T ss_dssp             EEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHCCCTTTEEEEETTEECCSSCBTTTTTCCTTCEEEEEEC
T ss_pred             EEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHHHHCcCcccEEEEECCEECCCCCcHHHcCCCCCCEEEEEEe
Confidence            789999999999999999999999999999999999999999999999999999999999999999999864

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

Probab=99.55  E-value=1.4e-14  Score=114.03  Aligned_cols=70  Identities=23%  Similarity=0.349  Sum_probs=65.2

Q ss_pred             EEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeecC
Q 016931            4 TVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNA   73 (380)
Q Consensus         4 tVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~~   73 (380)
                      .+++.+|+.+.++|++++||.+||++|+.++|+|+++|+|+|+|+.|+|+++|++|||++|++|+|+..+
T Consensus        15 ~~~~~~g~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~l~l~~s~   84 (85)
T 2kd0_A           15 LTVKFGGKSIPLSVSPDCTVKDLKSQLQPITNVLPRGQKLIFKGKVLVETSTLKQSDVGSGAKLMLMASQ   84 (85)
T ss_dssp             EEEEETTEEEEEEECTTSBHHHHHHHHHHHHCCCTTTCEEEETTEECCTTCBTTTTTCCTTEEEEEECCC
T ss_pred             EEEEECCEEEEEEECCCCcHHHHHHHHHHHHCcChHHEEEEECCeECCCcCCHHHCCCCCCCEEEEEEeC
Confidence            4555689999999999999999999999999999999999999999999999999999999999998653

>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=99.55  E-value=1.6e-14  Score=120.16  Aligned_cols=75  Identities=13%  Similarity=0.256  Sum_probs=67.2

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHH------HhCC--CCcCeEEecCCeecCCcccchhcCCCCC--cEEEEe
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEV------ETQV--PLQQQQLLYNGREMNNAEKLSALGVKDE--DLVMMV   70 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~------~~gi--p~~~q~Li~~Gk~L~D~~tL~~~gI~dg--~~I~l~   70 (380)
                      |+|+|++..|++++++|++++||.+||++|+.      +.++  |+++|+|+|.||+|+|+.||++|+|+.+  .+|||+
T Consensus        17 m~I~vKtl~G~t~~lev~~s~TV~~lK~kI~~~~p~dwke~~p~p~~qqrLIy~GK~LeD~~TL~~y~I~~~~~~tlhLv   96 (116)
T 1wgh_A           17 INLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVTLGALKLPFGKTTVMHLV   96 (116)
T ss_dssp             EEEEEECSSSCEEEEEECTTCBHHHHHHHHHHSSSCCSSCCCCCCTTTEEEEETTEEECSSCBTTTTTCCSSCEEEEEEE
T ss_pred             EEEEEEeCCCCEEEEEECCcCHHHHHHHHHHHhcccccccCCCCChHHEEEEECCcCCCCCCcHHHcCCCCCCceEEEEE
Confidence            78999999999999999999999999999999      5575  6999999999999999999999999877  578888


Q ss_pred             ecCCC
Q 016931           71 SNAAS   75 (380)
Q Consensus        71 ~~~~~   75 (380)
                      .+...
T Consensus        97 lr~~~  101 (116)
T 1wgh_A           97 ARETL  101 (116)
T ss_dssp             ECSSC
T ss_pred             ccCCC
Confidence            65433

>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=99.55  E-value=6.7e-15  Score=122.41  Aligned_cols=72  Identities=19%  Similarity=0.259  Sum_probs=67.0

Q ss_pred             CEEEEEeCCCC-EEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCC-------CCcEEEEeec
Q 016931            1 MRITVMTADEQ-IISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVK-------DEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~-~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~-------dg~~I~l~~~   72 (380)
                      |+++|+...++ ++.++|++++||.+||++|+.+.|+|+++|+|+|+||+|+|++||++|||+       ++++|||+-+
T Consensus         1 M~mfl~ir~~ktti~lev~~sdTV~~lK~kI~~~egIP~~qQrLi~~Gk~LeD~~TLsdy~I~~~~a~~q~~stL~L~lr   80 (118)
T 2fnj_B            1 MDVFLMIRRHKTTIFTDAKESSTVFELKRIVEGILKRPPEEQRLYKDDQLLDDGKTLGECGFTSQTARPQAPATVGLAFR   80 (118)
T ss_dssp             CEEEEEEEEBTEEEEEEEETTSBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBHHHHTCCTTTSBTTBCEEEEEEEB
T ss_pred             CcEEEEEecCCEEEEEEeCCcChHHHHHHHHHHHhCCCHHHeEEEECCeECCCCCCHHHcCcccccccCCCCCEEEEEec
Confidence            77888877776 589999999999999999999999999999999999999999999999999       7999999865

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

Probab=99.55  E-value=1.4e-14  Score=118.17  Aligned_cols=72  Identities=25%  Similarity=0.296  Sum_probs=67.1

Q ss_pred             CEEEEEeCCC--CEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCC-CCCcEEEEeec
Q 016931            1 MRITVMTADE--QIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGV-KDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g--~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI-~dg~~I~l~~~   72 (380)
                      |+|+|++..+  ..++++|++++||.+||++|+.++|+|+++|||+|+|+.++|++||++||| ++|+++||+.-
T Consensus        25 l~v~v~d~~s~~~~i~l~V~ps~TV~~LK~~I~~k~Gipp~~QRli~ggkll~D~~TL~~ygI~~~G~t~hL~l~   99 (105)
T 4dbg_A           25 LWVSVEDAQMHTVTIWLTVRPDMTVASLKDMVFLDYGFPPVLQQWVIGQRLARDQETLHSHGVRQNGDSAYLYLL   99 (105)
T ss_dssp             EEEEEEESSSCCEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEEECTTCBTGGGTCCSTTCEEEEEEC
T ss_pred             EEEEEEccCCCCceEEEEECCcChHHHHHHHHHHHhCCCHHHEEEeccCeEccCcCcHHHcCCCCCCCEEEEEEE
Confidence            6899998764  689999999999999999999999999999999999999999999999999 59999999864

>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=99.54  E-value=9.7e-15  Score=121.08  Aligned_cols=72  Identities=19%  Similarity=0.259  Sum_probs=67.8

Q ss_pred             CEEEEEeCCCC-EEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCC-------CcEEEEeec
Q 016931            1 MRITVMTADEQ-IISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKD-------EDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~-~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~d-------g~~I~l~~~   72 (380)
                      |.++++...++ ++.+++.+++||.+||++|+.+.|+|+++|+|+|+|++|+|++||++|||++       +++|||+-+
T Consensus         1 m~vFl~Ikr~ktTI~ldve~sdTV~~lK~kI~~~~giPp~qQrLI~~Gk~LeD~kTL~dy~I~~~ta~~q~~atl~Lvlr   80 (118)
T 4ajy_B            1 MDVFLMIRRHKTTIFTDAKESSTVFELKRIVEGILKRPPDEQRLYKDDQLLDDGKTLGECGFTSQTARPQAPATVGLAFR   80 (118)
T ss_dssp             CEEEEEEEEBTEEEEEEEETTSBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTTTTTCCGGGSBTTBCEEEEEEEC
T ss_pred             CceEEEEecCCEEEEEEcCCCChHHHHHHHHHHHHCCCHHHeEEEeCCeECCCcCCHHHcCCCcCcccCCCCCEEEEEEe
Confidence            78888887776 6889999999999999999999999999999999999999999999999999       999999854

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

Probab=99.53  E-value=2.7e-14  Score=118.60  Aligned_cols=72  Identities=25%  Similarity=0.504  Sum_probs=69.4

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      .+|+|++.+|+.+.++|++++||.+||++|+.++|+|+++|+|+|+|+.|+|+++|++|||++|++|+|+.+
T Consensus        10 ~~i~vk~l~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~ygI~~gstI~l~~~   81 (114)
T 2kdi_A           10 FQIFAKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIWAGKQLEDGRTLSDYNIQRESTLHLVLR   81 (114)
T ss_dssp             CEEEEEETTCCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTCBTTTTTCCSSCEEEEEEC
T ss_pred             EEEEEEeCCCcEEEEEECCCCcHHHHHHHHHHHHCcChHHEEEEECCEECCCCCcHHHCCCCCCCEEEEEEE
Confidence            379999999999999999999999999999999999999999999999999999999999999999999865

>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=99.53  E-value=1.9e-14  Score=125.77  Aligned_cols=72  Identities=19%  Similarity=0.216  Sum_probs=69.7

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++.+|+.+.++|++++||.+||++|+.++|+|+++|+|+|+|+.|+|+.+|++|||++|++|||+.+
T Consensus        82 m~i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gip~~~q~L~~~G~~L~d~~tL~~y~i~~g~~l~l~~r  153 (159)
T 3rt3_B           82 LSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNLR  153 (159)
T ss_dssp             EEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEEC
T ss_pred             EEEEEECCCCCEEEEEeCCCCCHHHHHHHHHHHHCCCHHHEEEEECCeecCCCCCHHHcCCCCCCEEEEEEe
Confidence            789999999999999999999999999999999999999999999999999999999999999999999854

>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=99.53  E-value=1.4e-14  Score=119.71  Aligned_cols=72  Identities=21%  Similarity=0.302  Sum_probs=68.6

Q ss_pred             CEEEEEeC---CCCEEEEEeCC-CCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTA---DEQIISLDVDP-HETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~---~g~~~~i~V~~-~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|+++   +|+.+.++|++ ++||.+||++|+..+|+|+++|+|+|+|+.|+|+.+|++|||++|++|||+.+
T Consensus        28 i~i~Vk~~~~~~g~~~~l~v~~l~~TV~~LK~~I~~~~gip~~~QrL~~~Gk~L~D~~tL~~y~I~~g~~l~l~~r  103 (111)
T 1we6_A           28 ATIRVSKPNENDGQFMEITVQSLSENVGSLKEKIAGEIQIPANKQKLSGKAGFLKDNMSLAHYNVGAGEILTLSLR  103 (111)
T ss_dssp             EEEEECCTTCSSSCCEEEEESCSSSBHHHHHHHHHHHTTCCTTTSEEECSSSBCCTTSBTTTTTCSSSCEEEEECS
T ss_pred             EEEEEEecccCCCcEEEEEecCCCCcHHHHHHHHHHHHCCCHHHeEEEECCEECCCCCcHHHCCCCCCCEEEEEEE
Confidence            68999998   78999999998 99999999999999999999999999999999999999999999999999854

>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=99.53  E-value=3.2e-14  Score=124.34  Aligned_cols=72  Identities=19%  Similarity=0.256  Sum_probs=70.0

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEe-c-CCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLL-Y-NGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li-~-~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++.+|+.+.++|++++||.+||++|+.++|+|+++|+|+ | +|+.|+|+.+|++|||++|++||++.+
T Consensus         3 m~i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gip~~~QrL~~~~~g~~L~d~~tL~~y~i~~~~~l~l~~~   76 (159)
T 3rt3_B            3 WDLTVKMLAGNEFQVSLSSSMSVSELKAQITQKIGVHAFQQRLAVHPSGVALQDRVPLASQGLGPGSTVLLVVD   76 (159)
T ss_dssp             CEEEEEETTSCEEEEECCTTCCHHHHHHHHHHHHCCCGGGEEEEEETTCCBCCTTSCGGGGTCCTTCEEEEEEC
T ss_pred             eEEEEEECCCCEEEEEeCCCCcHHHHHHHHHHHhCCCHHHEEEEEcCCCCCCCCCCCHHHcCCCCCCEEEEEcc
Confidence            79999999999999999999999999999999999999999999 9 799999999999999999999999976

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

Probab=99.52  E-value=2.4e-14  Score=120.66  Aligned_cols=74  Identities=14%  Similarity=0.271  Sum_probs=67.2

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHH------HhCC--CCcCeEEecCCeecCCcccchhcCCCCCc--EEEEe
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEV------ETQV--PLQQQQLLYNGREMNNAEKLSALGVKDED--LVMMV   70 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~------~~gi--p~~~q~Li~~Gk~L~D~~tL~~~gI~dg~--~I~l~   70 (380)
                      |+|+|++.+|++++++|++++||.+||++|+.      +.|+  ++++|+|+|.||+|+|++||++|+|++|+  +|||+
T Consensus        18 m~I~vktl~G~~~~lev~~s~TV~~lK~~I~~~~p~dwke~ip~~~~~qrLIy~GK~LeD~~TL~~y~I~~~~~~tlhlv   97 (125)
T 2gow_A           18 INLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVTLGALKLPFGKTTVMHLV   97 (125)
T ss_dssp             EEEEEECTTSCEEEEEECTTSBHHHHHHHHHSSCCCSCCCCTTCCGGGEEEESSSSEEESSCBTGGGCCCTTSEEEEEEE
T ss_pred             EEEEEEeCCCCEEEEEeCCccHHHHHHHHHHHHCCcccccCCCCChHHEEEEECCcCCCCCCcHHHcCCCCCCceEEEEE
Confidence            68999999999999999999999999999999      6787  48999999999999999999999999887  67888


Q ss_pred             ecCC
Q 016931           71 SNAA   74 (380)
Q Consensus        71 ~~~~   74 (380)
                      .+..
T Consensus        98 ~r~~  101 (125)
T 2gow_A           98 ARET  101 (125)
T ss_dssp             ECSC
T ss_pred             ecCC
Confidence            6543

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

Probab=99.52  E-value=2.1e-14  Score=129.33  Aligned_cols=72  Identities=31%  Similarity=0.547  Sum_probs=70.0

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++.+|+++.++|++++||.+||++|+.++|+|+++|+|+|+|+.|+|+.+|++|||++|++|||+.+
T Consensus       106 MqI~VKtl~Gkt~~l~V~~s~TV~~LK~kI~~~~gIp~~~QrLi~~Gk~L~D~~tL~dygI~~gstI~Lvlr  177 (189)
T 3q3f_A          106 GQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR  177 (189)
T ss_dssp             EEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCCEEETTEECCTTCBGGGGTCCTTCEEEECCC
T ss_pred             eeeeeecCCCCEEEEEeCCCCcHHHHHHHHHhccCCCHHHEEEEECCEECCCCCCHHHCCCCCCCEEEEEEE
Confidence            899999999999999999999999999999999999999999999999999999999999999999999854

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

Probab=99.52  E-value=1.6e-14  Score=114.09  Aligned_cols=72  Identities=17%  Similarity=0.223  Sum_probs=63.3

Q ss_pred             EEEEE--eCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEec-------CCeecCCcccchhcCCCCCcEEEEeec
Q 016931            2 RITVM--TADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLY-------NGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         2 ~ItVk--~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~-------~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      +|.|.  ..+.+.+++.+++++||++||++|+.++|+|+++|+|+|       .|+.|+|+++|++|||++|++|||+..
T Consensus         4 ~v~iths~~~~~~~E~r~~~s~TI~~lK~ki~~~~Gip~~~QrLi~~~~~~~~~g~~l~d~~tL~~Y~i~~g~~ihlvd~   83 (86)
T 4b6w_A            4 KVSLTHSASRMRVPEKRYGLAQTIESIKENVFTHFATPPEYMQLQLIDDRGITIEKNMANDKQLGYYQCRDEFVIHVVDL   83 (86)
T ss_dssp             EEEEEETTCSCCEEEEEEETTSBHHHHHHHHHTTSCCCGGGEEEEEECTTSCEEESSCCTTSBGGGGTCCTTCEEEEEEC
T ss_pred             EEEEEEcCCCCeEEEEEcCccCcHHHHHHHHHHHHCCCHHHEEEEEecCCCCceeeEcCCCCCHHHCCCCCCCEEEEEeC
Confidence            34444  345677899999999999999999999999999999997       478899999999999999999999976


Q ss_pred             C
Q 016931           73 A   73 (380)
Q Consensus        73 ~   73 (380)
                      .
T Consensus        84 ~   84 (86)
T 4b6w_A           84 Q   84 (86)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.51  E-value=5.9e-14  Score=121.03  Aligned_cols=73  Identities=32%  Similarity=0.570  Sum_probs=70.6

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeecC
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNA   73 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~~   73 (380)
                      |+|+|++.+|+.+.++|++++||.+||++|+.++|+|+++|+|+|+|+.|+|+.+|++|||++|++||++.+.
T Consensus         1 M~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~gip~~~q~L~~~g~~L~d~~tL~~~~i~~~~~l~l~~~~   73 (152)
T 3b08_A            1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRL   73 (152)
T ss_dssp             CEEEEEETTSCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEECC
T ss_pred             CEEEEEeCCCCEEEEEECCCCCHHHHHHHHHHHHCcChHHeEEEECCeECcCcccHHHhccCCCCeeEEEeec
Confidence            8999999999999999999999999999999999999999999999999999999999999999999998753

>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=99.51  E-value=1.4e-15  Score=128.97  Aligned_cols=72  Identities=28%  Similarity=0.540  Sum_probs=0.0

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++.+|+++.++|++++||.+||+.|+..+|+|+++|+|+|+|+.|+|+.||++|||++|++|||+.+
T Consensus         1 M~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~~~I~~gsti~l~~r   72 (128)
T 3u5e_m            1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR   72 (128)
T ss_dssp             ------------------------------------------------------------------------
T ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCcChHHEEEEECCEECCCCCchhhhccCCCCEEEEEEE
Confidence            899999999999999999999999999999999999999999999999999999999999999999999854

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

Probab=99.50  E-value=4.1e-14  Score=125.43  Aligned_cols=72  Identities=32%  Similarity=0.583  Sum_probs=69.9

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++.+|+.+.++|++++||.+||++|+.++|+|+++|+|+|+|+.|+|+.+|++|||++|++|||+..
T Consensus        21 m~i~Vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gip~~~QrL~~~g~~L~d~~tL~~~~i~~~~~l~l~~~   92 (172)
T 3u30_A           21 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR   92 (172)
T ss_dssp             EEEEEEETTTEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTCBTGGGTCCTTCEEEEEEC
T ss_pred             EEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcChHHEEEEECCccccccCCHhHcCCcccceeeeeec
Confidence            799999999999999999999999999999999999999999999999999999999999999999999864

>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=9.7e-14  Score=116.69  Aligned_cols=72  Identities=14%  Similarity=0.201  Sum_probs=65.4

Q ss_pred             CEEEEEeCCCCEE-EEEeCCCCCHHHHHHHH-----HHHhCCCC--cCeEEecCCeecCCcccchhcCCCCC------cE
Q 016931            1 MRITVMTADEQII-SLDVDPHETVENVKALL-----EVETQVPL--QQQQLLYNGREMNNAEKLSALGVKDE------DL   66 (380)
Q Consensus         1 M~ItVk~~~g~~~-~i~V~~~~TV~~LK~~I-----~~~~gip~--~~q~Li~~Gk~L~D~~tL~~~gI~dg------~~   66 (380)
                      |+|+|++.+|+.+ .+++++++||.+||++|     +.+.|+|+  ++|+|||.||+|+|++||++|+|++|      .+
T Consensus        17 ~~i~~kt~~G~~i~~l~v~psdTV~~lK~kI~~~~p~dkegiP~~~~qQrLIy~GK~LeD~~TLsdy~I~~~~~~~~v~t   96 (126)
T 1se9_A           17 LEIKFRLTDGSDIGPKAFPDATTVSALKETVISEWPREKENGPKTVKEVKLISAGKVLENSKTVKDYRSPVSNLAGAVTT   96 (126)
T ss_dssp             EEEEEEETTSCEEEEEEECTTCBHHHHHHHHHHHSCTTCSSSCCSGGGEEEEETTEECCTTSBGGGGSCCTTSCTTCCEE
T ss_pred             EEEEEEECCCCEEEeeecCccCHHHHHHHHHHhhcccccccCCCChhhEEEEECCeECcCCCcHHHcCCCcCCccCCcEE
Confidence            6899999999887 79999999999999999     45668886  89999999999999999999999999      57


Q ss_pred             EEEeec
Q 016931           67 VMMVSN   72 (380)
Q Consensus        67 I~l~~~   72 (380)
                      +||+.+
T Consensus        97 mhlVlr  102 (126)
T 1se9_A           97 MHVIIQ  102 (126)
T ss_dssp             EEEEEC
T ss_pred             EEEEec
Confidence            888864

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

Probab=99.47  E-value=1.1e-13  Score=113.71  Aligned_cols=74  Identities=24%  Similarity=0.390  Sum_probs=67.3

Q ss_pred             CEEEEEeCCCCEEEEEeC-CCCCHHHHHHHHHHHhCCCCcCeEEecCCe-----------e----cCCcccchhcCCCCC
Q 016931            1 MRITVMTADEQIISLDVD-PHETVENVKALLEVETQVPLQQQQLLYNGR-----------E----MNNAEKLSALGVKDE   64 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~-~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk-----------~----L~D~~tL~~~gI~dg   64 (380)
                      |+|+|++.+|+. .++|+ +++||.+||++|+.++|+|+++|+|+|.|+           .    ++|+++|++|||++|
T Consensus         8 M~irvrs~~G~~-~v~v~~~~~Tv~~LK~kI~~~~gip~~~QrL~~~~~~~~~k~~~~~~~l~~~l~d~~tL~~~gi~~G   86 (107)
T 1wf9_A            8 TMLRVRSRDGLE-RVSVDGPHITVSQLKTLIQDQLQIPIHNQTLSTNRNLLLAKSPSDFLAFTDMADPNLRISSLNLAHG   86 (107)
T ss_dssp             EEEEEECSSCEE-EEEECCTTSBHHHHHHHHHHHSCCCTTTCCCBSSGGGGTCCSHHHHTTCCSSCCTTCBGGGTCCCTT
T ss_pred             EEEEEECCCCCE-EEEECCCCCcHHHHHHHHHHHhCcCcccCEEEECCccccccCccccccccccCCCCCCHHHCCCCCC
Confidence            789999998875 79999 999999999999999999999999999988           4    478899999999999


Q ss_pred             cEEEEeecCCC
Q 016931           65 DLVMMVSNAAS   75 (380)
Q Consensus        65 ~~I~l~~~~~~   75 (380)
                      ++|||+.....
T Consensus        87 ~~L~l~~~~~~   97 (107)
T 1wf9_A           87 SMVYLAYEGER   97 (107)
T ss_dssp             CEEECCCSSCC
T ss_pred             CEEEEEeCCCC
Confidence            99999976544

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

Probab=99.47  E-value=5.3e-14  Score=111.56  Aligned_cols=70  Identities=21%  Similarity=0.353  Sum_probs=64.2

Q ss_pred             CEEEEEeCCCCEE--EE-EeCCCCCHHHHHHHHHHH-hCCCCcCeEEecC--CeecCCcccchhcCCCCCcEEEEe
Q 016931            1 MRITVMTADEQII--SL-DVDPHETVENVKALLEVE-TQVPLQQQQLLYN--GREMNNAEKLSALGVKDEDLVMMV   70 (380)
Q Consensus         1 M~ItVk~~~g~~~--~i-~V~~~~TV~~LK~~I~~~-~gip~~~q~Li~~--Gk~L~D~~tL~~~gI~dg~~I~l~   70 (380)
                      |+|+|+++.|+.+  .+ +|++++||.+||++|+.+ .|+|+++|+|+|.  |++|+|++||++|||++|++||+.
T Consensus        11 M~I~Vk~~~g~~~~~~l~~v~~~~TV~~lK~~I~~~~~~i~~~~QrL~~~~~Gk~L~D~~tL~~y~i~~~stl~~K   86 (88)
T 2dzj_A           11 YEVEILDAKTREKLCFLDKVEPHATIAEIKNLFTKTHPQWYPARQSLRLDPKGKSLKDEDVLQKLPVGTTATLYFR   86 (88)
T ss_dssp             EEEEEEESSSCCCCEEEEEECSSCBHHHHHHHHHHHCSSSCTTTCCEESSTTSCCCCTTCBTTTSSCCSEEEEEEC
T ss_pred             EEEEEECCCCCEEeeEEeEcCCCCcHHHHHHHHHHHhcCCChHHeEEEecCCCcCcCCCCCHHHcCCCCCCEEEEE
Confidence            7999999987664  58 999999999999999995 8999999999976  999999999999999999999984

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

Probab=99.46  E-value=1.1e-13  Score=111.25  Aligned_cols=70  Identities=19%  Similarity=0.171  Sum_probs=62.4

Q ss_pred             EEEEEeCCC--CEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecC--Ce---ec-CCcccchhcCCCCCcEEEEee
Q 016931            2 RITVMTADE--QIISLDVDPHETVENVKALLEVETQVPLQQQQLLYN--GR---EM-NNAEKLSALGVKDEDLVMMVS   71 (380)
Q Consensus         2 ~ItVk~~~g--~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~--Gk---~L-~D~~tL~~~gI~dg~~I~l~~   71 (380)
                      .|+|++..+  +.++++|++++||++||++|+.++|+|+++|+|+|.  |+   .| +|+++|++|||++|++|||++
T Consensus        17 ~l~It~s~~~~~~~~~~v~~~~TV~~LK~kI~~~~GiP~~~QrL~~~~~g~~~~~L~~D~~tL~~Y~i~~gstihlvD   94 (95)
T 2kjr_A           17 KVNVSNSHNDAVAFEVKLAKDLTVAQLKTKLEILTGGCAGTMKVQVFKGDTCVSTMDNNDAQLGYYANSDGLRLHVVD   94 (95)
T ss_dssp             EEEEEESSCSCEEEEEEEETTCBHHHHHHHHHHHHCSCTTTEEEEEEETTEEEEECCCTTSBHHHHCCSSSCEEEEEE
T ss_pred             EEEEEECCCCceEEEEEeCccCHHHHHHHHHHHHHCcCHHHeEEEEecCCcccceeCCCCCCHhHCCcCCCCEEEEEC
Confidence            577887665  478999999999999999999999999999999997  55   34 788999999999999999985

>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=99.46  E-value=5.5e-15  Score=128.78  Aligned_cols=71  Identities=28%  Similarity=0.546  Sum_probs=0.0

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS   71 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~   71 (380)
                      |+|+|++.+|+.+.++|++++||.+||++|+..+|+|+++|+|+|+|+.|+|+.+|++|||++|++|||+.
T Consensus         1 MqI~VK~l~G~~~~l~V~~~~TV~~LK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~dygI~~gstL~Lvl   71 (152)
T 3u5c_f            1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVL   71 (152)
T ss_dssp             -----------------------------------------------------------------------
T ss_pred             CEEEEEeCCCCEEEEEECCCCCHHHHHHHHHHHhCCCHHHEEEEECCEEccccCcHHHcCCCCCCEEEEEe
Confidence            89999999999999999999999999999999999999999999999999999999999999999999984

>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=99.45  E-value=2.8e-13  Score=116.75  Aligned_cols=72  Identities=32%  Similarity=0.583  Sum_probs=69.4

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++.+|+.+.++++++.||.+||++|+.++|+|+++|+|+|+|+.|+|+++|++|||++|++||++.+
T Consensus        77 ~~i~Vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~qrL~~~g~~L~d~~tL~~~~i~~~~~i~l~~r  148 (152)
T 3b08_A           77 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR  148 (152)
T ss_dssp             EEEEEEESSSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEEC
T ss_pred             cceeeeecCCCEEEEEeCCCCcHHHHHHHHHHHhCcChhhEEEEECCEECCCCCCHHHcCCCCCCEEEEEEe
Confidence            689999999999999999999999999999999999999999999999999999999999999999999865

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

Probab=99.45  E-value=2e-13  Score=110.07  Aligned_cols=71  Identities=14%  Similarity=0.122  Sum_probs=62.5

Q ss_pred             EEEEEeCCC--CEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCC---ee----cCCcccchhcCCCCCcEEEEeec
Q 016931            2 RITVMTADE--QIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNG---RE----MNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         2 ~ItVk~~~g--~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~G---k~----L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      .|+|++...  +.++++|++++||++||++|+.++|+|+++|+|+|.|   +.    ++|+++|++|||++|++|||+..
T Consensus        16 ~l~It~s~~~~~~~e~~v~~~~TV~~LK~kIe~~~Gip~~~QrLi~~g~~g~~~~~L~~D~~tL~~Y~I~~g~~Ihlvd~   95 (97)
T 2kj6_A           16 HLHITHANLKSFSADARFSPQMSVEAVKEKLWKKCGTSVNSMALELYDDSGSKVAVLSDDSRPLGFFSPFDGFRLHIIDL   95 (97)
T ss_dssp             EEEEEETTSSCCCEEEEECTTCCHHHHHHHHHHHHCCCTTSEEEEEECSSSCBCCCSSGGGSCHHHHCCCSCCEEEEEEC
T ss_pred             EEEEEECCCCceEEEEEeCCCChHHHHHHHHHHHHCcCHHHeEEEEecCCCcccceecCCcCCHHHCCCCCCCEEEEEeC
Confidence            466776544  4789999999999999999999999999999999987   33    47889999999999999999875

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

Probab=99.45  E-value=1.7e-13  Score=121.50  Aligned_cols=72  Identities=32%  Similarity=0.583  Sum_probs=68.7

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++.+|+++.++|++++||.+||++|+.++|+|+++|+|+|+|+.|+|+.+|++|||++|++|||+.+
T Consensus        97 ~~i~Vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gip~~~q~L~~~g~~L~D~~tL~~y~i~~g~tl~l~~r  168 (172)
T 3u30_A           97 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR  168 (172)
T ss_dssp             EEEEEEESSCCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCCEEETTEECCTTSBSGGGTCCTTCEEEECC-
T ss_pred             ccceeecccCcceeEEecCCCCHHHHHHHHHHHhCCCceeEEEEECCccCCCCCcHHHhCCCCCCEEEEEEe
Confidence            578999999999999999999999999999999999999999999999999999999999999999999854

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

Probab=99.45  E-value=1.1e-13  Score=112.09  Aligned_cols=71  Identities=18%  Similarity=0.280  Sum_probs=64.3

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEec--CCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLY--NGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~--~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |.++++...|+.+.++|++++||++||++|+.++||||++|+|+|  .|+ |+|+.+|++|+|++|++|||+-.
T Consensus         9 m~~~~vk~~Gk~~~v~v~~~~TV~~LK~~I~~~tgIpp~~QkLi~~~~gk-L~D~~tLs~~~I~~gstL~lvl~   81 (100)
T 2dzm_A            9 MLDFRVEYRDRNVDVVLEDTCTVGEIKQILENELQIPVSKMLLKGWKTGD-VEDSTVLKSLHLPKNNSLYVLTP   81 (100)
T ss_dssp             EEEEEEECSSCEEEEEEETTSBHHHHHHHHHHHHCCCTTTCCEECCSSSC-CCTTSBHHHHCCCSEEEEEECCS
T ss_pred             eEEEEEEeCCeEEEEEECCCCcHHHHHHHHHHHHCCChhHeEEEccCCCC-CCCcCCHHHcCCCCCCEEEEEec
Confidence            566666678999999999999999999999999999999999996  555 99999999999999999999854

>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=99.45  E-value=1.7e-13  Score=113.84  Aligned_cols=71  Identities=17%  Similarity=0.286  Sum_probs=65.7

Q ss_pred             EEEEEeC----------CCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931            2 RITVMTA----------DEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS   71 (380)
Q Consensus         2 ~ItVk~~----------~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~   71 (380)
                      +|+|+.+          +|+.+.++|++++||.+||++|+..+|+|+++|+|+|+|+.|+|+.+|++|||++|++|||+.
T Consensus        27 ~l~V~~p~~~~~~~~~L~G~~~~l~v~~~~TV~~LK~~I~~~~gip~~~QrL~~~Gk~L~D~~tL~~y~i~~g~~i~lv~  106 (115)
T 1we7_A           27 SIKVQVPNMQDKTEWKLNGQGLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDSNSLAYYNMASGAVIHLAL  106 (115)
T ss_dssp             EEEEEECCCSSSCSSCCSSEEEEEEECSCSBTHHHHHHHHHHSSCCTTTEEEEETTEEECTTSBHHHHTCCSSCEEEEEE
T ss_pred             EEEEEcCCCccccccccCCeEEEEEECCCCCHHHHHHHHHHHHCCChHHEEEEECCEECCCCCCHHHCCCCCCCEEEEEE
Confidence            5677765          367899999999999999999999999999999999999999999999999999999999985


Q ss_pred             c
Q 016931           72 N   72 (380)
Q Consensus        72 ~   72 (380)
                      +
T Consensus       107 r  107 (115)
T 1we7_A          107 K  107 (115)
T ss_dssp             C
T ss_pred             E
Confidence            4

>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=99.43  E-value=3.3e-13  Score=108.32  Aligned_cols=73  Identities=14%  Similarity=0.120  Sum_probs=63.7

Q ss_pred             EEEEEeCCCC-EEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCC---ee----cCCcccchhcCCCCCcEEEEeecC
Q 016931            2 RITVMTADEQ-IISLDVDPHETVENVKALLEVETQVPLQQQQLLYNG---RE----MNNAEKLSALGVKDEDLVMMVSNA   73 (380)
Q Consensus         2 ~ItVk~~~g~-~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~G---k~----L~D~~tL~~~gI~dg~~I~l~~~~   73 (380)
                      .|+|++.... .++++|++++||++||++|+.++|+|+++|+|+|.|   +.    ++|+++|++|||++|++|||+...
T Consensus         9 ~l~I~~~~~~~~~~~~v~~~~TV~~lK~ki~~~~gip~~~qrL~~~~~~g~~~~~l~~D~~tL~~y~i~~g~~l~v~d~~   88 (95)
T 1v6e_A            9 MVFISSSLNSFRSEKRYSRSLTIAEFKCKLELVVGSPASCMELELYGADDKFYSKLDQEDALLGSYPVDDGCRIHVIDHS   88 (95)
T ss_dssp             EEEEEETTSSSCEEEEECTTSBHHHHHHHHHHHTCSCTTTCBCEEECSSSCEEEECCCSSSBTTSSSCCTTCEEEEBCCS
T ss_pred             EEEEEECCCCeeEEEEcCccCHHHHHHHHHHHHHCCCHHHeEEEEeCCCCccccccCCCcCCHhHCCCCCCCEEEEEECC
Confidence            5777775543 689999999999999999999999999999999976   43    578999999999999999999754


Q ss_pred             C
Q 016931           74 A   74 (380)
Q Consensus        74 ~   74 (380)
                      +
T Consensus        89 P   89 (95)
T 1v6e_A           89 G   89 (95)
T ss_dssp             C
T ss_pred             c
Confidence            3

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

Probab=99.37  E-value=1e-12  Score=126.46  Aligned_cols=72  Identities=32%  Similarity=0.583  Sum_probs=69.1

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++++|+.+.++|++++||.+||++|+.++|+|+++|+|+|+|++|+|+++|++|||++|++|||+.+
T Consensus       234 MqI~VKtl~Gk~~~leV~~s~TV~dLK~kI~~~~GIp~~~QRLi~~Gk~L~D~~TLsdygI~~gstL~LvlR  305 (307)
T 3ai5_A          234 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR  305 (307)
T ss_dssp             EEEEEECTTSCEEEEEECTTCBHHHHHHHHHHHHCCCGGGCEEEETTEECCTTSBTGGGTCCTTCEEEEEC-
T ss_pred             EEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcChHHEEEEeCCeecCCCCCHHHcCCCCCCEEEEEEe
Confidence            789999999999999999999999999999999999999999999999999999999999999999999854

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

Probab=99.34  E-value=1.2e-12  Score=103.00  Aligned_cols=72  Identities=11%  Similarity=0.227  Sum_probs=64.8

Q ss_pred             CEEEEEeCCCCEEEEE-eCCCCCHHHHHHHHHHHhCCCCcCeEEecC--CeecC---CcccchhcCCCCCcEEEEeecC
Q 016931            1 MRITVMTADEQIISLD-VDPHETVENVKALLEVETQVPLQQQQLLYN--GREMN---NAEKLSALGVKDEDLVMMVSNA   73 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~-V~~~~TV~~LK~~I~~~~gip~~~q~Li~~--Gk~L~---D~~tL~~~gI~dg~~I~l~~~~   73 (380)
                      |+|+|++.+|+. .++ +++++||.+||+.|+.++|+|+++|+|+|+  +|.|.   |+++|++|||++|++|||....
T Consensus         1 m~i~vr~~~G~~-~v~~l~~~~Tv~~Lk~~I~~~~gi~~~~qrL~~~~p~k~l~l~~~~~tL~~~gl~~g~~l~v~~~~   78 (86)
T 2kzr_A            1 WRVRCKAKGGTH-LLQGLSSRTRLRELQGQIAAITGIAPGSQRILVGYPPECLDLSDRDITLGDLPIQSGDMLIVEEDQ   78 (86)
T ss_dssp             CCEEEEETTEEE-EECSCCTTCBHHHHHHHHHHHTCCCTTTCCCEESSCCCCCCCCCSSCBTTTSSCCTTCEEECCCCS
T ss_pred             CEEEEEcCCCCE-EeeecCCCCCHHHHHHHHHHHhCCCccceEEEeCCCCcccccCCCCCCHHHcCCCCCCEEEEEeCC
Confidence            899999999965 477 999999999999999999999999999986  58874   5789999999999999998653

>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=99.33  E-value=2.8e-12  Score=107.66  Aligned_cols=72  Identities=15%  Similarity=0.213  Sum_probs=63.1

Q ss_pred             EEEEEeCCCC-EEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCC---ee----cCCcccchhcCCCCCcEEEEeecC
Q 016931            2 RITVMTADEQ-IISLDVDPHETVENVKALLEVETQVPLQQQQLLYNG---RE----MNNAEKLSALGVKDEDLVMMVSNA   73 (380)
Q Consensus         2 ~ItVk~~~g~-~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~G---k~----L~D~~tL~~~gI~dg~~I~l~~~~   73 (380)
                      .|+|++..+. .+++++++++||++||.+|+.++|+|+++|+|+|.|   +.    ++|+++|++|||++|++|||+...
T Consensus         8 ~l~V~~~~~~~~~e~~v~~~~TV~~lK~ki~~~~Gip~~~qrL~~~g~~~~~~~~l~~D~~tL~~y~i~~g~~ihvvd~~   87 (122)
T 1t0y_A            8 DLEITTNATDFPMEKKYPAGMSLNDLKKKLELVVGTTVDSMRIQLFDGDDQLKGELTDGAKSLKDLGVRDGYRIHAVDVT   87 (122)
T ss_dssp             EEEEEESSCCSCEEEEEETTSBHHHHHHHHHHHHCCCTTTEEEEEECSSSSEEEECCCCSSBTTTTTCCSSEEEEEEECT
T ss_pred             EEEEEECCCCccEEEEeCCCCcHHHHHHHHHHHhCCCHHHeEEEEecCCCccccccCCCcCCHHHCCCCCCCEEEEEeCC
Confidence            5777775553 688999999999999999999999999999999977   42    478899999999999999999864

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

Probab=99.26  E-value=4.7e-13  Score=120.01  Aligned_cols=66  Identities=17%  Similarity=0.229  Sum_probs=0.0

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS   71 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~   71 (380)
                      |+|+|++++|++++++|++++||.+||.+|+.+.|+|+++|+|+|+|++|+|+.||+     +|++|||+.
T Consensus         1 MqI~VKtL~GktitLeV~~sdTV~~LK~kI~~keGIP~~qQRLIf~GK~LeD~~TLs-----~~STLhLvl   66 (189)
T 2xzm_9            1 MQVQVKTLEGETKIYTLEQGTSVLDLKSQISQDMGFEIDMMTLVNNGFIAPNTELVT-----DDVTYYLSL   66 (189)
T ss_dssp             -----------------------------------------------------------------------
T ss_pred             CEEEEEcCCCCEEEEEECCcChHHHHHHHHHHHhCcChhHEEEEecCeECCCCCccc-----CCCEEEEEE
Confidence            899999999999999999999999999999999999999999999999999999999     899999983

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

Probab=99.26  E-value=6.4e-12  Score=122.05  Aligned_cols=73  Identities=29%  Similarity=0.377  Sum_probs=66.3

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEe---cCCeecCCcccchhcCCCCCcEEEEeecCC
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLL---YNGREMNNAEKLSALGVKDEDLVMMVSNAA   74 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li---~~Gk~L~D~~tL~~~gI~dg~~I~l~~~~~   74 (380)
                      |+|+|+. +|+.+.++|++++||++||++|+.++|||+++|+|+   |+|++|+|+.+|++|||++|++|||+..+.
T Consensus         6 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            6 VVVIVKW-SGKEYPVDLTDQDTVEVLRHEIFRKTQVRPERQKLLNLKYKGKTAADNVKISALELKPNFKLMMVGSTE   81 (320)
T ss_dssp             EEEEEEE-TTEEEEEEEETTSBHHHHHHHHHHHHCCCGGGCEETTCBSSSSBCCTTSBTTSSCCC--CEEEEECCCC
T ss_pred             EEEEEEE-CCEEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEeecccCCcccCccccHHHcCCCCCCEEEEEccch
Confidence            4688897 789999999999999999999999999999999999   899999999999999999999999996543

>3slz_A GAG-Pro-POL polyprotein; beta sheet and dimer, protease, peptide inhibitor, TL-3 PEPS virus, hydrolase-hydrolase inhibitor complex; HET: 3TL; 1.40A {Dg-75 murine leukemia virus} PDB: 3nr6_A* 3sm1_A* 3sm2_A* 4exh_A*

Probab=99.23  E-value=2e-11  Score=103.43  Aligned_cols=104  Identities=18%  Similarity=0.219  Sum_probs=76.7

Q ss_pred             cccceeEEeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEeEEE
Q 016931          192 ARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSF  271 (380)
Q Consensus       192 ~~~~~lyv~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~~~~  271 (380)
                      .+..+.++.++|||+++.|||||||+.|+++...+.   +.     .......|+|............|+|++......+
T Consensus        18 d~~~RP~v~i~I~G~~~~~LlDTGAd~tVl~~~~~p---~~-----~~p~~I~GiGG~i~vr~~~~i~IeI~g~~~~~~~   89 (132)
T 3slz_A           18 EPPPEPRITLKVGGQPVTFLVDTGAQHSVLTQNPGP---LS-----DKSAWVQGATGGKRYRWTTDRKVHLATGKVTHSF   89 (132)
T ss_dssp             CCCCSSEEEEEETTEEEEEEECTTCSSCEECSCCCS---EE-----EEEEEEECSSCEEEEEEECCEEEEETTEEEEECC
T ss_pred             CccCCCEEEEEECCEEEEEEEeCCCCeEEEccccCC---CC-----CCceEEEccCCEEEEEEEeeeEEEECCeeecceE
Confidence            445688999999999999999999999999976443   11     1124566776543344444468999998887777


Q ss_pred             EEecCCCCceeeeHHHHhhcCeEEEcC-CCEEEE
Q 016931          272 VVLDSPNMEFLFGLDMLRKHQCIIDLK-ENVLRV  304 (380)
Q Consensus       272 ~Vl~~~~~d~iLG~D~L~~~~~~ID~~-~~~l~i  304 (380)
                      .|+.. ...-|||+|||.+++|.||+. .+.+.+
T Consensus        90 lV~~~-tPvnLLGrd~Ltqlg~tL~fp~~g~~~~  122 (132)
T 3slz_A           90 LHVPD-CPYPLLGRDLLTKLKAQIHFEGSGAQVV  122 (132)
T ss_dssp             EECTT-SSSCEECHHHHHHHTCEEEEETTEEEEE
T ss_pred             EEECC-CCccEECHhhHhhCCcEEECCCCCceee
Confidence            66544 345799999999999999997 444443

>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=99.22  E-value=2.8e-11  Score=96.99  Aligned_cols=72  Identities=14%  Similarity=0.362  Sum_probs=68.9

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++.+|+.+.+.|.++++++.|+..++.+.|+|+++++|+|+|+.|.++.|+++|++++||+|+++..
T Consensus         8 i~ikVk~~~g~~i~~~v~~~t~l~kl~~~y~~~~gi~~~~~rf~FdG~~l~~~~Tp~dl~medgD~Idv~~~   79 (94)
T 2io1_B            8 INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQQ   79 (94)
T ss_dssp             EEEEEECTTSCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCTTTTTCCTTCEEEEEEC
T ss_pred             EEEEEECCCCCEEEEEECCCCHHHHHHHHHHHHhCCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEEEEe
Confidence            578899989999999999999999999999999999999999999999999999999999999999999864

>1fmb_A EIAV protease; hydrolase (acid proteinase), RNA-directed DNA polymerase, AS protease, endonuclease, polyprotein; HET: HYB; 1.80A {Equine infectious anemia virus} SCOP: b.50.1.1 PDB: 2fmb_A*

Probab=99.20  E-value=7.7e-11  Score=95.94  Aligned_cols=97  Identities=19%  Similarity=0.177  Sum_probs=78.1

Q ss_pred             ceeEEeeeecCeeEEEEEcCCccccccCHHHHHHcCCccc-cCCcceeEeecCcceeEEeEEEEEeEEEcCEEEeEEEEE
Q 016931          195 VMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRL-LDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVV  273 (380)
Q Consensus       195 ~~lyv~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~-~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~~~~~V  273 (380)
                      .+.++.++|+|+++.||+||||..|+++...+.++++... -.   .....|+|...... ...+.+++.+......+.|
T Consensus         7 ~RP~v~v~I~Gq~~e~LLDTGAD~TVl~~~~w~~i~lp~~~w~---p~~i~GiGG~i~v~-~~~i~i~i~g~~~~gtvlv   82 (104)
T 1fmb_A            7 KRPTTIVLINDTPLNVLLDTGADTSVLTTAHYNRLKYRGRKYQ---GTGIGGVGGNVETF-STPVTIKKKGRHIKTRMLV   82 (104)
T ss_dssp             SCCEEEEEETTEEEEEEECTTCSSCEEEHHHHHHCSSCCCCEE---CCCEEETTEEECCE-EEEEEEEETTEEEEEEEEE
T ss_pred             CCCEEEEEECCEEEEEEeccCCCcEEEccccCcccCCCCccCC---ccEEEeCCCeEEee-EeeeEEEECCeEEEEEEEE
Confidence            4789999999999999999999999999999999988543 11   23566777543333 6778999999888878777


Q ss_pred             ecCCCCceeeeHHHHhhcCeEEEc
Q 016931          274 LDSPNMEFLFGLDMLRKHQCIIDL  297 (380)
Q Consensus       274 l~~~~~d~iLG~D~L~~~~~~ID~  297 (380)
                      -+.  ..-|||.|+|.+.+|.+||
T Consensus        83 ~~t--p~niiGRd~L~qlg~tLnf  104 (104)
T 1fmb_A           83 ADI--PVTILGRDILQDLGAKLVL  104 (104)
T ss_dssp             ESC--SSCEECHHHHHHTTCCCCC
T ss_pred             CCC--CCCEecHhHHhhcCcEEeC
Confidence            554  3469999999999999886

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

Probab=99.20  E-value=5.8e-11  Score=90.29  Aligned_cols=70  Identities=14%  Similarity=0.368  Sum_probs=67.4

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEe
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMV   70 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~   70 (380)
                      |+|+|++.+|+.+.+.|.++++++.|+...+++.|+++++++++|+|+.|.++.|.++|++++||+|++.
T Consensus         2 i~lkV~~~~g~~v~~~v~~~t~l~kl~~~y~~~~gi~~~~~rf~fdG~~l~~~~Tp~~l~medgD~Idv~   71 (72)
T 1wm3_A            2 INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVF   71 (72)
T ss_dssp             EEEEEECTTSCEEEEEECTTSCTHHHHHHHHHHHTCCTTTCEEEETTEECCTTCCTTTTTCCTTEEEEEE
T ss_pred             EEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCCCcceEEEEECCEEcCCCCCHHHcCCCCCCEEEEE
Confidence            5789999899999999999999999999999999999999999999999999999999999999999985

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

Probab=99.15  E-value=1.7e-10  Score=89.33  Aligned_cols=70  Identities=14%  Similarity=0.381  Sum_probs=66.7

Q ss_pred             CEEEEEeCCCC-EEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEe
Q 016931            1 MRITVMTADEQ-IISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMV   70 (380)
Q Consensus         1 M~ItVk~~~g~-~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~   70 (380)
                      |+|+|++.+|+ .+.+.|.+++++..|+...+.+.|+++++++|+|+|+.|.++.|.++|++++||+|++.
T Consensus         8 i~ikV~~~~g~~~i~~~i~~~t~l~kl~~~y~~~~gi~~~~~rf~fdG~~l~~~~Tp~~l~medgD~Idv~   78 (79)
T 3a4r_A            8 LRLRVQGKEKHQMLEISLSPDSPLKVLMSHYEEAMGLSGHKLSFFFDGTKLSGKELPADLGLESGDLIEVW   78 (79)
T ss_dssp             EEEEEECSSTTCEEEEEECTTSCHHHHHHHHHHHHTCTTCCCEEEETTEECCSCCCHHHHTCCTTCEEEEE
T ss_pred             EEEEEEeCCCCEEEEEEECCCChHHHHHHHHHHHhCCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEEe
Confidence            57889998896 89999999999999999999999999999999999999999999999999999999985

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

Probab=99.13  E-value=1.5e-10  Score=92.11  Aligned_cols=72  Identities=14%  Similarity=0.362  Sum_probs=68.6

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++.+|+.+.+.|.++++++.|+...+.+.|+++++++|+|+|+.|.++.|.++|++++||+|+++..
T Consensus         6 i~ikVk~~~g~~v~~~vk~~t~l~kl~~~y~~~~gi~~~~~rf~FdG~~l~~~~Tp~dl~medgD~Idv~~~   77 (91)
T 2io0_B            6 INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQQ   77 (91)
T ss_dssp             EEEEEECTTSCEEEEEEETTSCTHHHHHHHHHHTTCCSTTEEEEETTEECCTTCCTTTTTCCTTEEEEEEEC
T ss_pred             EEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEEEEe
Confidence            578888888999999999999999999999999999999999999999999999999999999999999864

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

Probab=99.11  E-value=1.6e-10  Score=92.83  Aligned_cols=72  Identities=24%  Similarity=0.381  Sum_probs=61.3

Q ss_pred             EEEEEe---CCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCC------e-ec-CCcccchhcCCCCCcEEEEe
Q 016931            2 RITVMT---ADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNG------R-EM-NNAEKLSALGVKDEDLVMMV   70 (380)
Q Consensus         2 ~ItVk~---~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~G------k-~L-~D~~tL~~~gI~dg~~I~l~   70 (380)
                      +|+|++   .+++.+...+++++||.+||.+|+..+|+|+..|+|+|.+      . .| +|.++|+.|||.+|++|||.
T Consensus        11 ~l~I~~~~~~~~~~~e~~l~~~~TV~~LK~~i~~~~gip~~~q~L~~~~~~~~~~~~~L~~d~~~L~~y~i~~G~~I~V~   90 (97)
T 1wjn_A           11 TLKIKCSNQPERQILEKQLPDSMTVQKVKGLLSRLLKVPVSELLLSYESSKMPGREIELENDLQPLQFYSVENGDCLLVR   90 (97)
T ss_dssp             EEEEEESSCSSSCCEEEEEETTSBHHHHHHHHHTTTTCCTTTCEEEEECTTSCSCEEECCCSSSBSGGGTCCTTCEEEEE
T ss_pred             EEEEEecCCCCCcEEEEECCCCCCHHHHHHHHHHHHCCChhHeEEEEEcCCCCceeeccCCCcccHhhcCCCCCCEEEEE
Confidence            466665   3577899999999999999999999999999999999863      2 25 45689999999999999998


Q ss_pred             ecC
Q 016931           71 SNA   73 (380)
Q Consensus        71 ~~~   73 (380)
                      ...
T Consensus        91 d~~   93 (97)
T 1wjn_A           91 WSG   93 (97)
T ss_dssp             CCS
T ss_pred             ecC
Confidence            753

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

Probab=99.07  E-value=3.8e-10  Score=90.10  Aligned_cols=72  Identities=14%  Similarity=0.362  Sum_probs=68.0

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |.|+|++.+|+.+.+.|.+++++..|+..++.+.|+++++++|+|+|+.|.++.|.++|++.+||+|+++..
T Consensus        18 i~ikV~~~~g~~i~~~v~~~t~l~kl~~~y~~~~gi~~~~~rf~fdG~~l~~~~Tp~dl~medgD~Idv~~~   89 (93)
T 2d07_B           18 INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQQ   89 (93)
T ss_dssp             EEEEEECTTSCEEEEEEETTSCHHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCTTTTTCCTTEEEEEEEC
T ss_pred             EEEEEECCCCCEEEEEEccCCHHHHHHHHHHHHhCCCccceEEEECCEEcCCCCCHHHcCCCCCCEEEEEee
Confidence            468888888998999999999999999999999999999999999999999999999999999999999864

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

Probab=99.06  E-value=4.3e-10  Score=91.66  Aligned_cols=72  Identities=14%  Similarity=0.362  Sum_probs=68.5

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++.+|+.+.+.|.+++++..|+..++.+.|+++++++|+|+|+.|.++.|.++|++.+||+|+++..
T Consensus        25 I~IkVk~~~g~~i~~kVk~~t~l~kL~~~y~ek~gi~~~~~rf~FdG~~l~~~~Tp~dl~medgD~Idv~~~   96 (104)
T 1wz0_A           25 INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVFQQ   96 (104)
T ss_dssp             EEEEEECSSSCEEEEEECTTSCHHHHHHHHHHHHTCCTTTSCEESSSSBCCTTSCTTTTTCCTTEEEEECCC
T ss_pred             EEEEEECCCCCEEEEEEcCCChHHHHHHHHHHHhCCCcceEEEEECCEEcCCCCCHHHcCCCCCCEEEEEEe
Confidence            578889888999999999999999999999999999999999999999999999999999999999999864

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

Probab=99.00  E-value=5.7e-10  Score=91.76  Aligned_cols=72  Identities=13%  Similarity=0.335  Sum_probs=68.7

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |.|+|++.+|+.+.+.|.+++++..|+...+.+.|+++++++|+|+|+.|.++.|.++|++.+||+|+++..
T Consensus        27 I~IkVk~~~g~~i~fkVk~~t~l~kL~~ay~ek~gi~~~~~rfiFdG~~L~~~~Tp~dl~mEDgD~Idv~~~   98 (110)
T 2k8h_A           27 VAVKVVNADGAEMFFRIKSRTALKKLIDTYCKKQGISRNSVRFLFDGTPIDETKTPEELGMEDDDVIDAMVE   98 (110)
T ss_dssp             EEEEEEETTSCCEEEEECTTSSHHHHHHHHHHHHTCCSSSCEEESSSCBCCSSSHHHHHHCSSEEEEEEECC
T ss_pred             EEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEEEEc
Confidence            578899988998999999999999999999999999999999999999999999999999999999999865

>3ec0_A Protease; HIV-2, inhibitor, hydrolase; HET: GRL; 1.18A {Human immunodeficiency virus type 2} SCOP: b.50.1.1 PDB: 1hii_A* 1hsi_A 1hsh_A* 1idb_A* 1jld_A* 2mip_A 1ida_A* 3ebz_A* 3ecg_A* 3s45_A* 4upj_A* 1ivq_A* 1ivp_A 2hpf_A 3upj_A* 2hpe_A* 5upj_A* 6upj_A* 1sip_A 1tcw_A* ...

Probab=98.97  E-value=6.8e-09  Score=83.35  Aligned_cols=92  Identities=20%  Similarity=0.318  Sum_probs=70.3

Q ss_pred             ceeEEeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcc-eeEeecCcceeEEeEEEEEeEEEcCEEEeEEEEE
Q 016931          195 VMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRY-RGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVV  273 (380)
Q Consensus       195 ~~lyv~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~-~~~~~gvg~~~~~g~i~~~~i~ig~~~~~~~~~V  273 (380)
                      .+-|+.++|||+.+.||+||||..|+|+.     ..+    ..++ ..+..|+|......+...+.+++.+......+.|
T Consensus         7 ~RP~vti~I~Gq~~e~LLDTGAD~TVl~~-----~~~----Pg~w~pk~igGiGG~i~v~qy~~i~iei~g~~~~gtvlV   77 (99)
T 3ec0_A            7 KRPVVTAYIEGQPVEVLLDTGADDSIVAG-----IEL----GNNYSPKIVGGIGGFINTKEYKNVEIEVLNKKVRATIMT   77 (99)
T ss_dssp             SCCEEEEEETTEEEEEEECTTCSSCEESS-----CCC----CSCCEEEEEEETTEEEEEEEEEEEEEEETTEEEEEEEEE
T ss_pred             cCCeEEEEECCEEEEEEEecCCCceEEcC-----ccc----CCCCCceEEEecCCcEeeeEEeeEEEEECCeEEEEEEEe
Confidence            46799999999999999999999999963     333    2223 2356777765444455667899999887777777


Q ss_pred             ecCCCCceeeeHHHHhhcCeEEEc
Q 016931          274 LDSPNMEFLFGLDMLRKHQCIIDL  297 (380)
Q Consensus       274 l~~~~~d~iLG~D~L~~~~~~ID~  297 (380)
                      -+. .+ =|+|-|+|.+++|.++|
T Consensus        78 ~~t-Pv-niiGRnlLtqlG~tLnf   99 (99)
T 3ec0_A           78 GDT-PI-NIFGRNILTALGMSLNL   99 (99)
T ss_dssp             ECC-SS-CEECHHHHHHHTCEEEC
T ss_pred             CCC-Cc-CeeehhhHhhcCcEEeC
Confidence            543 33 58999999999999986

>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=98.97  E-value=1.3e-09  Score=88.97  Aligned_cols=71  Identities=11%  Similarity=0.267  Sum_probs=67.5

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++ +|+.+.+.|..++++..|+...+.+.|+++++++|+|+|+.|.++.|.++|++.+||+|+++..
T Consensus        32 I~IkV~~-~g~~i~fkIk~tt~l~kL~~ay~ek~gi~~~~~rF~FdG~rl~~~~Tp~dl~medgD~Idv~~~  102 (106)
T 2eke_C           32 INLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHRE  102 (106)
T ss_dssp             EEEEEEC-SSCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCTTTTTCCTTEEEEEEEC
T ss_pred             EEEEEec-CCcEEEEEeCCCCHHHHHHHHHHHHhCCCcccEEEEECCeEcCCCCCHHHcCCCCCCEEEEEee
Confidence            5788888 8999999999999999999999999999999999999999999999999999999999999864

>2hs1_A HIV-1 protease; ultra-high resolution active site surface binding site, HYDR; HET: 017; 0.84A {Human immunodeficiency virus 1} PDB: 3nu4_A* 3tl9_A* 3tkw_A* 3tkg_A* 3ndu_A* 3ndt_A* 3k4v_A* 3a2o_A* 1fgc_C* 2a1e_A* 2aod_A* 2aoi_A* 2aoj_A* 2hb3_A* 2ien_A* 1sdt_A* 2z4o_A* 2zye_A* 2nmw_A* 3b7v_A* ...

Probab=98.94  E-value=1.2e-08  Score=82.03  Aligned_cols=92  Identities=20%  Similarity=0.288  Sum_probs=72.4

Q ss_pred             ceeEEeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcce-eEeecCcceeEEeEEEEEeEEEcCEEEeEEEEE
Q 016931          195 VMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYR-GVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVV  273 (380)
Q Consensus       195 ~~lyv~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~-~~~~gvg~~~~~g~i~~~~i~ig~~~~~~~~~V  273 (380)
                      .+-++.++|+|+.+.||+||||..|+++..     .+    ..++. ....|+|......+...+.+++.+......+.|
T Consensus         7 ~rP~vtvkI~Gq~~eaLLDTGAD~TVl~~~-----~~----p~~wkpk~igGiGG~i~v~qy~qi~iei~g~~~~gtvlV   77 (99)
T 2hs1_A            7 KRPLVTIKIGGQLKEALLDTGADDTIIEEM-----SL----PGRWKPKMIGGIGGFIKVRQYDQIIIEIAGHKAIGTVLV   77 (99)
T ss_dssp             SCCEEEEEETTEEEEEEECTTCSSEEESCC-----SS----CCCCEEEEEEETTEEEEEEEEEEEEEEETTEEEEEEEEE
T ss_pred             CCCEEEEEECCEEEEEEeccCCCcEEEecc-----cC----CCCCCCcEEEeCCCcEeeeEeccEEEEEeCCEEEEEEEe
Confidence            467899999999999999999999999952     33    22332 467788765555566777899999888888888


Q ss_pred             ecCCCCceeeeHHHHhhcCeEEEc
Q 016931          274 LDSPNMEFLFGLDMLRKHQCIIDL  297 (380)
Q Consensus       274 l~~~~~d~iLG~D~L~~~~~~ID~  297 (380)
                      -+. .. =|+|.|+|.+.+|.+||
T Consensus        78 ~~t-Pv-niiGRd~Ltqlg~tLnf   99 (99)
T 2hs1_A           78 GPT-PV-NIIGRNLLTQIGATLNF   99 (99)
T ss_dssp             SCC-SS-CEECHHHHTTTTCEEEC
T ss_pred             CCC-cc-CchhHhHHHHcCCEEeC
Confidence            554 33 49999999999999986

>3ka2_A [L-Ala51;Gly51']HIV-1 protease; beta-barrel, hydrolase-hydrolase inhibitor complex; HET: YCM 2NC; 1.40A {Synthetic} PDB: 3fsm_A* 3gi0_A* 2o40_A* 3hzc_A* 3hlo_A* 3iaw_A* 3nxe_A* 3nxn_A* 4epj_A 4ep2_A 4ep3_A 4eq0_A 4eqj_A 1hvc_A* 1g6l_A 2whh_A* 1lv1_A* 3dox_A 3kt5_A 3kt2_A ...

Probab=98.78  E-value=6e-08  Score=87.52  Aligned_cols=93  Identities=16%  Similarity=0.223  Sum_probs=74.2

Q ss_pred             ceeEEeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcc-eeEeecCcceeEEeEEEEEeEEEcCEEEeEEEEE
Q 016931          195 VMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRY-RGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVV  273 (380)
Q Consensus       195 ~~lyv~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~-~~~~~gvg~~~~~g~i~~~~i~ig~~~~~~~~~V  273 (380)
                      .+..+.++|+|+++.||+||||+.|++..     .+|.    .++ ..+..|+|......+...+.+++.+......+.|
T Consensus         7 ~RP~vtv~I~Gq~~e~LLDTGAD~TVl~~-----~~lp----g~w~pk~igGIGG~i~vrqy~~i~iei~g~~~~gtvlV   77 (203)
T 3ka2_A            7 KRPLVTIRIGGQLKEALLDTGADDTVIEE-----LNLP----GXWKPKLIGGIAGFIKVRQYDQIPVEIXGHKAIGTVLV   77 (203)
T ss_dssp             SCCEEEEEETTEEEEEEECTTCSSCEECS-----CCCS----SCEEEEEEEETTEEEEEEEEEEEEEEETTEEEEEEEEE
T ss_pred             CCCeEEEEECCEEEEEEEecCCCceEEec-----ccCC----CCCCceEEEEccCcEEEEEEcceeEEEcCeEEEEEEee
Confidence            46678999999999999999999999983     4442    233 3467788866666666778999999887777777


Q ss_pred             ecCCCCceeeeHHHHhhcCeEEEcC
Q 016931          274 LDSPNMEFLFGLDMLRKHQCIIDLK  298 (380)
Q Consensus       274 l~~~~~d~iLG~D~L~~~~~~ID~~  298 (380)
                      -+  ...-|||.|+|.+++|.+|+.
T Consensus        78 g~--tPvnIiGRd~LtqlG~tLnf~  100 (203)
T 3ka2_A           78 GP--TPVNIIGRNLLTQIGXTLNFX  100 (203)
T ss_dssp             SC--CSSCEECHHHHTTTTCEEEGG
T ss_pred             CC--CCcCccchhhhhhcCceEEec
Confidence            44  345599999999999999998

>2hah_A Protease, retropepsin; retroviral, aspartyl, hydrolase-hydrolase complex; HET: 3TL; 1.70A {Feline immunodeficiency virus} PDB: 3ogp_A* 3ogq_A* 2fiv_A* 6fiv_A* 3fiv_A* 5fiv_A* 4fiv_A* 1fiv_A* 1b11_A*

Probab=98.64  E-value=5.7e-08  Score=80.31  Aligned_cols=94  Identities=18%  Similarity=0.171  Sum_probs=68.1

Q ss_pred             ceeEEeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcce-eE-eecCcceeEEeEEEEEeEEEcCEE-----E
Q 016931          195 VMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYR-GV-AHGVGQSEILGRIHVAPIKIGNVF-----Y  267 (380)
Q Consensus       195 ~~lyv~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~-~~-~~gvg~~~~~g~i~~~~i~ig~~~-----~  267 (380)
                      .+-++ ++|+|+.+.||+||||..|+|+.....+.      +.++. .. ..|+|......+...+.+++.+..     .
T Consensus        13 ~rP~v-ikI~Gq~~eaLLDTGAD~TVi~~~~~~~~------p~~wkpk~~igGiGG~i~v~qy~qv~iei~g~~~~~~~~   85 (116)
T 2hah_A           13 RPEIL-IFVNGYPIKFLLDTGADITVLNRRDFQVK------NSIENGRQMIGGIGGFIRGTNYINVHLEIRDENYKTQCI   85 (116)
T ss_dssp             CCEEE-EEETTEEEEEEECTTCSSCEEEGGGCCCT------TCEEEEEEEEEETTEEEEEEEEEEEEEEECCTTSCCEEE
T ss_pred             CCCEE-EEECCEEEEEEecCCCCcEEEcccccccC------CCCCCCceEEecCCCceeeeEEccEEEEEeCCCCCccee
Confidence            36788 99999999999999999999996432111      11222 23 667776544446666788998866     6


Q ss_pred             eEEEEEecCCC--CceeeeHHHHhhcCeEEE
Q 016931          268 PCSFVVLDSPN--MEFLFGLDMLRKHQCIID  296 (380)
Q Consensus       268 ~~~~~Vl~~~~--~d~iLG~D~L~~~~~~ID  296 (380)
                      ...+.|.+...  . =|+|-|+|.+.+|.+.
T Consensus        86 ~gtvlV~p~tP~~v-niiGRd~Ltqlg~tL~  115 (116)
T 2hah_A           86 FGNVCVLEDNSTPV-NILGRDNMIKFNIRLV  115 (116)
T ss_dssp             EEEEEEETTCCCSS-EEECHHHHTTTTCCCC
T ss_pred             EEEEEECCCCCccc-cEecHHHHhHcCCEEe
Confidence            67778888333  4 4999999999999864

>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=98.64  E-value=1e-07  Score=78.70  Aligned_cols=71  Identities=18%  Similarity=0.413  Sum_probs=66.7

Q ss_pred             EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      +|+|+..+|+.+.+.|..++++..|+...+.+.|+++..++++|+|+.|.++.|.+++++.+||+|.+...
T Consensus        42 ~LKV~~qdg~ev~fkIk~tt~L~KLm~aY~er~Gl~~~~irFlFDG~rI~~~~TP~dL~MEDgD~IdV~~~  112 (115)
T 3kyd_D           42 KLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQE  112 (115)
T ss_dssp             EEEEECTTSCEEEEEEETTSCTHHHHHHHHHHHTCCTTSEEEEETTEECCTTCCTTTTTCCTTCEEEEEEC
T ss_pred             EEEEEcCCCCEEEEEEccCChHHHHHHHHHHHhCCChhhEEEEECCeECCCCCCHHHcCCCCCCEEEEEee
Confidence            57778878888899999999999999999999999999999999999999999999999999999999854

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

Probab=98.54  E-value=6.7e-08  Score=74.85  Aligned_cols=69  Identities=17%  Similarity=0.249  Sum_probs=58.0

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCee---c--CCcccchhcCCCCCcEEEEe
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGRE---M--NNAEKLSALGVKDEDLVMMV   70 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~---L--~D~~tL~~~gI~dg~~I~l~   70 (380)
                      |.|.|++.+| .+.|++++++|+.+|+.+|+++++++++.|.|.++-.+   |  .++.+|+++||+.||+|+|.
T Consensus         5 m~lRvrs~~G-~~Ri~v~~~~t~~~L~~~I~~~~~i~~~~~~l~~~~~p~~~l~~~~~~~l~~lgl~hGd~l~l~   78 (80)
T 2pjh_A            5 IIIRVQSPDG-VKRITATKRETAATFLKKVAKEFGFQNNGFSVYINRNKTGEITASSSKSLHLLKIKHGDLLFLF   78 (80)
T ss_dssp             CCCEEECSSE-EEECCCCSSCCHHHHHHHHHHHTCCCTTTCCCCCSCCGGGGSSSCCCCTTTTTCCCTTCCEEC-
T ss_pred             EEEEEECCCC-CEEEEcCCcChHHHHHHHHHHHcCCCCCcceEEecCCCCCcccCCCCCCHHHcCCCCCCEEEEe
Confidence            6688888776 56788999999999999999999999999888765443   3  36789999999999999985

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

Probab=98.38  E-value=8.5e-07  Score=80.07  Aligned_cols=70  Identities=11%  Similarity=0.259  Sum_probs=65.5

Q ss_pred             EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      +|+|+. +|+.+.+.|..++++..|+...+.+.|+++.++|++|+|+.|.++.|.+++++.+||+|+++..
T Consensus        31 ~LkV~~-~g~~v~fkIk~~t~l~kL~~ay~er~Gi~~~~~RF~FdG~rI~~~~TP~dL~MEdgD~Idv~~~  100 (200)
T 3pge_A           31 NLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHRE  100 (200)
T ss_dssp             EEEEEC-SSCEEEEEECTTSCTHHHHHHHHHHHSSCGGGEEEEETTEECCTTCCTTTTTCCTTEEEEEEEC
T ss_pred             EEEEec-CCCEEEEEEecCCHHHHHHHHHHHHhCCChhhEEEEECCEEcCCCCCHHHcCCCCCCEEEEEec
Confidence            567764 7888999999999999999999999999999999999999999999999999999999999854

>3ka2_A [L-Ala51;Gly51']HIV-1 protease; beta-barrel, hydrolase-hydrolase inhibitor complex; HET: YCM 2NC; 1.40A {Synthetic} PDB: 3fsm_A* 3gi0_A* 2o40_A* 3hzc_A* 3hlo_A* 3iaw_A* 3nxe_A* 3nxn_A* 4epj_A 4ep2_A 4ep3_A 4eq0_A 4eqj_A 1hvc_A* 1g6l_A 2whh_A* 1lv1_A* 3dox_A 3kt5_A 3kt2_A ...

Probab=98.32  E-value=5.9e-06  Score=74.50  Aligned_cols=92  Identities=17%  Similarity=0.275  Sum_probs=70.1

Q ss_pred             ceeEEeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcc-eeEeecCcceeEEeEEEEEeEEEcCEEEeEEEEE
Q 016931          195 VMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRY-RGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVV  273 (380)
Q Consensus       195 ~~lyv~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~-~~~~~gvg~~~~~g~i~~~~i~ig~~~~~~~~~V  273 (380)
                      .+..+.++|+|+.+.||+||||..|+++     ...+    ..++ ..+..|+|...-.-+...+.+++.+......+.|
T Consensus       111 ~rP~~~iki~Gq~~e~LlDTGAD~TVl~-----~~~l----pg~w~pk~igGiGg~i~v~qy~~i~iei~g~~~~~tvlV  181 (203)
T 3ka2_A          111 KRPLVTIRIGGQLKEALLDTGADDTVIE-----ELNL----PGXWKPKLIGGIGGFIKVRQYDQIPVEIXGHKAIGTVLV  181 (203)
T ss_dssp             SCCEEEEEETTEEEEEEECTTCSSCEEC-----SCCC----CSCCEEEEEEETTEEEEEEEEEEEEEEETTEEEEEEEEE
T ss_pred             CCCcEEEEECCEEEeeeecccCCceeee-----cccC----CCCCCceEEeeccceEEEEEeccEEEEECCeEEEEEEEE
Confidence            3567889999999999999999999996     2333    2233 2366778765444555667889999888777877


Q ss_pred             ecCCCCceeeeHHHHhhcCeEEEc
Q 016931          274 LDSPNMEFLFGLDMLRKHQCIIDL  297 (380)
Q Consensus       274 l~~~~~d~iLG~D~L~~~~~~ID~  297 (380)
                      -+. .+ =|+|-|.|.+++|.++|
T Consensus       182 gpt-Pv-niiGRn~LtqlG~tl~f  203 (203)
T 3ka2_A          182 GPT-PV-NIIGRNLLTQIGXTLNF  203 (203)
T ss_dssp             SCC-SS-CEECHHHHGGGTCEEEC
T ss_pred             CCC-Cc-CeechhhHHHhCCeeeC
Confidence            664 33 59999999999999986

>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=98.31  E-value=1e-06  Score=78.45  Aligned_cols=70  Identities=13%  Similarity=0.267  Sum_probs=65.2

Q ss_pred             EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      .|+|+. +|+.+.+.|..++++..|+...+.+.|+++..++++|+|+.|.++.|.+++++.|||+|+++..
T Consensus        59 nLKVk~-dG~eV~FKIKrtTpL~KLmeAYcERqGL~~~sIRFLFDGqRI~~ddTPeDLdMEDGDtIDV~le  128 (207)
T 3tix_A           59 NLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLTFLYDGIEIQADQTPEDLDMEDNDIIEAHRE  128 (207)
T ss_dssp             EEEEEC-SSCEEEEEEETTSCTHHHHHHHHHHTTCCGGGSCEEETTEECCSSCCTTTTTCCTTEEEEECCC
T ss_pred             EEEEec-CCCEEEEEEccCChHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCHHHcCCCCCCEEEEEEe
Confidence            466764 7888999999999999999999999999999999999999999999999999999999999864

>3sqf_A Protease; folded monomer, retropepsin, D-type retrovirus; 1.63A {Mason-pfizer monkey virus} SCOP: b.50.1.1 PDB: 1nso_A

Probab=98.12  E-value=3.1e-06  Score=69.44  Aligned_cols=95  Identities=16%  Similarity=0.182  Sum_probs=56.6

Q ss_pred             eeEEeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcce-----eEeecCcceeEEeEEEEE-eEE-EcCEEEe
Q 016931          196 MLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYR-----GVAHGVGQSEILGRIHVA-PIK-IGNVFYP  268 (380)
Q Consensus       196 ~lyv~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~-----~~~~gvg~~~~~g~i~~~-~i~-ig~~~~~  268 (380)
                      +..+.++|+|+.+.||+||||..|+|+..     .+.    .++.     ....|+|......+.... ..+ +.+....
T Consensus         9 RP~vti~I~Gq~~eaLLDTGADdTVi~~~-----~lp----g~W~p~~~~k~igGIGG~i~v~qy~~~~~~~~i~g~k~i   79 (114)
T 3sqf_A            9 KPSLTLWLDDKMFTGLINTGADVTIIKLE-----DWP----PNWPITDTLTNLRGIGQSNNPKQSSKYLTWRDKENNSGL   79 (114)
T ss_dssp             CCEEEEEETTEEEEEEECTTCSSCEEEGG-----GSC----TTSCEEECCCCCTTCCGGGCCEEESSCEEEECTTCCEEE
T ss_pred             CCeEEEEECCEEEEEEEccCCCceEEecc-----cCC----CCcccCcCceEEEeccceEEEEEeccceEEEecCCCEEE
Confidence            55788999999999999999999999842     221    1221     244567642212221111 222 5666655


Q ss_pred             EEEEEecCCCCceeeeHHHHhhcCeEEEcCCC
Q 016931          269 CSFVVLDSPNMEFLFGLDMLRKHQCIIDLKEN  300 (380)
Q Consensus       269 ~~~~Vl~~~~~d~iLG~D~L~~~~~~ID~~~~  300 (380)
                      ....|+....++ |+|-|.|.+++|.+++...
T Consensus        80 ~tvlV~~ptPvN-IiGRn~LtqlG~tLnfp~~  110 (114)
T 3sqf_A           80 IKPFVIPNLPVN-LWGRDLLSQMKIMMASPND  110 (114)
T ss_dssp             ECCEEETTCSSC-EECHHHHTTSCC-------
T ss_pred             EEEEECCCCccc-EEchhhHhhcCcEEECCCc
Confidence            555676433444 8999999999999988654

>2rsp_A RSV protease; hydrolase(aspartyl proteinase); 2.00A {Rous sarcoma virus} SCOP: b.50.1.1 PDB: 1mvp_A 1bai_A*

Probab=98.10  E-value=3.7e-06  Score=70.13  Aligned_cols=92  Identities=18%  Similarity=0.227  Sum_probs=57.8

Q ss_pred             ceeEEeee----------ecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcceeE------eecCcceeEEeEEE-E
Q 016931          195 VMLYVDME----------VNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGV------AHGVGQSEILGRIH-V  257 (380)
Q Consensus       195 ~~lyv~v~----------Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~------~~gvg~~~~~g~i~-~  257 (380)
                      .+-.+.++          |+|+.+.||+||||..|+++..     .+    ..++..+      ..|+|...-..+.. .
T Consensus         9 ~rP~v~v~~~~~~~~p~~i~gq~~eaLLDTGAD~TVl~~~-----~l----P~~W~k~~~~~~~igGIGG~i~v~qy~~~   79 (124)
T 2rsp_A            9 DRPLVRVILTNTGSHPVKQRSVYITALLDSGADITIISEE-----DW----PTDWPVMEAANPQIHGIGGGIPMRKSRDM   79 (124)
T ss_dssp             SCCEEEEEEEECCSSCCSCSEEEEEEEECTTCSSCEEETT-----TS----CTTSCEEECC---------CCCEEEESSC
T ss_pred             hCCeEEEEeccCCCCcccCCCEEEEEEecCCCCcEEEecc-----cC----CCcceeeccccceeeecCceEeeEEeCCc
Confidence            45566677          9999999999999999999842     22    1233322      55666532233344 4


Q ss_pred             EeEEEcCE--EEeEEEEEecC---CCCceeeeHHHHhhcCeEEE
Q 016931          258 APIKIGNV--FYPCSFVVLDS---PNMEFLFGLDMLRKHQCIID  296 (380)
Q Consensus       258 ~~i~ig~~--~~~~~~~Vl~~---~~~d~iLG~D~L~~~~~~ID  296 (380)
                      ..+++.+.  .....+.|.+.   ... -|+|-|.|.+.+|.+.
T Consensus        80 i~iei~g~~g~~~~tvlV~P~~~~tPv-nIiGRdlLtqlG~tL~  122 (124)
T 2rsp_A           80 IELGVINRDGSLERPLLLFPAVAMVRG-SILGRDCLQGLGLRLT  122 (124)
T ss_dssp             EEEEEECTTSCBCCCEEECCEEESCSS-EEECHHHHHHTTCEEE
T ss_pred             eEEEEeCCCCcEEEEEEECcCCCCCce-eEECHhHHhhCCcEEe
Confidence            56777665  45556667663   222 4999999999999974

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

Probab=98.09  E-value=1.7e-05  Score=60.28  Aligned_cols=67  Identities=16%  Similarity=0.304  Sum_probs=60.4

Q ss_pred             EEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCc-CeEEecCCeecCCcccchhcCCCCCcEEEEe
Q 016931            4 TVMTADEQIISLDVDPHETVENVKALLEVETQVPLQ-QQQLLYNGREMNNAEKLSALGVKDEDLVMMV   70 (380)
Q Consensus         4 tVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~-~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~   70 (380)
                      .++.....-+.+.|.++++|.+|-+.-..+.|||++ ..+|.|.|..|..+.++.+|++.|||.|-++
T Consensus        13 ~~~~~~~~dl~f~I~~~t~v~kLi~ayc~~~~I~~~~~IrllFDGdRLdp~~tp~DlemeD~D~IDvm   80 (82)
T 3goe_A           13 LLRSSKSEDLRLSIPVDFTVKDLIKRYCTEVKISFHERIRLEFEGEWLDPNDQVQSTELEDEDQVSVV   80 (82)
T ss_dssp             EEEESSSCCEEEEEETTSBHHHHHHHHHHHHTCCCCTTCEEEETTEECCTTSBGGGSSCCTTCEEEEE
T ss_pred             hhhccCCCCeEEEecCCCCHHHHHHHHHHHcCCCcCceEEEEEcCcccCccCChhhhCCcCCceeeee
Confidence            345555555789999999999999999999999999 8999999999999999999999999999876

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

Probab=98.03  E-value=6.5e-07  Score=80.70  Aligned_cols=71  Identities=11%  Similarity=0.280  Sum_probs=0.0

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |.|+| ..+|+.+.+.|..++++..|++..+++.|++++.++++|+|+.|.++.|.++++++|||+|+++..
T Consensus        22 InLKV-~qdGseV~FKIKrtTpL~KLM~AYcERqGLs~~siRFLFDGqRI~dddTPadL~MEDGDtIDV~le   92 (227)
T 3v7o_A           22 INLKV-SDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHRE   92 (227)
T ss_dssp             ------------------------------------------------------------------------
T ss_pred             EEEEE-eCCCCEEEEEEccCChHHHHHHHHHHHhCCCccceEEEECCEecCCCCCHHHcCCCCCCEEEEEec
Confidence            45677 557888889999999999999999999999999999999999999999999999999999999854

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

Probab=98.02  E-value=2.2e-05  Score=62.77  Aligned_cols=69  Identities=12%  Similarity=0.310  Sum_probs=63.1

Q ss_pred             EEEEEeCCCC-EEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEe
Q 016931            2 RITVMTADEQ-IISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMV   70 (380)
Q Consensus         2 ~ItVk~~~g~-~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~   70 (380)
                      .|+|+..+|+ .+.+.|..++++..|....+.+.|+++...+++|+|..|..+.|.+++++.+||+|.+.
T Consensus        27 ~LkV~~~dg~~~v~fkIk~~t~l~kLm~aY~~~~g~~~~~vrF~FDG~rI~~~~TP~dLdMEDgD~IDv~   96 (97)
T 2jxx_A           27 QLRVQGKEKHQTLEVSLSRDSPLKTLMSHYEEAMGLSGRKLSFFFDGTKLSGRELPADLGMESGDLIEVW   96 (97)
T ss_dssp             EEEEEESSSSCEEEEEEETTSCHHHHHHHHHHHTTCSSSCCEEEETTEECCSCSCHHHHTCCTTEEEEEE
T ss_pred             EEEEEcCCCCEEEEEEECCCChHHHHHHHHHHHHCCCcccEEEEECCEEcCCCCCHHHcCCCCCCEEEEe
Confidence            4666777774 78899999999999999999999999999999999999999999999999999999875

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

Probab=97.84  E-value=4.1e-05  Score=60.70  Aligned_cols=63  Identities=17%  Similarity=0.269  Sum_probs=48.6

Q ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecC--CcccchhcCCC-CCcEEEEee
Q 016931            9 DEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMN--NAEKLSALGVK-DEDLVMMVS   71 (380)
Q Consensus         9 ~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~--D~~tL~~~gI~-dg~~I~l~~   71 (380)
                      .+..+.+.+.++.|+..||++|++++|||+++|+|+|.|+.|.  .+..-..|--. ...-|.|..
T Consensus        22 ~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           22 QMTAHKIYIHSYNTATIFHELVYKQTKIISSNQELIYEGRRLVLEPGRLAQHFPKTTEENPIFVVS   87 (94)
T ss_dssp             TTEEEEEEEETTCBHHHHHHHHHHHHCCCGGGEEEEETTEEECCCTTCBGGGSCCCBTTBCEEEEE
T ss_pred             cceEEEEEeccchHHHHHHHHHHHHhCCCHHHHHHHhCCCccccCCCCccccCCCCCCCCCEEEEe
Confidence            4778999999999999999999999999999999999998765  33444455432 233445443

>2kc2_A Talin-1, F1; FERM, adhesion, cell membrane, cell projection, cytoplasm, cytoskeleton, membrane, phosphoprotein, structural protein; NMR {Mus musculus}

Probab=97.74  E-value=5.6e-05  Score=63.32  Aligned_cols=71  Identities=14%  Similarity=0.243  Sum_probs=59.9

Q ss_pred             EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCc-------------------------------------CeEEe
Q 016931            2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQ-------------------------------------QQQLL   44 (380)
Q Consensus         2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~-------------------------------------~q~Li   44 (380)
                      .|+|+.++|...++.|+.+.+|.+++..|+.+.||+..                                     .++|-
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            37899999999999999999999999999999999854                                     34442


Q ss_pred             c--CCeecCCcccchhcCCCCCcEEEEeec
Q 016931           45 Y--NGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus        45 ~--~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      .  .+..|++++||.++||.++++|.|..+
T Consensus        93 ~dd~~~WLD~srtL~EQGI~e~~tllLRrK  122 (128)
T 2kc2_A           93 TDDELNWLDHGRTLREQGVEEHETLLLRRK  122 (128)
T ss_dssp             CSSSEEEECSSSCHHHHTCCTTSEEEEEES
T ss_pred             ccCCCCcccCCCcHHHcCCCCCCEEEEEEE
Confidence            1  125677889999999999999998765

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

Probab=97.72  E-value=0.00015  Score=56.83  Aligned_cols=73  Identities=10%  Similarity=0.110  Sum_probs=68.9

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeecC
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNA   73 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~~   73 (380)
                      |.|+|-..+++...+.|.+++++.++-+....++|+.+++..|.|++|.|+-+.++.-.|+.+|..+.++...
T Consensus        10 m~v~Vl~~n~rr~~VKvtp~t~L~~VL~eaC~K~gl~~~~~~Lkh~~k~lDLSlpfRlsgLpnnAkLELv~~s   82 (90)
T 2al3_A           10 SAVSVLAPNGRRHTVKVTPSTVLLQVLEDTCRRQDFNPSEYDLKFQRTVLDLSLQWRFANLPNNAKLEMVPVS   82 (90)
T ss_dssp             CCEEEECTTSCEEEECCCTTSBHHHHHHHHHHHTTCCGGGCEEEETTEEESSSCBHHHHCCCSSCEEEEECSS
T ss_pred             cEEEEEcCCCcEEEEEECCCCCHHHHHHHHHHHhCCChhhCeEEeCCEeccccceeEecCCCCCCEEEEEEcc
Confidence            6789999999999999999999999999999999999999999999999998999999999999999999754

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

Probab=97.63  E-value=0.00013  Score=56.19  Aligned_cols=68  Identities=16%  Similarity=0.235  Sum_probs=57.6

Q ss_pred             EEEEEeC--CCCEEEEEeCCCCCHHHHHHHHHHHhCCCCc-----CeEEecCCeecCCcccchhcCCCCCcEEEE
Q 016931            2 RITVMTA--DEQIISLDVDPHETVENVKALLEVETQVPLQ-----QQQLLYNGREMNNAEKLSALGVKDEDLVMM   69 (380)
Q Consensus         2 ~ItVk~~--~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~-----~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l   69 (380)
                      +||+...  .++.+.++++...|+..|+..+.+.++++..     +.++.-++..|.++++|++|+|.+||.|.+
T Consensus         6 ~ITidl~~y~~~~~DLRIP~~~tvK~Li~~l~ea~~l~~~~~~~~~irv~NK~~~L~~~~~L~d~~ItnGD~Lei   80 (81)
T 2bps_A            6 DITIDLKHYNGSVFDLRLSDYHPVKKVIDIAWQAQSVSMPPREGHWIRVVNKDKVFSGECKLSDCGITNGDRLEI   80 (81)
T ss_dssp             EEEEECTTTTCCEEEEEEETTSBTTHHHHHHHHHSCCCSCCCTTCEEEEGGGTEEEETTSBTGGGTCCTTCEEEE
T ss_pred             EEEEEeeccCCceEEEECCCchhHHHHHHHHHHHhCCCcCCCCCCEEEEecCCEEEcCCCEEeeCCcCCCCEEEE
Confidence            4566643  5889999999999999999999999987652     346667889999999999999999999875

>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=97.50  E-value=0.00024  Score=64.58  Aligned_cols=70  Identities=11%  Similarity=0.259  Sum_probs=64.4

Q ss_pred             EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      .|+|++ +++.+.+.+..++++..|+...+++.|+++++++++|+|+.+.+++|-.++.+.++|+|.+...
T Consensus        23 ~ikv~~-~~~~v~~~i~~~~~l~kl~~~y~~~~g~~~~~~~f~fdG~~i~~~~Tpk~L~~ed~d~I~~~~e   92 (209)
T 3uf8_A           23 NLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHRE   92 (209)
T ss_dssp             EEEEEC-SSCEEEEEEETTSCTHHHHHHHHHHHTCCGGGCEEEETTEECCTTCCTTTTTCCTTEEEEEECS
T ss_pred             EEEEEc-CCCEEEEEEeeCCHHHHHHHHHHHhhCCChheEEEEECCEeccCCCChHHhhhcccccchhhcc
Confidence            466666 6677889999999999999999999999999999999999999999999999999999999864

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

Probab=97.44  E-value=0.00072  Score=53.44  Aligned_cols=70  Identities=14%  Similarity=0.212  Sum_probs=64.3

Q ss_pred             EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      .|+|+. +|....+.+..++.+..|....+.+.|++++..+++|+|..+.++.|-.++++.+||+|-++.-
T Consensus        23 niKV~~-~g~ev~FkIK~tt~l~KL~~aYc~r~gv~~~sirFlfDG~rI~~~~TP~~L~meD~DiID~~~~   92 (95)
T 2l76_A           23 PLKIRC-RADLVRLPLRMSEPLQSVVDHMATHLGVSPSRILLLFGETELSPTATPRTLKLGVADIIDCVVL   92 (95)
T ss_dssp             EEEEEC-SSSEEEEEECSSSCTHHHHHHHHHHHTSCGGGEEEEETTEECCTTSCHHHHTCCSSCEEEEEEC
T ss_pred             EEEEEc-CCcEEEEEEecCChHHHHHHHHHhhcCCChhhEEEEECCcCCCCCCCHhHcCCCCCCEEEEEEe
Confidence            567775 6788889999999999999999999999999999999999999999999999999999988754

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

Probab=97.32  E-value=3.2e-05  Score=75.55  Aligned_cols=69  Identities=12%  Similarity=0.259  Sum_probs=0.0

Q ss_pred             EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931            2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS   71 (380)
Q Consensus         2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~   71 (380)
                      .|+|+. +|+.+.+.|..++++..|+...+++.|++++.++++|+|+.|.++.|.++++++|||+|.+..
T Consensus        23 ~LKV~~-~g~~v~FkIk~~t~l~kLm~aY~~r~G~~~~~~rFlFdG~rI~~~~TP~~L~MEDgD~Idv~~   91 (360)
T 3ix6_A           23 NLKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHR   91 (360)
T ss_dssp             ----------------------------------------------------------------------
T ss_pred             EEEEec-CCcEEEEEEecCChHHHHHHHHHHHhCCCcceEEEEECCeECCCCCChHHcCCCccchhhhhh
Confidence            456665 567788999999999999999999999999999999999999999999999999999999984

>2pma_A Uncharacterized protein; APC86035.2, protein LPG0085, DUF785, legionella pneumophila pneumophila STR. philadelphia 1; 1.89A {Legionella pneumophila subsp} SCOP: b.50.1.3

Probab=97.12  E-value=0.00085  Score=57.40  Aligned_cols=108  Identities=15%  Similarity=0.132  Sum_probs=68.6

Q ss_pred             ccccceeEEeeeecCeeEEEEEcCCccccccCHHHHHHc---C-------C---------ccccCCcceeEeecCcce--
Q 016931          191 FARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERC---G-------L---------LRLLDDRYRGVAHGVGQS--  249 (380)
Q Consensus       191 f~~~~~lyv~v~Ing~~v~alVDTGA~~siIs~~~a~rl---g-------L---------~~~~~~~~~~~~~gvg~~--  249 (380)
                      ++..-.++++-.  |.+++|=|||||..|-|+..-.+..   |       +         ...+- +...+....|..  
T Consensus         5 iG~~E~v~lp~l--g~~~~AKiDTGA~TSSLhA~dI~~Ferdg~~wVrF~~~~~~~~~~~e~pv~-~~~~Ik~s~g~~~~   81 (146)
T 2pma_A            5 YGYVEKATLIDQ--NLTLSAKLDTGAKSASLHAVNITEIEKKGIPYLRFTVPTKTGDYSFEGEYV-GKVKIKVRSSETNP   81 (146)
T ss_dssp             EESEEEEEEGGG--TEEEEEEECTTCSSEEEECEEEEEEEETTEEEEEEEEEETTEEEEEEEEEE-EEEEC---------
T ss_pred             EeeeEEEEECCC--CCEEEEEecCCcCcceecceeEEEeeeCCCcEEEEEEecCCCCceEEEEeE-EEEEEecCCCcccc
Confidence            344444555443  7789999999999999987655432   1       1         00000 111111111220  


Q ss_pred             ------eEEeEEEEEeEEEcCEEEeEEEEEecC--CCCceeeeHHHHhhcCeEEEcCCCE
Q 016931          250 ------EILGRIHVAPIKIGNVFYPCSFVVLDS--PNMEFLFGLDMLRKHQCIIDLKENV  301 (380)
Q Consensus       250 ------~~~g~i~~~~i~ig~~~~~~~~~Vl~~--~~~d~iLG~D~L~~~~~~ID~~~~~  301 (380)
                            ...-.+-...|+||+..+++.|..-+.  ..+.+|||-+||+..++.+|....-
T Consensus        82 ~~~~~~~e~R~VV~~~i~lG~~~~~ie~tLtdRs~m~ypmLLGR~~L~~~~~lVD~s~~~  141 (146)
T 2pma_A           82 GLLRTTPIKRPVVLLNIKLGDKVRTIKVNLTNRKRFLYPLLLGRDAIIDFNGAVDPALTF  141 (146)
T ss_dssp             ------CCEEEEEEEEEEETTEEEEEEEEEECCCCCSCSEEECHHHHHHTTEEEETTCCC
T ss_pred             ccccCCcccccEEEEEEEECCEEEEEEEEEcCCCcCCCCEEechhHHhhCCEEECCchhc
Confidence                  122234445899999999999999994  4689999999999999999987653

>3qx1_A FAS-associated factor 1; UBX, protein binding, P97 binding; 1.60A {Homo sapiens} PDB: 3qwz_B* 3qc8_B 3qca_A 3qq8_B 3r3m_B 1h8c_A

Probab=97.10  E-value=0.0024  Score=49.21  Aligned_cols=69  Identities=10%  Similarity=0.263  Sum_probs=59.3

Q ss_pred             EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEe--cCCeecC--C-cccchhcCCCCCcEEEEee
Q 016931            2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLL--YNGREMN--N-AEKLSALGVKDEDLVMMVS   71 (380)
Q Consensus         2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li--~~Gk~L~--D-~~tL~~~gI~dg~~I~l~~   71 (380)
                      +|-|+.++|+.+.-.+..+.||.+|...|.. .+.++....|+  |-.|.|.  | ++||.++|+.++.+|+|-.
T Consensus         9 ~i~iRlpdG~r~~~~F~~~~tl~~v~~fv~~-~~~~~~~f~L~t~fPrk~l~~~d~~~TL~e~gL~p~a~L~ve~   82 (84)
T 3qx1_A            9 KLRIRTPSGEFLERRFLASNKLQIVFDFVAS-KGFPWDEYKLLSTFPRRDVTQLDPNKSLLEVKLFPQETLFLEA   82 (84)
T ss_dssp             EEEEECTTSCEEEEEEETTSBHHHHHHHHHH-TTCCTTTEEEECSSSCCBGGGSCTTSBTTTTTCCSEEEEEEEE
T ss_pred             EEEEECCCCCEEEEEeCCCCCHHHHHHHHHH-cCCCCCCeEEEeCCCCCCCcCCCCCCCHHHCCCCCCCEEEEEe
Confidence            5778999999888889999999999999998 67778888888  5678884  3 5899999999999999864

>3liy_A Protease; hydrolase, hydrolase-hydrolase inhibitor complex; HET: STA; 1.86A {Human t-lymphotropic virus 1} PDB: 2b7f_A* 3liq_A* 3lit_A* 3liv_A* 3lix_A* 3lin_A*

Probab=97.04  E-value=0.00097  Score=54.36  Aligned_cols=93  Identities=20%  Similarity=0.204  Sum_probs=58.6

Q ss_pred             eeEEeeeec-----CeeEEEEEcCCccccccCHHHHHHcCCccccCCccee----EeecCcceeEEeEEEEEeEEEcC--
Q 016931          196 MLYVDMEVN-----GIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRG----VAHGVGQSEILGRIHVAPIKIGN--  264 (380)
Q Consensus       196 ~lyv~v~In-----g~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~----~~~gvg~~~~~g~i~~~~i~ig~--  264 (380)
                      +-.+.++|+     |+.+.||+||||..|+|...     .+.    .++.-    +..|+|.....-+....++.+-.  
T Consensus        10 RPlvtikI~~~~~~Gq~~eaLLDTGADdTVl~~~-----~lP----g~Wkp~~tkiiGGiGg~~~~~qs~~~pv~i~lpf   80 (116)
T 3liy_A           10 RPVIKAQVDTQTSHPKTIEALLDTGADMTVIPIA-----LFS----SNTPLKNTSVLGAGGQTQDHFKLTSLPVLIRLPF   80 (116)
T ss_dssp             CCEEEEEEECSSSCCEEEEEEECTTBSSCEEEGG-----GSC----TTCCEEECCEEETTEEESSSEEEESSCEEEECTT
T ss_pred             CCeEEEEEccccCCCeEeEEEeccCCCccEEecc-----cCC----CCCcccccceEeecccceeeeEecCCCeEEEecc
Confidence            567889999     99999999999999999742     332    22322    56666643333344444555533  


Q ss_pred             --EEEeEEEEEecCCCCceeeeHHHHhhcCeEEEc
Q 016931          265 --VFYPCSFVVLDSPNMEFLFGLDMLRKHQCIIDL  297 (380)
Q Consensus       265 --~~~~~~~~Vl~~~~~d~iLG~D~L~~~~~~ID~  297 (380)
                        .....+...++..+.=-|||-|.|.+.+..+-+
T Consensus        81 r~~pv~l~~~lv~~~~~w~iigRd~l~q~q~~l~l  115 (116)
T 3liy_A           81 RTTPIVLTSCLVDTKNNWAIIGRDALQQCQGVLYL  115 (116)
T ss_dssp             CCSCEEESSCEEETTSCCCEECHHHHHHTTCEEEC
T ss_pred             CCcceeeceEEEcCCCceeEechhHHhhhccEEec
Confidence              222222333444334469999999999877643

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

Probab=96.96  E-value=0.00012  Score=72.48  Aligned_cols=69  Identities=12%  Similarity=0.259  Sum_probs=0.0

Q ss_pred             EEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            3 ITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         3 ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+. ++..+.+.|..++++..|+...+++.|+++.+++++|+|+.|.++.|-+++++++||+|.+...
T Consensus        33 lkv~~-~~~~~~~~i~~~~~~~~l~~~y~~~~g~~~~~~~f~f~G~~i~~~~Tp~~l~med~d~i~~~~~  101 (389)
T 4da1_A           33 LKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQAPEDLDMEDNDIIEAHRE  101 (389)
T ss_dssp             ----------------------------------------------------------------------
T ss_pred             EEEec-CCcEEEEEECCCChHHHHHHHHHHHhCCCcceEEEEECCEEcCCCCCHHHcCCCCCCEeeeeec
Confidence            45555 5666779999999999999999999999999999999999999999999999999999999854

>2dzk_A UBX domain-containing protein 2; ubiquitin-like fold, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} PDB: 2kxj_A

Probab=96.82  E-value=0.011  Score=47.94  Aligned_cols=72  Identities=14%  Similarity=0.216  Sum_probs=62.2

Q ss_pred             EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEe--cCCeecC--C-cccchhcCCCCCcEEEEeecC
Q 016931            2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLL--YNGREMN--N-AEKLSALGVKDEDLVMMVSNA   73 (380)
Q Consensus         2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li--~~Gk~L~--D-~~tL~~~gI~dg~~I~l~~~~   73 (380)
                      +|.|+.++|+.+.-.+..+.||.+|...|....+.+.....|+  |-.|.+.  | ++||.++|+.+..+|++....
T Consensus        15 ~IqIRlpdG~rl~~rF~~~~tl~~v~~fV~~~~~~~~~~f~L~t~fPrk~l~~~d~~~TL~elgL~psa~L~v~~~~   91 (109)
T 2dzk_A           15 RIQFRLPDGSSFTNQFPSDAPLEEARQFAAQTVGNTYGNFSLATMFPRREFTREDYKRRLLDLELAPSASVVLLPAG   91 (109)
T ss_dssp             EEEEECSSSCEEEEEECTTSBHHHHHHHHHHHHTTSSCSCEEECSSSCCBCCTTTTTSBTGGGTCSSEEEEEEECCS
T ss_pred             EEEEECCCCCEEEEEeCCCCCHHHHHHHHHhccCCCCCceEEEcCCCCcCCcccccCCCHHHCCCCCceEEEEEECc
Confidence            5788999999999999999999999999999988877777777  6778887  3 589999999999999888643

>1wj4_A KIAA0794 protein; UBX domain, beta-grAsp fold, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: d.15.1.2

Probab=96.33  E-value=0.012  Score=48.90  Aligned_cols=70  Identities=11%  Similarity=0.220  Sum_probs=60.3

Q ss_pred             EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEe--cCCeec--CC-cccchhcCCCCCcEEEEeec
Q 016931            2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLL--YNGREM--NN-AEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li--~~Gk~L--~D-~~tL~~~gI~dg~~I~l~~~   72 (380)
                      +|.|+.++|..+.-.+..+.||.+|...|... +.++....|+  |-.|.|  .| ++||.++|+.+..+|+|...
T Consensus        45 ~IqIRlPdG~rl~~rF~~~~tl~~V~~fV~~~-~~~~~~F~L~t~fPrk~l~~~d~~~TL~e~gL~psa~Liv~~~  119 (124)
T 1wj4_A           45 QLMLRYPDGKREQITLPEQAKLLALVKHVQSK-GYPNERFELLTNFPRRKLSHLDYDITLQEAGLCPQETVFVQES  119 (124)
T ss_dssp             EEEEECTTSCEEEEEEETTSCHHHHHHHHHHH-HCCTTTEEEECSSSCCEETSSCSSSCTTTTTCCSSBCCEEEEC
T ss_pred             EEEEECCCCCEEEEEeCCCCCHHHHHHHHHhc-CCCCCCeEEecCCCCcCCccCCCCCCHHHCCCCCceEEEEEEc
Confidence            57889999999888999999999999999987 7777788887  668888  34 58999999999999888754

>2l32_A Small archaeal modifier protein 2; protein BIN; NMR {Haloferax volcanii}

Probab=96.10  E-value=0.021  Score=42.94  Aligned_cols=62  Identities=19%  Similarity=0.276  Sum_probs=50.5

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|+........++++...||.+|-+.    .|+|++.-.+..||+.+..+.      +.+||.|-++.-
T Consensus         1 M~v~Vkl~g~~~~~~ev~~g~Tv~dLL~~----Lgl~~~~VvV~vNG~~v~~d~------~l~GD~VeIv~~   62 (74)
T 2l32_A            1 MNVTVEVVGEETSEVAVDDDGTYADLVRA----VDLSPHEVTVLVDGRPVPEDQ------SVEVDRVKVLRL   62 (74)
T ss_dssp             CEEEEECSSSSEEEEECSTTCSHHHHHHT----TCCCSSCCCEECCCCCCCTTS------SSCCCCEEECSS
T ss_pred             CEEEEEEeCccceeEEcCCCCcHHHHHHH----cCCCcceEEEEECCEECCHHH------CCCCCEEEEEEe
Confidence            99999987555566899999999998765    899999988888999887555      345999988753

>2cr5_A Reproduction 8; UBX domain, D0H8S2298E protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.15.1.2

Probab=95.54  E-value=0.078  Score=42.76  Aligned_cols=70  Identities=6%  Similarity=0.105  Sum_probs=58.5

Q ss_pred             EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEe--cCCeecC-C-cccchhcCCCCCcEEEEeec
Q 016931            2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLL--YNGREMN-N-AEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li--~~Gk~L~-D-~~tL~~~gI~dg~~I~l~~~   72 (380)
                      +|-|+..+|+.+.-.+..+.||.+|...|..+ +..+....|+  |-.|.|. | ++||+++|+.+..+|+|...
T Consensus        25 ~IqiRlpdG~r~~rrF~~~~tl~~v~~fv~~~-~~~~~~f~L~t~fPrk~l~~d~~~TL~e~gL~p~a~L~Ve~~   98 (109)
T 2cr5_A           25 TVALRCPNGRVLRRRFFKSWNSQVLLDWMMKV-GYHKSLYRLSTSFPRRALEVEGGSSLEDIGITVDTVLNVEEK   98 (109)
T ss_dssp             EEEEECTTSCEEEEEEESSSBTHHHHHHHHHH-TCCTTTEEEECSSSCCBCCCCSSCBHHHHTCSSCEEEEEEEC
T ss_pred             EEEEECCCCCEEEEEeCCCCCHHHHHHHHHhc-CCCCCCeEEEeCCCCcCCCCCCCCCHHHcCCCCCeEEEEEeC
Confidence            57789999998888899999999999999966 4556677776  6678886 3 58999999999999988764

>2jys_A Protease/reverse transcriptase; retroviral protease, hydrolase; NMR {Simian foamy virus type 1}

Probab=95.35  E-value=0.04  Score=43.08  Aligned_cols=68  Identities=24%  Similarity=0.276  Sum_probs=44.9

Q ss_pred             EeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEeEEEEE
Q 016931          199 VDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVV  273 (380)
Q Consensus       199 v~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~~~~~V  273 (380)
                      +.++|.|..+++.-||||+.|+|...+.+.   +..+.+.......|    .....+.-..++|.|+.+.+.++-
T Consensus        10 L~vEiKg~kLkg~WDsGA~ITCiP~~fL~~---E~PI~~~~I~TIHG----~k~q~vYYl~fKv~GRKveaEVi~   77 (107)
T 2jys_A           10 LEAEIKGTKLKAHWDSGATITCVPEAFLED---ERPIQTMLIKTIHG----EKQQDVYYLTFKVQGRKVEAEVLA   77 (107)
T ss_dssp             EEEEETTEEEEEEECTTCSSEEEEGGGTTT---CCCSEEEEEECSSC----EEEEEEEEEEEEESSCEEEEEEEE
T ss_pred             eeEEEeCcEEEEEecCCCeEEEcchHHhcc---cccccceEEEEecC----ceeceEEEEEEEEcCeEEEEEEec
Confidence            678999999999999999999999988542   11111111112222    333455566889999887755443

>1s3s_G P47 protein; AAA ATPase, protein-protein complex, UBX domain, protein binding; HET: ADP; 2.90A {Rattus norvegicus} SCOP: d.15.1.2 PDB: 1i42_A 1jru_A

Probab=95.30  E-value=0.049  Score=45.29  Aligned_cols=67  Identities=10%  Similarity=0.236  Sum_probs=55.1

Q ss_pred             EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHh-CCCCcCeEEe--cCCeecCC-cccchhcCCCCCcEEE
Q 016931            2 RITVMTADEQIISLDVDPHETVENVKALLEVET-QVPLQQQQLL--YNGREMNN-AEKLSALGVKDEDLVM   68 (380)
Q Consensus         2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~-gip~~~q~Li--~~Gk~L~D-~~tL~~~gI~dg~~I~   68 (380)
                      +|-|+..+|..+.-.+..+.||.+|...|.... +.......|+  |-.|.|.| +.||.++|+.+..+|.
T Consensus        54 ~IqIRlpdG~rl~~rF~~~~tl~~v~~fV~~~~~~~~~~~f~L~t~fPrk~l~d~~~TL~eagL~psavl~  124 (127)
T 1s3s_G           54 NIQIRLADGGRLVQKFNHSHRISDIRLFIVDARPAMAATSFVLMTTFPNKELADENQTLKEANLLNAVIVQ  124 (127)
T ss_dssp             CEEEEETTTTEEEEECCSSCBHHHHHHHHHHHCSGGGTSCEEEEETTTTEECCSTTCBHHHHTCSSCEEEE
T ss_pred             EEEEECCCCCEEEEEeCCCCCHHHHHHHHHHhCcCCCCCCeEEecCCCCCCCCCCCCcHHHCCCcCceEEE
Confidence            578899999998899999999999999999864 3455667776  67888986 5899999999865543

>3qvc_A Histo-aspartic protease; HAP, plasmepsin, zymogen, hydrolase; 2.10A {Plasmodium falciparum} PDB: 3qvi_A* 3fns_A 3fnt_A* 3fnu_A*

Probab=95.11  E-value=0.067  Score=53.79  Aligned_cols=91  Identities=19%  Similarity=0.418  Sum_probs=61.9

Q ss_pred             ceeEEeeeec--CeeEEEEEcCCccccccC-HHHH-HHcCCccccCC----cc------eeEeecCcceeEEeEEEEEeE
Q 016931          195 VMLYVDMEVN--GIPLKAFVDSGAQSTIIS-KSCA-ERCGLLRLLDD----RY------RGVAHGVGQSEILGRIHVAPI  260 (380)
Q Consensus       195 ~~lyv~v~In--g~~v~alVDTGA~~siIs-~~~a-~rlgL~~~~~~----~~------~~~~~gvg~~~~~g~i~~~~i  260 (380)
                      ...|+++.|+  ++++.+++|||++.+.+. ..|. ..|+-....+.    .+      ..+..|-|.  ..|.+....|
T Consensus       137 ~~Y~~~I~IGTPpQ~~~vi~DTGSs~lWV~s~~C~s~~C~~~~~ydps~SsT~~~~~~~f~i~YgdGs--~~G~~~~Dtv  214 (451)
T 3qvc_A          137 VLSFGEAKLGDNGQKFNFLFHTASSNVWVPSIKCTSESCESKNHYDSSKSKTYEKDDTPVKLTSKAGT--ISGIFSKDLV  214 (451)
T ss_dssp             EEEEEEEEETTTTEEEEEEEESSBCSEEEEBTTCCSGGGTTSCCBCGGGCTTCEEEEEEEEEECSSEE--EEEEEEEEEE
T ss_pred             CEEEEEEEECCCCcEEEEEEcCCCccEEEecCCCCccccCCCCCCCCCCCcccccCCCEEEEEECCCE--EEEEEEEEEE
Confidence            4589999998  799999999999998884 3442 23443222221    11      113344443  7899999999


Q ss_pred             EEcCEEEeEEEEEecC----------CCCceeeeHHH
Q 016931          261 KIGNVFYPCSFVVLDS----------PNMEFLFGLDM  287 (380)
Q Consensus       261 ~ig~~~~~~~~~Vl~~----------~~~d~iLG~D~  287 (380)
                      .+|+..++..|.+...          ...|+||||-+
T Consensus       215 ~igg~~v~~~Fg~a~~t~~~~~~f~~~~~dGILGLg~  251 (451)
T 3qvc_A          215 TIGKLSVPYKFIEMTEIVGFEPFYSESDVDGVFGLGW  251 (451)
T ss_dssp             EETTEEEEEEEEEEEEEEECTTHHHHSCCCEEEECSS
T ss_pred             EECCEEEEEEEEEEEeccccCCCccCCCCCEEEecCC
Confidence            9999777766666544          35799999964

>2daj_A KIAA0977 protein, COBL-like 1; ubiquitin-like domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=94.92  E-value=0.061  Score=41.34  Aligned_cols=68  Identities=15%  Similarity=0.318  Sum_probs=57.4

Q ss_pred             EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecC---CeecCCcccchhcCCCCCcEEEEeec
Q 016931            2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYN---GREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~---Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      ++.|.....+...+.|+|..++.+|--.|..++.+.|+.-.|...   +.+|+-+++|.+|||++   ++....
T Consensus        12 RLvVNy~~tQKtVvRVSP~vpL~ellp~IC~Kcefdp~~~~Ll~d~~~~e~LdLskSLndlgirE---Lya~d~   82 (91)
T 2daj_A           12 RVVINFKKTQKTIVRVSPHASLQELAPIICSKCEFDPLHTLLLKDYQSQEPLDLTKSLNDLGLRE---LYAMDV   82 (91)
T ss_dssp             EEEEEETTTEEEEEEECSSSCTTTHHHHHHHHTTCCTTSEEEESCSSCCCBCCTTSCHHHHTCSE---EEEEEC
T ss_pred             EEEEeecCcceeEEEeCCCCcHHHHHHHHhhcccCChhhEEEecCCCCCcccchhcchhhhhhhh---hheecc
Confidence            466777667778899999999999999999999999999998853   45688899999999997   666643

>2x0b_A Renin; hydrolase-hormone complex, hydrolase hormone complex, vasoconstrictor, glycoprotein, hypertension, serpins; 4.33A {Homo sapiens}

Probab=94.49  E-value=0.075  Score=52.20  Aligned_cols=92  Identities=17%  Similarity=0.367  Sum_probs=61.2

Q ss_pred             cceeEEeeeec--CeeEEEEEcCCcccccc-CHHHH---HHcCCccccCC----cc------eeEeecCcceeEEeEEEE
Q 016931          194 VVMLYVDMEVN--GIPLKAFVDSGAQSTII-SKSCA---ERCGLLRLLDD----RY------RGVAHGVGQSEILGRIHV  257 (380)
Q Consensus       194 ~~~lyv~v~In--g~~v~alVDTGA~~siI-s~~~a---~rlgL~~~~~~----~~------~~~~~gvg~~~~~g~i~~  257 (380)
                      -...|+++.|.  .+++++++|||++.+-+ +..|.   ..|......+.    .+      ..+..|-|.  ..|.+..
T Consensus        60 ~~~Y~~~I~IGTP~Q~f~vi~DTGSs~lWV~s~~C~~~~~~C~~~~~y~~~~SsT~~~~~~~~~i~Yg~Gs--~~G~~~~  137 (383)
T 2x0b_A           60 DTQYYGEIGIGTPPQTFKVVFDTGSSNVWVPSSKCSRLYTACVYHKLFDASDSSSYKHNGTELTLRYSTGT--VSGFLSQ  137 (383)
T ss_dssp             TTEEEEEEEETTTTEEEEEEEETTCCCEEEEBTTSCTTSHHHHTSCCBCGGGCTTCEEEEEEEEEECSSCE--EEEEEEE
T ss_pred             CCEEEEEEEECCCCcEEEEEEeCCCCCeEEeccCCCCCcccccCCCCCCCCCCCcEEECCcEEEEEcCCcc--EEEEEEe
Confidence            34688999997  78999999999999877 44443   24433222221    11      123344443  6799999


Q ss_pred             EeEEEcCEEEeEEEEEecC--------CCCceeeeHHH
Q 016931          258 APIKIGNVFYPCSFVVLDS--------PNMEFLFGLDM  287 (380)
Q Consensus       258 ~~i~ig~~~~~~~~~Vl~~--------~~~d~iLG~D~  287 (380)
                      ..|.||+..++..|.+...        ...|+||||-+
T Consensus       138 Dtv~ig~~~v~~~Fg~a~~~~g~~f~~~~~dGIlGLg~  175 (383)
T 2x0b_A          138 DIITVGGITVTQMFGEVTEMPALPFMLAEFDGVVGMGF  175 (383)
T ss_dssp             EEEEETTEEEEEEEEEEEECCHHHHTTCSSSEEEECSC
T ss_pred             eEEEEcCceEEEEEEEEEecCCcccccCCCceEeccCC
Confidence            9999999766655555442        35799999864

>1pve_A HHR23B, UV excision repair protein RAD23 homolog B; XPC binding domain, solution structure, nucleotide excision repair, chaps, DNA binding protein; NMR {Homo sapiens} SCOP: a.189.1.1

Probab=94.38  E-value=0.038  Score=41.32  Aligned_cols=40  Identities=20%  Similarity=0.392  Sum_probs=32.3

Q ss_pred             HHHHHHHhcCHHH----HHHHhhcCHHHHHHhcCCCHHHHHHHHH
Q 016931           94 AAFQQHIRNDANL----MTQLFQSDPELAQVLLGNDLNKLQDLLR  134 (380)
Q Consensus        94 ~~~~q~~l~nP~~----l~qL~~~nP~La~ai~~~d~~~~~~~l~  134 (380)
                      ..||+.+.+||++    +++|.++||+|.+.|. .|++.|-+++.
T Consensus        16 ~qlR~~vqqNP~lL~~lLqqL~~~NPqL~q~I~-~n~e~Fl~ll~   59 (72)
T 1pve_A           16 QQMRQIIQQNPSLLPALLQQIGRENPQLLQQIS-QHQEHFIQMLN   59 (72)
T ss_dssp             TTHHHHHTTCGGGHHHHHHHHHTTCHHHHHHHH-TTHHHHHHHHH
T ss_pred             HHHHHHHHHCHHHHHHHHHHHHhHCHHHHHHHH-HCHHHHHHHHc
Confidence            5689999999775    5566669999999986 68888888874

>1ryj_A Unknown; beta/alpha protein, structural genomics, protein structure initiative, OCSP, NESG, PSI; NMR {Methanothermococcusthermolithotrophicus} SCOP: d.15.3.2

Probab=93.80  E-value=0.3  Score=35.90  Aligned_cols=61  Identities=23%  Similarity=0.396  Sum_probs=46.4

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS   71 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~   71 (380)
                      |+|+|.... ....++++...|+.+|.+.+    ++++....+..||..+..+.     -+++||.|-++.
T Consensus         5 m~i~vNg~~-~~~~~~~~~~~tv~~Ll~~l----~~~~~~v~vavN~~~v~~~~-----~L~~gD~V~ii~   65 (70)
T 1ryj_A            5 MKFTVITDD-GKKILESGAPRRIKDVLGEL----EIPIETVVVKKNGQIVIDEE-----EIFDGDIIEVIR   65 (70)
T ss_dssp             EEEEEEETT-EEEEEEESSCCBHHHHHHHT----TCCTTTEEEEETTEECCTTS-----BCCTTCEEEEEE
T ss_pred             EEEEEeCcc-CceeEECCCCCcHHHHHHHh----CCCCCCEEEEECCEECCCcc-----cCCCCCEEEEEe
Confidence            677777633 23467888889999999875    66777777778999887654     588999998874

>1yg9_A Aspartic protease BLA G 2; allegren, hydrolase, allergen; HET: NAG; 1.30A {Blattella germanica} PDB: 2nr6_A* 3liz_A*

Probab=93.33  E-value=0.19  Score=48.02  Aligned_cols=91  Identities=14%  Similarity=0.202  Sum_probs=59.0

Q ss_pred             ceeEEeeeecCeeEEEEEcCCcccccc-CHHHH-HHc--CCccccCCcce---------eEeecCcceeEEeEEEEEeEE
Q 016931          195 VMLYVDMEVNGIPLKAFVDSGAQSTII-SKSCA-ERC--GLLRLLDDRYR---------GVAHGVGQSEILGRIHVAPIK  261 (380)
Q Consensus       195 ~~lyv~v~Ing~~v~alVDTGA~~siI-s~~~a-~rl--gL~~~~~~~~~---------~~~~gvg~~~~~g~i~~~~i~  261 (380)
                      ...|+++.|+++++++++|||++.+.+ +..|. ..|  ......+....         .+..|-|  ...|.+....|.
T Consensus        17 ~~Y~~~i~iG~Q~~~v~~DTGSs~lWv~~~~C~~~~C~~~~~~~y~~~~ST~~~~~~~~~i~Yg~G--s~~G~~~~Dtv~   94 (330)
T 1yg9_A           17 TQYAGITKIGNQNFLTVFDSTSCNVVVASQECVGGACVCPNLQKYEKLKPKYISDGNVQVKFFDTG--SAVGRGIEDSLT   94 (330)
T ss_dssp             TTSEEEEEETTEEEEEEEETTCCCEEEECTTCCSGGGGSTTCCCCCCSSCEEEEEEEEEEEETTTE--EEEEEEEEEEEE
T ss_pred             CEEEEEEEECCEEEEEEEeCCCcceEEecCCCCCccCcccccCccCCCCCceEECCCEEEEEECCc--eEEEEEEEEEEE
Confidence            357899999999999999999999876 45553 245  32222221111         1223333  348888888999


Q ss_pred             EcCEEEe-EEEEEecC-------CCCceeeeHHH
Q 016931          262 IGNVFYP-CSFVVLDS-------PNMEFLFGLDM  287 (380)
Q Consensus       262 ig~~~~~-~~~~Vl~~-------~~~d~iLG~D~  287 (380)
                      ||+..++ ..|.+...       ...|+||||-+
T Consensus        95 ig~~~~~~~~fg~~~~~~~~f~~~~~~GilGLg~  128 (330)
T 1yg9_A           95 ISQLTTSQQDIVLADELSQEVCILSADVVVGIAA  128 (330)
T ss_dssp             ETTEEEEEEEEEEEEEECTHHHHTTCSEEEECSC
T ss_pred             ECCEEEcCeEEEEEEEcccccccccCceEEEcCc
Confidence            9996554 45544432       24799999875

>4e71_A Plexin-B2, MM1; transmembrane, signaling, RBD, structural genomics consortium, SGC, signaling protein; 2.26A {Homo sapiens}

Probab=93.29  E-value=0.39  Score=38.88  Aligned_cols=62  Identities=16%  Similarity=0.234  Sum_probs=45.0

Q ss_pred             CCEEEEEeCCCCCHHHHHHHHHHHh--CCC------CcCeEEec----CCeecCCc-------------ccchhcCCCCC
Q 016931           10 EQIISLDVDPHETVENVKALLEVET--QVP------LQQQQLLY----NGREMNNA-------------EKLSALGVKDE   64 (380)
Q Consensus        10 g~~~~i~V~~~~TV~~LK~~I~~~~--gip------~~~q~Li~----~Gk~L~D~-------------~tL~~~gI~dg   64 (380)
                      +..+.+.|-..+||.++|++|-...  |+|      +++..|-+    .|++|.|.             .||+.|+|.||
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            4557888888999999999998764  333      34556665    24566651             37999999999


Q ss_pred             cEEEEee
Q 016931           65 DLVMMVS   71 (380)
Q Consensus        65 ~~I~l~~   71 (380)
                      .+|-++.
T Consensus       103 atl~l~~  109 (111)
T 4e71_A          103 ATLILSK  109 (111)
T ss_dssp             CEEEEEE
T ss_pred             CEEEEEe
Confidence            9998875

>1miq_A Plasmepsin; aspartic proteinase zymogen, domain opening, hydrolase; 2.50A {Plasmodium vivax} SCOP: b.50.1.2 PDB: 1ls5_A*

Probab=93.19  E-value=0.1  Score=50.96  Aligned_cols=91  Identities=22%  Similarity=0.490  Sum_probs=59.8

Q ss_pred             ceeEEeeeec--CeeEEEEEcCCccccccC-HHHH-HHcCCccccCC----cce------eEeecCcceeEEeEEEEEeE
Q 016931          195 VMLYVDMEVN--GIPLKAFVDSGAQSTIIS-KSCA-ERCGLLRLLDD----RYR------GVAHGVGQSEILGRIHVAPI  260 (380)
Q Consensus       195 ~~lyv~v~In--g~~v~alVDTGA~~siIs-~~~a-~rlgL~~~~~~----~~~------~~~~gvg~~~~~g~i~~~~i  260 (380)
                      ...|+++.|+  ++++.+++|||++.+.+. ..|. ..|+.....+.    .+.      .+..|-|.  ..|.+....|
T Consensus        62 ~~Y~~~i~iGTP~Q~~~v~~DTGSs~lWv~~~~C~~~~C~~~~~y~~~~SsT~~~~~~~~~i~Yg~Gs--~~G~~~~Dtv  139 (375)
T 1miq_A           62 IMFYGEGEVGDNHQKFMLIFDTGSANLWVPSKKCNSSGCSIKNLYDSSKSKSYEKDGTKVDITYGSGT--VKGFFSKDLV  139 (375)
T ss_dssp             EEEECCCEETTTTEECCEEEETTCCCEEEEBTTCCSSGGGGSCCBCGGGCTTCEEEEEEEEEEETTEE--EEEEEEEEEE
T ss_pred             CEEEEEEEECCCCeEEEEEEeCCCcceEEccCCCCcccccCCCcCCCccCCceEECCcEEEEEeCCCe--EEEEEEEEEE
Confidence            4678899998  899999999999998774 4442 13332111211    111      23344444  6798988999


Q ss_pred             EEcCEEEeEEEEEecC----------CCCceeeeHHH
Q 016931          261 KIGNVFYPCSFVVLDS----------PNMEFLFGLDM  287 (380)
Q Consensus       261 ~ig~~~~~~~~~Vl~~----------~~~d~iLG~D~  287 (380)
                      .||+..++-.|.+...          ...|+||||-+
T Consensus       140 ~ig~~~v~~~Fg~~~~~~~~~~~f~~~~~dGilGLg~  176 (375)
T 1miq_A          140 TLGHLSMPYKFIEVTDTDDLEPIYSSVEFDGILGLGW  176 (375)
T ss_dssp             EETTEEEEEEEEEEEECGGGTTHHHHSCCCEEEECSS
T ss_pred             EEcCceECcEEEEEEeccccccccccCCCceEEeCCC
Confidence            9999665555555443          46799999865

>2bju_A Plasmepsin II; aspartic proteinase, drug design, malaria, aspartyl protease, glycoprotein, hydrolase, signal, zymogen; HET: IH4; 1.56A {Plasmodium falciparum} SCOP: b.50.1.2 PDB: 1pfz_A 1xdh_A* 1lf3_A 1w6h_A* 1w6i_A* 1lf4_A* 1lf2_A* 1lee_A* 1m43_A* 2igx_A* 1sme_A* 1me6_A* 1xe6_A* 1xe5_A* 2igy_A* 2r9b_A 3f9q_A 3qrv_A 3qs1_A* 2anl_A* ...

Probab=93.12  E-value=0.15  Score=51.30  Aligned_cols=91  Identities=23%  Similarity=0.446  Sum_probs=60.4

Q ss_pred             ceeEEeeeec--CeeEEEEEcCCccccccC-HHHH-HHcCCccccCC----cc------eeEeecCcceeEEeEEEEEeE
Q 016931          195 VMLYVDMEVN--GIPLKAFVDSGAQSTIIS-KSCA-ERCGLLRLLDD----RY------RGVAHGVGQSEILGRIHVAPI  260 (380)
Q Consensus       195 ~~lyv~v~In--g~~v~alVDTGA~~siIs-~~~a-~rlgL~~~~~~----~~------~~~~~gvg~~~~~g~i~~~~i  260 (380)
                      ...|+++.|+  ++++.+++|||++.+.+. ..|. ..|+-....+.    .+      ..+..|-|.  ..|.+....|
T Consensus       138 ~~Y~~~I~IGTP~Q~~~vi~DTGSs~lWV~~~~C~~~~C~~~~~ydps~SsT~~~~~~~~~i~YgdGs--~~G~~~~Dtv  215 (453)
T 2bju_A          138 IMFYGDAEVGDNQQPFTFILDTGSANLWVPSVKCTTAGCLTKHLYDSSKSRTYEKDGTKVEMNYVSGT--VSGFFSKDLV  215 (453)
T ss_dssp             TEEEEEEEETTTTEEEEEEEETTCCCEEEEBTTCCSTTGGGSCCBCGGGCTTCEEEEEEEEEECSSSE--EEEEEEEEEE
T ss_pred             CEEEEEEEECCCCeEEEEEEECCCcceEEeccCCCccccCCCCcCCCccCCceeECCcEEEEEcCCCC--eEEEEEEEEE
Confidence            4689999998  899999999999998774 4442 12322111111    11      123444444  5799999999


Q ss_pred             EEcCEEEeEEEEEecCC----------CCceeeeHHH
Q 016931          261 KIGNVFYPCSFVVLDSP----------NMEFLFGLDM  287 (380)
Q Consensus       261 ~ig~~~~~~~~~Vl~~~----------~~d~iLG~D~  287 (380)
                      .+|+..++..|.+....          ..|+||||-+
T Consensus       216 ~ig~~~v~~~Fg~a~~~~~~g~~f~~~~~dGIlGLg~  252 (453)
T 2bju_A          216 TVGNLSLPYKFIEVIDTNGFEPTYTASTFDGILGLGW  252 (453)
T ss_dssp             EETTEEEEEEEEEEEECGGGTTHHHHSSCCEEEECSC
T ss_pred             EEeCcEEEEEEEEEEEecccCccccccCCceeEeccC
Confidence            99997766666555422          4799999864

>3k1w_A Renin; protease, alternative splicing, aspartyl protease, cleavage on PAIR of basic residues, disease mutation, disulfide bond, glycoprotein; HET: BFX NDG HSQ; 1.50A {Homo sapiens} SCOP: b.50.1.2 PDB: 3d91_A* 3g70_A* 3g6z_A* 3own_A* 2iko_A* 1bbs_A* 1rne_A* 2bkt_A* 2bks_A* 2iku_A* 2il2_A* 2ren_A* 2v0z_C* 2v10_C* 2v11_C* 2v12_C* 2v13_A* 2v16_C* 3g72_A* 3oot_A* ...

Probab=92.93  E-value=0.58  Score=44.42  Aligned_cols=91  Identities=16%  Similarity=0.378  Sum_probs=59.4

Q ss_pred             ceeEEeeeec--CeeEEEEEcCCccccccC-HHHH---HHcCCccccC----Ccc------eeEeecCcceeEEeEEEEE
Q 016931          195 VMLYVDMEVN--GIPLKAFVDSGAQSTIIS-KSCA---ERCGLLRLLD----DRY------RGVAHGVGQSEILGRIHVA  258 (380)
Q Consensus       195 ~~lyv~v~In--g~~v~alVDTGA~~siIs-~~~a---~rlgL~~~~~----~~~------~~~~~gvg~~~~~g~i~~~  258 (380)
                      ...|+++.|.  .+++++++|||++.+.+. ..|.   ..|......+    ..+      ..+..|-|.  ..|.+...
T Consensus        18 ~~Y~~~i~iGtP~q~~~v~~DTGSs~~Wv~~~~C~~~~~~C~~~~~y~~~~SsT~~~~~~~~~i~Yg~gs--~~G~~~~D   95 (341)
T 3k1w_A           18 TQYYGEIGIGTPPQTFKVVFDTGSSNVWVPSSKCSRLYTACVYHKLFDASDSSSYKHNGTELTLRYSTGT--VSGFLSQD   95 (341)
T ss_dssp             TEEEEEEEETTTTEEEEEEEETTCCCEEEEBTTSCTTCHHHHTSCCBCGGGCTTCEEEEEEEEEEETTEE--EEEEEEEE
T ss_pred             CEEEEEEEEcCCCcEEEEEEeCCCcceEEccCCCCCCCCcccCCCCCCCCcCcCeeECCCEEEEEECCcE--EEEEEEEE
Confidence            4578999998  689999999999998883 3332   1232211111    111      123344443  68999899


Q ss_pred             eEEEcCEEEeEEEEEecC--------CCCceeeeHHH
Q 016931          259 PIKIGNVFYPCSFVVLDS--------PNMEFLFGLDM  287 (380)
Q Consensus       259 ~i~ig~~~~~~~~~Vl~~--------~~~d~iLG~D~  287 (380)
                      .|.||+..+...|.+...        ...|+||||-+
T Consensus        96 ~v~ig~~~v~~~fg~~~~~~~~~~~~~~~~GilGLg~  132 (341)
T 3k1w_A           96 IITVGGITVTQMFGEVTEMPALPFMLAEFDGVVGMGF  132 (341)
T ss_dssp             EEEETTEEEEEEEEEEEECCHHHHTTCSSSEEEECSC
T ss_pred             EEEECCceeeEEEEEEEEccccccccCCcceEEECCc
Confidence            999999666666665542        24689999864

>2f4m_B UV excision repair protein RAD23 homolog B; glycoproteins, ubiquitin-dependent protein degradation, NUCL excision repair, peptide:N-glycanase; 1.85A {Mus musculus} SCOP: a.189.1.1 PDB: 2f4o_B*

Probab=92.92  E-value=0.12  Score=37.39  Aligned_cols=39  Identities=21%  Similarity=0.400  Sum_probs=29.8

Q ss_pred             HHHHHHHhcCHHH----HHHHhhcCHHHHHHhcCCCHHHHHHHH
Q 016931           94 AAFQQHIRNDANL----MTQLFQSDPELAQVLLGNDLNKLQDLL  133 (380)
Q Consensus        94 ~~~~q~~l~nP~~----l~qL~~~nP~La~ai~~~d~~~~~~~l  133 (380)
                      ..+|+.+.+||++    +++|.++||++.+.|. .|++.|-+++
T Consensus        14 ~~lR~~vq~NP~~L~~lLqql~~~nP~l~~~I~-~n~e~Fl~ll   56 (61)
T 2f4m_B           14 QQMRQIIQQNPSLLPALLQQIGRENPQLLQQIS-QHQEHFIQML   56 (61)
T ss_dssp             HHHHHHHHHCGGGHHHHHHHHHHHCHHHHHHHH-HSHHHHHHHH
T ss_pred             HHHHHHHHHCHHHHHHHHHHHHhHCHHHHHHHH-HCHHHHHHHH
Confidence            5688888889765    5556668999988885 6888887776

>3cms_A Chymosin B; hydrolase, acid proteinase; 2.00A {Bos taurus} SCOP: b.50.1.2 PDB: 4cms_A 1czi_E* 1cms_A

Probab=92.85  E-value=0.26  Score=46.68  Aligned_cols=91  Identities=11%  Similarity=0.276  Sum_probs=58.2

Q ss_pred             ceeEEeeeec--CeeEEEEEcCCccccccC-HHHH-HHcCCccccCC----cc------eeEeecCcceeEEeEEEEEeE
Q 016931          195 VMLYVDMEVN--GIPLKAFVDSGAQSTIIS-KSCA-ERCGLLRLLDD----RY------RGVAHGVGQSEILGRIHVAPI  260 (380)
Q Consensus       195 ~~lyv~v~In--g~~v~alVDTGA~~siIs-~~~a-~rlgL~~~~~~----~~------~~~~~gvg~~~~~g~i~~~~i  260 (380)
                      ...|+++.|.  .+++++++|||++.+.+. ..|. ..|......+.    .+      ..+..|-|.  ..|.+....|
T Consensus        14 ~~Y~~~i~iGtP~q~~~v~~DTGSs~~Wv~~~~C~~~~C~~~~~y~~~~SsT~~~~~~~~~i~Yg~Gs--~~G~~~~D~v   91 (323)
T 3cms_A           14 SQYFGKIYLGTPPQEFTVLFDTGSSDFWVPSIYCKSNACKNHQRFDPRKSSTFQNLGKPLSIHYGTGS--MQGILGYDTV   91 (323)
T ss_dssp             TEEEEEEEETTTTEEEEEEEETTCCCEEEEBTTCCSHHHHTSCCBCGGGCTTCEEEEEEEEEEETTEE--EEEEEEEEEE
T ss_pred             CEEEEEEEECCCCeEEEEEEeCCccceEEcCCCCCcccccCCCCCCCccCCCeEECCcEEEEEeCCCC--eEEEEEEEEE
Confidence            3578999997  789999999999998774 4441 33432111111    11      123344443  5788888899


Q ss_pred             EEcCEEEe-EEEEEecC--------CCCceeeeHHH
Q 016931          261 KIGNVFYP-CSFVVLDS--------PNMEFLFGLDM  287 (380)
Q Consensus       261 ~ig~~~~~-~~~~Vl~~--------~~~d~iLG~D~  287 (380)
                      .||+..++ ..|.+...        ...|+||||-+
T Consensus        92 ~ig~~~~~~~~fg~~~~~~~~~~~~~~~~GilGLg~  127 (323)
T 3cms_A           92 TVSNIVDIQQTVGLSTQEPGDFFTYAEFDGILGMAY  127 (323)
T ss_dssp             EETTEEEEEEEEEEEEECCSHHHHHSSCSEEEECSC
T ss_pred             EECCeEEeccEEEEEEecccccccccCCceEEecCc
Confidence            99996554 45554442        25799999853

>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=92.82  E-value=0.31  Score=47.35  Aligned_cols=69  Identities=10%  Similarity=0.199  Sum_probs=56.3

Q ss_pred             EEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhC----CCCcCeEEec------CCeecCCcccchhcCCCCCcEEEEeec
Q 016931            3 ITVMTADEQIISLDVDPHETVENVKALLEVETQ----VPLQQQQLLY------NGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         3 ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~g----ip~~~q~Li~------~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      +.|... +.+.++.+++++||.+....|.++..    .++++--|+.      +|+-|++++||+.|++++|+.|...++
T Consensus         6 ~~~~~~-~~~~~~~f~~~~~v~~~~~~i~e~~~~~~~~~~~~y~l~~~~~~~~~~~Wl~~~~~l~~y~~~~~~~l~~~~~   84 (371)
T 3ivf_A            6 LKISIG-NVVKTMQFEPSTMVYDACRMIRERIPEALAGPPNDFGLFLSDDDPKKGIWLEAGKALDYYMLRNGDTMEYRKK   84 (371)
T ss_dssp             EEEEET-TEEEEEEECTTCBHHHHHHHHHTTCGGGGSSCGGGEEEEECCSSGGGCEECCTTSBGGGGTCCTTCEEEEEEC
T ss_pred             EEEEec-ceeEEEEECCCCCHHHHHHHHHHhcccccCCCHHHCeEeccCCCCCcCEeccCCCCHHHhCCCCCceeeccCc
Confidence            455554 66788999999999999999988874    3677778876      456688899999999999999988743

>1b5f_A Protein (cardosin A); hydrolase, aspartic proteinase; HET: NAG FUC BMA MAN; 1.72A {Cynara cardunculus} SCOP: b.50.1.2

Probab=92.78  E-value=0.3  Score=44.34  Aligned_cols=91  Identities=16%  Similarity=0.395  Sum_probs=57.2

Q ss_pred             ceeEEeeeec--CeeEEEEEcCCcccccc-CHHHH--HHcCCccccCC----cc------eeEeecCcceeEEeEEEEEe
Q 016931          195 VMLYVDMEVN--GIPLKAFVDSGAQSTII-SKSCA--ERCGLLRLLDD----RY------RGVAHGVGQSEILGRIHVAP  259 (380)
Q Consensus       195 ~~lyv~v~In--g~~v~alVDTGA~~siI-s~~~a--~rlgL~~~~~~----~~------~~~~~gvg~~~~~g~i~~~~  259 (380)
                      ...|+++.|.  +++++++||||++.+.+ +..|.  ..|+.....+.    .+      ..+..|-|.  ..|.+....
T Consensus        13 ~~Y~~~i~iGtP~q~~~v~~DTGSs~lWv~~~~C~~~~~C~~~~~y~~~~SsT~~~~~~~~~i~Yg~Gs--~~G~~~~D~   90 (239)
T 1b5f_A           13 TSYFGEIGIGTPPQKFTVIFDTGSSVLWVPSSKCINSKACRAHSMYESSDSSTYKENGTFGAIIYGTGS--ITGFFSQDS   90 (239)
T ss_dssp             TEEEEEEEETTTTEEEEEEEETTCCCEEEEBTTCCSCHHHHTSCCBCGGGCTTCEEEEEEEEEECSSCE--EEEEEEEEE
T ss_pred             CEEEEEEEECCCCeEEEEEEeCCCcceEEEcCCCCCCcccCCCCCCCCccCCCeeeCCcEEEEEECCCc--EEEEEEEEE
Confidence            3578999998  79999999999999887 34442  23432111211    11      123344444  578888889


Q ss_pred             EEEcCEEEe-EEEEEec--------CCCCceeeeHHH
Q 016931          260 IKIGNVFYP-CSFVVLD--------SPNMEFLFGLDM  287 (380)
Q Consensus       260 i~ig~~~~~-~~~~Vl~--------~~~~d~iLG~D~  287 (380)
                      |.+|+..++ ..|.+..        ....|+||||-+
T Consensus        91 v~~g~~~v~~~~fg~~~~~~~~~f~~~~~~GilGLg~  127 (239)
T 1b5f_A           91 VTIGDLVVKEQDFIEATDEADNVFLHRLFDGILGLSF  127 (239)
T ss_dssp             EEETTEEEEEEEEEEEEEECHHHHTTCSCCEEEECSC
T ss_pred             EEECCcEEccEEEEEEEeccCccccccCcceEEecCc
Confidence            999985543 2333222        235799999854

>1oey_A P67-PHOX, neutrophil cytosol factor 2; immune system, PB1 heterodimer/complex, NADPH oxidase, PB1 D heterodimerization; 2.0A {Homo sapiens} SCOP: d.15.2.2

Probab=92.50  E-value=0.24  Score=38.01  Aligned_cols=45  Identities=13%  Similarity=0.282  Sum_probs=39.7

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCC
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNG   47 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~G   47 (380)
                      |+|+|...  .++.|+|+++.+..+|+++|.++++++++..+|.|+.
T Consensus         6 ~~VKV~~~--~tvairvp~~~~y~~L~~~l~~kL~l~~~~~~LsYk~   50 (83)
T 1oey_A            6 YTLKVHYK--YTVVMKTQPGLPYSQVRDMVSKKLELRLEHTKLSYRP   50 (83)
T ss_dssp             EEEEEESS--SEEEEEECTTCCHHHHHHHHHHHTTCCGGGCCEEECC
T ss_pred             EEEEEEEE--EEEEEECCCCCCHHHHHHHHHHHhCCCcceeEEEeeC
Confidence            45667663  6899999999999999999999999999999999865

>1tzs_A Cathepsin E; hydrolase, aspartic protease, activation intermediate; 2.35A {Homo sapiens}

Probab=92.50  E-value=0.36  Score=46.32  Aligned_cols=91  Identities=12%  Similarity=0.253  Sum_probs=59.4

Q ss_pred             ceeEEeeeec--CeeEEEEEcCCccccccC-HHHH-HHcCCccccCC----------cceeEeecCcceeEEeEEEEEeE
Q 016931          195 VMLYVDMEVN--GIPLKAFVDSGAQSTIIS-KSCA-ERCGLLRLLDD----------RYRGVAHGVGQSEILGRIHVAPI  260 (380)
Q Consensus       195 ~~lyv~v~In--g~~v~alVDTGA~~siIs-~~~a-~rlgL~~~~~~----------~~~~~~~gvg~~~~~g~i~~~~i  260 (380)
                      ...|+++.|.  ++++++++|||++.+.+. ..|. ..|+.....+.          ....+..|-|.  ..|.+....|
T Consensus        23 ~~Y~~~i~iGtP~Q~~~v~~DTGSs~lWv~~~~C~~~~C~~~~~y~~~~SsT~~~~~~~~~i~Yg~Gs--~~G~~~~D~v  100 (351)
T 1tzs_A           23 MEYFGTISIGSPPQNFTVIFDTGSSNLWVPSVYCTSPACKTHSRFQPSQSSTYSQPGQSFSIQYGTGS--LSGIIGADQV  100 (351)
T ss_dssp             SCCCEEEEETTTTEEEEEEEETTCCCEEEEBTTCCSGGGTTSCCBCGGGCTTCBCCSCEEEEESSSCE--EEEEEEEEEE
T ss_pred             CEEEEEEEECCCCeEEEEEEeCCCcceEEecCCCCccccCCCCcCCcccCcceEECCCEEEEEeCCCC--eEEEEEEeEE
Confidence            4578999998  789999999999998874 4443 23433222221          11123445443  5799988999


Q ss_pred             EEcCEEEe-EEEEEecC--------CCCceeeeHHH
Q 016931          261 KIGNVFYP-CSFVVLDS--------PNMEFLFGLDM  287 (380)
Q Consensus       261 ~ig~~~~~-~~~~Vl~~--------~~~d~iLG~D~  287 (380)
                      .||+..++ ..|.+...        ...|+||||-+
T Consensus       101 ~ig~~~~~~~~fg~~~~~~~~~~~~~~~~GilGLg~  136 (351)
T 1tzs_A          101 SVEGLTVVGQQFGESVTEPGQTFVDAEFDGILGLGY  136 (351)
T ss_dssp             EETTEEEEEEEEEEECSCCCGGGGGCSCSEEEECSC
T ss_pred             EECCeEECCeEEEEEEeccccccccCCCceEEecCC
Confidence            99996554 55655542        24689999864

>1bxo_A Protein (penicillopepsin); hydrolase, phosphonate inhibitors, macrocycle; HET: MAN PP7; 0.95A {Penicillium janthinellum} SCOP: b.50.1.2 PDB: 1apu_E* 1apv_E* 1apw_E* 1apt_E* 1bxq_A* 1ppk_E* 1ppl_E* 1ppm_E* 2wea_A* 2web_A* 2wec_A* 2wed_A* 3app_A

Probab=92.47  E-value=0.23  Score=47.15  Aligned_cols=93  Identities=14%  Similarity=0.184  Sum_probs=58.3

Q ss_pred             cceeEEeeeecCeeEEEEEcCCccccccC-HHHHH-HcCCccccCC---------cceeEeecCcceeEEeEEEEEeEEE
Q 016931          194 VVMLYVDMEVNGIPLKAFVDSGAQSTIIS-KSCAE-RCGLLRLLDD---------RYRGVAHGVGQSEILGRIHVAPIKI  262 (380)
Q Consensus       194 ~~~lyv~v~Ing~~v~alVDTGA~~siIs-~~~a~-rlgL~~~~~~---------~~~~~~~gvg~~~~~g~i~~~~i~i  262 (380)
                      -...|+++.|.++++++++|||++.+.+. ..|.. .|.-....+.         ....+..|-|. ...|.+....|.|
T Consensus        14 ~~~Y~~~i~iG~Q~~~v~~DTGSs~lWv~~~~C~~~~c~~~~~y~~~~Ss~~~~~~~~~i~Yg~Gs-~~~G~~~~D~v~i   92 (323)
T 1bxo_A           14 DEEYITPVTIGGTTLNLNFDTGSADLWVFSTELPASQQSGHSVYNPSATGKELSGYTWSISYGDGS-SASGNVFTDSVTV   92 (323)
T ss_dssp             GSCEEEEEEETTEEEEEEEETTCCCEEECBTTSCHHHHTTSCCBCHHHHCEEEEEEEEEEECTTSC-EEEEEEEEEEEEE
T ss_pred             CCEEEEEEEECCEEEEEEEeCCCcceEEecCCCCchhccCCCCCCcccCCcccCCCeEEEEeCCCC-eEEEEEEEEEEEE
Confidence            34578999999999999999999999874 33321 1211111111         01112333332 3678888889999


Q ss_pred             cCEEEe-EEEEEecC--------CCCceeeeHHH
Q 016931          263 GNVFYP-CSFVVLDS--------PNMEFLFGLDM  287 (380)
Q Consensus       263 g~~~~~-~~~~Vl~~--------~~~d~iLG~D~  287 (380)
                      |+..++ ..|.+...        ...|+||||-+
T Consensus        93 g~~~v~~~~fg~~~~~~~~~~~~~~~~GilGLg~  126 (323)
T 1bxo_A           93 GGVTAHGQAVQAAQQISAQFQQDTNNDGLLGLAF  126 (323)
T ss_dssp             TTEEEEEEEEEEEEEECHHHHTCTTCSEEEECSC
T ss_pred             CCEEECcEEEEEEEecCcccccCCCCceEEEeCc
Confidence            986544 44544432        36799999865

>3psg_A Pepsinogen; hydrolase(acid proteinase zymogen); 1.65A {Sus scrofa} SCOP: b.50.1.2 PDB: 2psg_A 4pep_A* 3pep_A* 1f34_A* 1psa_A* 1yx9_A 5pep_A 1flh_A 1qrp_E* 1psn_A* 1pso_E* 3utl_A

Probab=92.45  E-value=1.1  Score=43.44  Aligned_cols=91  Identities=12%  Similarity=0.332  Sum_probs=59.0

Q ss_pred             ceeEEeeeec--CeeEEEEEcCCccccccC-HHHHH-HcCCccccCC----cc------eeEeecCcceeEEeEEEEEeE
Q 016931          195 VMLYVDMEVN--GIPLKAFVDSGAQSTIIS-KSCAE-RCGLLRLLDD----RY------RGVAHGVGQSEILGRIHVAPI  260 (380)
Q Consensus       195 ~~lyv~v~In--g~~v~alVDTGA~~siIs-~~~a~-rlgL~~~~~~----~~------~~~~~gvg~~~~~g~i~~~~i  260 (380)
                      ...|+++.|.  .+++++++|||++.+.+. ..|.. .|......+.    .+      ..+..|-|.  ..|.+....|
T Consensus        56 ~~Y~~~i~iGTPpQ~~~v~~DTGSs~lWV~s~~C~~~~C~~~~~y~~~~SsT~~~~~~~~~i~Yg~Gs--~~G~~~~Dtv  133 (370)
T 3psg_A           56 TEYFGTIGIGTPAQDFTVIFDTGSSNLWVPSVYCSSLACSDHNQFNPDDSSTFEATSQELSITYGTGS--MTGILGYDTV  133 (370)
T ss_dssp             CCEEEEEEETTTTEEEEEEEETTCCCEEEEBTTCCSGGGTTSCCBCGGGCTTCEEEEEEEEEESSSCE--EEEEEEEEEE
T ss_pred             CEEEEEEEEcCCCCEEEEEEeCCCCccEEECCCCCCcccCCCCCCCCccCcCcEECCcEEEEEeCCce--EEEEEEEEEE
Confidence            3588999998  589999999999988774 34421 2332222221    11      113344443  6899988999


Q ss_pred             EEcCEEEe-EEEEEecCC--------CCceeeeHHH
Q 016931          261 KIGNVFYP-CSFVVLDSP--------NMEFLFGLDM  287 (380)
Q Consensus       261 ~ig~~~~~-~~~~Vl~~~--------~~d~iLG~D~  287 (380)
                      .||+..++ ..|.+....        ..|+||||-+
T Consensus       134 ~ig~~~v~~~~Fg~a~~~~~~~~~~~~~dGIlGLg~  169 (370)
T 3psg_A          134 QVGGISDTNQIFGLSETEPGSFLYYAPFDGILGLAY  169 (370)
T ss_dssp             EETTEEEEEEEEEEECSCCCGGGGGCSCSEEEECSC
T ss_pred             eeCCcccCCeEEEEEEeecccccccCCccceeccCC
Confidence            99997665 566655432        3699999963

>1izd_A Aspartic proteinase; sugar binding, acid protease, hydrolase; HET: MAN; 1.90A {Aspergillus oryzae} SCOP: b.50.1.2 PDB: 1ize_A*

Probab=92.40  E-value=0.2  Score=47.71  Aligned_cols=93  Identities=14%  Similarity=0.152  Sum_probs=58.6

Q ss_pred             cceeEEeeeecCeeEEEEEcCCccccccC-HHHHH-HcCCccccCCc---ce------eEeecCcceeEEeEEEEEeEEE
Q 016931          194 VVMLYVDMEVNGIPLKAFVDSGAQSTIIS-KSCAE-RCGLLRLLDDR---YR------GVAHGVGQSEILGRIHVAPIKI  262 (380)
Q Consensus       194 ~~~lyv~v~Ing~~v~alVDTGA~~siIs-~~~a~-rlgL~~~~~~~---~~------~~~~gvg~~~~~g~i~~~~i~i  262 (380)
                      -...|+++.|.+++++++||||++.+.+. ..|.. .|.-....+..   +.      .+..|-|. ...|.+....|.|
T Consensus        14 ~~~Y~~~i~iG~q~~~v~~DTGSs~lWv~~~~C~~~~c~~~~~y~~~~Ss~~~~~~~~~i~Yg~Gs-~~~G~~~~D~v~i   92 (323)
T 1izd_A           14 DEEYITQVTVGDDTLGLDFDTGSADLWVFSSQTPSSERSGHDYYTPGSSAQKIDGATWSISYGDGS-SASGDVYKDKVTV   92 (323)
T ss_dssp             GCCEEEEEEETTEEEEEEEETTCCCEEECBTTSCHHHHTTCCCBCCCTTCEEEEEEEEEEECTTSC-EEEEEEEEEEEEE
T ss_pred             CCEEEEEEEECCEEEEEEEcCCCcceEEecCCCCcccccCCCCCCccccCCccCCCeEEEEcCCCC-eEEEEEEEEEEEE
Confidence            34578999999999999999999999875 33422 12211111111   11      12233332 3678888889999


Q ss_pred             cCEEEe-EEEEEecC--------CCCceeeeHHH
Q 016931          263 GNVFYP-CSFVVLDS--------PNMEFLFGLDM  287 (380)
Q Consensus       263 g~~~~~-~~~~Vl~~--------~~~d~iLG~D~  287 (380)
                      |+..++ ..|.+...        ...|+||||-+
T Consensus        93 g~~~v~~~~fg~~~~~~~~~~~~~~~~GilGLg~  126 (323)
T 1izd_A           93 GGVSYDSQAVESAEKVSSEFTQDTANDGLLGLAF  126 (323)
T ss_dssp             TTEEEEEEEEEEEEEECHHHHHCTTCCEEEECSC
T ss_pred             CCEEECceEEEEEEeccccccccCCCceEEecCc
Confidence            986554 45555442        46799999865

>4aa9_A Chymosin; hydrolase, aspartic peptidase, rennet; HET: NAG; 1.60A {Camelus dromedarius} PDB: 4aa8_A 1czi_E* 1cms_A 4cms_A 3cms_A

Probab=92.31  E-value=0.6  Score=43.93  Aligned_cols=90  Identities=13%  Similarity=0.323  Sum_probs=57.3

Q ss_pred             eeEEeeeec--CeeEEEEEcCCccccccCH-HHH-HHcCCccccC----Ccc------eeEeecCcceeEEeEEEEEeEE
Q 016931          196 MLYVDMEVN--GIPLKAFVDSGAQSTIISK-SCA-ERCGLLRLLD----DRY------RGVAHGVGQSEILGRIHVAPIK  261 (380)
Q Consensus       196 ~lyv~v~In--g~~v~alVDTGA~~siIs~-~~a-~rlgL~~~~~----~~~------~~~~~gvg~~~~~g~i~~~~i~  261 (380)
                      ..|+++.|.  .+++++++|||++.+.+.. .|. ..|.-....+    ..+      ..+..|-|.  ..|.+....+.
T Consensus        12 ~Y~~~i~iGtP~Q~~~v~~DTGSs~~Wv~~~~C~~~~C~~~~~y~~~~SsT~~~~~~~~~i~Yg~gs--~~G~~~~D~v~   89 (320)
T 4aa9_A           12 QYFGKIYIGTPPQEFTVVFDTGSSDLWVPSIYCKSNVCKNHHRFDPRKSSTFRNLGKPLSIHYGTGS--MEGFLGYDTVT   89 (320)
T ss_dssp             CCEEEEEETTTTEEEEEEEETTCCCEEEEBTTCCSHHHHTSCCBCGGGCTTCEEEEEEEEEEETTEE--EEEEEEEEEEE
T ss_pred             EEEEEEEECCCCeEEEEEEeCCCCceEEcCCCCCccccCCCCCCCCCCCcCeEcCCcEEEEEECCcE--EEEEEEEEEEE
Confidence            578999998  6899999999999988843 332 1222111111    111      123344443  58999899999


Q ss_pred             EcCEEEe-EEEEEecC--------CCCceeeeHHH
Q 016931          262 IGNVFYP-CSFVVLDS--------PNMEFLFGLDM  287 (380)
Q Consensus       262 ig~~~~~-~~~~Vl~~--------~~~d~iLG~D~  287 (380)
                      ||+..++ ..|.+...        ...|+||||-+
T Consensus        90 ig~~~v~~~~fg~~~~~~~~~~~~~~~~GilGLg~  124 (320)
T 4aa9_A           90 VSNIVDPNQTVGLSTEQPGEVFTYSEFDGILGLAY  124 (320)
T ss_dssp             ETTEEEEEEEEEEEEECCSHHHHSCCCSEEEECSC
T ss_pred             ECCEeecCeEEEEEEEcccccccccCcccEEecCc
Confidence            9996654 45555442        23689999963

>1ibq_A Aspergillopepsin; aspartic proteinase, hydrolase; HET: MAN; 2.14A {Aspergillus phoenicis} SCOP: b.50.1.2

Probab=92.18  E-value=0.32  Score=46.21  Aligned_cols=92  Identities=14%  Similarity=0.119  Sum_probs=57.7

Q ss_pred             ceeEEeeeecCeeEEEEEcCCccccccC-HHHHH-HcCCccccCC---------cceeEeecCcceeEEeEEEEEeEEEc
Q 016931          195 VMLYVDMEVNGIPLKAFVDSGAQSTIIS-KSCAE-RCGLLRLLDD---------RYRGVAHGVGQSEILGRIHVAPIKIG  263 (380)
Q Consensus       195 ~~lyv~v~Ing~~v~alVDTGA~~siIs-~~~a~-rlgL~~~~~~---------~~~~~~~gvg~~~~~g~i~~~~i~ig  263 (380)
                      ...|+++.|.++++++++|||++.+.+. ..|.. .|.-....+.         ....+..|-|. ...|.+....|.||
T Consensus        14 ~~Y~~~i~iG~Q~~~v~~DTGSs~lWv~~~~C~~~~c~~~~~y~~~~Ss~~~~~~~~~i~Yg~Gs-~~~G~~~~D~v~ig   92 (325)
T 1ibq_A           14 EEYLTPVTVGKSTLHLDFDTGSADLWVFSDELPSSEQTGHDLYTPSSSATKLSGYSWDISYGDGS-SASGDVYRDTVTVG   92 (325)
T ss_dssp             SCEEEEEEEBTEEEEEEEETTCCCEEEECTTSCHHHHTTSCCCBCCSSCEECTTCBEEEECSSSC-EEEEEEEEEEEEET
T ss_pred             CEEEEEEEECCEEEEEEEeCCCccceEeeCCCCccccCCCCCCCchhcCCccCCCEEEEEeCCCC-EEEEEEEEeEEEEC
Confidence            4578999999999999999999998774 44422 1211111111         11123333332 36788888899999


Q ss_pred             CEEEe-EEEEEecC--------CCCceeeeHHH
Q 016931          264 NVFYP-CSFVVLDS--------PNMEFLFGLDM  287 (380)
Q Consensus       264 ~~~~~-~~~~Vl~~--------~~~d~iLG~D~  287 (380)
                      +..++ ..|.+...        ...|+||||-+
T Consensus        93 ~~~v~~~~fg~~~~~~~~~~~~~~~~GilGLg~  125 (325)
T 1ibq_A           93 GVTTNKQAVEAASKISSEFVQDTANDGLLGLAF  125 (325)
T ss_dssp             TEEEEEEEEEEEEEECHHHHTSTTCCEEEECSC
T ss_pred             CEEEcceEEEEEEecCccccccCCCceEEEeCc
Confidence            86554 44544432        36799999855

>1mpp_A Pepsin; hydrolase(acid proteinase); 2.00A {Rhizomucor pusillus} SCOP: b.50.1.2 PDB: 2asi_A* 2rmp_A*

Probab=92.09  E-value=0.36  Score=46.43  Aligned_cols=91  Identities=20%  Similarity=0.359  Sum_probs=58.9

Q ss_pred             ceeEEeeeec--CeeEEEEEcCCcccccc-CHHHH--HHcCCccccCCc----c------eeEeecCcceeEEeEEEEEe
Q 016931          195 VMLYVDMEVN--GIPLKAFVDSGAQSTII-SKSCA--ERCGLLRLLDDR----Y------RGVAHGVGQSEILGRIHVAP  259 (380)
Q Consensus       195 ~~lyv~v~In--g~~v~alVDTGA~~siI-s~~~a--~rlgL~~~~~~~----~------~~~~~gvg~~~~~g~i~~~~  259 (380)
                      ...|+++.|.  +++++++||||++.+.+ +..|.  ..|.-....+..    +      ..+..|-|.  ..|.+....
T Consensus        18 ~~Y~~~i~iGtP~q~~~v~~DTGSs~~Wv~~~~C~~~~~C~~~~~y~~~~SsT~~~~~~~~~i~Yg~Gs--~~G~~~~D~   95 (361)
T 1mpp_A           18 EEYAIPVSIGTPGQDFYLLFDTGSSDTWVPHKGCDNSEGCVGKRFFDPSSSSTFKETDYNLNITYGTGG--ANGIYFRDS   95 (361)
T ss_dssp             TEEEEEEEETTTTEEEEEEEETTCCCCEEEBTTCCGGGTCCSSCCBCGGGCTTCEEEEEEEEEECSSCE--EEEEEEEEE
T ss_pred             CEEEEEEEECCCCcEEEEEEcCCCCCeEECCCCCCCCccCCCCCcCCCccCCceEecCCeEEEEECCce--EEEEEEEEE
Confidence            3578899998  89999999999999977 44453  245432222211    1      123344444  578888889


Q ss_pred             EEEcCEEEe-EEEEEec-------------CCCCceeeeHHH
Q 016931          260 IKIGNVFYP-CSFVVLD-------------SPNMEFLFGLDM  287 (380)
Q Consensus       260 i~ig~~~~~-~~~~Vl~-------------~~~~d~iLG~D~  287 (380)
                      |.||+..++ ..|.+..             ....|+||||-+
T Consensus        96 v~~g~~~v~~~~fg~~~~~~~~~~~~~~~~~~~~~GilGLg~  137 (361)
T 1mpp_A           96 ITVGGATVKQQTLAYVDNVSGPTAEQSPDSELFLDGIFGAAY  137 (361)
T ss_dssp             EEETTEEEEEEEEEEEEEEESGGGSSCTTCSSCCCEEEECSC
T ss_pred             EEECCEEEeceEEEEEEeccCccccccccccCCCCCEEEeCC
Confidence            999985544 3444433             135799999864

>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=91.82  E-value=0.55  Score=39.39  Aligned_cols=63  Identities=21%  Similarity=0.277  Sum_probs=46.4

Q ss_pred             CEEEEEeCCCCCHHHHHHHHHHHh--CCCC------cCeEEec----CCe-ecCCc-------------ccchhcCCCCC
Q 016931           11 QIISLDVDPHETVENVKALLEVET--QVPL------QQQQLLY----NGR-EMNNA-------------EKLSALGVKDE   64 (380)
Q Consensus        11 ~~~~i~V~~~~TV~~LK~~I~~~~--gip~------~~q~Li~----~Gk-~L~D~-------------~tL~~~gI~dg   64 (380)
                      ..+.+.|-..+||.++|++|-...  |+|-      ++.-|-+    .|+ +|.|.             .||+.|+|.||
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            457888889999999999998775  4443      3445554    243 36652             28999999999


Q ss_pred             cEEEEeecC
Q 016931           65 DLVMMVSNA   73 (380)
Q Consensus        65 ~~I~l~~~~   73 (380)
                      .+|-++.+.
T Consensus       121 a~l~l~~~~  129 (138)
T 2r2o_A          121 ATVALVPCL  129 (138)
T ss_dssp             CEEEEEEC-
T ss_pred             CEEEEEECC
Confidence            999998764

>1dpj_A Proteinase A; proteinase A, hydrolase-hydrolase inhibitor COM; HET: BMA MAN NAG; 1.80A {Saccharomyces cerevisiae} SCOP: b.50.1.2 PDB: 1dp5_A* 1fmu_A* 1fmx_A* 1fq5_A* 1fq4_A* 1fq6_A* 1fq7_A* 1fq8_A* 2jxr_A* 1g0v_A*

Probab=91.76  E-value=0.43  Score=45.27  Aligned_cols=91  Identities=22%  Similarity=0.441  Sum_probs=58.1

Q ss_pred             ceeEEeeeec--CeeEEEEEcCCccccccC-HHHHH-HcCCccccCC----cc------eeEeecCcceeEEeEEEEEeE
Q 016931          195 VMLYVDMEVN--GIPLKAFVDSGAQSTIIS-KSCAE-RCGLLRLLDD----RY------RGVAHGVGQSEILGRIHVAPI  260 (380)
Q Consensus       195 ~~lyv~v~In--g~~v~alVDTGA~~siIs-~~~a~-rlgL~~~~~~----~~------~~~~~gvg~~~~~g~i~~~~i  260 (380)
                      ...|+++.|.  ++++++++|||++.+.+. ..|.. .|.-....+.    .+      ..+..|-|  ...|.+....|
T Consensus        13 ~~Y~~~i~iGtP~q~~~v~~DTGSs~lWv~~~~C~~~~C~~~~~y~~~~SsT~~~~~~~~~i~Yg~G--s~~G~~~~D~v   90 (329)
T 1dpj_A           13 AQYYTDITLGTPPQNFKVILDTGSSNLWVPSNECGSLACFLHSKYDHEASSSYKANGTEFAIQYGTG--SLEGYISQDTL   90 (329)
T ss_dssp             TEEEEEEEETTTTEEEEEEEETTCCCEEEEBTTCCSHHHHTSCCBCGGGCTTCEEEEEEEEEEETTE--EEEEEEEEEEE
T ss_pred             CEEEEEEEECCCCcEEEEEEeCCCcCeEEecCCCCCcccCCcCcCCcccCcCeEECCcEEEEEECCc--eEEEEEEEEEE
Confidence            3578999998  799999999999998773 44432 2321111211    11      12344544  46798988899


Q ss_pred             EEcCEEEe-EEEEEec--------CCCCceeeeHHH
Q 016931          261 KIGNVFYP-CSFVVLD--------SPNMEFLFGLDM  287 (380)
Q Consensus       261 ~ig~~~~~-~~~~Vl~--------~~~~d~iLG~D~  287 (380)
                      .||+..++ ..|.+..        ....|+||||-+
T Consensus        91 ~ig~~~~~~~~fg~~~~~~~~~f~~~~~~GilGLg~  126 (329)
T 1dpj_A           91 SIGDLTIPKQDFAEATSEPGLTFAFGKFDGILGLGY  126 (329)
T ss_dssp             EETTEEEEEEEEEEEEECCHHHHTTCSCSEEEECSC
T ss_pred             EECCeEECCeEEEEEEecCccccccCCcceEEEeCC
Confidence            99986554 4454443        235799999864

>1wkr_A Polyporopepsin; hydrolase, hydrolase-hydrolase inhibitor complex; HET: STA; 1.30A {Irpex lacteus} SCOP: b.50.1.2

Probab=91.66  E-value=0.33  Score=46.29  Aligned_cols=86  Identities=17%  Similarity=0.241  Sum_probs=55.8

Q ss_pred             eeEEeeeec--CeeEEEEEcCCccccccCHHHHHHcCCccccCCcc----eeEeecCcceeEEeEEEEEeEEEcCEEEe-
Q 016931          196 MLYVDMEVN--GIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRY----RGVAHGVGQSEILGRIHVAPIKIGNVFYP-  268 (380)
Q Consensus       196 ~lyv~v~In--g~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~----~~~~~gvg~~~~~g~i~~~~i~ig~~~~~-  268 (380)
                      ..|+++.|.  +++++++||||++.+-+...  .+..-  ......    ..+..|-|.  ..|.+....|.||+..++ 
T Consensus        13 ~Y~~~i~iGTP~q~~~v~~DTGSs~lWv~~~--~~y~~--s~Ss~~~~~~~~i~Yg~Gs--~~G~~~~Dtv~~g~~~v~~   86 (340)
T 1wkr_A           13 DYVVNVGVGSPATTYSLLVDTGSSNTWLGAD--KSYVK--TSTSSATSDKVSVTYGSGS--FSGTEYTDTVTLGSLTIPK   86 (340)
T ss_dssp             CEEEEEEETTTTEEEEEEEETTCCCCEECSS--SCCCC--CTTCEEEEEEEEEECSSCE--EEEEEEEEEEEETTEEEEE
T ss_pred             EEEEEEEECCCCcEEEEEEeCCChhheecCC--CccCC--cCCccccCceEEEEECCcE--EEEEEEEEEEEECCEEEcc
Confidence            578999998  89999999999999987532  11111  000011    123445454  679999999999985543 


Q ss_pred             EEEEEecC----CCCceeeeHHH
Q 016931          269 CSFVVLDS----PNMEFLFGLDM  287 (380)
Q Consensus       269 ~~~~Vl~~----~~~d~iLG~D~  287 (380)
                      ..|.+...    ...|+||||-+
T Consensus        87 ~~fg~~~~~~~~~~~~GilGLg~  109 (340)
T 1wkr_A           87 QSIGVASRDSGFDGVDGILGVGP  109 (340)
T ss_dssp             EEEEEEEEEESCTTCSEEEECSC
T ss_pred             eEEEEEEccCCCcCCCcEEECCc
Confidence            44444432    25799999864

>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=91.59  E-value=0.35  Score=44.13  Aligned_cols=61  Identities=8%  Similarity=0.262  Sum_probs=50.3

Q ss_pred             EEEEEeCCCCCHHHHHHHHHHHhCCCCc-CeEEec-CC----eecCC-cccchhcCCCCCcEEEEeec
Q 016931           12 IISLDVDPHETVENVKALLEVETQVPLQ-QQQLLY-NG----REMNN-AEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus        12 ~~~i~V~~~~TV~~LK~~I~~~~gip~~-~q~Li~-~G----k~L~D-~~tL~~~gI~dg~~I~l~~~   72 (380)
                      .+++.++...|+.+|++.+...++++++ ..||.. .+    ..|.| +.||.++++.+|+.|.+-.+
T Consensus       153 ~~~~~~Sk~~ti~~l~~~~~~~~~i~~~~~~RLW~~~~~~~~~~L~~~~~tl~d~~L~~~Q~illE~r  220 (231)
T 3jyu_A          153 VLSCHFSKADTIATIEKEMRKLFNIPAERETRLWNKYMSNTYEQLSKLDNTIQDAGLYQGQVLVIEPQ  220 (231)
T ss_dssp             EEEEEECTTCBHHHHHHHHHHHTTCCTTSCEEEEECSSSSSCEECCCTTSBTTTTTCCTTEEEEEEEC
T ss_pred             eEEEEecccCcHHHHHHHHHHHhCCCCCCeEEEEEecCCCCHhhhcCCCCCHHHhCCCCCCEEEEEEe
Confidence            3567789999999999999999999997 688873 32    34665 48999999999999988654

>3c9x_A Trichoderma reesei aspartic protease; aspartic proteinase, aspartyl protease, hydrolase; 1.70A {Trichoderma reesei} PDB: 3c9y_A* 3emy_A*

Probab=91.50  E-value=0.49  Score=44.96  Aligned_cols=92  Identities=12%  Similarity=0.112  Sum_probs=57.3

Q ss_pred             ceeEEeeeec--CeeEEEEEcCCccccccCH-HHHH-HcCCccccCC-----------cceeEeecCcceeEEeEEEEEe
Q 016931          195 VMLYVDMEVN--GIPLKAFVDSGAQSTIISK-SCAE-RCGLLRLLDD-----------RYRGVAHGVGQSEILGRIHVAP  259 (380)
Q Consensus       195 ~~lyv~v~In--g~~v~alVDTGA~~siIs~-~~a~-rlgL~~~~~~-----------~~~~~~~gvg~~~~~g~i~~~~  259 (380)
                      ...|+++.|.  +++++++||||++.+.+.. .|.. .|.-....+.           ....+..|-|. ...|.+....
T Consensus        15 ~~Y~~~i~iGTP~Q~~~v~~DTGSs~lWv~~~~C~~~~~~~~~~y~~~~SsT~~~~~~~~~~i~Yg~Gs-~~~G~~~~D~   93 (329)
T 3c9x_A           15 SEYITSVSIGTPAQVLPLDFDTGSSDLWVFSSETPKSSATGHAIYTPSKSSTSKKVSGASWSISYGDGS-SSSGDVYTDK   93 (329)
T ss_dssp             CCEEEEEEETTTTEEEEEEEETTCCCEEECBTTSCHHHHTTSCCBCGGGCTTCEECTTCBEEEECTTSC-EEEEEEEEEE
T ss_pred             CEEEEEEEECCCCeEEEEEEcCCCCCeEEecCCCCccccCCCCcCCcccCcCceEcCCCeEEEEeCCCC-cEEEEEEEEE
Confidence            3568899998  8999999999999998753 3321 1111111111           11123334332 3678888889


Q ss_pred             EEEcCEEEe-EEEEEecC--------CCCceeeeHHH
Q 016931          260 IKIGNVFYP-CSFVVLDS--------PNMEFLFGLDM  287 (380)
Q Consensus       260 i~ig~~~~~-~~~~Vl~~--------~~~d~iLG~D~  287 (380)
                      |.||+..++ ..|.+...        ...|+||||-+
T Consensus        94 v~ig~~~v~~~~fg~~~~~~~~~~~~~~~~GilGLg~  130 (329)
T 3c9x_A           94 VTIGGFSVNTQGVESATRVSTEFVQDTVISGLVGLAF  130 (329)
T ss_dssp             EEETTEEEEEEEEEEEEEECHHHHHCTTCCEEEECSC
T ss_pred             EEECCEEEcceEEEEEEecCccccccCCCceeEEeCc
Confidence            999986554 34544431        46799999865

>4a3p_A Ubiquitin carboxyl-terminal hydrolase 15; 1.40A {Homo sapiens} PDB: 4a3o_A 3pv1_A 3ppa_A* 3t9l_A 3lmn_A

Probab=91.43  E-value=0.34  Score=43.76  Aligned_cols=61  Identities=10%  Similarity=0.333  Sum_probs=50.1

Q ss_pred             EEEEEeCCCCCHHHHHHHHHHHhCCCCc-CeEEe--c-CC--eecCC-cccchhcCCCCCcEEEEeec
Q 016931           12 IISLDVDPHETVENVKALLEVETQVPLQ-QQQLL--Y-NG--REMNN-AEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus        12 ~~~i~V~~~~TV~~LK~~I~~~~gip~~-~q~Li--~-~G--k~L~D-~~tL~~~gI~dg~~I~l~~~   72 (380)
                      .+++.++...|+.+|++.+...++++++ ..||.  + .+  ..|.| +.||.++++.+|..|.+-.+
T Consensus       141 ~~~~~~Sk~~ti~~l~~~~~~~~~i~~~~~~RlW~~~~~~~~~~L~~~~~tl~~~~l~~~Q~illE~r  208 (217)
T 4a3p_A          141 VVTRRFSKADTIDTIEKEIRKIFSIPDEKETRLWNKYMSNTFEPLNKPDSTIQDAGLYQGQVLVIEQK  208 (217)
T ss_dssp             EEEEEECTTSBHHHHHHHHHHHTTCCTTSCEEEEEEEETTEEEECCCTTSBHHHHTCCTTCEEEEEEC
T ss_pred             ceEEEEcccchHHHHHHHHHHHhCCCCCCceEEEEecCCCCeeecCCCCCCHHHhCCCCCCEEEEEEe
Confidence            3667889999999999999999999997 68887  2 22  34665 47999999999999988644

>1htr_B Gastricsin; aspartyl protease; 1.62A {Homo sapiens} SCOP: b.50.1.2 PDB: 1avf_A

Probab=90.79  E-value=1.3  Score=41.86  Aligned_cols=91  Identities=13%  Similarity=0.337  Sum_probs=58.5

Q ss_pred             ceeEEeeeec--CeeEEEEEcCCccccccC-HHHH-HHcCCccccCC----cc------eeEeecCcceeEEeEEEEEeE
Q 016931          195 VMLYVDMEVN--GIPLKAFVDSGAQSTIIS-KSCA-ERCGLLRLLDD----RY------RGVAHGVGQSEILGRIHVAPI  260 (380)
Q Consensus       195 ~~lyv~v~In--g~~v~alVDTGA~~siIs-~~~a-~rlgL~~~~~~----~~------~~~~~gvg~~~~~g~i~~~~i  260 (380)
                      ...|+++.|.  +++++++||||++.+.+. ..|. ..|+-....+.    .+      ..+..|-|.  ..|.+....|
T Consensus        12 ~~Y~~~i~iGtP~q~~~v~~DTGSs~lWv~~~~C~~~~C~~~~~y~~~~SsT~~~~~~~~~i~Yg~gs--~~G~~~~D~v   89 (329)
T 1htr_B           12 AAYFGEISIGTPPQNFLVLFDTGSSNLWVPSVYCQSQACTSHSRFNPSESSTYSTNGQTFSLQYGSGS--LTGFFGYDTL   89 (329)
T ss_dssp             CCEEEEEEETTTTEEEEEEEETTCCCEEEEBTTCCSHHHHTSCCBCGGGCTTCEEEEEEEEEEETTEE--EEEEEEEEEE
T ss_pred             CEEEEEEEECCCCcEEEEEEcCCCccEEEecCCCCCcccCCCCcCCCccCCCeEECCcEEEEEeCCCC--eEEEEEeeeE
Confidence            4578999998  789999999999998774 4442 12322111211    11      113344443  4788888899


Q ss_pred             EEcCEEEe-EEEEEecC--------CCCceeeeHHH
Q 016931          261 KIGNVFYP-CSFVVLDS--------PNMEFLFGLDM  287 (380)
Q Consensus       261 ~ig~~~~~-~~~~Vl~~--------~~~d~iLG~D~  287 (380)
                      .+|+..++ ..|.+...        ...|+||||-+
T Consensus        90 ~~g~~~~~~~~fg~~~~~~~~~~~~~~~~GilGLg~  125 (329)
T 1htr_B           90 TVQSIQVPNQEFGLSENEPGTNFVYAQFDGIMGLAY  125 (329)
T ss_dssp             EETTEEEEEEEEEEESSCSSGGGGGCSCCEEEECCC
T ss_pred             EEcceEECceEEEEEEEccccccccCCCceEEecCC
Confidence            99996655 56666553        24689999853

>3fv3_A SAPP1P-secreted aspartic protease 1; secreted aspartic protease, virulence factor, H; HET: STA; 1.85A {Candida parapsilosis} SCOP: b.50.1.0 PDB: 3tne_A*

Probab=90.53  E-value=0.35  Score=46.00  Aligned_cols=92  Identities=15%  Similarity=0.239  Sum_probs=59.6

Q ss_pred             ceeEEeeeec--CeeEEEEEcCCccccccCHH---HHH--HcCCccccCC----cce------eEeecCcceeEEeEEEE
Q 016931          195 VMLYVDMEVN--GIPLKAFVDSGAQSTIISKS---CAE--RCGLLRLLDD----RYR------GVAHGVGQSEILGRIHV  257 (380)
Q Consensus       195 ~~lyv~v~In--g~~v~alVDTGA~~siIs~~---~a~--rlgL~~~~~~----~~~------~~~~gvg~~~~~g~i~~  257 (380)
                      ...|+++.|.  ++++++++|||++.+.+...   |..  .|.-....+.    .+.      .+..|-| ....|.+..
T Consensus        12 ~~Y~~~i~iGtP~Q~~~v~~DTGSs~~Wv~~~~~~C~~~~~C~~~~~y~~~~SsT~~~~~~~~~i~Yg~g-s~~~G~~~~   90 (339)
T 3fv3_A           12 PSYASKVSVGSNKQQQTVIIDTGSSDFWVVDSNAQCGKGVDCKSSGTFTPSSSSSYKNLGAAFTIRYGDG-STSQGTWGK   90 (339)
T ss_dssp             SSEEEEEEETTTTEEEEEEEETTCCCEEEEEEEEEECTTCCTTTTCCBCGGGCTTCEEEEEEEEEECTTS-CEEEEEEEE
T ss_pred             CEEEEEEEEcCCCcEEEEEEeCCCCceEEecCCCCCCCCCCCCCCCcCCCccCcceeeCCceEEEEECCC-ceEEEEEEE
Confidence            3578999998  79999999999999988533   432  1221111211    111      1223333 267888989


Q ss_pred             EeEEEcCEEEe-EEEEEec-CCCCceeeeHHH
Q 016931          258 APIKIGNVFYP-CSFVVLD-SPNMEFLFGLDM  287 (380)
Q Consensus       258 ~~i~ig~~~~~-~~~~Vl~-~~~~d~iLG~D~  287 (380)
                      ..|.||+..++ ..|.+.. ....|+||||-+
T Consensus        91 D~v~~g~~~v~~~~fg~~~~~~~~~GilGLg~  122 (339)
T 3fv3_A           91 DTVTINGVSITGQQIADVTQTSVDQGILGIGY  122 (339)
T ss_dssp             EEEEETTEEEEEEEEEEEEEESSSSCEEECSC
T ss_pred             EEEEECCEEECceEEEEEEecCCCceeEEecC
Confidence            99999996665 4555554 235799999865

>1oew_A Endothiapepsin; hydrolase, aspartic proteinase mechanism, atomic resolution, succinimide, anisotropic refinement; HET: SUI; 0.9A {Cryphonectria parasitica} SCOP: b.50.1.2 PDB: 1gkt_A* 1gvt_A* 1gvv_A* 1gvw_A* 1gvx_A* 1gvu_A* 1oex_A* 2jji_A* 2jjj_A* 2vs2_A* 3uri_A* 3urj_A* 3url_A* 3pww_A* 1e80_E* 1e81_E* 1e82_E* 1e5o_E* 1eed_P* 1epl_E* ...

Probab=90.48  E-value=0.53  Score=44.72  Aligned_cols=91  Identities=11%  Similarity=0.204  Sum_probs=57.5

Q ss_pred             ceeEEeeeec--CeeEEEEEcCCccccccCH-HHHHHcCC-ccccCC----cce-------eEeecCcceeEEeEEEEEe
Q 016931          195 VMLYVDMEVN--GIPLKAFVDSGAQSTIISK-SCAERCGL-LRLLDD----RYR-------GVAHGVGQSEILGRIHVAP  259 (380)
Q Consensus       195 ~~lyv~v~In--g~~v~alVDTGA~~siIs~-~~a~rlgL-~~~~~~----~~~-------~~~~gvg~~~~~g~i~~~~  259 (380)
                      ...|+++.|.  +++++++||||++.+.+.. .|. .|.. ....+.    .+.       .+..|-|. ...|.+....
T Consensus        15 ~~Y~~~i~iGTP~Q~~~v~~DTGSs~lWv~~~~C~-~~~~~~~~y~~~~SsT~~~~~~~~~~i~Yg~Gs-~~~G~~~~D~   92 (329)
T 1oew_A           15 DAYITPVQIGTPAQTLNLDFDTGSSDLWVFSSETT-ASEVXQTIYTPSKSTTAKLLSGATWSISYGDGS-SSSGDVYTDT   92 (329)
T ss_dssp             CCEEEEEEETTTTEEEEEEEETTCCCEEECBTTSC-GGGC-CCCBCGGGCTTCEEEEEEEEEEECTTSC-EEEEEEEEEE
T ss_pred             CEEEEEEEECCCCeEEEEEECCCCCCeEEecCCCC-ccccccCccCCccCccceecCCCeEEEEeCCCC-cEEEEEEEEE
Confidence            3568999998  8999999999999998753 332 2321 111111    111       12233332 3678888889


Q ss_pred             EEEcCEEEe-EEEEEecC--------CCCceeeeHHH
Q 016931          260 IKIGNVFYP-CSFVVLDS--------PNMEFLFGLDM  287 (380)
Q Consensus       260 i~ig~~~~~-~~~~Vl~~--------~~~d~iLG~D~  287 (380)
                      |.+|+..++ ..|.+...        ...|+||||-+
T Consensus        93 v~~g~~~v~~~~fg~~~~~~~~~~~~~~~~GilGLg~  129 (329)
T 1oew_A           93 VSVGGLTVTGQAVESAKKVSSSFTEDSTIDGLLGLAF  129 (329)
T ss_dssp             EEETTEEEEEEEEEEEEEECHHHHHCTTCCEEEECSC
T ss_pred             EEECCEEEeeeEEEEEEecCccccccCCCceEEEecc
Confidence            999986554 44544432        46799999865

>3qvc_A Histo-aspartic protease; HAP, plasmepsin, zymogen, hydrolase; 2.10A {Plasmodium falciparum} PDB: 3qvi_A* 3fns_A 3fnt_A* 3fnu_A*

Probab=90.37  E-value=1.1  Score=44.78  Aligned_cols=103  Identities=9%  Similarity=0.063  Sum_probs=61.5

Q ss_pred             eeecCe---eEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeE-EeEEEEEeEEEcCEEEeE-------
Q 016931          201 MEVNGI---PLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEI-LGRIHVAPIKIGNVFYPC-------  269 (380)
Q Consensus       201 v~Ing~---~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~-~g~i~~~~i~ig~~~~~~-------  269 (380)
                      +.|+|.   ...++||||.+.+.++.+.++++--.  +..... ...|.-...+ ........+.+|+..+.+       
T Consensus       322 I~Vgg~~~~~~~aiiDSGTt~i~lP~~~~~~i~~~--i~a~~~-~~~g~y~v~C~~~~~P~itf~fgg~~i~lp~~~yi~  398 (451)
T 3qvc_A          322 VHFGNVSSKKANVILDSATSVITVPTEFFNQFVES--ASVFKV-PFLSLYVTTCGNTKLPTLEYRSPNKVYTLEPKQYLE  398 (451)
T ss_dssp             EEETTEEEEEEEEEECTTBSSEEECHHHHHHHHTT--TTCEEC-TTSSCEEEETTCTTCCCEEEEETTEEEEECHHHHEE
T ss_pred             EEECCccCCCceEEEeCCCccccCCHHHHHHHHHH--cCCeec-CCCCeEEeeCCcCcCCcEEEEECCEEEEEcHHHhee
Confidence            566764   57899999999999999998876320  000000 0001000011 011223455566644433       


Q ss_pred             ----------EEEEecCC--CCceeeeHHHHhhcCeEEEcCCCEEEEcC
Q 016931          270 ----------SFVVLDSP--NMEFLFGLDMLRKHQCIIDLKENVLRVGG  306 (380)
Q Consensus       270 ----------~~~Vl~~~--~~d~iLG~D~L~~~~~~ID~~~~~l~i~~  306 (380)
                                -+.+....  ....|||..||+.+-.+.|+.++++-|..
T Consensus       399 ~~~~~~~~~C~~~i~~~~~~~~~~ILG~~FLr~~YvVfD~~n~rIGfA~  447 (451)
T 3qvc_A          399 PLENIFSALCMLNIVPIDLEKNTFVLGDPFMRKYFTVYDYDNHTVGFAL  447 (451)
T ss_dssp             ECTTTSTTEEEECEEECCCSTTEEEECHHHHHHEEEEEETTTTEEEEEE
T ss_pred             ecccCCCCeEEEEEEeCCCCCCCEEECHHHhhcEEEEEECCCCEEEEEE
Confidence                      22222222  34689999999999999999999998863

>3pvk_A Candidapepsin-2; hydrolase; 1.27A {Candida albicans} SCOP: b.50.1.2 PDB: 1eag_A 3q70_A* 1zap_A* 2qzw_A 2h6t_A* 2h6s_A*

Probab=90.36  E-value=0.39  Score=45.64  Aligned_cols=92  Identities=20%  Similarity=0.304  Sum_probs=58.8

Q ss_pred             ceeEEeeeec--CeeEEEEEcCCccccccCHH---HH--------HHcCCccccCC----cce------eEeecCcceeE
Q 016931          195 VMLYVDMEVN--GIPLKAFVDSGAQSTIISKS---CA--------ERCGLLRLLDD----RYR------GVAHGVGQSEI  251 (380)
Q Consensus       195 ~~lyv~v~In--g~~v~alVDTGA~~siIs~~---~a--------~rlgL~~~~~~----~~~------~~~~gvg~~~~  251 (380)
                      ...|+++.|.  .+++++++|||++.+.+...   |.        ..|.-....+.    .+.      .+..|-| ...
T Consensus        12 ~~Y~~~i~iGtP~q~~~v~~DTGSs~~Wv~~~~~~C~~~~~~~~~~~C~~~~~y~~~~SsT~~~~~~~~~i~Yg~g-s~~   90 (342)
T 3pvk_A           12 VTYAADITVGSNNQKLNVIVDTGSSDLWVPDVNVDCQVTYSDQTADFCKQKGTYDPSGSSASQDLNTPFKIGYGDG-SSS   90 (342)
T ss_dssp             SSEEEEEEETTTTEEEEEEEETTCCCEEEEEEEEEECCCSTTCCTTGGGTTCCBCGGGCTTCEEEEEEEEEECSSS-CEE
T ss_pred             cEEEEEEEEcCCCcEEEEEEECCCcceEEEcCCCCCcccccccccCCCCCCCcCCCccCcceeecCCeEEEEecCC-CeE
Confidence            3578999998  79999999999999988432   41        22321111111    111      1223333 247


Q ss_pred             EeEEEEEeEEEcCEEEe-EEEEEec-CCCCceeeeHHH
Q 016931          252 LGRIHVAPIKIGNVFYP-CSFVVLD-SPNMEFLFGLDM  287 (380)
Q Consensus       252 ~g~i~~~~i~ig~~~~~-~~~~Vl~-~~~~d~iLG~D~  287 (380)
                      .|.+....|.||+..++ ..|.+.. ....|+||||-+
T Consensus        91 ~G~~~~D~v~ig~~~v~~~~fg~~~~~~~~~GilGLg~  128 (342)
T 3pvk_A           91 QGTLYKDTVGFGGVSIKNQVLADVDSTSIDQGILGVGY  128 (342)
T ss_dssp             EEEEEEEEEEETTEEEEEEEEEEEEEESSSSCEEECSC
T ss_pred             EEEEEEEEEEECCEEecceEEEEEEccCCCccEEEecC
Confidence            78888899999996655 4555554 236799999974

>1qdm_A Prophytepsin; aspartic proteinases, saposin-like domain, zymogen structure, hydrolase; 2.30A {Hordeum vulgare} SCOP: a.64.1.2 b.50.1.2

Probab=90.22  E-value=0.68  Score=46.72  Aligned_cols=91  Identities=16%  Similarity=0.354  Sum_probs=58.2

Q ss_pred             ceeEEeeeec--CeeEEEEEcCCcccccc-CHHHH--HHcCCccccCC----------cceeEeecCcceeEEeEEEEEe
Q 016931          195 VMLYVDMEVN--GIPLKAFVDSGAQSTII-SKSCA--ERCGLLRLLDD----------RYRGVAHGVGQSEILGRIHVAP  259 (380)
Q Consensus       195 ~~lyv~v~In--g~~v~alVDTGA~~siI-s~~~a--~rlgL~~~~~~----------~~~~~~~gvg~~~~~g~i~~~~  259 (380)
                      ...|+++.|+  ++++.+++|||++.+-+ +..|.  ..|......+.          ....+..|-|.  ..|.+....
T Consensus        52 ~~Y~~~i~IGTP~Q~~~v~~DTGSs~lWV~~~~C~~~~~C~~~~~y~~~~SsT~~~~~~~~~i~Yg~Gs--~~G~~~~Dt  129 (478)
T 1qdm_A           52 AQYFGEIGVGTPPQKFTVIFDTGSSNLWVPSAKCYFSIACYLHSRYKAGASSTYKKNGKPAAIQYGTGS--IAGYFSEDS  129 (478)
T ss_dssp             CCEEEEEEETTTTEEEEEEEETTCCCCEEEBTTCCSCGGGGGSCCBCGGGCTTCBCCCCEEEEEETTEE--EEEEEEEEE
T ss_pred             CEEEEEEEECCCCeEEEEEEcCCCcceEEecCCCCCCccccCCCCCCcccCCCeeeCCcEEEEEcCCCC--eEEEEEEEE
Confidence            4578999998  79999999999999887 34442  23432111111          11123455443  679998899


Q ss_pred             EEEcCEEEe-EEEEEecC--------CCCceeeeHHH
Q 016931          260 IKIGNVFYP-CSFVVLDS--------PNMEFLFGLDM  287 (380)
Q Consensus       260 i~ig~~~~~-~~~~Vl~~--------~~~d~iLG~D~  287 (380)
                      |.||+..++ ..|.+...        ...|+||||-+
T Consensus       130 v~ig~~~v~~~~Fg~a~~~~~~~f~~~~~dGIlGLg~  166 (478)
T 1qdm_A          130 VTVGDLVVKDQEFIEATKEPGITFLVAKFDGILGLGF  166 (478)
T ss_dssp             EEETTEEEEEEEEEEEEECCBSHHHHCSSSEEEECSC
T ss_pred             EEECCeEECCEEEEEEEecCCcccccccccceecccc
Confidence            999996554 34444321        24699999864

>3cms_A Chymosin B; hydrolase, acid proteinase; 2.00A {Bos taurus} SCOP: b.50.1.2 PDB: 4cms_A 1czi_E* 1cms_A

Probab=90.06  E-value=1.4  Score=41.55  Aligned_cols=100  Identities=14%  Similarity=0.276  Sum_probs=58.8

Q ss_pred             eeeecCee------EEEEEcCCccccccCHHHHHHc----CCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEe-
Q 016931          200 DMEVNGIP------LKAFVDSGAQSTIISKSCAERC----GLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYP-  268 (380)
Q Consensus       200 ~v~Ing~~------v~alVDTGA~~siIs~~~a~rl----gL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~-  268 (380)
                      .+.|+|+.      ..++||||.+.+.++.+.++++    +........+.   ..+...   .......+.+++..+. 
T Consensus       197 ~i~v~~~~~~~~~~~~aiiDSGTt~~~lP~~~~~~l~~~~~~~~~~~g~~~---~~C~~~---~~~P~i~f~f~g~~~~i  270 (323)
T 3cms_A          197 SVTISGVVVACEGGCQAILDTGTSKLVGPSSDILNIQQAIGATQNQYGEFD---IDCDNL---SYMPTVVFEINGKMYPL  270 (323)
T ss_dssp             EEEETTEEEESTTCEEEEECTTCCSEEECHHHHHHHHHHHTCEEETTTEEE---ECTTCT---TTSCCEEEEETTEEEEE
T ss_pred             eEEECCEEeecCCCcEEEEecCCccEeCCHHHHHHHHHHhCCeecCCCcEE---EECCCC---ccCceEEEEECCEEEEE
Confidence            35677765      4799999999999998887764    22110000000   000000   0112234555554443 


Q ss_pred             ------------EEEEEecC-CCCceeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931          269 ------------CSFVVLDS-PNMEFLFGLDMLRKHQCIIDLKENVLRVG  305 (380)
Q Consensus       269 ------------~~~~Vl~~-~~~d~iLG~D~L~~~~~~ID~~~~~l~i~  305 (380)
                                  |-+.+... .....|||-.||+.+-.+.|+.+++|-|.
T Consensus       271 ~~~~y~~~~~~~C~~~i~~~~~~~~~iLG~~fl~~~y~vfD~~~~~igfA  320 (323)
T 3cms_A          271 TPSAYTSQDQGFCTSGFQSENHSQKWILGDVFIREYYSVFDRANNLVGLA  320 (323)
T ss_dssp             CHHHHEEEETTEEEESEEEC---CCEEECHHHHTTEEEEEETTTTEEEEE
T ss_pred             CHHHhccCCCCEEEEEEEeCCCCCcEEECHHHhhceEEEEECCCCEEEEE
Confidence                        32223332 23468999999999999999999999885

>1lya_B Cathepsin D; lysosomal aspartic protease; HET: NAG BMA MAN; 2.50A {Homo sapiens} SCOP: b.50.1.2 PDB: 1lyb_B* 1lyw_B*

Probab=89.74  E-value=1.8  Score=38.83  Aligned_cols=99  Identities=16%  Similarity=0.225  Sum_probs=57.1

Q ss_pred             eeecCee------EEEEEcCCccccccCHHHHHHc----CCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEe--
Q 016931          201 MEVNGIP------LKAFVDSGAQSTIISKSCAERC----GLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYP--  268 (380)
Q Consensus       201 v~Ing~~------v~alVDTGA~~siIs~~~a~rl----gL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~--  268 (380)
                      +.|+|+.      ..++||||.+.+.++.+.++++    +........+...   +...   .......+.+++..+.  
T Consensus       108 i~v~~~~~~~~~~~~aiiDSGTt~~~lP~~~~~~l~~~~~~~~~~~g~~~~~---C~~~---~~~p~i~f~f~g~~~~l~  181 (241)
T 1lya_B          108 VEVASGLTLCKEGCEAIVDTGTSLMVGPVDEVRELQKAIGAVPLIQGEYMIP---CEKV---STLPAITLKLGGKGYKLS  181 (241)
T ss_dssp             EEETTSCEESTTCEEEEECTTCSSEEECHHHHHHHHHHHTCEEEETTEEEEE---GGGG---GGSCCEEEEETTEEEEEC
T ss_pred             EEECCeeEeccCCCEEEEECCCccccCCHHHHHHHHHHhCCeeccCCcEEEE---CCCC---ccCCeEEEEECCEEEEEC
Confidence            4567654      5899999999999999888765    2211000000000   0000   0011223344443222  


Q ss_pred             ---------------EEEEEecC-----CCCceeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931          269 ---------------CSFVVLDS-----PNMEFLFGLDMLRKHQCIIDLKENVLRVG  305 (380)
Q Consensus       269 ---------------~~~~Vl~~-----~~~d~iLG~D~L~~~~~~ID~~~~~l~i~  305 (380)
                                     |-+.+...     .....|||-.||+.+-.+.|+.+++|-|.
T Consensus       182 ~~~y~~~~~~~~~~~C~~~~~~~~~~~~~~~~~ilG~~fl~~~y~vfD~~~~~igfA  238 (241)
T 1lya_B          182 PEDYTLKVSQAGKTLCLSGFMGMDIPPPSGPLWILGDVFIGRYYTVFDRDNNRVGFA  238 (241)
T ss_dssp             TTTSEEEETTTTSSEEEESEEECCCCTTTCCCEEECHHHHTTEEEEEETTTTEEEEE
T ss_pred             HHHhEEEccCCCCCeeEEEEEecccCCCCCCeEEechHHhcceEEEEECCCCEEEEE
Confidence                           32222221     23468999999999999999999999885

>1ibq_A Aspergillopepsin; aspartic proteinase, hydrolase; HET: MAN; 2.14A {Aspergillus phoenicis} SCOP: b.50.1.2

Probab=89.73  E-value=0.87  Score=43.10  Aligned_cols=97  Identities=10%  Similarity=0.019  Sum_probs=54.9

Q ss_pred             eEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEe-----------------E
Q 016931          207 PLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYP-----------------C  269 (380)
Q Consensus       207 ~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~-----------------~  269 (380)
                      ...++||||.+.+.++.+.++++--.-. ...+. ...|.-...+........+.+|+..+.                 |
T Consensus       208 ~~~aiiDSGTt~~~lP~~~~~~i~~~i~-~a~~~-~~~g~~~~~C~~~~P~i~f~fgg~~~~i~~~~~~~~~~~~~~~~C  285 (325)
T 1ibq_A          208 GFSAIADTGTTLILLDDEIVSAYYEQVS-GAQES-YEAGGYVFSCSTDLPDFTVVIGDYKAVVPGKYINYAPVSTGSSTC  285 (325)
T ss_dssp             CEEEEECTTCCSEEECHHHHHHHHTTST-TCBCC-SSSSSCEEETTCCCCCEEEEETTEEEEECHHHHEEEESSTTCSEE
T ss_pred             CceEEEeCCCCcEeCCHHHHHHHHHhCC-CceEc-CcCCeEEEEcCCCCCcEEEEECCEEEEECHHHhcccccCCCCCeE
Confidence            4689999999999999999887622100 00000 000100001101122234445553332                 2


Q ss_pred             EEEEecC-CCCceeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931          270 SFVVLDS-PNMEFLFGLDMLRKHQCIIDLKENVLRVG  305 (380)
Q Consensus       270 ~~~Vl~~-~~~d~iLG~D~L~~~~~~ID~~~~~l~i~  305 (380)
                      -+.+... .....|||-.||+.+-.+.|+.+++|-|.
T Consensus       286 ~~~i~~~~~~~~~iLG~~fl~~~y~vfD~~~~~igfA  322 (325)
T 1ibq_A          286 YGGIQSNSGLGLSILGDVFLKSQYVVFNSEGPKLGFA  322 (325)
T ss_dssp             EESEEECTTTCSEEECHHHHTTEEEEEETTTTEEEEE
T ss_pred             EEEEEcCCCCCceEEChHHhcCEEEEEECCCCEEEee
Confidence            2212221 12357999999999999999999999885

>1izd_A Aspartic proteinase; sugar binding, acid protease, hydrolase; HET: MAN; 1.90A {Aspergillus oryzae} SCOP: b.50.1.2 PDB: 1ize_A*

Probab=89.60  E-value=0.74  Score=43.62  Aligned_cols=98  Identities=12%  Similarity=0.056  Sum_probs=56.6

Q ss_pred             eeEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEeE---------------E
Q 016931          206 IPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPC---------------S  270 (380)
Q Consensus       206 ~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~~---------------~  270 (380)
                      ....++||||.+.+.++.+.++++--.- ....+. ...|.-...+........+.+|+..+.+               -
T Consensus       207 ~~~~aiiDSGTs~~~lp~~~~~~i~~~i-~ga~~~-~~~g~~~~~C~~~~P~i~f~fgg~~~~i~~~~~~~~~~~~~~C~  284 (323)
T 1izd_A          207 DSITGIADTGTTLLLLDDSIVDAYYEQV-NGASYD-SSQGGYVFPSSASLPDFSVTIGDYTATVPGEYISFADVGNGQTF  284 (323)
T ss_dssp             CCEEEEECTTCCSEEECHHHHHHHHTTS-TTCEEE-TTTTEEEEETTCCCCCEEEEETTEEEEECHHHHEEEECSTTEEE
T ss_pred             CCceEEEeCCCcceeCCHHHHHHHHHhC-CCcEEc-CcCCEEEEECCCCCceEEEEECCEEEecCHHHeEEecCCCCeEE
Confidence            4568999999999999999988762210 000000 0001000011111223345556544332               2


Q ss_pred             EEEecC-CCCceeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931          271 FVVLDS-PNMEFLFGLDMLRKHQCIIDLKENVLRVG  305 (380)
Q Consensus       271 ~~Vl~~-~~~d~iLG~D~L~~~~~~ID~~~~~l~i~  305 (380)
                      +.+... .....|||-.||+.+-.+.|+.+++|-|.
T Consensus       285 ~~i~~~~~~~~~IlG~~fl~~~y~vfD~~~~riGfA  320 (323)
T 1izd_A          285 GGIQSNSGIGFSIFGDVFLKSQYVVFDASGPRLGFA  320 (323)
T ss_dssp             ESEEECTTTSSEEECHHHHTTEEEEEETTTTEEEEE
T ss_pred             EEEEcCCCCCcEEEChHHhcCEEEEEECCCCEEEEe
Confidence            212222 13458999999999999999999999885

>2apr_A Rhizopuspepsin; hydrolase (aspartic proteinase); 1.80A {Rhizopus microsporus var} SCOP: b.50.1.2 PDB: 3apr_E* 4apr_E* 5apr_E* 6apr_E* 1uh9_A 1uh8_A 1uh7_A

Probab=89.18  E-value=0.88  Score=43.09  Aligned_cols=91  Identities=19%  Similarity=0.364  Sum_probs=56.5

Q ss_pred             ceeEEeeeec--CeeEEEEEcCCccccccC-HHHHHHc-CCccccCCc----ce------eEeecCcceeEEeEEEEEeE
Q 016931          195 VMLYVDMEVN--GIPLKAFVDSGAQSTIIS-KSCAERC-GLLRLLDDR----YR------GVAHGVGQSEILGRIHVAPI  260 (380)
Q Consensus       195 ~~lyv~v~In--g~~v~alVDTGA~~siIs-~~~a~rl-gL~~~~~~~----~~------~~~~gvg~~~~~g~i~~~~i  260 (380)
                      ...|+++.|+  +++++++||||++.+.+. ..|. .| .-....+..    +.      .+..|-|. ...|.+....|
T Consensus        15 ~~Y~~~i~iGTP~q~~~v~~DTGSs~lWv~~~~c~-~c~~~~~~y~~~~SsT~~~~~~~~~i~Yg~Gs-~~~G~~~~D~v   92 (325)
T 2apr_A           15 IEYYGQVTIGTPGKKFNLDFDTGSSDLWIASTLCT-NCGSGQTKYDPNQSSTYQADGRTWSISYGDGS-SASGILAKDNV   92 (325)
T ss_dssp             TEEEEEEEETTTTEEEEEEEETTCCCCEEEBTTCS-SCCTTSCCBCGGGCTTCEEEEEEEEEECTTSC-EEEEEEEEEEE
T ss_pred             CEEEEEEEECCCCeEEEEEEcCCCCCEEEccCCCc-hHhcCCCCCCcccCCCeeeCCCEEEEEECCCC-CEEEEEEEEEE
Confidence            4578999998  999999999999999874 3442 23 111112211    11      12233232 46788888899


Q ss_pred             EEcCEEEe-EEEEEec-------CCCCceeeeHHH
Q 016931          261 KIGNVFYP-CSFVVLD-------SPNMEFLFGLDM  287 (380)
Q Consensus       261 ~ig~~~~~-~~~~Vl~-------~~~~d~iLG~D~  287 (380)
                      .+|+..++ ..|.+..       ....|+||||-+
T Consensus        93 ~~g~~~v~~~~fg~~~~~~~~f~~~~~~GilGLg~  127 (325)
T 2apr_A           93 NLGGLLIKGQTIELAKREAASFASGPNDGLLGLGF  127 (325)
T ss_dssp             EETTEEEEEEEEEEEEEECHHHHTSSCSEEEECSC
T ss_pred             EECCEEECcEEEEEEeccCcccccCCCceEEEeCC
Confidence            99986554 3444433       123899999854

>1lya_A Cathepsin D; lysosomal aspartic protease; HET: NAG BMA MAN; 2.50A {Homo sapiens} SCOP: b.50.1.2 PDB: 1lyb_A* 1lyw_A*

Probab=89.16  E-value=0.83  Score=35.70  Aligned_cols=32  Identities=16%  Similarity=0.348  Sum_probs=26.2

Q ss_pred             ceeEEeeeec--CeeEEEEEcCCcccccc-CHHHH
Q 016931          195 VMLYVDMEVN--GIPLKAFVDSGAQSTII-SKSCA  226 (380)
Q Consensus       195 ~~lyv~v~In--g~~v~alVDTGA~~siI-s~~~a  226 (380)
                      ...|+++.|.  .+++.++||||++..-+ +..|.
T Consensus        13 ~~Y~~~i~iGTP~Q~~~v~~DTGSs~lWv~~~~C~   47 (97)
T 1lya_A           13 AQYYGEIGIGTPPQCFTVVFDTGSSNLWVPSIHCK   47 (97)
T ss_dssp             TEEEEEEEETTTTEEEEEEEETTCCCEEEEBTTCC
T ss_pred             CeEEEEEEECCCCeEEEEEEeCCCCceEEeEcCcc
Confidence            4678999998  89999999999999876 44443

>2apr_A Rhizopuspepsin; hydrolase (aspartic proteinase); 1.80A {Rhizopus microsporus var} SCOP: b.50.1.2 PDB: 3apr_E* 4apr_E* 5apr_E* 6apr_E* 1uh9_A 1uh8_A 1uh7_A

Probab=88.98  E-value=0.7  Score=43.78  Aligned_cols=93  Identities=12%  Similarity=0.137  Sum_probs=53.3

Q ss_pred             eEEEEEcCCccccccCHH----HHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEE--------------e
Q 016931          207 PLKAFVDSGAQSTIISKS----CAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFY--------------P  268 (380)
Q Consensus       207 ~v~alVDTGA~~siIs~~----~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~--------------~  268 (380)
                      ...++||||.+.+.++.+    +++.+.-.......+..   .+..    .......+.+++..+              .
T Consensus       212 ~~~~iiDSGTs~~~lP~~~~~~~~~~~~~~~~~~g~~~~---~C~~----~~~p~i~f~f~g~~~~ip~~~~~~~~~~~~  284 (325)
T 2apr_A          212 SFDGILDTGTTLLILPNNIAASVARAYGASDNGDGTYTI---SCDT----SAFKPLVFSINGASFQVSPDSLVFEEFQGQ  284 (325)
T ss_dssp             CEEEEECTTCSSEEEEHHHHHHHHHHHTCEECSSSCEEE---CSCG----GGCCCEEEEETTEEEEECGGGGEEEEETTE
T ss_pred             CceEEEecCCccEECCHHHHHHHHHHHhcccCCCCeEEE---ECCC----CCCCcEEEEECCEEEEECHHHEEEcCCCCe
Confidence            468999999999999999    66666431100000000   0000    001112333333211              1


Q ss_pred             EEEEEecCCCCceeeeHHHHhhcCeEEEcCCCEEEEcC
Q 016931          269 CSFVVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRVGG  306 (380)
Q Consensus       269 ~~~~Vl~~~~~d~iLG~D~L~~~~~~ID~~~~~l~i~~  306 (380)
                      |-+.+........|||-.||+.+-.+.|+.+++|-|..
T Consensus       285 C~~~i~~~~~~~~iLG~~fl~~~y~vfD~~~~~igfA~  322 (325)
T 2apr_A          285 CIAGFGYGNWGFAIIGDTFLKNNYVVFNQGVPEVQIAP  322 (325)
T ss_dssp             EEESEEEESSSSEEECHHHHTTEEEEEETTTTEEEEEE
T ss_pred             EEEEEEcCCCCCEEECHHHhcceEEEEECCCCEEEEEe
Confidence            32222222234589999999999999999999998864

>1am5_A Pepsin, acid proteinase; aspartyl protease, hydrolase; 2.16A {Gadus morhua} SCOP: b.50.1.2

Probab=88.98  E-value=0.63  Score=43.96  Aligned_cols=91  Identities=16%  Similarity=0.326  Sum_probs=56.3

Q ss_pred             ceeEEeeeec--CeeEEEEEcCCccccccC-HHHH-HHcCCccccCC----cce------eEeecCcceeEEeEEEEEeE
Q 016931          195 VMLYVDMEVN--GIPLKAFVDSGAQSTIIS-KSCA-ERCGLLRLLDD----RYR------GVAHGVGQSEILGRIHVAPI  260 (380)
Q Consensus       195 ~~lyv~v~In--g~~v~alVDTGA~~siIs-~~~a-~rlgL~~~~~~----~~~------~~~~gvg~~~~~g~i~~~~i  260 (380)
                      ...|+++.|.  ++++++++|||++.+.+. ..|. ..|......+.    .+.      .+..|-|.  ..|.+....|
T Consensus        12 ~~Y~~~i~iGtP~q~~~v~~DTGSs~~Wv~~~~C~~~~C~~~~~y~~~~SsT~~~~~~~~~i~Yg~Gs--~~G~~~~D~v   89 (324)
T 1am5_A           12 TEYYGVISIGTPPESFKVIFDTGSSNLWVSSSHCSAQACSNHNKFKPRQSSTYVETGKTVDLTYGTGG--MRGILGQDTV   89 (324)
T ss_dssp             TEEEEEEEETTTTEEEEEEEETTCCCEEECBTTCCSHHHHTSCCBCGGGCTTCEEEEEEEEEECSSCE--EEEEEEEEEE
T ss_pred             CEEEEEEEECCCCeEEEEEEeCCCcceEEecCCCCcccccCCCcCCCccCCCeEeCCcEEEEEECCCC--eEEEEEECce
Confidence            3568899997  689999999999998874 3332 12322111211    111      13344443  4788888899


Q ss_pred             EEcCEEEe-EEEEEecC--------CCCceeeeHHH
Q 016931          261 KIGNVFYP-CSFVVLDS--------PNMEFLFGLDM  287 (380)
Q Consensus       261 ~ig~~~~~-~~~~Vl~~--------~~~d~iLG~D~  287 (380)
                      .+|+..++ ..|.+...        ...|+||||-+
T Consensus        90 ~~g~~~~~~~~fg~~~~~~~~~~~~~~~~GilGLg~  125 (324)
T 1am5_A           90 SVGGGSDPNQELGESQTEPGPFQAAAPFDGILGLAY  125 (324)
T ss_dssp             ESSSSCEEEEEEEEEEECCSTTTTTCSSSEEEECSC
T ss_pred             eECCcEEcccEEEEEEecccccccCCCCceEEecCC
Confidence            99984433 44544431        35799999864

>1am5_A Pepsin, acid proteinase; aspartyl protease, hydrolase; 2.16A {Gadus morhua} SCOP: b.50.1.2

Probab=88.86  E-value=0.58  Score=44.23  Aligned_cols=98  Identities=21%  Similarity=0.253  Sum_probs=59.1

Q ss_pred             eeecCee-----EEEEEcCCccccccCHHHHHHc----CCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEe---
Q 016931          201 MEVNGIP-----LKAFVDSGAQSTIISKSCAERC----GLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYP---  268 (380)
Q Consensus       201 v~Ing~~-----v~alVDTGA~~siIs~~~a~rl----gL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~---  268 (380)
                      +.|+|+.     ..++||||.+.+.++.+.++.+    +.. .....+.   ..+...   .......+.+++..+.   
T Consensus       197 i~v~~~~~~~~~~~aiiDSGTt~~~lp~~~~~~l~~~~~~~-~~~g~~~---~~C~~~---~~~P~i~f~f~g~~~~i~~  269 (324)
T 1am5_A          197 ITVNGQTAACEGCQAIVDTGTSKIVAPVSALANIMKDIGAS-ENQGEMM---GNCASV---QSLPDITFTINGVKQPLPP  269 (324)
T ss_dssp             EEETTEECCCCCEEEEECTTCSSEEECTTTHHHHHHHHTCE-ECCCCEE---CCTTSS---SSSCCEEEEETTEEEEECH
T ss_pred             EEECCceeeccCceEEEecCCccEECCHHHHHHHHHHhCCc-ccCCcEE---EeCCCc---ccCCcEEEEECCEEEEECH
Confidence            4577765     5799999999999998877654    221 0000000   000000   0112234555654443   


Q ss_pred             ----------EEEEEecC-----CCCceeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931          269 ----------CSFVVLDS-----PNMEFLFGLDMLRKHQCIIDLKENVLRVG  305 (380)
Q Consensus       269 ----------~~~~Vl~~-----~~~d~iLG~D~L~~~~~~ID~~~~~l~i~  305 (380)
                                |-+.+...     .....|||-.||+.+-.+.|+.+++|-|.
T Consensus       270 ~~y~~~~~~~C~~~~~~~~~~~~~~~~~ilG~~fl~~~y~vfD~~~~~igfa  321 (324)
T 1am5_A          270 SAYIEGDQAFCTSGLGSSGVPSNTSELWIFGDVFLRNYYTIYDRTNNKVGFA  321 (324)
T ss_dssp             HHHEEESSSCEEECEEECCSCCSSSCEEEECHHHHHHEEEEEETTTTEEEEE
T ss_pred             HHhcccCCCeEEEEEEECccCCCCCCcEEEChHHhccEEEEEECCCCEEEEE
Confidence                      33233322     23468999999999999999999999885

>2qzx_A Candidapepsin-5; aspartic proteinase, aspartyl protease, CL PAIR of basic residues, glycoprotein, protease, secreted; HET: STA; 2.50A {Candida albicans}

Probab=88.76  E-value=1.8  Score=41.04  Aligned_cols=92  Identities=21%  Similarity=0.316  Sum_probs=57.9

Q ss_pred             ceeEEeeeec--CeeEEEEEcCCccccccCHH---HH--------HHcCCccccCC----cce------eEeecCcceeE
Q 016931          195 VMLYVDMEVN--GIPLKAFVDSGAQSTIISKS---CA--------ERCGLLRLLDD----RYR------GVAHGVGQSEI  251 (380)
Q Consensus       195 ~~lyv~v~In--g~~v~alVDTGA~~siIs~~---~a--------~rlgL~~~~~~----~~~------~~~~gvg~~~~  251 (380)
                      ...|+++.|.  +++++++||||++.+.+...   |.        ..|.-....+.    .+.      .+..|-| ...
T Consensus        12 ~~Y~~~i~iGtP~q~~~v~~DTGSs~~Wv~~~~~~C~~~~~~~~~~~C~~~~~y~~~~SsT~~~~~~~~~i~Yg~G-s~~   90 (342)
T 2qzx_A           12 ITYTADITVGSDNQKLNVIVDTGSSDLWIPDSNVICIPKWRGDKGDFCKSAGSYSPASSRTSQNLNTRFDIKYGDG-SYA   90 (342)
T ss_dssp             SCEEEEEEETTTTEEEEEEEETTCCCEEEEEEEEEECCCSSSCCTTGGGTTCCBCGGGCTTCEEEEEEEEEECTTS-CEE
T ss_pred             eEEEEEEEECCCCcEEEEEEeCCCCCeEEecCCCCccCccccCccccccCCCcCCcccCCCcccCCCcEEEEeCCC-CeE
Confidence            4578999998  89999999999999988533   42        12322111221    111      1223333 235


Q ss_pred             EeEEEEEeEEEcCEEEe-EEEEEec-CCCCceeeeHHH
Q 016931          252 LGRIHVAPIKIGNVFYP-CSFVVLD-SPNMEFLFGLDM  287 (380)
Q Consensus       252 ~g~i~~~~i~ig~~~~~-~~~~Vl~-~~~~d~iLG~D~  287 (380)
                      .|.+....|.+|+..++ ..|.+.. ....|+||||-+
T Consensus        91 ~G~~~~D~v~~g~~~v~~~~fg~~~~~~~~~GilGLg~  128 (342)
T 2qzx_A           91 KGKLYKDTVGIGGVSVRDQLFANVWSTSARKGILGIGF  128 (342)
T ss_dssp             EEEEEEEEEEETTEEEEEEEEEEEEEECSSSCEEECSC
T ss_pred             EEEEEEEEEEECCEEecceEEEEEEecCCCcCEEEEcc
Confidence            68888889999986544 4554444 246899999865

>4aa9_A Chymosin; hydrolase, aspartic peptidase, rennet; HET: NAG; 1.60A {Camelus dromedarius} PDB: 4aa8_A 1czi_E* 1cms_A 4cms_A 3cms_A

Probab=88.71  E-value=1.8  Score=40.55  Aligned_cols=99  Identities=16%  Similarity=0.261  Sum_probs=58.5

Q ss_pred             eeecCee------EEEEEcCCccccccCHHHHHHc----CCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEe--
Q 016931          201 MEVNGIP------LKAFVDSGAQSTIISKSCAERC----GLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYP--  268 (380)
Q Consensus       201 v~Ing~~------v~alVDTGA~~siIs~~~a~rl----gL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~--  268 (380)
                      +.|+|+.      ..++||||.+.+.++.+.++++    +........+   ...+...   .......+.+++..+.  
T Consensus       195 i~v~~~~~~~~~~~~~iiDsGtt~~~lP~~~~~~i~~~~~~~~~~~g~~---~~~C~~~---~~~p~i~f~f~g~~~~l~  268 (320)
T 4aa9_A          195 VTINGVAVACVGGCQAILDTGTSVLFGPSSDILKIQMAIGATENRYGEF---DVNCGNL---RSMPTVVFEINGRDYPLS  268 (320)
T ss_dssp             EEETTEEEESTTCEEEEECTTCSSEEEEHHHHHHHHHHTTCEECTTSCE---EECGGGG---GGCCCEEEEETTEEEEEC
T ss_pred             EEECCEEeccCCCcEEEEECCCCcEECCHHHHHHHHHHhCCcccCCCcE---EEeCCCC---CcCceEEEEECCEEEEEC
Confidence            4567754      5799999999999998887765    2211000000   0000000   0112234555554433  


Q ss_pred             -----------EEEEEec-CCCCceeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931          269 -----------CSFVVLD-SPNMEFLFGLDMLRKHQCIIDLKENVLRVG  305 (380)
Q Consensus       269 -----------~~~~Vl~-~~~~d~iLG~D~L~~~~~~ID~~~~~l~i~  305 (380)
                                 |-+.+.. ..+...|||..||+.+-.+.|+.++++-|.
T Consensus       269 ~~~y~~~~~~~C~~~i~~~~~~~~~ilG~~fl~~~y~vfD~~~~~igfA  317 (320)
T 4aa9_A          269 PSAYTSKDQGFCTSGFQGDNNSELWILGDVFIREYYSVFDRANNRVGLA  317 (320)
T ss_dssp             HHHHEEEETTEEEESEEEETTCCCEEECHHHHTTEEEEEETTTTEEEEE
T ss_pred             HHHhccCCCCeEEEEEEcCCCCCcEEEChHHhcceEEEEECCCCEEEEE
Confidence                       2222222 223358999999999999999999999885

>1j71_A Candidapepsin, aspartic proteinase; candida tropicalis aspartic protease, SAPT1, hydrolase; 1.80A {Candida tropicalis} SCOP: b.50.1.2

Probab=88.57  E-value=0.6  Score=44.36  Aligned_cols=92  Identities=13%  Similarity=0.201  Sum_probs=58.0

Q ss_pred             ceeEEeeeec--CeeEEEEEcCCccccccCHH---HHH--------HcCCccccCC----cce------eEeecCcceeE
Q 016931          195 VMLYVDMEVN--GIPLKAFVDSGAQSTIISKS---CAE--------RCGLLRLLDD----RYR------GVAHGVGQSEI  251 (380)
Q Consensus       195 ~~lyv~v~In--g~~v~alVDTGA~~siIs~~---~a~--------rlgL~~~~~~----~~~------~~~~gvg~~~~  251 (380)
                      ...|+++.|.  ++++++++|||++.+.+...   |..        .|.-....+.    .+.      .+..|-|+ ..
T Consensus        12 ~~Y~~~i~iGtP~q~~~v~~DTGSs~~Wv~~~~~~C~~~~~~~~~~~C~~~~~y~~~~SsT~~~~~~~~~i~Yg~Gs-~~   90 (334)
T 1j71_A           12 PSYAADIVVGSNQQKQTVVIDTGSSDLWVVDTDAECQVTYSGQTNNFCKQEGTFDPSSSSSAQNLNQDFSIEYGDLT-SS   90 (334)
T ss_dssp             SSEEEEEEETTTTEEEEEEEETTCCCEEEEEEEEEECCCSTTCCTTGGGSSCCBCGGGCTTCEEEEEEEEEEBTTSC-EE
T ss_pred             cEEEEEEEEcCCCcEEEEEEcCCCCCEEEecCCCCCcCcccccccccccCCCcCCcccCCCcccCCCceEEEECCCC-EE
Confidence            3578999998  89999999999999988532   431        2322111221    111      12233332 35


Q ss_pred             EeEEEEEeEEEcCEEEe-EEEEEec-CCCCceeeeHHH
Q 016931          252 LGRIHVAPIKIGNVFYP-CSFVVLD-SPNMEFLFGLDM  287 (380)
Q Consensus       252 ~g~i~~~~i~ig~~~~~-~~~~Vl~-~~~~d~iLG~D~  287 (380)
                      .|.+....|.+|+..++ ..|.+.. ....|+||||-+
T Consensus        91 ~G~~~~D~v~~g~~~~~~~~fg~~~~~~~~~GilGLg~  128 (334)
T 1j71_A           91 QGSFYKDTVGFGGISIKNQQFADVTTTSVDQGIMGIGF  128 (334)
T ss_dssp             EEEEEEEEEEETTEEEEEEEEEEEEEESSSSCEEECSC
T ss_pred             EEEEEEEEEEECCEEEccEEEEEEEecCCCccEEEEcC
Confidence            68888889999986544 4454444 246899999864

>1vjk_A Molybdopterin converting factor, subunit 1; structural genomics, PSI, protein structure INI southeast collaboratory for structural genomics; 1.51A {Pyrococcus furiosus} SCOP: d.15.3.1

Probab=88.48  E-value=2.7  Score=32.63  Aligned_cols=66  Identities=14%  Similarity=0.165  Sum_probs=46.1

Q ss_pred             CEEEEEeCC------C-CEEEEEeCCCCCHHHHHHHHHHHhC-C----------CCcCeEEecCCeecCCcccchhcCCC
Q 016931            1 MRITVMTAD------E-QIISLDVDPHETVENVKALLEVETQ-V----------PLQQQQLLYNGREMNNAEKLSALGVK   62 (380)
Q Consensus         1 M~ItVk~~~------g-~~~~i~V~~~~TV~~LK~~I~~~~g-i----------p~~~q~Li~~Gk~L~D~~tL~~~gI~   62 (380)
                      |+|+|+.-.      | ....+++....||.+|.+.+..+.. +          ......+..||+....     +.-++
T Consensus        10 ~~v~V~~FA~lre~~g~~~~~~e~~~~~Tv~~Ll~~L~~~~p~l~~~l~~~~g~~~~~v~v~VNg~~v~~-----~~~L~   84 (98)
T 1vjk_A           10 VKVKVKYFARFRQLAGVDEEEIELPEGARVRDLIEEIKKRHEKFKEEVFGEGYDEDADVNIAVNGRYVSW-----DEELK   84 (98)
T ss_dssp             EEEEEEECTHHHHHHSSSEEEEEECTTCBHHHHHHHHHHHCGGGGGSCBCSSSCTTSSBEEEETTBCCCT-----TCBCC
T ss_pred             EEEEEEEhHHHHHHhCCCeEEEECCCCCCHHHHHHHHHhHChhHHHHhhccccccCCcEEEEECCEECCC-----CCCCC
Confidence            677887531      3 4567888888999999999988752 1          1133445678877653     55689


Q ss_pred             CCcEEEEee
Q 016931           63 DEDLVMMVS   71 (380)
Q Consensus        63 dg~~I~l~~   71 (380)
                      +||.|.+..
T Consensus        85 dGDeV~i~p   93 (98)
T 1vjk_A           85 DGDVVGVFP   93 (98)
T ss_dssp             TTCEEEEES
T ss_pred             CCCEEEEEC
Confidence            999998874

>4e74_A Plexin-A4; RBD, structural genomics, structural genomics consor SGC, signaling protein; 1.58A {Homo sapiens} PDB: 3q3j_A*

Probab=88.39  E-value=1.5  Score=35.67  Aligned_cols=63  Identities=22%  Similarity=0.348  Sum_probs=45.3

Q ss_pred             CEEEEEeCCCCCHHHHHHHHHHHh--CCCC------cCeEEec-CC---e-ecCC---------c----ccchhcCCCCC
Q 016931           11 QIISLDVDPHETVENVKALLEVET--QVPL------QQQQLLY-NG---R-EMNN---------A----EKLSALGVKDE   64 (380)
Q Consensus        11 ~~~~i~V~~~~TV~~LK~~I~~~~--gip~------~~q~Li~-~G---k-~L~D---------~----~tL~~~gI~dg   64 (380)
                      ..+.+.|-..+||.++|++|-...  |+|.      ++..|-| .|   + +|.|         .    .||+.|+|.||
T Consensus        27 ~~i~VkVLdCDTItQvKeKiLd~vyk~~p~S~rP~~~~~dLEwr~g~~~~~iL~D~D~ts~~~~~wkrLNTL~HY~V~dg  106 (117)
T 4e74_A           27 PEVPVKILNCDTITQVKEKILDAIFKNVPCSHRPKAADMDLEWRQGSGARMILQDEDITTKIENDWKRLNTLAHYQVPDG  106 (117)
T ss_dssp             CCEEEEEETTSBHHHHHHHHHHHHTTTSCGGGSCCGGGEEEEEECTTSCEEEECSSSTTCCC---CCCCCBHHHHTCCTT
T ss_pred             CceEeeeecCCchHHHHHHHHHHHhcCCCcccCCCCCceeEEEecCCCCceEeecCCCccEecCcceEeccccccCCCCC
Confidence            347788888999999999988764  4443      4555654 33   3 3544         1    37999999999


Q ss_pred             cEEEEeecC
Q 016931           65 DLVMMVSNA   73 (380)
Q Consensus        65 ~~I~l~~~~   73 (380)
                      .+|-++.+.
T Consensus       107 atl~l~~~~  115 (117)
T 4e74_A          107 SVVALVSKQ  115 (117)
T ss_dssp             CEEEEEECC
T ss_pred             CEEEEEeCC
Confidence            999998763

>1dpj_A Proteinase A; proteinase A, hydrolase-hydrolase inhibitor COM; HET: BMA MAN NAG; 1.80A {Saccharomyces cerevisiae} SCOP: b.50.1.2 PDB: 1dp5_A* 1fmu_A* 1fmx_A* 1fq5_A* 1fq4_A* 1fq6_A* 1fq7_A* 1fq8_A* 2jxr_A* 1g0v_A*

Probab=88.01  E-value=3.1  Score=39.16  Aligned_cols=99  Identities=16%  Similarity=0.182  Sum_probs=57.3

Q ss_pred             eeecCee-----EEEEEcCCccccccCHHHHHHc----CCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEe---
Q 016931          201 MEVNGIP-----LKAFVDSGAQSTIISKSCAERC----GLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYP---  268 (380)
Q Consensus       201 v~Ing~~-----v~alVDTGA~~siIs~~~a~rl----gL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~---  268 (380)
                      +.|+|..     ..++||||.+.+.++.+.++++    +.....+..+..   .+...   .......+.+++..+.   
T Consensus       201 i~v~~~~~~~~~~~aiiDSGTt~~~lP~~~~~~l~~~~~~~~~~~g~~~~---~C~~~---~~~P~i~f~f~g~~~~i~~  274 (329)
T 1dpj_A          201 IGLGDEYAELESHGAAIDTGTSLITLPSGLAEMINAEIGAKKGWTGQYTL---DCNTR---DNLPDLIFNFNGYNFTIGP  274 (329)
T ss_dssp             EEETTEEEECSSCEEEECTTCSCEEECHHHHHHHHHHHTCEECTTSSEEE---CGGGG---GGCCCEEEEETTEEEEECT
T ss_pred             EEECCeEecCCCccEEeeCCCCcEECCHHHHHHHHHHhCCccCCCCeEEE---ECCCC---CcCCcEEEEECCEEEEECH
Confidence            4567654     4699999999999999888765    221100001100   00000   0111223344442222   


Q ss_pred             ----------EEEEEec-----CCCCceeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931          269 ----------CSFVVLD-----SPNMEFLFGLDMLRKHQCIIDLKENVLRVG  305 (380)
Q Consensus       269 ----------~~~~Vl~-----~~~~d~iLG~D~L~~~~~~ID~~~~~l~i~  305 (380)
                                |-+.+..     ......|||-.||+.+-.+.|+.+++|-|.
T Consensus       275 ~~y~~~~~~~C~~~~~~~~~~~~~~~~~iLG~~fl~~~y~vfD~~~~~igfA  326 (329)
T 1dpj_A          275 YDYTLEVSGSCISAITPMDFPEPVGPLAIVGDAFLRKYYSIYDLGNNAVGLA  326 (329)
T ss_dssp             TTSEEEETTEEEECEEECCCCTTTCSEEEECHHHHTTEEEEEETTTTEEEEE
T ss_pred             HHhEecCCCEEEEEEEecccCCCCCCcEEEChHHhcceEEEEECCCCEEEEE
Confidence                      3222222     123468999999999999999999999885

>1yg9_A Aspartic protease BLA G 2; allegren, hydrolase, allergen; HET: NAG; 1.30A {Blattella germanica} PDB: 2nr6_A* 3liz_A*

Probab=87.98  E-value=0.59  Score=44.46  Aligned_cols=101  Identities=10%  Similarity=0.118  Sum_probs=60.2

Q ss_pred             eeecCee-----EEEEEcCCccccccCHHHHHHc----CCccccCC--cceeEeecCcceeEEeEEEEEeEEEcCEEEe-
Q 016931          201 MEVNGIP-----LKAFVDSGAQSTIISKSCAERC----GLLRLLDD--RYRGVAHGVGQSEILGRIHVAPIKIGNVFYP-  268 (380)
Q Consensus       201 v~Ing~~-----v~alVDTGA~~siIs~~~a~rl----gL~~~~~~--~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~-  268 (380)
                      +.|+|..     ..++||||.+.+.++.+.++++    +.......  .+.  ...+...   .......+.+|+..+. 
T Consensus       202 i~v~~~~~~~~~~~aiiDSGTs~~~lP~~~~~~l~~~~~~~~~~~g~~~~~--~~~C~~~---~~~p~i~f~fgg~~~~l  276 (330)
T 1yg9_A          202 VKIGDTTVAPAGTQAIIDTSKAIIVGPKAYVNPINEAIGCVVEKTTTRRIC--KLDCSKI---PSLPDVTFVINGRNFNI  276 (330)
T ss_dssp             EEETTEEEECTTCEEEECTTCSSEEEEHHHHHHHHHHHTCEEEECSSCEEE--EECGGGG---GGSCCEEEEETTEEEEE
T ss_pred             EEECCEEEcCCCcEEEEecCCccccCCHHHHHHHHHHhCCcccCCCceEEE--EEECCCc---cccCcEEEEECCEEEEE
Confidence            4567764     5799999999999998888765    22110000  000  0001100   0122334566664443 


Q ss_pred             ------------EEEEEec-CCCCceeeeHHHHhhcCeEEEcCCCEEEEcC
Q 016931          269 ------------CSFVVLD-SPNMEFLFGLDMLRKHQCIIDLKENVLRVGG  306 (380)
Q Consensus       269 ------------~~~~Vl~-~~~~d~iLG~D~L~~~~~~ID~~~~~l~i~~  306 (380)
                                  |-+.+.. ......|||-.||+.+-.+.|+.+++|-|..
T Consensus       277 ~~~~y~~~~~~~C~~~i~~~~~~~~~ilG~~fl~~~y~vfD~~~~riGfA~  327 (330)
T 1yg9_A          277 SSQYYIQQNGNLCYSGFQPCGHSDHFFIGDFFVDHYYSEFNWENKTMGFGR  327 (330)
T ss_dssp             CHHHHEEEETTEEEESEEEETTCSSEEECHHHHTTEEEEEETTTTEEEEEE
T ss_pred             CHHHhcccCCCcEEEEEEeCCCCCeEEecHHHhhheEEEEECCCCEEEEEE
Confidence                        3222322 1234589999999999999999999998863

>1bxo_A Protein (penicillopepsin); hydrolase, phosphonate inhibitors, macrocycle; HET: MAN PP7; 0.95A {Penicillium janthinellum} SCOP: b.50.1.2 PDB: 1apu_E* 1apv_E* 1apw_E* 1apt_E* 1bxq_A* 1ppk_E* 1ppl_E* 1ppm_E* 2wea_A* 2web_A* 2wec_A* 2wed_A* 3app_A

Probab=87.90  E-value=0.98  Score=42.71  Aligned_cols=102  Identities=10%  Similarity=0.001  Sum_probs=58.0

Q ss_pred             eecC---eeEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEeE---------
Q 016931          202 EVNG---IPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPC---------  269 (380)
Q Consensus       202 ~Ing---~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~~---------  269 (380)
                      .|+|   ....++||||.+.+.++.+.++++--.- ....+. ...|.-...+........+.+|+..+.+         
T Consensus       199 ~v~~~~~~~~~aiiDSGTs~~~lP~~~~~~l~~~i-~~a~~~-~~~g~~~~~C~~~~P~i~f~fgg~~~~l~~~~~~~~~  276 (323)
T 1bxo_A          199 TAGSQSGDGFSGIADTGTTLLLLDDSVVSQYYSQV-SGAQQD-SNAGGYVFDCSTNLPDFSVSISGYTATVPGSLINYGP  276 (323)
T ss_dssp             EETTEEEEEEEEEECTTCSSEEECHHHHHHHHTTS-TTCEEE-TTTTEEEECTTCCCCCEEEEETTEEEEECHHHHEEEE
T ss_pred             EECCccCCCceEEEeCCCCceeCCHHHHHHHHHhC-CCceEc-CcCCEEEEECCCCCceEEEEECCEEEEECHHHeEEec
Confidence            4555   3478999999999999999988762210 000000 0000000001011223345555544332         


Q ss_pred             -------EEEEecC-CCCceeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931          270 -------SFVVLDS-PNMEFLFGLDMLRKHQCIIDLKENVLRVG  305 (380)
Q Consensus       270 -------~~~Vl~~-~~~d~iLG~D~L~~~~~~ID~~~~~l~i~  305 (380)
                             -+.+... .....|||-.||+.+-.+.|+.+++|-|.
T Consensus       277 ~~~~~~C~~~i~~~~~~~~~ILG~~fl~~~y~vfD~~~~riGfA  320 (323)
T 1bxo_A          277 SGDGSTCLGGIQSNSGIGFSIFGDIFLKSQYVVFDSDGPQLGFA  320 (323)
T ss_dssp             CSSSSCEEESEEECTTCSSEEECHHHHTTEEEEEETTTTEEEEE
T ss_pred             cCCCCeEEEEEECCCCCCcEEEChHHHcCEEEEEECCCCEEEEe
Confidence                   2212221 12358999999999999999999999885

>1miq_A Plasmepsin; aspartic proteinase zymogen, domain opening, hydrolase; 2.50A {Plasmodium vivax} SCOP: b.50.1.2 PDB: 1ls5_A*

Probab=87.84  E-value=1.3  Score=42.87  Aligned_cols=99  Identities=15%  Similarity=0.242  Sum_probs=58.0

Q ss_pred             eeecCe---eEEEEEcCCccccccCHHHHHHc----CCcc-ccCCcceeEeecCcceeEEeEEEEEeEEEcCEEE-----
Q 016931          201 MEVNGI---PLKAFVDSGAQSTIISKSCAERC----GLLR-LLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFY-----  267 (380)
Q Consensus       201 v~Ing~---~v~alVDTGA~~siIs~~~a~rl----gL~~-~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~-----  267 (380)
                      +.|+|+   ...++||||.+.+.++.+.++.+    +... .....+...+..       .......+.+||..+     
T Consensus       247 i~v~g~~~~~~~aiiDSGTs~~~lP~~~~~~l~~~~~~~~~~~~g~~~~~C~~-------~~~P~i~f~f~g~~~~l~~~  319 (375)
T 1miq_A          247 VHFGKQTMEKANVIVDSGTTTITAPSEFLNKFFANLNVIKVPFLPFYVTTCDN-------KEMPTLEFKSANNTYTLEPE  319 (375)
T ss_dssp             EEETTEEEEEEEEEECTTBSSEEECHHHHHHHHHHHTCEECTTSSCEEEETTC-------TTCCCEEEECSSCEEEECGG
T ss_pred             EEECCEEcccceEEecCCCccEEcCHHHHHHHHHHhCCcccCCCCeEEEECCC-------CCCCcEEEEECCEEEEECHH
Confidence            677885   56899999999999999888765    2210 000000000000       001112233333222     


Q ss_pred             ------------eEEEEEecCC--CCceeeeHHHHhhcCeEEEcCCCEEEEcC
Q 016931          268 ------------PCSFVVLDSP--NMEFLFGLDMLRKHQCIIDLKENVLRVGG  306 (380)
Q Consensus       268 ------------~~~~~Vl~~~--~~d~iLG~D~L~~~~~~ID~~~~~l~i~~  306 (380)
                                  .|-+.+....  ....|||-.||+.+-.+.|+.+++|-|..
T Consensus       320 ~yi~~~~~~g~~~C~~~~~~~~~~~~~~ILG~~fl~~~yvvfD~~~~riGfA~  372 (375)
T 1miq_A          320 YYMNPILEVDDTLCMITMLPVDIDSNTFILGDPFMRKYFTVFDYDKESVGFAI  372 (375)
T ss_dssp             GSEEESSSSSCSEEEESEEECCSSSSEEEECHHHHHHEEEEEETTTTEEEEEE
T ss_pred             HhEeeccCCCCCeEEEEEEECCCCCCcEEECHHHhccEEEEEECCCCEEEEEE
Confidence                        1332333322  24689999999999999999999998853

>3h6n_A Plexin-D1; structural genomics consortium, SGC, membrane, transmembrane, receptor, alternative splicing, cell membrane, glycoprotein, polymorphism; 2.00A {Homo sapiens}

Probab=87.84  E-value=2.5  Score=34.91  Aligned_cols=63  Identities=14%  Similarity=0.183  Sum_probs=46.5

Q ss_pred             CCEEEEEeCCCCCHHHHHHHHHHHh--CCC------CcCeEEec-CC---e-ecCC---------c----ccchhcCCCC
Q 016931           10 EQIISLDVDPHETVENVKALLEVET--QVP------LQQQQLLY-NG---R-EMNN---------A----EKLSALGVKD   63 (380)
Q Consensus        10 g~~~~i~V~~~~TV~~LK~~I~~~~--gip------~~~q~Li~-~G---k-~L~D---------~----~tL~~~gI~d   63 (380)
                      +..+.+.|-..+||.++|++|-...  ++|      +++..|-| .|   + +|.|         .    .||..|+|.|
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            4557888888999999999998764  344      35666765 23   3 3554         1    3799999999


Q ss_pred             CcEEEEeec
Q 016931           64 EDLVMMVSN   72 (380)
Q Consensus        64 g~~I~l~~~   72 (380)
                      |.+|-++..
T Consensus        96 gatv~l~~~  104 (127)
T 3h6n_A           96 GASLAMSLI  104 (127)
T ss_dssp             TCEEEEEEC
T ss_pred             CCEEEEEEc
Confidence            999999854

>2juo_A GA-binding protein alpha chain; OST, ubiquitin, transcription factor, ensemble, DNA-binding, nucleus, transcription regulation; NMR {Mus musculus}

Probab=87.79  E-value=0.94  Score=34.64  Aligned_cols=58  Identities=26%  Similarity=0.390  Sum_probs=50.0

Q ss_pred             EEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEe
Q 016931           13 ISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMV   70 (380)
Q Consensus        13 ~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~   70 (380)
                      +.-..+-..++..||.+++.+.|++.+...++.-+..|.++++|-+.+|+-...|.+.
T Consensus         5 i~qhmDI~epL~~Lk~LLe~Rl~i~L~~y~f~LQd~~L~~~k~LvdQcVqgeGlVQin   62 (89)
T 2juo_A            5 VSQAIDINEPIGNLKKLLEPRLQCSLDAHEICLQDIQLDPDRSLFDQGVKTDGTVQLS   62 (89)
T ss_dssp             EEEEEESSSBGGGHHHHSHHHHCSCCSSCEEEETTEECCTTSBTTTSSCCCCSEEEEE
T ss_pred             hhhhccccCcHHHHHHHHHHHhcCCcccCeEEeeccccCCCccHHHhhcccccEEEEE
Confidence            3344556678999999999999999999999988888999999999999987777775

>1oew_A Endothiapepsin; hydrolase, aspartic proteinase mechanism, atomic resolution, succinimide, anisotropic refinement; HET: SUI; 0.9A {Cryphonectria parasitica} SCOP: b.50.1.2 PDB: 1gkt_A* 1gvt_A* 1gvv_A* 1gvw_A* 1gvx_A* 1gvu_A* 1oex_A* 2jji_A* 2jjj_A* 2vs2_A* 3uri_A* 3urj_A* 3url_A* 3pww_A* 1e80_E* 1e81_E* 1e82_E* 1e5o_E* 1eed_P* 1epl_E* ...

Probab=87.59  E-value=1.3  Score=41.97  Aligned_cols=101  Identities=12%  Similarity=0.074  Sum_probs=58.1

Q ss_pred             eeecCe-----eEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcc--eeEEeEEEEEeEEEcCEEEe-----
Q 016931          201 MEVNGI-----PLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQ--SEILGRIHVAPIKIGNVFYP-----  268 (380)
Q Consensus       201 v~Ing~-----~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~--~~~~g~i~~~~i~ig~~~~~-----  268 (380)
                      +.|+|.     ...++||||.+.+.++.+.++++--.- ....+   ....|.  ..+........+.+|+..+.     
T Consensus       201 i~v~~~~~~~~~~~aiiDSGTt~~~lP~~~~~~l~~~i-~~a~~---~~~~g~~~~~C~~~~P~i~f~fgg~~~~ip~~~  276 (329)
T 1oew_A          201 YAVGSGTFKSTSIDGIADTGTTLLYLPATVVSAYWAQV-SGAKS---SSSVGGYVFPCSATLPSFTFGVGSARIVIPGDY  276 (329)
T ss_dssp             EEETTSCCEEEEEEEEECTTCCSEEECHHHHHHHHTTS-TTCEE---ETTTTEEEEETTCCCCCEEEEETTEEEEECHHH
T ss_pred             EEECCeeccCCCceEEEeCCCCCEECCHHHHHHHHHhC-CCcEE---cCCCCEEEEECCCCCCcEEEEECCEEEEECHHH
Confidence            456664     467999999999999999988762210 00000   000010  00101112234455553332     


Q ss_pred             ------------EEEEEecC-CCCceeeeHHHHhhcCeEEEc-CCCEEEEc
Q 016931          269 ------------CSFVVLDS-PNMEFLFGLDMLRKHQCIIDL-KENVLRVG  305 (380)
Q Consensus       269 ------------~~~~Vl~~-~~~d~iLG~D~L~~~~~~ID~-~~~~l~i~  305 (380)
                                  |-+.+... .....|||-.||+.+-.+.|+ .+++|-|.
T Consensus       277 ~~~~~~~~~~~~C~~~i~~~~~~~~~iLG~~fl~~~y~vfD~~~~~riGfA  327 (329)
T 1oew_A          277 IDFGPISTGSSSCFGGIQSSAGIGINIFGDVALKAAFVVFNGATTPTLGFA  327 (329)
T ss_dssp             HEEEESSTTCSEEEESEEESTTTSSEEECHHHHTTEEEEEECSSSCEEEEE
T ss_pred             eeeeecCCCCCeEEEEEEeCCCCCceEEChHHhcCEEEEEECCCCceEEEe
Confidence                        22222221 124589999999999999999 99998874

>3c9x_A Trichoderma reesei aspartic protease; aspartic proteinase, aspartyl protease, hydrolase; 1.70A {Trichoderma reesei} PDB: 3c9y_A* 3emy_A*

Probab=87.40  E-value=1.2  Score=42.15  Aligned_cols=101  Identities=14%  Similarity=0.129  Sum_probs=57.0

Q ss_pred             eeecCe-----eEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcc--eeEEeEEEEEeEEEcCEEEe-----
Q 016931          201 MEVNGI-----PLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQ--SEILGRIHVAPIKIGNVFYP-----  268 (380)
Q Consensus       201 v~Ing~-----~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~--~~~~g~i~~~~i~ig~~~~~-----  268 (380)
                      +.|+|+     ...++||||.+.+.++.+.++++--.- ....+   ....|.  ..+........+.+++..+.     
T Consensus       202 i~v~~~~~~~~~~~aiiDSGTt~~~lp~~~~~~i~~~i-~~a~~---~~~~~~~~~~C~~~~P~i~f~f~g~~~~ip~~~  277 (329)
T 3c9x_A          202 YSVGGGKLNRNSIDGIADTGTTLLLLDDNVVDAYYANV-QSAQY---DNQQEGVVFDCDEDLPSFSFGVGSSTITIPGDL  277 (329)
T ss_dssp             EEETTCCCCSCCEEEEECTTCCSEEECHHHHHHHHTTC-TTCEE---ETTTTEEEEETTCCCCCEEEEETTEEEEECGGG
T ss_pred             EEECCEeccCCCceEEEECCCCcEeCCHHHHHHHHHhC-CCcEE---cCCCCEEEEECCCCCCcEEEEECCEEEEECHHH
Confidence            346664     468999999999999999987753210 00000   000010  00000112223444442222     


Q ss_pred             ------------EEEEEecC-CCCceeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931          269 ------------CSFVVLDS-PNMEFLFGLDMLRKHQCIIDLKENVLRVG  305 (380)
Q Consensus       269 ------------~~~~Vl~~-~~~d~iLG~D~L~~~~~~ID~~~~~l~i~  305 (380)
                                  |-+.+... .....|||-.||+.+-.+.|+.+++|-|.
T Consensus       278 ~~~~~~~~~~~~C~~~i~~~~~~~~~ILG~~fl~~~y~vfD~~~~riGfA  327 (329)
T 3c9x_A          278 LNLTPLEEGSSTCFGGLQSSSGIGINIFGDVALKAALVVFDLGNERLGWA  327 (329)
T ss_dssp             GEEEESSTTCSEEEESEEECTTTTSEEECHHHHTTEEEEEETTTTEEEEE
T ss_pred             eeeeccCCCCCeEEEEEEcCCCCCcEEEChHHhccEEEEEECCCCEEeEe
Confidence                        22222222 12357999999999999999999999875

>3k1w_A Renin; protease, alternative splicing, aspartyl protease, cleavage on PAIR of basic residues, disease mutation, disulfide bond, glycoprotein; HET: BFX NDG HSQ; 1.50A {Homo sapiens} SCOP: b.50.1.2 PDB: 3d91_A* 3g70_A* 3g6z_A* 3own_A* 2iko_A* 1bbs_A* 1rne_A* 2bkt_A* 2bks_A* 2iku_A* 2il2_A* 2ren_A* 2v0z_C* 2v10_C* 2v11_C* 2v12_C* 2v13_A* 2v16_C* 3g72_A* 3oot_A* ...

Probab=87.32  E-value=1.1  Score=42.59  Aligned_cols=99  Identities=19%  Similarity=0.225  Sum_probs=59.0

Q ss_pred             eeecCee------EEEEEcCCccccccCHHHHHHc----CCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEeE-
Q 016931          201 MEVNGIP------LKAFVDSGAQSTIISKSCAERC----GLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPC-  269 (380)
Q Consensus       201 v~Ing~~------v~alVDTGA~~siIs~~~a~rl----gL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~~-  269 (380)
                      +.|+|..      ..++||||.+.+.++.+.++++    +.....+ .+..   .+...   .......+.+++..+.+ 
T Consensus       208 i~v~~~~~~~~~~~~~iiDsGtt~~~lP~~~~~~i~~~~~~~~~~~-g~~~---~C~~~---~~~p~i~f~f~g~~~~l~  280 (341)
T 3k1w_A          208 VSVGSSTLLCEDGCLALVDTGASYISGSTSSIEKLMEALGAKKRLF-DYVV---KCNEG---PTLPDISFHLGGKEYTLT  280 (341)
T ss_dssp             EEETTEEEECTTCEEEEECTTCSSEEECHHHHHHHHHHHTCEECSS-CEEE---EGGGG---GGCCCEEEEETTEEEEEC
T ss_pred             EEECCEEeecCCCCEEEEECCCChhcCCHHHHHHHHHHcCCeecCC-CeEE---eCCCC---CcCCcEEEEECCEEEEEC
Confidence            3567763      5899999999999999887765    3211000 0000   00000   01122345556544432 


Q ss_pred             ----------------EEEEec-----CCCCceeeeHHHHhhcCeEEEcCCCEEEEcC
Q 016931          270 ----------------SFVVLD-----SPNMEFLFGLDMLRKHQCIIDLKENVLRVGG  306 (380)
Q Consensus       270 ----------------~~~Vl~-----~~~~d~iLG~D~L~~~~~~ID~~~~~l~i~~  306 (380)
                                      -+.+..     ......|||..||+.+-.+.|+.++++-|..
T Consensus       281 ~~~~~~~~~~~~~~~C~~~i~~~~~~~~~~~~~iLG~~fl~~~y~vfD~~~~~igfA~  338 (341)
T 3k1w_A          281 SADYVFQESYSSKKLCTLAIHAMDIPPPTGPTWALGATFIRKFYTEFDRRNNRIGFAL  338 (341)
T ss_dssp             HHHHBCCSCCCTTSEEEBSEEECCCCTTTCSCEEECHHHHTTEEEEEETTTTEEEEEE
T ss_pred             HHHheeEccCCCCCeEEeEEEecccCCCCCCeEEEChHHhcceEEEEeCCCCEEEEEE
Confidence                            111222     1234689999999999999999999998863

>3rpf_C Molybdopterin converting factor, subunit 1 (MOAD); MCSG, PSI-biology, structural genomics, midwest center for S genomics, transferase; 1.90A {Helicobacter pylori}

Probab=87.25  E-value=1.8  Score=31.88  Aligned_cols=66  Identities=14%  Similarity=0.198  Sum_probs=43.7

Q ss_pred             CEEEEEeCCC-CEEEEEeCCCCCHHHHHHHHHHHhCCCC--cCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931            1 MRITVMTADE-QIISLDVDPHETVENVKALLEVETQVPL--QQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS   71 (380)
Q Consensus         1 M~ItVk~~~g-~~~~i~V~~~~TV~~LK~~I~~~~gip~--~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~   71 (380)
                      |+|+|+.... +.-.+++ ...||.+|.+.+..+.++..  ....+..||+.+.+    .+.-+++||.|.+..
T Consensus         1 M~v~V~~fa~l~~~~~e~-~~~tv~~ll~~L~~~~~l~~~l~~~~vavN~~~v~~----~~~~l~~gDeV~i~P   69 (74)
T 3rpf_C            1 MMVEVRFFGPIKEENFFI-KANDLKELRAILQEKEGLKEWLGVCAIALNDHLIDN----LNTPLKDGDVISLLP   69 (74)
T ss_dssp             CEEEEEECTTCCCCCEEE-ECSSHHHHHHHHHTCTTTTTTTTTCEEEESSSEECC----TTCCCCTTCEEEEEC
T ss_pred             CEEEEEEEeecceeEEee-CCCcHHHHHHHHHHCcCHHHHhhccEEEECCEEcCC----CCcCCCCCCEEEEEC
Confidence            8899986531 1134666 56899999999986543322  33455568876543    245689999999874

>3lpj_A Beta-secretase 1; alzheimer'S, aspartyl protease, hydrolase; HET: TLA Z75; 1.79A {Homo sapiens} PDB: 3lpi_A* 3lpk_A* 3ohf_A* 3ohh_A* 3r2f_A* 3skf_A* 3skg_A* 4fse_A* 2hiz_A* 2p83_A* 2va7_A* 2va5_A* 2va6_A*

Probab=87.24  E-value=1.3  Score=44.13  Aligned_cols=87  Identities=24%  Similarity=0.317  Sum_probs=54.6

Q ss_pred             eeEEeeeec--CeeEEEEEcCCccccccC-HHHHHHcCCccccCC----cce------eEeecCcceeEEeEEEEEeEEE
Q 016931          196 MLYVDMEVN--GIPLKAFVDSGAQSTIIS-KSCAERCGLLRLLDD----RYR------GVAHGVGQSEILGRIHVAPIKI  262 (380)
Q Consensus       196 ~lyv~v~In--g~~v~alVDTGA~~siIs-~~~a~rlgL~~~~~~----~~~------~~~~gvg~~~~~g~i~~~~i~i  262 (380)
                      ..|+++.|.  +++++++||||++.+.+. ..|   |......+.    .+.      .+.+|-|.  ..|.+....|.|
T Consensus        75 ~Y~~~i~iGTP~Q~~~v~~DTGSs~lWV~~~~c---c~~~~~y~~~~SsT~~~~~~~~~i~Yg~Gs--~~G~~~~Dtv~i  149 (455)
T 3lpj_A           75 GYYVEMTVGSPPQTLNILVDTGSSNFAVGAAPH---PFLHRYYQRQLSSTYRDLRKGVYVPYTQGK--WEGELGTDLVSI  149 (455)
T ss_dssp             EEEEEEEETTTTEEEEEEEETTCCCEEEECSCC---TTCSCCCCGGGCTTCEEEEEEEEEECSSCE--EEEEEEEEEEEC
T ss_pred             EEEEEEEECCCCeEEEEEEcCCCcceEEecccc---cccCCcccCCCCCCcccCCccEEEEeCCeE--EEEEEEEEEEEE
Confidence            579999998  799999999999988884 333   322222211    111      13344444  479998999999


Q ss_pred             cC---EEEeEEEEEec--------CCCCceeeeHHH
Q 016931          263 GN---VFYPCSFVVLD--------SPNMEFLFGLDM  287 (380)
Q Consensus       263 g~---~~~~~~~~Vl~--------~~~~d~iLG~D~  287 (380)
                      |+   ..+...|.+..        ....|+||||-+
T Consensus       150 g~~~~~~~~~~~~~~~~~~~~~~~~~~~dGIlGLg~  185 (455)
T 3lpj_A          150 PHGPNVTVRANIAAITESDKFFINGSNWEGILGLAY  185 (455)
T ss_dssp             TTSCSCEEEEEEEEEEEEESCSCTTCCCCEEEECSC
T ss_pred             CCCcceeeEEEEEEEEccCcccccCCCcceEEEeCc
Confidence            84   22222232221        245799999975

>3fv3_A SAPP1P-secreted aspartic protease 1; secreted aspartic protease, virulence factor, H; HET: STA; 1.85A {Candida parapsilosis} SCOP: b.50.1.0 PDB: 3tne_A*

Probab=87.01  E-value=1.1  Score=42.61  Aligned_cols=102  Identities=16%  Similarity=0.219  Sum_probs=58.8

Q ss_pred             eeecCeeE----EEEEcCCccccccCHHHHHHcCCccccCCcceeE--eecCcceeEE-eEEEEEeEEEc-CEEEe----
Q 016931          201 MEVNGIPL----KAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGV--AHGVGQSEIL-GRIHVAPIKIG-NVFYP----  268 (380)
Q Consensus       201 v~Ing~~v----~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~--~~gvg~~~~~-g~i~~~~i~ig-~~~~~----  268 (380)
                      +.|+|..+    .++||||.+.+.++.+.++++--  .+...+...  ..|.....+. .......+.++ +..+.    
T Consensus       204 i~v~g~~~~~~~~~iiDSGtt~~~lP~~~~~~i~~--~~~~~~~~~~~~~~~~~~~C~~~~~p~i~f~f~~g~~~~v~~~  281 (339)
T 3fv3_A          204 VNLKGSSFSFGDGALLDSGTTLTYFPSDFAAQLAD--KAGARLVQVARDQYLYFIDCNTDTSGTTVFNFGNGAKITVPNT  281 (339)
T ss_dssp             EEESSCEEEEEEEEEECTTBSSEEECHHHHHHHHH--HHTCEEEEEETTEEEEEECTTCCCCSEEEEEETTSCEEEEEGG
T ss_pred             EEECCEeecCCccEEEeCCCCCEecCHHHHHHHHH--HcCCEEccccccCceEEEecCCCCCCcEEEEECCCCEEEECHH
Confidence            45777754    69999999999999988877521  011011000  0010000000 01122345553 43322    


Q ss_pred             ----------EEEEEecCCCCceeeeHHHHhhcCeEEEcCCCEEEEcC
Q 016931          269 ----------CSFVVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRVGG  306 (380)
Q Consensus       269 ----------~~~~Vl~~~~~d~iLG~D~L~~~~~~ID~~~~~l~i~~  306 (380)
                                |-+.+..  .-..|||..||+.+-.+.|+.++++-|..
T Consensus       282 ~~~~~~~~~~C~~~i~~--~~~~ilG~~fl~~~y~vfD~~~~~igfA~  327 (339)
T 3fv3_A          282 EYVYQNGDGTCLWGIQP--SDDTILGDNFLRHAYLLYNLDANTISIAQ  327 (339)
T ss_dssp             GGEEECSSSCEEESEEE--CSSCEECHHHHTTEEEEEETTTTEEEEEE
T ss_pred             HheeeCCCCeEEEEEEe--CCcEEeChHHHhCEEEEEECCCCEEEEEe
Confidence                      2222332  12479999999999999999999999964

>2llw_A Heat shock protein STI1; DP domain, alpha helix, chaperone; NMR {Saccharomyces cerevisiae}

Probab=86.83  E-value=2.6  Score=31.17  Aligned_cols=29  Identities=21%  Similarity=0.379  Sum_probs=22.6

Q ss_pred             CChHHHHHHHhcCHHHHHHHhhcCHHHHHHh
Q 016931           91 VNPAAFQQHIRNDANLMTQLFQSDPELAQVL  121 (380)
Q Consensus        91 ~~p~~~~q~~l~nP~~l~qL~~~nP~La~ai  121 (380)
                      ..+++.+..+++||+++.-|  +||+++.++
T Consensus         7 e~~ee~~~~~m~dPEi~~im--~DP~~~~~l   35 (71)
T 2llw_A            7 ETPEETYQRAMKDPEVAAIM--QDPVMQSIL   35 (71)
T ss_dssp             SCHHHHHHHHHHSHHHHHHH--TCTHHHHHH
T ss_pred             CCcHHHHHHHhcCHHHHHHh--CCHHHHHHH
Confidence            56777778888899888766  488888777

>1wkr_A Polyporopepsin; hydrolase, hydrolase-hydrolase inhibitor complex; HET: STA; 1.30A {Irpex lacteus} SCOP: b.50.1.2

Probab=86.28  E-value=0.79  Score=43.60  Aligned_cols=105  Identities=16%  Similarity=0.268  Sum_probs=59.4

Q ss_pred             EeeeecC-eeE----EEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEE--eEEEEEeEEEcCEEEe---
Q 016931          199 VDMEVNG-IPL----KAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEIL--GRIHVAPIKIGNVFYP---  268 (380)
Q Consensus       199 v~v~Ing-~~v----~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~--g~i~~~~i~ig~~~~~---  268 (380)
                      ..+.|+| +.+    .++||||.+.+.++.+.++++ . ..+...+. ...|.-...+.  .......+.+++..+.   
T Consensus       193 ~~i~v~~~~~l~~~~~aiiDSGTt~~~lP~~~~~~l-~-~~~~a~~~-~~~g~~~~~C~~~~~~p~i~f~f~g~~~~i~~  269 (340)
T 1wkr_A          193 QSIRYGSSTSILSSTAGIVDTGTTLTLIASDAFAKY-K-KATGAVAD-NNTGLLRLTTAQYANLQSLFFTIGGQTFELTA  269 (340)
T ss_dssp             EEEEETTTEEEEEEEEEEECTTBCSEEECHHHHHHH-H-HHHTCEEC-TTTSSEEECHHHHHTCCCEEEEETTEEEEECT
T ss_pred             eeEEECCCeEccCCCeEEEeCCcccccCCHHHHHHH-H-HhhCCEEc-CCCCeEEeeccccccCCcEEEEECCEEEEEcH
Confidence            4577887 544    799999999999999988876 1 11110000 00000000000  0011223344443322   


Q ss_pred             -------------------EEEEEec--C---CCCceeeeHHHHhhcCeEEEcCCCEEEEcC
Q 016931          269 -------------------CSFVVLD--S---PNMEFLFGLDMLRKHQCIIDLKENVLRVGG  306 (380)
Q Consensus       269 -------------------~~~~Vl~--~---~~~d~iLG~D~L~~~~~~ID~~~~~l~i~~  306 (380)
                                         |-+.+..  .   .+...|||-.||+.+-.+.|+.+++|-|..
T Consensus       270 ~~yi~~~~~~~~~g~~~~~c~~~~~~~~~~~~~~~~~iLG~~fl~~~y~vfD~~~~~igfA~  331 (340)
T 1wkr_A          270 NAQIWPRNLNTAIGGSASSVYLIVGDLGSDSGEGLDFINGLTFLERFYSVYDTTNKRLGLAT  331 (340)
T ss_dssp             GGGBCCGGGGGGGTCCSSCEEBCEEECSSCTTSSCCEEECHHHHTSEEEEEETTTTEEEEEE
T ss_pred             HHhccccccccccCCCCceEEEEEecCCCCCCCCcceEeChHhhhheEEEEeCCCCeEEEEe
Confidence                               2122222  1   123479999999999999999999999964

>3aup_A SBG7S, BG, basic 7S globulin; pepsin-like fold, plant protein; 1.91A {Glycine max}

Probab=86.22  E-value=1.9  Score=42.04  Aligned_cols=27  Identities=19%  Similarity=0.329  Sum_probs=25.1

Q ss_pred             ceeeeHHHHhhcCeEEEcCCCEEEE-cC
Q 016931          280 EFLFGLDMLRKHQCIIDLKENVLRV-GG  306 (380)
Q Consensus       280 d~iLG~D~L~~~~~~ID~~~~~l~i-~~  306 (380)
                      ..|||--||+.+-.+.|+.+++|-| ..
T Consensus       358 ~~ILG~~fl~~~yvvfD~~~~rIGf~A~  385 (403)
T 3aup_A          358 EITLGARQLEENLVVFDLARSRVGFSTS  385 (403)
T ss_dssp             SEEECHHHHTTSCEEEETTTTEEEEESS
T ss_pred             cEEEChHHhcCeEEEEECCCCEEEEecc
Confidence            5799999999999999999999999 64

>1htr_B Gastricsin; aspartyl protease; 1.62A {Homo sapiens} SCOP: b.50.1.2 PDB: 1avf_A

Probab=85.92  E-value=1.9  Score=40.68  Aligned_cols=99  Identities=17%  Similarity=0.242  Sum_probs=58.0

Q ss_pred             eeecCee-------EEEEEcCCccccccCHHHHHHc----CCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEe-
Q 016931          201 MEVNGIP-------LKAFVDSGAQSTIISKSCAERC----GLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYP-  268 (380)
Q Consensus       201 v~Ing~~-------v~alVDTGA~~siIs~~~a~rl----gL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~-  268 (380)
                      +.|+|+.       ..++||||.+.+.++.+.++++    +........+..   -+...   .......+.+++..+. 
T Consensus       198 i~v~~~~~~~~~~~~~aiiDSGTt~~~lp~~~~~~l~~~~~~~~~~~g~~~~---~C~~~---~~~P~i~f~f~g~~~~i  271 (329)
T 1htr_B          198 FLIGGQASGWCSEGCQAIVDTGTSLLTVPQQYMSALLQATGAQEDEYGQFLV---NCNSI---QNLPSLTFIINGVEFPL  271 (329)
T ss_dssp             EEETTEECCTTTTCEEEEECTTCCSEEEEGGGHHHHHHHHTCEECTTSCEEE---CGGGG---GGSCCEEEEETTEEEEE
T ss_pred             EEECCceeeecCCCceEEEecCCccEECCHHHHHHHHHHhCCeecCCCeEEE---eCCCc---ccCCcEEEEECCEEEEE
Confidence            4566654       5799999999999998887765    221100000000   00000   0112234455554432 


Q ss_pred             ------------EEEEEecC-----CCC-ceeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931          269 ------------CSFVVLDS-----PNM-EFLFGLDMLRKHQCIIDLKENVLRVG  305 (380)
Q Consensus       269 ------------~~~~Vl~~-----~~~-d~iLG~D~L~~~~~~ID~~~~~l~i~  305 (380)
                                  |-+.+...     .+. ..|||-.||+.+-.+.|+.+++|-|.
T Consensus       272 ~~~~y~~~~~g~C~~~~~~~~~~~~~~~~~~iLG~~fl~~~yvvfD~~~~~igfa  326 (329)
T 1htr_B          272 PPSSYILSNNGYCTVGVEPTYLSSQNGQPLWILGDVFLRSYYSVYDLGNNRVGFA  326 (329)
T ss_dssp             CHHHHEEECSSCEEESEEEECCCCTTSSCEEEECHHHHTTEEEEEETTTTEEEEE
T ss_pred             CHHHhcccCCCEEEEEEEECCCCCCCCCceEEEChHHhccEEEEEECCCCEEEEE
Confidence                        33223221     123 58999999999999999999999885

>3vf3_A Beta-secretase 1; structure-based drug design, hydrolase-hydrolase inhibitor C; HET: 0GS; 1.48A {Homo sapiens} PDB: 2f3e_A* 2f3f_A* 1ym2_A* 3dv1_A* 3dv5_A* 3k5c_A* 3k5f_A* 3k5g_A* 3pi5_A* 3qbh_A* 3duy_A* 3veu_A* 3vg1_A* 4d83_A* 4d88_A* 4d89_A* 4d8c_A* 3msk_A* 3k5d_A* 1ym4_A* ...

Probab=85.91  E-value=1.3  Score=43.14  Aligned_cols=88  Identities=23%  Similarity=0.297  Sum_probs=54.6

Q ss_pred             ceeEEeeeec--CeeEEEEEcCCccccccC-HHHHHHcCCccccCC----cce------eEeecCcceeEEeEEEEEeEE
Q 016931          195 VMLYVDMEVN--GIPLKAFVDSGAQSTIIS-KSCAERCGLLRLLDD----RYR------GVAHGVGQSEILGRIHVAPIK  261 (380)
Q Consensus       195 ~~lyv~v~In--g~~v~alVDTGA~~siIs-~~~a~rlgL~~~~~~----~~~------~~~~gvg~~~~~g~i~~~~i~  261 (380)
                      ...|+++.|.  +++++++||||++.+-+. ..|   |......+.    .+.      .+..|-|.  ..|.+....|.
T Consensus        28 ~~Y~~~i~iGTP~q~~~v~~DTGSs~lWv~~~~c---~~~~~~y~~~~SsT~~~~~~~~~i~Yg~Gs--~~G~~~~D~v~  102 (402)
T 3vf3_A           28 QGYYVEMTVGSPPQTLNILVDTGSSNFAVGAAPH---PFLHRYYQRQLSSTYRDLRKGVYVPYTQGK--WEGELGTDLVS  102 (402)
T ss_dssp             TEEEEEEEETTTTEEEEEEEETTCCCEEEECSCC---TTCSCCCCGGGCTTCEEEEEEEEEECSSCE--EEEEEEEEEEE
T ss_pred             CEEEEEEEECCCCeEEEEEEeCCCCceEEccCCC---CcccCCcCcccCcccccCCCEEEEEECcEE--EEEEEEEEEEE
Confidence            3689999998  899999999999988873 344   222221111    111      13344444  48989889999


Q ss_pred             EcC-E--EEeEEEEEe--------cCCCCceeeeHHH
Q 016931          262 IGN-V--FYPCSFVVL--------DSPNMEFLFGLDM  287 (380)
Q Consensus       262 ig~-~--~~~~~~~Vl--------~~~~~d~iLG~D~  287 (380)
                      ||+ .  .....+.+.        .....|+||||-+
T Consensus       103 ig~~~~~~~~~~~~~~~~~~~~~~~~~~~dGIlGLg~  139 (402)
T 3vf3_A          103 IPHGPNVTVRANIAAITESDKFFINGSNWEGILGLAY  139 (402)
T ss_dssp             CTTSCSCEEEEEEEEEEEEESCSCTTCCCCEEEECSC
T ss_pred             ECCccccceeeeEEEEEccccccccCCCccceEEcCc
Confidence            984 2  222222221        1235799999974

>3aup_A SBG7S, BG, basic 7S globulin; pepsin-like fold, plant protein; 1.91A {Glycine max}

Probab=85.91  E-value=1.2  Score=43.56  Aligned_cols=93  Identities=16%  Similarity=0.198  Sum_probs=55.7

Q ss_pred             ceeEEeeeec--CeeEEEEEcCCccccccC-H-----------HHHH-HcCCcccc---------------CCcceeEee
Q 016931          195 VMLYVDMEVN--GIPLKAFVDSGAQSTIIS-K-----------SCAE-RCGLLRLL---------------DDRYRGVAH  244 (380)
Q Consensus       195 ~~lyv~v~In--g~~v~alVDTGA~~siIs-~-----------~~a~-rlgL~~~~---------------~~~~~~~~~  244 (380)
                      ...|+++.|.  .+++.++||||++.+-+. .           .|.. .|......               ......+..
T Consensus        21 ~~Y~~~i~iGTP~Q~~~v~~DTGSs~lWv~~~~~~~Sst~~~~~C~s~~C~~~~~~~c~~c~~~~~s~~~~~~~~~~~~Y  100 (403)
T 3aup_A           21 GLHWANLQKRTPLMQVPVLVDLNGNHLWVNCEQQYSSKTYQAPFCHSTQCSRANTHQCLSCPAASRPGCHKNTCGLMSTN  100 (403)
T ss_dssp             CCEEEEEEETTTTEEEEEEEETTCSSEEEECSSCCCCSSCBCCCTTBHHHHHTTCCCEEECSSSCBTTBCSSEEEEEEEE
T ss_pred             ceEEEEEECCCCCceeEEEEECCCCceeECCCCCCCCCCCCccCCCCccccCccccCccccCCCCCCCCCCCcceeEeec
Confidence            3578899998  789999999999998774 2           2210 11110000               001112334


Q ss_pred             cCcceeEEeEEEEEeEEEcC-----------EEEe-EEEEEecC--------CCCceeeeHHH
Q 016931          245 GVGQSEILGRIHVAPIKIGN-----------VFYP-CSFVVLDS--------PNMEFLFGLDM  287 (380)
Q Consensus       245 gvg~~~~~g~i~~~~i~ig~-----------~~~~-~~~~Vl~~--------~~~d~iLG~D~  287 (380)
                      |.......|.+-...|.||+           ..++ ..|.+...        ...|+||||-+
T Consensus       101 ~~d~~~~~G~~~~Dtv~ig~~~g~~~~~~~~~~v~~~~Fg~~~~~~~~~~~~~~~dGIlGLg~  163 (403)
T 3aup_A          101 PITQQTGLGELGEDVLAIHATQGSTQQLGPLVTVPQFLFSCAPSFLVQKGLPRNTQGVAGLGH  163 (403)
T ss_dssp             TTTTEEEEEEEEEEEEEEEECCC----CCCEEEEEEEEEEEECGGGGSSSSSTTCCEEEECSS
T ss_pred             CCCCceeeEEEEEEEEEecccCCccccccccccccCEEEECCcccccccCCCCCCceEEECCC
Confidence            43345677888888899976           3332 34554442        25799999864

>2bju_A Plasmepsin II; aspartic proteinase, drug design, malaria, aspartyl protease, glycoprotein, hydrolase, signal, zymogen; HET: IH4; 1.56A {Plasmodium falciparum} SCOP: b.50.1.2 PDB: 1pfz_A 1xdh_A* 1lf3_A 1w6h_A* 1w6i_A* 1lf4_A* 1lf2_A* 1lee_A* 1m43_A* 2igx_A* 1sme_A* 1me6_A* 1xe6_A* 1xe5_A* 2igy_A* 2r9b_A 3f9q_A 3qrv_A 3qs1_A* 2anl_A* ...

Probab=85.86  E-value=2.7  Score=42.10  Aligned_cols=102  Identities=17%  Similarity=0.187  Sum_probs=59.4

Q ss_pred             eeecCe---eEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeec-CcceeEE-eEEEEEeEEEcCEEEe-------
Q 016931          201 MEVNGI---PLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHG-VGQSEIL-GRIHVAPIKIGNVFYP-------  268 (380)
Q Consensus       201 v~Ing~---~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~g-vg~~~~~-g~i~~~~i~ig~~~~~-------  268 (380)
                      +.|+|.   ...++||||.+.+.++.+.++.+--.  +....  ...| .-...+. .......+.+||..+.       
T Consensus       323 I~Vgg~~~~~~~aIiDSGTsl~~lP~~~~~~l~~~--i~~~~--~~~g~~~~v~C~~~~~P~itf~fgg~~~~l~~~~yi  398 (453)
T 2bju_A          323 AHVGNIMLEKANCIVDSGTSAITVPTDFLNKMLQN--LDVIK--VPFLPFYVTLCNNSKLPTFEFTSENGKYTLEPEYYL  398 (453)
T ss_dssp             EEETTEEEEEEEEEECTTCCSEEECHHHHHHHTTT--SSCEE--CTTSSCEEEETTCTTCCCEEEECSSCEEEECHHHHE
T ss_pred             EEECcEEeccccEEEcCCCCeEecCHHHHHHHHHH--hCCcc--cCCCceEEEecCCCCCCcEEEEECCEEEEECHHHhE
Confidence            567773   36799999999999999999876321  11000  0011 0000000 0112233444443322       


Q ss_pred             ----------EEEEEecCC--CCceeeeHHHHhhcCeEEEcCCCEEEEcC
Q 016931          269 ----------CSFVVLDSP--NMEFLFGLDMLRKHQCIIDLKENVLRVGG  306 (380)
Q Consensus       269 ----------~~~~Vl~~~--~~d~iLG~D~L~~~~~~ID~~~~~l~i~~  306 (380)
                                |-+.+....  ....|||-.||+.+-.+.|+.+++|-|..
T Consensus       399 ~~~~~~g~~~C~~~~~~~~~~~~~~ILGd~Flr~~yvVFD~~n~rIGfA~  448 (453)
T 2bju_A          399 QHIEDVGPGLCMLNIIGLDFPVPTFILGDPFMRKYFTVFDYDNHSVGIAL  448 (453)
T ss_dssp             EECTTTSTTEEEECEEECCCSSCEEEECHHHHHHEEEEEETTTTEEEEEE
T ss_pred             eecccCCCceEEEEEEeCCCCCCCEEECHHHhhcEEEEEECCCCEEEEEE
Confidence                      322233322  23689999999999999999999998864

>2x0b_A Renin; hydrolase-hormone complex, hydrolase hormone complex, vasoconstrictor, glycoprotein, hypertension, serpins; 4.33A {Homo sapiens}

Probab=85.22  E-value=4.2  Score=39.54  Aligned_cols=98  Identities=20%  Similarity=0.245  Sum_probs=58.2

Q ss_pred             eeecCee------EEEEEcCCccccccCHHHHHHc----CCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEe--
Q 016931          201 MEVNGIP------LKAFVDSGAQSTIISKSCAERC----GLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYP--  268 (380)
Q Consensus       201 v~Ing~~------v~alVDTGA~~siIs~~~a~rl----gL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~--  268 (380)
                      +.|+|..      ..|+||||.+.+.++.+.++.+    |... ....+...+..+      .......+.+||..+.  
T Consensus       251 i~v~~~~~~~~~~~~aiiDTGTs~~~lP~~~~~~i~~~i~a~~-~~g~~~v~C~~~------~~~P~i~f~~~g~~~~l~  323 (383)
T 2x0b_A          251 VSVGSSTLLCEDGCLALVDTGASYISGSTSSIEKLMEALGAKK-RLFDYVVKCNEG------PTLPDISFHLGGKEYTLT  323 (383)
T ss_dssp             EEESSCCCBSTTCEEEEECTTCSSEEECHHHHHHHHHHHTCEE-CSSCEEEEGGGT------TTCCCEEEEETTEEEEEC
T ss_pred             EEeCCceEEcCCCcEEEEcCCCceEEcCHHHHHHHHHHhCCcc-cCCcEEEecccc------ccCceEEEEECCEEEEEC
Confidence            4566654      6899999999999998887654    3211 110010001000      0112234555554433  


Q ss_pred             ---------------EE--EEEecC---CCCceeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931          269 ---------------CS--FVVLDS---PNMEFLFGLDMLRKHQCIIDLKENVLRVG  305 (380)
Q Consensus       269 ---------------~~--~~Vl~~---~~~d~iLG~D~L~~~~~~ID~~~~~l~i~  305 (380)
                                     |-  |.-.+.   .....|||--||+.+-.+.|+.+++|-|.
T Consensus       324 ~~~yi~~~~~~~~~~C~~~~~~~~~~~~~~~~~ILGd~Fl~~~y~vfD~~~~rIGfA  380 (383)
T 2x0b_A          324 SADYVFQESYSSKKLCTLAIHAMDIPPPTGPTWALGATFIRKFYTEFDRRNNRIGFA  380 (383)
T ss_dssp             HHHHBCCCCCCTTSEEEBSEEECCCCTTTCSCEEECHHHHTTEEEEEETTTTEEEEE
T ss_pred             HHHhEeeccCCCCCeEEEEEEecccCCCCCCcEEEChHHhcceEEEEECCCCEEeEE
Confidence                           22  121211   23458999999999999999999999885

>1tzs_A Cathepsin E; hydrolase, aspartic protease, activation intermediate; 2.35A {Homo sapiens}

Probab=85.13  E-value=1.8  Score=41.38  Aligned_cols=99  Identities=17%  Similarity=0.210  Sum_probs=57.4

Q ss_pred             eeecCee------EEEEEcCCccccccCHHHHHHc----CCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEE---
Q 016931          201 MEVNGIP------LKAFVDSGAQSTIISKSCAERC----GLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFY---  267 (380)
Q Consensus       201 v~Ing~~------v~alVDTGA~~siIs~~~a~rl----gL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~---  267 (380)
                      +.|+|..      ..++||||.+.+.++.+.++.+    |..... ..+...+....      ......+.+|+..+   
T Consensus       210 i~v~~~~~~~~~~~~aiiDSGTs~~~lP~~~~~~l~~~~~~~~~~-g~~~~~C~~~~------~~P~i~f~f~g~~~~i~  282 (351)
T 1tzs_A          210 IQVGGTVMFCSEGCQAIVDTGTSLITGPSDKIKQLQNAIGAAPVD-GEYAVECANLN------VMPDVTFTINGVPYTLS  282 (351)
T ss_dssp             EEETTEEEECTTCEEEEECTTCSSEEECHHHHHHHHHHHTCEECS-SSEEECGGGGG------GSCCEEEEETTEEEEEC
T ss_pred             EEECCceEEcCCCceEEeccCCcceeCCHHHHHHHHHHhCCcccC-CeEEEeCCCCc------cCCcEEEEECCEEEEEC
Confidence            5677765      4799999999999998887764    221100 00000000000      01112233333222   


Q ss_pred             --------------eEEEEEecC-----CCCceeeeHHHHhhcCeEEEcCCCEEEEcC
Q 016931          268 --------------PCSFVVLDS-----PNMEFLFGLDMLRKHQCIIDLKENVLRVGG  306 (380)
Q Consensus       268 --------------~~~~~Vl~~-----~~~d~iLG~D~L~~~~~~ID~~~~~l~i~~  306 (380)
                                    .|-+.+...     .....|||-.||+.+-.+.|+.+++|-|..
T Consensus       283 ~~~yi~~~~~~~~~~C~~~~~~~~~~~~~~~~~iLG~~fl~~~y~vfD~~~~rigfA~  340 (351)
T 1tzs_A          283 PTAYTLLDFVDGMQFCSSGFQGLDIHPPAGPLWILGDVFIRQFYSVFDRGNNRVGLAP  340 (351)
T ss_dssp             TTTSEECC-----CCEEESEEECCCCTTTCSCEEECHHHHHHEEEEEETTTTEEEEEE
T ss_pred             HHHhEeeccCCCCCeEEEEEEECCCCCCCCCeEEEChHHhhheEEEEECCCCEEEEEE
Confidence                          132223221     234689999999999999999999999964

>2f4m_B UV excision repair protein RAD23 homolog B; glycoproteins, ubiquitin-dependent protein degradation, NUCL excision repair, peptide:N-glycanase; 1.85A {Mus musculus} SCOP: a.189.1.1 PDB: 2f4o_B*

Probab=85.07  E-value=1.3  Score=31.94  Aligned_cols=53  Identities=23%  Similarity=0.436  Sum_probs=32.5

Q ss_pred             HHHhcCHHH--HHHHhhcCHHHHHHhcCCCHHHHHHHHHHhHHHHHHHHHhhHHHHHHhhCCC
Q 016931           98 QHIRNDANL--MTQLFQSDPELAQVLLGNDLNKLQDLLRERSRQRSELRRRQEEEMALLYADP  158 (380)
Q Consensus        98 q~~l~nP~~--l~qL~~~nP~La~ai~~~d~~~~~~~l~~~~~q~~~~~~~~~~el~~l~~dP  158 (380)
                      ..++++|.+  |+++.++||++...+.        +-+....++..+...+..+++-.+++.|
T Consensus         5 ~~Lr~~Pqf~~lR~~vq~NP~~L~~lL--------qql~~~nP~l~~~I~~n~e~Fl~ll~e~   59 (61)
T 2f4m_B            5 EFLRNQPQFQQMRQIIQQNPSLLPALL--------QQIGRENPQLLQQISQHQEHFIQMLNEP   59 (61)
T ss_dssp             GGGTTCHHHHHHHHHHHHCGGGHHHHH--------HHHHHHCHHHHHHHHHSHHHHHHHHTSC
T ss_pred             HHHHcChHHHHHHHHHHHCHHHHHHHH--------HHHHhHCHHHHHHHHHCHHHHHHHHccc
Confidence            456678874  7888888998776552        2233333555555455555666666655

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

Probab=84.97  E-value=0.86  Score=37.85  Aligned_cols=34  Identities=15%  Similarity=0.097  Sum_probs=30.8

Q ss_pred             EEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecC
Q 016931           13 ISLDVDPHETVENVKALLEVETQVPLQQQQLLYN   46 (380)
Q Consensus        13 ~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~   46 (380)
                      ..+.|..++|+.+||..|+..+|+|+++|+|+.-
T Consensus        58 ~~~rv~k~~~~~~~~~~va~~lg~~~~~~RlW~~   91 (130)
T 2kvr_A           58 TVFKVLKNSSLAEFVQSLSQTMGFPQDQIRLWPM   91 (130)
T ss_dssp             EEEECCTTSBHHHHHHHHHHHHCCCGGGCEEEEC
T ss_pred             ceEEEeccCcHHHHHHHHHHHhCCCcccEEEEEe
Confidence            4678889999999999999999999999999853

>2qzx_A Candidapepsin-5; aspartic proteinase, aspartyl protease, CL PAIR of basic residues, glycoprotein, protease, secreted; HET: STA; 2.50A {Candida albicans}

Probab=84.85  E-value=5.5  Score=37.62  Aligned_cols=98  Identities=14%  Similarity=0.217  Sum_probs=57.9

Q ss_pred             eeecCee----EEEEEcCCccccccCHHHHHHc----CCccccCCcce-eEeecCcceeEEeEEEEEeEEE-cCEEEeE-
Q 016931          201 MEVNGIP----LKAFVDSGAQSTIISKSCAERC----GLLRLLDDRYR-GVAHGVGQSEILGRIHVAPIKI-GNVFYPC-  269 (380)
Q Consensus       201 v~Ing~~----v~alVDTGA~~siIs~~~a~rl----gL~~~~~~~~~-~~~~gvg~~~~~g~i~~~~i~i-g~~~~~~-  269 (380)
                      +.|+|+.    ..++||||.+.+.++.+.++++    +-....+.... .....+..      .....+.+ |+..+.+ 
T Consensus       202 i~v~g~~~~~~~~aiiDSGTt~~~lP~~~~~~l~~~~~~~~~~~~~~~~~~~~~C~~------~p~i~f~f~~g~~~~i~  275 (342)
T 2qzx_A          202 VNVRGRNVDANTNVLLDSGTTISYFTRSIVRNILYAIGAQMKFDSAGNKVYVADCKT------SGTIDFQFGNNLKISVP  275 (342)
T ss_dssp             EEETTEEEEEEEEEEECTTCSSEEECHHHHHHHHHHHTCEEEECTTSCEEEEECTTC------CCEEEEEETTTEEEEEE
T ss_pred             EEECCEecCCCcCEEEeCCCCCEEcCHHHHHHHHHHhCCeeeeccCCCcEEEEECCC------CCcEEEEECCCcEEEEc
Confidence            5677865    4689999999999999888765    22110010000 00000100      12234455 3433322 


Q ss_pred             -------------------EEEEecCCCCceeeeHHHHhhcCeEEEcCCCEEEEcC
Q 016931          270 -------------------SFVVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRVGG  306 (380)
Q Consensus       270 -------------------~~~Vl~~~~~d~iLG~D~L~~~~~~ID~~~~~l~i~~  306 (380)
                                         -+.+...  ...|||-.||+.+-.+.|+.+++|-|..
T Consensus       276 ~~~~~~~~~~~~~~~~~~C~~~i~~~--~~~iLG~~fl~~~y~vfD~~~~~igfA~  329 (342)
T 2qzx_A          276 VSEFLFQTYYTSGKPFPKCEVRIRES--EDNILGDNFLRSAYVVYNLDDKKISMAP  329 (342)
T ss_dssp             GGGGEECCBCTTSCBCSSEEESEEEC--SSCEECHHHHTTEEEEEETTTTEEEEEE
T ss_pred             HHHhcccccccCCCCCCccEEEEecC--CCcEeChHhhhcEEEEEECCCCEEEEEe
Confidence                               2222222  2479999999999999999999999964

>2qp8_A Beta-secretase 1; BACE1, protease, alternative splicing, aspartyl protease, glycoprotein, hydrolase, membrane, transmembrane, zymogen; HET: TAR SC7; 1.50A {Homo sapiens} SCOP: b.50.1.2 PDB: 2qk5_A* 2qmf_A* 2qmg_A* 2qmd_A* 4djx_A* 3l59_A* 3l5b_A* 3l5c_A* 3l58_A* 3l5d_A* 3l5f_A* 4dju_A* 4djv_A* 4djw_A* 3l5e_A* 4djy_A* 2zhv_A 2zhs_A 2zhr_A 2zhu_A ...

Probab=84.67  E-value=1.7  Score=42.28  Aligned_cols=90  Identities=22%  Similarity=0.282  Sum_probs=53.5

Q ss_pred             eeEEeeeec--CeeEEEEEcCCccccccC-HHHHHHcCC-ccccCCcce------eEeecCcceeEEeEEEEEeEEEc-C
Q 016931          196 MLYVDMEVN--GIPLKAFVDSGAQSTIIS-KSCAERCGL-LRLLDDRYR------GVAHGVGQSEILGRIHVAPIKIG-N  264 (380)
Q Consensus       196 ~lyv~v~In--g~~v~alVDTGA~~siIs-~~~a~rlgL-~~~~~~~~~------~~~~gvg~~~~~g~i~~~~i~ig-~  264 (380)
                      ..|+++.|.  +++++++||||++.+.+. ..|....+. .......+.      .+..|-|.  ..|.+....|.|| +
T Consensus        22 ~Y~~~i~iGTP~Q~~~v~~DTGSs~lWv~~~~c~~~~~~y~~~~SsT~~~~~~~~~i~Yg~Gs--~~G~~~~Dtv~ig~g   99 (395)
T 2qp8_A           22 GYYVEMTVGSPPQTLNILVDTGSSNFAVGAAPHPFLHRYYQRQLSSTYRDLRKGVYVPYTQGK--WEGELGTDLVSIPHG   99 (395)
T ss_dssp             EEEEEEEETTTTEEEEEEEETTCCCEEEECSCCTTCSCCCCGGGCTTCEEEEEEEEEECSSCE--EEEEEEEEEEECTTS
T ss_pred             eEEEEEEecCCCceEEEEEecCCCceEEECCCCccccCCcCcccCCCceeCCceEEEEECCcE--EEEEEEeEEEEECCC
Confidence            478899998  899999999999999874 334221111 111111111      13344444  3688888899998 4


Q ss_pred             E--EEeEEEEEec--------CCCCceeeeHHH
Q 016931          265 V--FYPCSFVVLD--------SPNMEFLFGLDM  287 (380)
Q Consensus       265 ~--~~~~~~~Vl~--------~~~~d~iLG~D~  287 (380)
                      .  .....|....        ....|+||||-+
T Consensus       100 ~~~~~~~~~~~~~~~~~~f~~~~~~dGIlGLg~  132 (395)
T 2qp8_A          100 PNVTVRANIAAITESDKFFINGSNWEGILGLAY  132 (395)
T ss_dssp             CSCEEEEEEEEEEEEESCSCTTCCCCEEEECSC
T ss_pred             CCceEEEEEEEEEccCcccccccCccceEEcCc
Confidence            2  2222232221        235799999875

>1tyg_B YJBS; alpha beta barrel, protein-protein complex, THis, BIOS protein; 3.15A {Bacillus subtilis} SCOP: d.15.3.2

Probab=84.39  E-value=1.4  Score=33.88  Aligned_cols=52  Identities=13%  Similarity=0.182  Sum_probs=38.8

Q ss_pred             EEeCCC-CCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931           15 LDVDPH-ETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS   71 (380)
Q Consensus        15 i~V~~~-~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~   71 (380)
                      ++++.. .||.+|.+.+    ++++....+..||..+..+ ...+.-+++||.|-++.
T Consensus        30 ~el~~~~~Tv~dLL~~L----~~~~~~vaVavNg~iV~~~-~~~~~~L~dGD~Vei~~   82 (87)
T 1tyg_B           30 VKWKKDTGTIQDLLASY----QLENKIVIVERNKEIIGKE-RYHEVELCDRDVIEIVH   82 (87)
T ss_dssp             ECCSSSCCBHHHHHHHT----TCTTSCCEEEETTEEECGG-GTTTSBCCSSSEEEEEE
T ss_pred             EECCCCCCcHHHHHHHh----CCCCCCEEEEECCEECChh-hcCCcCCCCCCEEEEEc
Confidence            556666 8999998875    6777777777899887533 34455689999998875

>1mpp_A Pepsin; hydrolase(acid proteinase); 2.00A {Rhizomucor pusillus} SCOP: b.50.1.2 PDB: 2asi_A* 2rmp_A*

Probab=84.35  E-value=1.3  Score=42.47  Aligned_cols=29  Identities=21%  Similarity=0.287  Sum_probs=25.7

Q ss_pred             CCceeeeHHHHhhcCeEEEcCCCEEEEcC
Q 016931          278 NMEFLFGLDMLRKHQCIIDLKENVLRVGG  306 (380)
Q Consensus       278 ~~d~iLG~D~L~~~~~~ID~~~~~l~i~~  306 (380)
                      ....|||-.||+.+-.+.|+.+++|-|..
T Consensus       325 ~~~~iLG~~fl~~~yvvfD~~~~~igfa~  353 (361)
T 1mpp_A          325 GNQFIVGNLFLRFFVNVYDFGKNRIGFAP  353 (361)
T ss_dssp             SSCCEEEHHHHTTEEEEEETTTTEEEEEE
T ss_pred             CCCEEEChHHhccEEEEEECCCCEEEEEE
Confidence            34689999999999999999999999964

>1pve_A HHR23B, UV excision repair protein RAD23 homolog B; XPC binding domain, solution structure, nucleotide excision repair, chaps, DNA binding protein; NMR {Homo sapiens} SCOP: a.189.1.1

Probab=84.27  E-value=0.55  Score=34.99  Aligned_cols=55  Identities=22%  Similarity=0.405  Sum_probs=32.6

Q ss_pred             HHHhcCHH--HHHHHhhcCHHHHHHhcCCCHHHHHHHHHHhHHHHHHHHHhhHHHHHHhhCCCcc
Q 016931           98 QHIRNDAN--LMTQLFQSDPELAQVLLGNDLNKLQDLLRERSRQRSELRRRQEEEMALLYADPFD  160 (380)
Q Consensus        98 q~~l~nP~--~l~qL~~~nP~La~ai~~~d~~~~~~~l~~~~~q~~~~~~~~~~el~~l~~dP~~  160 (380)
                      ..++++|.  .|+++.++||++...+.        +-+...+++..++..+..+++-.|++.|.+
T Consensus         7 ~~Lr~~Pqf~qlR~~vqqNP~lL~~lL--------qqL~~~NPqL~q~I~~n~e~Fl~ll~e~~~   63 (72)
T 1pve_A            7 EFLRNQPQFQQMRQIIQQNPSLLPALL--------QQIGRENPQLLQQISQHQEHFIQMLNEPVQ   63 (72)
T ss_dssp             GGGTTCTTTTTHHHHHTTCGGGHHHHH--------HHHHTTCHHHHHHHHTTHHHHHHHHHSCSC
T ss_pred             HHHHcChHHHHHHHHHHHCHHHHHHHH--------HHHHhHCHHHHHHHHHCHHHHHHHHcCCcc
Confidence            45667776  37888888998765542        223333355545544555566666666644

>2ewy_A Beta-secretase 2; BACE2, aspartic protease, hydrolase; HET: DBO; 3.10A {Homo sapiens}

Probab=84.23  E-value=2.6  Score=40.55  Aligned_cols=90  Identities=14%  Similarity=0.152  Sum_probs=53.5

Q ss_pred             eeEEeeeec--CeeEEEEEcCCccccccC-HHHHHHcCC-ccccCCcc------eeEeecCcceeEEeEEEEEeEEEcC-
Q 016931          196 MLYVDMEVN--GIPLKAFVDSGAQSTIIS-KSCAERCGL-LRLLDDRY------RGVAHGVGQSEILGRIHVAPIKIGN-  264 (380)
Q Consensus       196 ~lyv~v~In--g~~v~alVDTGA~~siIs-~~~a~rlgL-~~~~~~~~------~~~~~gvg~~~~~g~i~~~~i~ig~-  264 (380)
                      ..|+++.|.  .++++++||||++.+-+. ..|....+. .......+      ..+..|-|.  ..|.+....|.|++ 
T Consensus        14 ~Y~~~i~iGTP~q~~~v~~DTGSs~lWv~~~~c~~~~~~f~~~~SsT~~~~~~~~~i~Yg~Gs--~~G~~~~Dtv~i~~~   91 (383)
T 2ewy_A           14 GYYLEMLIGTPPQKLQILVDTGSSNFAVAGTPHSYIDTYFDTERSSTYRSKGFDVTVKYTQGS--WTGFVGEDLVTIPKG   91 (383)
T ss_dssp             EEEEEEEETTTTEEEEEEEETTCCCEEEECSCBTTBSCCCCGGGCTTCEEEEEEEEEECSSCE--EEEEEEEEEEEETTT
T ss_pred             cEEEEEEecCCCceEEEEEecCCCceEEecCCCCccccCcccccCccceeCCceEEEEECCcE--EEEEEEEEEEEECCC
Confidence            478999998  899999999999999774 344221111 11111111      123344444  47888888999985 


Q ss_pred             EE--EeEEEEEec--------CCCCceeeeHHH
Q 016931          265 VF--YPCSFVVLD--------SPNMEFLFGLDM  287 (380)
Q Consensus       265 ~~--~~~~~~Vl~--------~~~~d~iLG~D~  287 (380)
                      ..  ....|....        ....|+||||-+
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~~dGilGLg~  124 (383)
T 2ewy_A           92 FNTSFLVNIATIFESENFFLPGIKWNGILGLAY  124 (383)
T ss_dssp             EEEEEEEEEEEEEEEESCSCTTCCCCEEEECSC
T ss_pred             ccceeEEEEEEEEeecceeeccCcCceEEecCc
Confidence            22  222232221        135799999864

>1j71_A Candidapepsin, aspartic proteinase; candida tropicalis aspartic protease, SAPT1, hydrolase; 1.80A {Candida tropicalis} SCOP: b.50.1.2

Probab=83.87  E-value=3  Score=39.41  Aligned_cols=99  Identities=17%  Similarity=0.292  Sum_probs=57.2

Q ss_pred             eeecCee----EEEEEcCCccccccCHHHHHHcCCccccCCcceeEeec-Ccc-eeEEeEEEEEeEEE-cCEEEe-----
Q 016931          201 MEVNGIP----LKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHG-VGQ-SEILGRIHVAPIKI-GNVFYP-----  268 (380)
Q Consensus       201 v~Ing~~----v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~g-vg~-~~~~g~i~~~~i~i-g~~~~~-----  268 (380)
                      +.|+|+.    ..++||||.+.+.++.+.++++--  .+.....  ..+ .-. ..+. ......+.+ |+..+.     
T Consensus       202 i~v~g~~~~~~~~~iiDSGTt~~~lP~~~~~~l~~--~~~~~~~--~~~~~~~~~~C~-~~p~i~f~f~~g~~~~i~~~~  276 (334)
T 1j71_A          202 INFDGTSVSTNADVVLDSGTTITYFSQSTADKFAR--IVGATWD--SRNEIYRLPSCD-LSGDAVFNFDQGVKITVPLSE  276 (334)
T ss_dssp             EEETTEEEEEEEEEEECTTCSSEEECHHHHHHHHH--HHTCEEE--TTTTEEECSSSC-CCSEEEEEESTTCEEEEEGGG
T ss_pred             EEECCEeccCCccEEEeCCCCcEecCHHHHHHHHH--HcCCccc--CCCceEEEEcCC-CCCceEEEEcCCcEEEECHHH
Confidence            5577765    468999999999999988876521  0010000  000 000 0000 012223444 333222     


Q ss_pred             ----------EEEEEecCCCCceeeeHHHHhhcCeEEEcCCCEEEEcC
Q 016931          269 ----------CSFVVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRVGG  306 (380)
Q Consensus       269 ----------~~~~Vl~~~~~d~iLG~D~L~~~~~~ID~~~~~l~i~~  306 (380)
                                |-+.+...  ...|||-.||+.+-.+.|+.+++|-|..
T Consensus       277 y~~~~~~~~~C~~~i~~~--~~~iLG~~fl~~~y~vfD~~~~~igfA~  322 (334)
T 1j71_A          277 LILKDSDSSICYFGISRN--DANILGDNFLRRAYIVYDLDDKTISLAQ  322 (334)
T ss_dssp             GEEECSSSSCEEESEEEC--TTCEECHHHHTTEEEEEETTTTEEEEEE
T ss_pred             heeecCCCCeeEEEEeEC--CCcEEChHhhccEEEEEECCCCEEEEEe
Confidence                      32222222  2479999999999999999999999964

>1f0z_A THis protein; ubiquitin fold, transport protein; NMR {Escherichia coli} SCOP: d.15.3.2 PDB: 1zud_2

Probab=83.07  E-value=1.4  Score=31.62  Aligned_cols=61  Identities=18%  Similarity=0.247  Sum_probs=42.8

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS   71 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~   71 (380)
                      |+|+|   +|+.  +++....||.+|.+.+    ++++....+..||+.+..+ ...+.-+++||.|.++.
T Consensus         1 m~i~v---Ng~~--~~~~~~~tv~~ll~~l----~~~~~~v~vavN~~~v~~~-~~~~~~L~~gD~v~i~~   61 (66)
T 1f0z_A            1 MQILF---NDQA--MQCAAGQTVHELLEQL----DQRQAGAALAINQQIVPRE-QWAQHIVQDGDQILLFQ   61 (66)
T ss_dssp             CCEEE---SSCE--ECCCTTCCHHHHHHHH----TCCCSSEEEEETTEEECHH-HHTTCCCCTTEEECEEE
T ss_pred             CEEEE---CCEE--EEcCCCCcHHHHHHHc----CCCCCCEEEEECCEECCch-hcCCcCCCCCCEEEEEe
Confidence            55544   4554  4567778999999876    5667777777899877532 23345689999998874

>3pvk_A Candidapepsin-2; hydrolase; 1.27A {Candida albicans} SCOP: b.50.1.2 PDB: 1eag_A 3q70_A* 1zap_A* 2qzw_A 2h6t_A* 2h6s_A*

Probab=82.75  E-value=0.76  Score=43.61  Aligned_cols=101  Identities=17%  Similarity=0.260  Sum_probs=57.4

Q ss_pred             eeecCee-----EEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCc--ceeEEeEEEEEeEEEc-CEEEe----
Q 016931          201 MEVNGIP-----LKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVG--QSEILGRIHVAPIKIG-NVFYP----  268 (380)
Q Consensus       201 v~Ing~~-----v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg--~~~~~g~i~~~~i~ig-~~~~~----  268 (380)
                      +.|+|+.     ..++||||.+.+.++.+.++++--  .+.........|.+  ...+. ......+.++ +..+.    
T Consensus       201 i~v~g~~~~~~~~~~iiDSGtt~~~lP~~~~~~i~~--~~~~~~~~~~~~~~~~~~~C~-~~p~i~f~f~~g~~~~vp~~  277 (342)
T 3pvk_A          201 VEVSGKTINTDNVDVLLDSGTTITYLQQDLADQIIK--AFNGKLTQDSNGNSFYEVDCN-LSGDVVFNFSKNAKISVPAS  277 (342)
T ss_dssp             EEETTEEEEEEEEEEEECTTCSSEEECHHHHHHHHH--HTTCEEEECTTSCEEEEECSC-CCSEEEEEESTTCEEEEEGG
T ss_pred             EEECCEEecCCCceEEEeCCCCCeecCHHHHHHHHH--HcCCeecccCCCceEEEEecC-CCCceEEEECCCCEEEEcHH
Confidence            4577775     579999999999999988876521  00100000000000  00000 0122234444 22222    


Q ss_pred             ----------------EEEEEecCCCCceeeeHHHHhhcCeEEEcCCCEEEEcC
Q 016931          269 ----------------CSFVVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRVGG  306 (380)
Q Consensus       269 ----------------~~~~Vl~~~~~d~iLG~D~L~~~~~~ID~~~~~l~i~~  306 (380)
                                      |-+.+...  -..|||..||+.+-.+.|+.++++-|..
T Consensus       278 ~~~~~~~~~~g~~~~~C~~~i~~~--~~~ilG~~fl~~~y~vfD~~~~~igfA~  329 (342)
T 3pvk_A          278 EFAASLQGDDGQPYDKCQLLFDVN--DANILGDNFLRSAYIVYDLDDNEISLAQ  329 (342)
T ss_dssp             GGEEC----------CEEESEEEC--TTCEECHHHHTTEEEEEETTTTEEEEEE
T ss_pred             HheeeccccCCCcCCeeEEEEeeC--CCeEeCHHHHhcEEEEEECCCCEEEEEe
Confidence                            22222222  2469999999999999999999999964

>3psg_A Pepsinogen; hydrolase(acid proteinase zymogen); 1.65A {Sus scrofa} SCOP: b.50.1.2 PDB: 2psg_A 4pep_A* 3pep_A* 1f34_A* 1psa_A* 1yx9_A 5pep_A 1flh_A 1qrp_E* 1psn_A* 1pso_E* 3utl_A

Probab=82.72  E-value=4.6  Score=38.92  Aligned_cols=99  Identities=17%  Similarity=0.222  Sum_probs=58.0

Q ss_pred             eeecCee------EEEEEcCCccccccCHHHHHHc----CCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEeE-
Q 016931          201 MEVNGIP------LKAFVDSGAQSTIISKSCAERC----GLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPC-  269 (380)
Q Consensus       201 v~Ing~~------v~alVDTGA~~siIs~~~a~rl----gL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~~-  269 (380)
                      +.|+|..      ..++||||.+.+.++.+.++.+    |........+   ...+...   .......+.+|+..+++ 
T Consensus       241 i~v~g~~~~~~~~~~aiiDTGTs~~~lP~~~~~~i~~~i~a~~~~~g~~---~v~C~~~---~~lP~i~f~~~g~~~~l~  314 (370)
T 3psg_A          241 ITMDGETIACSGGCQAIVDTGTSLLTGPTSAIANIQSDIGASENSDGEM---VISCSSI---DSLPDIVFTIDGVQYPLS  314 (370)
T ss_dssp             EESSSSEEECTTCEEEEECTTCCSEEEEHHHHHHHHHHTTCEECTTCCE---ECCGGGG---GGCCCEEEEETTEEEEEC
T ss_pred             EEECCEEEecCCCceEEEcCCCCcEECCHHHHHHHHHHhCCcccCCCcE---EEECCCc---ccCCcEEEEECCEEEEEC
Confidence            3467653      5799999999999998887765    3211000000   0001100   01123345556644432 


Q ss_pred             ------------EEEE--ecC---CCCceeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931          270 ------------SFVV--LDS---PNMEFLFGLDMLRKHQCIIDLKENVLRVG  305 (380)
Q Consensus       270 ------------~~~V--l~~---~~~d~iLG~D~L~~~~~~ID~~~~~l~i~  305 (380)
                                  -+.+  .+.   .+...|||-.||+.+-.+.|+.++++-|.
T Consensus       315 ~~~yi~~~~~~C~~~~~~~~~~~~~~~~~ILG~~Fl~~~y~vfD~~~~riGfA  367 (370)
T 3psg_A          315 PSAYILQDDDSCTSGFEGMDVPTSSGELWILGDVFIRQYYTVFDRANNKVGLA  367 (370)
T ss_dssp             HHHHEEECSSCEEESEEEECCCTTSCCEEEECHHHHTTEEEEEETTTTEEEEE
T ss_pred             HHHhcccCCCEEEEEEEeCCCCCCCCCcEEeChHHhcceEEEEECCCCEEEEE
Confidence                        2222  221   12238999999999999999999999885

>3kuz_A Plexin-C1; structural genomics, structural genomics consortium, SGC; 2.30A {Homo sapiens}

Probab=82.12  E-value=9  Score=31.46  Aligned_cols=62  Identities=15%  Similarity=0.237  Sum_probs=42.8

Q ss_pred             CEEEEEeCCCCCHHHHHHHHHHH----hCCCC----cCeEEec-CC---eecC----------Cc----ccchhcCCCCC
Q 016931           11 QIISLDVDPHETVENVKALLEVE----TQVPL----QQQQLLY-NG---REMN----------NA----EKLSALGVKDE   64 (380)
Q Consensus        11 ~~~~i~V~~~~TV~~LK~~I~~~----~gip~----~~q~Li~-~G---k~L~----------D~----~tL~~~gI~dg   64 (380)
                      ..+.+.|-..+||.++|++|-..    .|+|-    +.+.|-| .|   .+|.          +.    .||+.|+|.||
T Consensus        39 ~~v~VkVLdCDTItQVKEKILdavYk~k~~pys~r~~d~dLEwr~g~~~~~L~D~D~tS~~~e~~wkrLNTL~HY~V~Dg  118 (126)
T 3kuz_A           39 RNISVNVLDCDTIGQAKEKIFQAFLSKNGSPYGLQLNEIGLELQMGTRQKELLDIDSSSVILEDGITKLNTIGHYEISNG  118 (126)
T ss_dssp             CEEEEEEETTCBHHHHHHHHHHHHHHHHSSCCSSCGGGEEEEEEETTEEEEECSSCTTCCBCTTSCBCCCBTGGGTCCTT
T ss_pred             CceEeeeecCCcHHHHHHHHHHHHhccCCCcCCCCccccceEEecCCCcceeeccCCcceEecCCeeEeccccccCCCCC
Confidence            45788888899999999988654    36654    3444544 12   2232          21    37899999999


Q ss_pred             cEEEEeec
Q 016931           65 DLVMMVSN   72 (380)
Q Consensus        65 ~~I~l~~~   72 (380)
                      .+|-++++
T Consensus       119 atlal~kk  126 (126)
T 3kuz_A          119 STIKVFKK  126 (126)
T ss_dssp             CEEEEEEC
T ss_pred             CEEEEeeC
Confidence            99988753

---

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	380
d2bwfa1	73	d.15.1.1 (A:2-74) DSK2 {Baker's yeast (Saccharomyc	2e-14
d1v5oa_	102	d.15.1.1 (A:) 1700011n24rik protein {Mouse (Mus mu	3e-14
d1oqya4	77	d.15.1.1 (A:1-77) Ubiquitin-like domain of Rad23 h	3e-14
d1ogwa_	76	d.15.1.1 (A:) Ubiquitin {Human (Homo sapiens) [Tax	4e-14
d1wx9a1	73	d.15.1.1 (A:8-80) Large proline-rich protein BAT3	2e-13
d1bt0a_	73	d.15.1.1 (A:) Rub1 {Mouse-ear cress (Arabidopsis t	2e-13
d1wxva1	81	d.15.1.1 (A:7-87) Bag-family molecular chaperone r	5e-13
d1z2ma2	76	d.15.1.1 (A:79-154) Interferon-induced 15 kDa prot	6e-13
d1v5ta_	90	d.15.1.1 (A:) 8430435i17rik protein {Mouse (Mus mu	8e-13
d1wgga_	96	d.15.1.1 (A:) Ubiquitin carboxyl-terminal hydrolas	1e-12
d1uela_	95	d.15.1.1 (A:) Ubiquitin-like domain of Rad23 homol	2e-12
d1wh3a_	87	d.15.1.1 (A:) 2'-5'-oligoadenylate synthetase-like	2e-12
d1wiaa_	95	d.15.1.1 (A:) Ubiquitin-like protein bab25500 (201	6e-12
d1wgda_	93	d.15.1.1 (A:) Homocysteine-responsive endoplasmic	7e-12
d1v86a_	95	d.15.1.1 (A:) hypothetical D7wsu128e protein {Mous	8e-12
d1zkha1	86	d.15.1.1 (A:1-86) Splicing factor 3 subunit 1, C-t	1e-11
d1wx8a1	83	d.15.1.1 (A:8-90) 4931431F19Rik {Mouse (Mus muscul	4e-11
d1wy8a1	76	d.15.1.1 (A:8-83) Ubiquitin-like PHD and RING fing	5e-11
d1yqba1	84	d.15.1.1 (A:15-98) Ubiquilin-3 {Human (Homo sapien	7e-11
d1wjua_	100	d.15.1.1 (A:) NEDD8 ultimate buster-1, NUB1 {Human	9e-11
d1j8ca_	103	d.15.1.1 (A:) Ubiquitin-like N-terminal domain of	1e-10
d1v2ya_	105	d.15.1.1 (A:) Ubiquitin-like protein 3300001g02rik	1e-10
d1z2ma1	76	d.15.1.1 (A:3-78) Interferon-induced 15 kDa protei	2e-10
d2zeqa1	78	d.15.1.1 (A:1-78) Ubiquitin-like domain of parkin	5e-10
d2c9wb1	103	d.15.1.1 (B:2-104) Elongin B {Human (Homo sapiens)	6e-10
d1wjna_	97	d.15.1.1 (A:) Tubulin-folding protein TbcE {Mouse	1e-09
d2faza1	76	d.15.1.1 (A:1-76) Ubiquitin-like PHD and RING fing	1e-09
d2uyzb1	77	d.15.1.1 (B:20-96) SUMO-1 (smt3 homologue) {Human	2e-09
d1v6ea_	95	d.15.1.1 (A:) Ubiquitin-like domain of tubulin fol	2e-09
d1wgha_	116	d.15.1.1 (A:) Ubiquitin-like protein 3, Ubl3 {Mous	3e-09
d1uh6a_	100	d.15.1.1 (A:) Ubiquitin-like protein 5, ubl5 {Mous	4e-09
d1ttna1	80	d.15.1.1 (A:21-100) Dendritic cell-derived ubiquit	6e-09
d1euvb_	79	d.15.1.1 (B:) SUMO-1 (smt3 homologue) {Baker's yea	8e-08
d1m94a_	73	d.15.1.1 (A:) Ubiquitin-like modifier protein hub1	9e-08
d1t0ya_	90	d.15.1.1 (A:) Ubiquitin-like domain of tubulin fol	8e-07
d1se9a_	101	d.15.1.1 (A:) Hypothetical protein At3g01050 {Thal	5e-06
d1x1ma1	94	d.15.1.1 (A:8-101) Ubiquitin-like protein 7 {Mouse	4e-05
d1wm3a_	72	d.15.1.1 (A:) SUMO-2 {Human (Homo sapiens) [TaxId:	0.002
d2fmba_	104	b.50.1.1 (A:) EIAV protease {Equine infectious ane	0.004

>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 = 65.2 bits (159), Expect = 2e-14
 Identities = 14/70 (20%), Positives = 36/70 (51%), Gaps = 1/70 (1%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          + I + +  ++   ++V P  TV   K  +     +P+  Q+L+Y+G+ + + + + +  
Sbjct: 2  LNIHIKSGQDKW-EVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESYH 60

Query: 61 VKDEDLVMMV 70
          ++D   V +V
Sbjct: 61 IQDGHSVHLV 70

>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 = 66.2 bits (161), Expect = 3e-14
 Identities = 26/95 (27%), Positives = 44/95 (46%), Gaps = 7/95 (7%)

Query: 1   MRITVM----TADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEK- 55
           M ITV        E   SL V+P   + N + L E+E+ VP ++ Q++Y  + + +    
Sbjct: 8   MLITVYCVRRDLTEVTFSLQVNPDFELSNFRVLCELESGVPAEEAQIVYMEQLLTDDHCS 67

Query: 56  LSALGVKDEDLVMMV--SNAASSPATNNLSFNPDG 88
           L + G+KD D+V+++   N          S    G
Sbjct: 68  LGSYGLKDGDMVVLLQKDNVGLRTPGRTPSGPSSG 102

>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 = 65.3 bits (159), Expect = 3e-14
 Identities = 19/75 (25%), Positives = 43/75 (57%), Gaps = 4/75 (5%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVE---TQVPLQQQQLLYNGREMNNAEKLS 57
          + IT+ T  +Q   + ++P ETV+ +K  +E E      P+  Q+L+Y G+ +++   + 
Sbjct: 3  VTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIR 62

Query: 58 ALGVKDED-LVMMVS 71
             + +++ +V+MV+
Sbjct: 63 DYRIDEKNFVVVMVT 77

>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 = 64.6 bits (157), Expect = 4e-14
 Identities = 23/70 (32%), Positives = 45/70 (64%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M+I V T   + I+L+V+P +T+ENVKA ++ +  +P  QQ+L++ G+++ +   LS   
Sbjct: 1  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60

Query: 61 VKDEDLVMMV 70
          ++ E  + +V
Sbjct: 61 IQKESTLHLV 70

>d1wx9a1 d.15.1.1 (A:8-80) Large proline-rich protein BAT3 {Human (Homo sapiens) [TaxId: 9606]} Length = 73

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

 Score = 62.9 bits (153), Expect = 2e-13
 Identities = 16/71 (22%), Positives = 33/71 (46%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          + + V T D Q  +  V     V+  K  +     +P ++Q+L+Y GR + + +KL    
Sbjct: 1  LEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEYN 60

Query: 61 VKDEDLVMMVS 71
          V  + + ++  
Sbjct: 61 VGGKVIHLVER 71

>d1bt0a_ d.15.1.1 (A:) Rub1 {Mouse-ear cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 73

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

 Score = 62.6 bits (152), Expect = 2e-13
 Identities = 17/70 (24%), Positives = 40/70 (57%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M I V T   + I +D++P +T++ +K  +E +  +P  QQ+L+Y G+++ + +      
Sbjct: 1  MLIKVKTLTGKEIEIDIEPTDTIDRIKERVEEKEGIPPVQQRLIYAGKQLADDKTAKDYN 60

Query: 61 VKDEDLVMMV 70
          ++   ++ +V
Sbjct: 61 IEGGSVLHLV 70

>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 = 61.8 bits (150), Expect = 5e-13
 Identities = 21/80 (26%), Positives = 40/80 (50%), Gaps = 5/80 (6%)

Query: 1  MRITVMTADE----QIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEK- 55
          + +TV  ++E     + S        V+++  ++E    VP   Q+L++ G+ +   E  
Sbjct: 2  LTVTVTHSNEKHDLHVTSQQGSSEPVVQDLAQVVEEVIGVPQSFQKLIFKGKSLKEMETP 61

Query: 56 LSALGVKDEDLVMMVSNAAS 75
          LSALG++D   VM++    S
Sbjct: 62 LSALGIQDGCRVMLIGKKNS 81

>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 = 61.4 bits (149), Expect = 6e-13
 Identities = 14/70 (20%), Positives = 27/70 (38%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          + I V     +  + +V   +TV ++K  +     V      L + G+ + +   L   G
Sbjct: 4  LSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYG 63

Query: 61 VKDEDLVMMV 70
          +K    V M 
Sbjct: 64 LKPLSTVFMN 73

>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 = 61.5 bits (149), Expect = 8e-13
 Identities = 22/82 (26%), Positives = 39/82 (47%), Gaps = 3/82 (3%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYN---GREMNNAEKLS 57
          + I V    ++     +   +TV ++K  L+  T V  ++Q+LL     G+   N  KL 
Sbjct: 8  LPIIVKWGGQEYSVTTLSEDDTVLDLKQFLKTLTGVLPERQKLLGLKVKGKPAENDVKLG 67

Query: 58 ALGVKDEDLVMMVSNAASSPAT 79
          AL +K    +MM+    S P++
Sbjct: 68 ALKLKPNTKIMMMGTRESGPSS 89

>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 = 61.6 bits (149), Expect = 1e-12
 Identities = 16/79 (20%), Positives = 36/79 (45%), Gaps = 1/79 (1%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
            +TV    E+   ++++  E     KA L   T V   +Q+++  G  + + +    + 
Sbjct: 8  YSVTVKWGKEKFEGVELNTDEPPMVFKAQLFALTGVQPARQKVMVKGGTLKD-DDWGNIK 66

Query: 61 VKDEDLVMMVSNAASSPAT 79
          +K+   V+M+ +A + P  
Sbjct: 67 MKNGMTVLMMGSADALPEE 85

>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 = 60.8 bits (147), Expect = 2e-12
 Identities = 26/89 (29%), Positives = 49/89 (55%), Gaps = 6/89 (6%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQ---VPLQQQQLLYNGREMNNAEKLS 57
          M++T+ T  +Q   +D+DP ETV+ +K  +E E      P+  Q+L+Y G+ +N+   L 
Sbjct: 1  MQVTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALK 60

Query: 58 ALGVKDEDLVMMV---SNAASSPATNNLS 83
             + +++ V+++     A S+PA   L 
Sbjct: 61 EYKIDEKNFVVVMVTKPKAVSTPAPATLE 89

>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 = 60.3 bits (146), Expect = 2e-12
 Identities = 17/79 (21%), Positives = 41/79 (51%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          +++ V   D    +  ++P+  +  +K  +E +  +P +QQQL + G+ + +   L   G
Sbjct: 8  IQVFVKNPDGGSYAYAINPNSFILGLKQQIEDQQGLPKKQQQLEFQGQVLQDWLGLGIYG 67

Query: 61 VKDEDLVMMVSNAASSPAT 79
          ++D D +++     S P++
Sbjct: 68 IQDSDTLILSKKKGSGPSS 86

>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 = 59.2 bits (143), Expect = 6e-12
 Identities = 16/86 (18%), Positives = 36/86 (41%), Gaps = 8/86 (9%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEK-LSAL 59
          + + +   ++        P +TV  +K+           Q +L+Y GR + +  + LS+L
Sbjct: 8  INVRLKFLNDTEELAVARPEDTVGTLKSKYF---PGQESQMKLIYQGRLLQDPARTLSSL 64

Query: 60 GVKDED-LVMMVS---NAASSPATNN 81
           + +   +    S    A S P+ ++
Sbjct: 65 NITNNCVIHCHRSPPGAAVSGPSASS 90

>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 = 59.1 bits (143), Expect = 7e-12
 Identities = 19/85 (22%), Positives = 42/85 (49%), Gaps = 6/85 (7%)

Query: 1  MRITVMTADEQI--ISLDVDPHETVENVKALLE--VETQVPLQQQQLLYNGREMNNAEKL 56
          + + V + +++   + L  D   +V ++KA L      +   + Q+L+Y+G+ + + + L
Sbjct: 8  VTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLLDHQCL 67

Query: 57 SALGVKDEDL--VMMVSNAASSPAT 79
            L  K E    + +V N  S P++
Sbjct: 68 RDLLPKQEKRHVLHLVCNVKSGPSS 92

>d1v86a_ d.15.1.1 (A:) hypothetical D7wsu128e protein {Mouse (Mus musculus) [TaxId: 10090]} Length = 95

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: hypothetical D7wsu128e protein
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 58.8 bits (142), Expect = 8e-12
 Identities = 14/79 (17%), Positives = 35/79 (44%), Gaps = 2/79 (2%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          + + ++  ++    + V    T   +K  +   T +P   Q+++Y G    + + L  + 
Sbjct: 18 VDLKIIW-NKTKHDVKVPLDSTGSELKQKIHSITGLPPAMQKVMYKGLVPED-KTLREIK 75

Query: 61 VKDEDLVMMVSNAASSPAT 79
          V     +M+V +  S P++
Sbjct: 76 VTSGAKIMVVGSTISGPSS 94

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

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

 Score = 58.0 bits (140), Expect = 1e-11
 Identities = 10/60 (16%), Positives = 28/60 (46%)

Query: 11 QIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMV 70
          Q++   +   + V  +K  +   T +P  +Q+L Y G  + ++  L+   + +  ++ + 
Sbjct: 22 QVLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDSNSLAYYNMANGAVIHLA 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 = 56.5 bits (136), Expect = 4e-11
 Identities = 13/70 (18%), Positives = 29/70 (41%), Gaps = 1/70 (1%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          +R++V T  +      +  +  V   K  +         +  L++ G+ + + + LS  G
Sbjct: 11 IRVSVKTPQDCH-EFFLAENSNVRRFKKQISKYLHCNADRLVLIFTGKILRDQDILSQRG 69

Query: 61 VKDEDLVMMV 70
          + D   V +V
Sbjct: 70 ILDGSTVHVV 79

>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 = 56.1 bits (135), Expect = 5e-11
 Identities = 18/72 (25%), Positives = 32/72 (44%), Gaps = 2/72 (2%)

Query: 1  MRITVMTAD--EQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSA 58
          M I V T D  +     DV    T+E ++  +     V  + Q+L Y G+++ N   L  
Sbjct: 1  MWIQVRTIDGSKTCTIEDVSRKATIEELRERVWALFDVRPECQRLFYRGKQLENGYTLFD 60

Query: 59 LGVKDEDLVMMV 70
            V   D++ ++
Sbjct: 61 YDVGLNDIIQLL 72

>d1yqba1 d.15.1.1 (A:15-98) Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]} Length = 84

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

 Score = 55.8 bits (134), Expect = 7e-11
 Identities = 15/70 (21%), Positives = 34/70 (48%), Gaps = 1/70 (1%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          +++TV T  ++     V    T++ +K  +    +    Q  L++ G+ + + + L+  G
Sbjct: 8  IKVTVKTPKDKE-DFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQCG 66

Query: 61 VKDEDLVMMV 70
          V+D   V +V
Sbjct: 67 VRDGLTVHLV 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 = 56.1 bits (135), Expect = 9e-11
 Identities = 9/80 (11%), Positives = 32/80 (40%), Gaps = 1/80 (1%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          + +      ++   L+   H T   +++ +     +     +++ N +++   + L   G
Sbjct: 20 VFLPPRLKKDRKNLLETRLHITGRELRSKIAETFGLQENYIKIVINKKQLQLGKTLEEQG 79

Query: 61 VKDED-LVMMVSNAASSPAT 79
          V      +++    +S P++
Sbjct: 80 VAHNVKAMVLELKQSSGPSS 99

>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 = 56.1 bits (135), Expect = 1e-10
 Identities = 15/70 (21%), Positives = 32/70 (45%), Gaps = 1/70 (1%)

Query: 1   MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
           +++TV T  E+     V  + +V+  K  +    +    Q  L++ G+ + + + L   G
Sbjct: 33  IKVTVKTPKEKE-EFAVPENSSVQQFKEAISKRFKSQTDQLVLIFAGKILKDQDTLIQHG 91

Query: 61  VKDEDLVMMV 70
           + D   V +V
Sbjct: 92  IHDGLTVHLV 101

>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 = 55.8 bits (134), Expect = 1e-10
 Identities = 15/86 (17%), Positives = 37/86 (43%), Gaps = 16/86 (18%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQ---------------QLLY 45
          M + V   D +++ + V  + TV ++K  ++   Q+  +++                L  
Sbjct: 8  MTVRVCKMDGEVMPVVVVQNATVLDLKKAIQRYVQLKQEREGGVQHISWSYVWRTYHLTS 67

Query: 46 NGREM-NNAEKLSALGVKDEDLVMMV 70
           G ++  + +KL   G+++ D V  +
Sbjct: 68 AGEKLTEDRKKLRDYGIRNRDEVSFI 93

>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 = 54.1 bits (130), Expect = 2e-10
 Identities = 14/70 (20%), Positives = 30/70 (42%), Gaps = 2/70 (2%)

Query: 3  ITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYN--GREMNNAEKLSALG 60
          +TV         + +    +V  +KA +  +  V   QQ+L  +  G  + +   L++ G
Sbjct: 3  LTVKMLAGNEFQVSLSSSMSVSELKAQITQKIGVHAFQQRLAVHPSGVALQDRVPLASQG 62

Query: 61 VKDEDLVMMV 70
          +     V++V
Sbjct: 63 LGPGSTVLLV 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 = 53.4 bits (128), Expect = 5e-10
 Identities = 13/70 (18%), Positives = 33/70 (47%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          M + V         ++VD   ++  +K ++     VP  Q ++++ G+E+ N   +    
Sbjct: 3  MIVFVRFNSSYGFPVEVDSDTSILQLKEVVAKRQGVPADQLRVIFAGKELPNHLTVQNCD 62

Query: 61 VKDEDLVMMV 70
          ++ + +V +V
Sbjct: 63 LEQQSIVHIV 72

>d2c9wb1 d.15.1.1 (B:2-104) Elongin B {Human (Homo sapiens) [TaxId: 9606]} Length = 103

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

 Score = 53.7 bits (129), Expect = 6e-10
 Identities = 18/87 (20%), Positives = 37/87 (42%), Gaps = 7/87 (8%)

Query: 3  ITVMTADEQ-IISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGV 61
          + +M    +  I  D     TV  +K ++E   + P  +Q+L  + + +++ + L   G 
Sbjct: 2  VFLMIRRHKTTIFTDAKESSTVFELKRIVEGILKRPPDEQRLYKDDQLLDDGKTLGECGF 61

Query: 62 KDEDLVMMVSNAASSPATNNLSFNPDG 88
            +      +    +PAT  L+F  D 
Sbjct: 62 TSQ------TARPQAPATVGLAFRADD 82

>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 = 52.6 bits (126), Expect = 1e-09
 Identities = 21/89 (23%), Positives = 38/89 (42%), Gaps = 14/89 (15%)

Query: 1  MRITVM-----TADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREM----- 50
            +T+        + QI+   +    TV+ VK LL    +VP+ +  L Y   +M     
Sbjct: 8  QLLTLKIKCSNQPERQILEKQLPDSMTVQKVKGLLSRLLKVPVSELLLSYESSKMPGREI 67

Query: 51 ---NNAEKLSALGVKDED-LVMMVSNAAS 75
             N+ + L    V++ D L++  S  +S
Sbjct: 68 ELENDLQPLQFYSVENGDCLLVRWSGPSS 96

>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 = 52.2 bits (125), Expect = 1e-09
 Identities = 16/72 (22%), Positives = 30/72 (41%), Gaps = 2/72 (2%)

Query: 1  MRITVMTAD--EQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSA 58
          M I V T D  +      +     VE ++  ++    V    Q+L Y G++M +   L  
Sbjct: 1  MWIQVRTMDGRQTHTVDSLSRLTKVEELRRKIQELFHVEPGLQRLFYRGKQMEDGHTLFD 60

Query: 59 LGVKDEDLVMMV 70
            V+  D + ++
Sbjct: 61 YEVRLNDTIQLL 72

>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 = 51.7 bits (124), Expect = 2e-09
 Identities = 13/70 (18%), Positives = 32/70 (45%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          +++ V+  D   I   V     ++ +K        VP+   + L+ G+ + +      LG
Sbjct: 3  IKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELG 62

Query: 61 VKDEDLVMMV 70
          +++ED++ + 
Sbjct: 63 MEEEDVIEVY 72

>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 = 51.8 bits (124), Expect = 2e-09
 Identities = 12/87 (13%), Positives = 29/87 (33%), Gaps = 8/87 (9%)

Query: 1  MRITVMT-ADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGRE-------MNN 52
          + + + +  +            T+   K  LE+    P    +L   G +          
Sbjct: 8  VMVFISSSLNSFRSEKRYSRSLTIAEFKCKLELVVGSPASCMELELYGADDKFYSKLDQE 67

Query: 53 AEKLSALGVKDEDLVMMVSNAASSPAT 79
             L +  V D   + ++ ++ S P++
Sbjct: 68 DALLGSYPVDDGCRIHVIDHSGSGPSS 94

>d1wgha_ d.15.1.1 (A:) Ubiquitin-like protein 3, Ubl3 {Mouse (Mus musculus) [TaxId: 10090]} Length = 116

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

 Score = 52.3 bits (125), Expect = 3e-09
 Identities = 10/99 (10%), Positives = 30/99 (30%), Gaps = 11/99 (11%)

Query: 1   MRITVMTADEQIISLDVDPHETVENVKALLEVE--------TQVPLQQQQLLYNGREMNN 52
           + + ++    +       P+++  ++   +                   +L+Y GR ++ 
Sbjct: 17  INLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHG 76

Query: 53  AEKLSALGVKDED---LVMMVSNAASSPATNNLSFNPDG 88
              L AL +       + ++       P +      P  
Sbjct: 77  NVTLGALKLPFGKTTVMHLVARETLPEPNSQGQRSGPSS 115

>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 = 51.5 bits (123), Expect = 4e-09
 Identities = 7/70 (10%), Positives = 24/70 (34%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          + +       + + +  +  +T+ ++K L+  +T     +  L        +   L    
Sbjct: 29 IEVVCNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTRWNKIVLKKWYTIFKDHVSLGDYE 88

Query: 61 VKDEDLVMMV 70
          + D   + + 
Sbjct: 89 IHDGMNLELY 98

>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 = 50.3 bits (120), Expect = 6e-09
 Identities = 16/80 (20%), Positives = 35/80 (43%), Gaps = 3/80 (3%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
           ++ +  +  + + L V   +TV ++K  L     V    Q+  ++GR + +  K   L 
Sbjct: 4  CQLRLRLSTGKDLKLVVRSTDTVFHMKRRLHAAEGVEPGSQRWFFSGRPLTDKMKFEELK 63

Query: 61 VKDEDLVMMVSNAASSPATN 80
          +  + +V ++    S P  N
Sbjct: 64 IPKDYVVQVI---VSQPVQN 80

>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 = 47.1 bits (112), Expect = 8e-08
 Identities = 8/70 (11%), Positives = 23/70 (32%), Gaps = 1/70 (1%)

Query: 2  RITV-MTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
           I + ++     I   +     +  +           +   + LY+G  +   +    L 
Sbjct: 4  HINLKVSDGSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLD 63

Query: 61 VKDEDLVMMV 70
          ++D D++   
Sbjct: 64 MEDNDIIEAH 73

>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 = 46.6 bits (110), Expect = 9e-08
 Identities = 9/69 (13%), Positives = 26/69 (37%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          + + V     + + +     ++V + K +L ++      +  L   G  + +   L    
Sbjct: 2  IEVVVNDRLGKKVRVKCLAEDSVGDFKKVLSLQIGTQPNKIVLQKGGSVLKDHISLEDYE 61

Query: 61 VKDEDLVMM 69
          V D+  + +
Sbjct: 62 VHDQTNLEL 70

>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 = 44.5 bits (105), Expect = 8e-07
 Identities = 10/61 (16%), Positives = 23/61 (37%), Gaps = 7/61 (11%)

Query: 17 VDPHETVENVKALLEVETQVPLQQQQLLYNGRE-------MNNAEKLSALGVKDEDLVMM 69
               ++ ++K  LE+     +   ++     +        + A+ L  LGV+D   +  
Sbjct: 22 YPAGMSLNDLKKKLELVVGTTVDSMRIQLFDGDDQLKGELTDGAKSLKDLGVRDGYRIHA 81

Query: 70 V 70
          V
Sbjct: 82 V 82

>d1se9a_ d.15.1.1 (A:) Hypothetical protein At3g01050 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 101

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Hypothetical protein At3g01050
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 42.6 bits (100), Expect = 5e-06
 Identities = 12/79 (15%), Positives = 26/79 (32%), Gaps = 8/79 (10%)

Query: 1  MRITVMTAD-EQIISLDVDPHETVENVKALLEVETQVPLQ-------QQQLLYNGREMNN 52
          + I     D   I         TV  +K  +  E     +       + +L+  G+ + N
Sbjct: 8  LEIKFRLTDGSDIGPKAFPDATTVSALKETVISEWPREKENGPKTVKEVKLISAGKVLEN 67

Query: 53 AEKLSALGVKDEDLVMMVS 71
          ++ +        +L   V+
Sbjct: 68 SKTVKDYRSPVSNLAGAVT 86

>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 = 39.8 bits (93), Expect = 4e-05
 Identities = 11/70 (15%), Positives = 30/70 (42%), Gaps = 3/70 (4%)

Query: 4  TVMTADEQIISLDVDPHETVENVKALLEV---ETQVPLQQQQLLYNGREMNNAEKLSALG 60
          +++   E  +        ++  +K L+     E+    +   L+Y GR++ + + L   G
Sbjct: 21 SILQLPETELGEYSLGGYSISFLKQLIAGKLQESVPDPELIDLIYCGRKLKDDQTLDFYG 80

Query: 61 VKDEDLVMMV 70
          ++    V ++
Sbjct: 81 IQPGSTVHVL 90

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

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

 Score = 34.3 bits (79), Expect = 0.002
 Identities = 10/67 (14%), Positives = 30/67 (44%)

Query: 1  MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALG 60
          + + V   D  ++   +  H  +  +         + ++Q +  ++G+ +N  +  + L 
Sbjct: 2  INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLE 61

Query: 61 VKDEDLV 67
          ++DED +
Sbjct: 62 MEDEDTI 68

>d2fmba_ b.50.1.1 (A:) EIAV protease {Equine infectious anemia virus [TaxId: 11665]} Length = 104

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Retroviral protease (retropepsin)
domain: EIAV protease
species: Equine infectious anemia virus [TaxId: 11665]

 Score = 34.3 bits (79), Expect = 0.004
 Identities = 20/100 (20%), Positives = 39/100 (39%), Gaps = 7/100 (7%)

Query: 199 VDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVA 258
             + +N  PL   +D+GA +++++ +   R   L+    +Y+G   G     +       
Sbjct: 11  TIVLINDTPLNVLLDTGADTSVLTTAHYNR---LKYRGRKYQGTGIGGVGGNVETFSTPV 67

Query: 259 PIKIGNVFYPCSFVVLDSP-NMEFLFGLDMLRKHQCIIDL 297
            IK          +V D P     + G D+L+     + L
Sbjct: 68  TIKKKGRHIKTRMLVADIPVT---ILGRDILQDLGAKLVL 104

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	380
d1wh3a_	87	2'-5'-oligoadenylate synthetase-like protein, OASL	99.77
d1bt0a_	73	Rub1 {Mouse-ear cress (Arabidopsis thaliana) [TaxI	99.77
d1ogwa_	76	Ubiquitin {Human (Homo sapiens) [TaxId: 9606]}	99.76
d2zeqa1	78	Ubiquitin-like domain of parkin {Mouse (Mus muscul	99.75
d1z2ma2	76	Interferon-induced 15 kDa protein {Human (Homo sap	99.74
d2faza1	76	Ubiquitin-like PHD and RING finger domain-containi	99.73
d1uela_	95	Ubiquitin-like domain of Rad23 homolog B (Hhr23B)	99.73
d1wx9a1	73	Large proline-rich protein BAT3 {Human (Homo sapie	99.73
d1wy8a1	76	Ubiquitin-like PHD and RING finger domain-containi	99.73
d1ttna1	80	Dendritic cell-derived ubiquitin-like protein {Hum	99.73
d1m94a_	73	Ubiquitin-like modifier protein hub1 {Baker's yeas	99.72
d2bwfa1	73	DSK2 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.71
d1z2ma1	76	Interferon-induced 15 kDa protein {Human (Homo sap	99.71
d1v5oa_	102	1700011n24rik protein {Mouse (Mus musculus) [TaxId	99.71
d1oqya4	77	Ubiquitin-like domain of Rad23 homolog A (Hhr23a)	99.7
d1yqba1	84	Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]}	99.69
d1wgga_	96	Ubiquitin carboxyl-terminal hydrolase 14 {Mouse (M	99.65
d1j8ca_	103	Ubiquitin-like N-terminal domain of PLIC-2 {Human	99.65
d1uh6a_	100	Ubiquitin-like protein 5, ubl5 {Mouse (Mus musculu	99.65
d1wx8a1	83	4931431F19Rik {Mouse (Mus musculus) [TaxId: 10090]	99.64
d1v2ya_	105	Ubiquitin-like protein 3300001g02rik {Mouse (Mus m	99.61
d1wiaa_	95	Ubiquitin-like protein bab25500 (2010008E23Rik) {M	99.59
d1v5ta_	90	8430435i17rik protein {Mouse (Mus musculus) [TaxId	99.59
d1zkha1	86	Splicing factor 3 subunit 1, C-terminal domain {Hu	99.58
d1v86a_	95	hypothetical D7wsu128e protein {Mouse (Mus musculu	99.57
d1wjua_	100	NEDD8 ultimate buster-1, NUB1 {Human (Homo sapiens	99.57
d1wxva1	81	Bag-family molecular chaperone regulator-1 {Human	99.57
d1se9a_	101	Hypothetical protein At3g01050 {Thale cress (Arabi	99.56
d1wgha_	116	Ubiquitin-like protein 3, Ubl3 {Mouse (Mus musculu	99.56
d1wgda_	93	Homocysteine-responsive endoplasmic reticulum-resi	99.54
d1v6ea_	95	Ubiquitin-like domain of tubulin folding cofactor	99.49
d1we6a_	111	Splicing factor 3 subunit 1, C-terminal domain {Th	99.49
d2c9wb1	103	Elongin B {Human (Homo sapiens) [TaxId: 9606]}	99.35
d1wjna_	97	Tubulin-folding protein TbcE {Mouse (Mus musculus)	99.32
d1t0ya_	90	Ubiquitin-like domain of tubulin folding cofactor	99.23
d1euvb_	79	SUMO-1 (smt3 homologue) {Baker's yeast (Saccharomy	99.2
d1x1ma1	94	Ubiquitin-like protein 7 {Mouse (Mus musculus) [Ta	99.18
d2uyzb1	77	SUMO-1 (smt3 homologue) {Human (Homo sapiens) [Tax	99.17
d2fmba_	104	EIAV protease {Equine infectious anemia virus [Tax	98.96
d4fiva_	113	Feline immunodeficiency virus (FIV) protease {Feli	98.64
d2nmza1	99	Human immunodeficiency virus type 1 protease {Huma	98.54
d1hvca_	203	Human immunodeficiency virus type 1 protease {Huma	98.51
d1wm3a_	72	SUMO-2 {Human (Homo sapiens) [TaxId: 9606]}	98.47
d3ecga1	99	Human immunodeficiency virus type 2 (HIV-2) protea	98.41
d1wf9a1	94	NPL4-like protein 1 {Thale cress (Arabidopsis thal	98.4
d1nsoa_	107	Mason-Pfizer monkey virus protease {Simian retrovi	98.3
d1hvca_	203	Human immunodeficiency virus type 1 protease {Huma	97.76
d2al3a1	76	Tether containing UBX domain for GLUT4 (Tug) {Mous	97.36
d2rspa_	124	Rous sarcoma virus protease {Rous sarcoma virus, s	97.21
d1h8ca_	82	Fas-associated factor 1, Faf1 {Human (Homo sapiens	96.89
d2pmaa1	141	Uncharacterized protein LPG0085 {Legionella pneumo	96.61
d1i42a_	89	p47 {Rat (Rattus norvegicus) [TaxId: 10116]}	96.28
d1wj4a_	124	Hypothetical protein KIAA0794 {Human (Homo sapiens	96.14
d2cr5a1	96	UBX domain-containing protein 6 (Reproduction 8) {	95.63
d1izea_	323	Acid protease {Fungus (Aspergillus oryzae) [TaxId:	94.56
d1bxoa_	323	Acid protease {Fungus (Penicillium janthinellum),	94.1
d2f4mb1	58	XPC-binding domain of Rad23 homolog B (Hhr23b) {Hu	93.68
d1vjka_	88	Molybdopterin synthase subunit MoaD {Pyrococcus fu	92.96
d1wkra_	340	Acid protease {Irpex lacteus (Polyporus tulipifera	91.96
d2f4mb1	58	XPC-binding domain of Rad23 homolog B (Hhr23b) {Hu	90.52
d3cmsa_	323	Chymosin (synonym: renin) {Cow (Bos taurus) [TaxId	89.96
d2apra_	325	Acid protease {Bread mold (Rhizopus chinensis) [Ta	89.7
d2bjua1	329	Plasmepsin (a hemoglobin-degrading enzyme) {Plasmo	89.67
d1am5a_	324	Pepsin(ogen) {Atlantic cod (Gadus morhua) [TaxId:	89.34
d1miqa_	373	Plasmepsin (a hemoglobin-degrading enzyme) {Plasmo	88.95
d1smra_	335	Chymosin (synonym: renin) {Mouse (Mus musculus) [T	88.92
d1wkra_	340	Acid protease {Irpex lacteus (Polyporus tulipifera	88.46
d1miqa_	373	Plasmepsin (a hemoglobin-degrading enzyme) {Plasmo	88.09
d1dpja_	329	Acid protease {Baker's yeast (Saccharomyces cerevi	87.55
d3psga_	370	Pepsin(ogen) {Pig (Sus scrofa) [TaxId: 9823]}	87.54
d1y8xb1	92	UBA3 {Human (Homo sapiens) [TaxId: 9606]}	87.39
d1izea_	323	Acid protease {Fungus (Aspergillus oryzae) [TaxId:	87.21
d1bxoa_	323	Acid protease {Fungus (Penicillium janthinellum),	87.21
d1j71a_	334	Acid protease {Yeast (Candida tropicalis) [TaxId:	86.78
d1oewa_	330	Endothiapepsin {Chestnut blight fungus (Endothia p	86.5
d1t6ex_	381	Xylanase inhibitor TAXI-I {Wheat (Triticum aestivu	86.32
d3psga_	370	Pepsin(ogen) {Pig (Sus scrofa) [TaxId: 9823]}	85.97
d1qdma2	337	Plant acid proteinase, phytepsin {Barley (Hordeum	85.96
d1oewa_	330	Endothiapepsin {Chestnut blight fungus (Endothia p	85.62
d2apra_	325	Acid protease {Bread mold (Rhizopus chinensis) [Ta	85.49
d1smra_	335	Chymosin (synonym: renin) {Mouse (Mus musculus) [T	84.89
d2qp8a1	387	beta-secretase (memapsin) {Human (Homo sapiens) [T	84.42
d1mppa_	357	Pepsin {Mucor pusillus [TaxId: 4840]}	84.41
g1lya.1	338	Cathepsin D {Human (Homo sapiens) [TaxId: 9606]}	84.27
d2qp8a1	387	beta-secretase (memapsin) {Human (Homo sapiens) [T	84.06
d1hrna_	337	Chymosin (synonym: renin) {Human (Homo sapiens) [T	83.39
d1eaga_	342	Acid protease {Yeast (Candida albicans) [TaxId: 54	81.04
d2bjua1	329	Plasmepsin (a hemoglobin-degrading enzyme) {Plasmo	81.02

>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=99.77  E-value=6.1e-19  Score=137.93  Aligned_cols=75  Identities=21%  Similarity=0.400  Sum_probs=71.8

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeecCCC
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNAAS   75 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~~~~   75 (380)
                      |+|+|++++|+.+.++|++++||.+||++|+.++|+|+++|+|+|+||.|+|++||++|||++|++|||+.+...
T Consensus         8 mqI~Vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gip~~~qrLi~~Gk~L~d~~tL~~y~I~~~stl~l~~r~~~   82 (87)
T d1wh3a_           8 IQVFVKNPDGGSYAYAINPNSFILGLKQQIEDQQGLPKKQQQLEFQGQVLQDWLGLGIYGIQDSDTLILSKKKGS   82 (87)
T ss_dssp             EEEEEEETTTEEEEEEECSSSBHHHHHHHHHHHTCCCTTTEEEEETTEECCSSSBHHHHTCCTTEEEEEEECSCC
T ss_pred             EEEEEECCCCCEEEEEECCcCcHHHHHHHHHHHHCcChHHeEEEeeceEcCCCCcHHHcCCCCCCEEEEEecCCC
Confidence            899999999999999999999999999999999999999999999999999999999999999999999976443

>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=99.77  E-value=7.3e-19  Score=132.94  Aligned_cols=71  Identities=24%  Similarity=0.497  Sum_probs=69.6

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS   71 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~   71 (380)
                      |+|+||+.+|++++++|++++||.+||++|+.++|+|+++|+|+|+|+.|.|+.||++|||++|++||++.
T Consensus         1 M~I~Vk~~~G~~~~l~V~~~~tV~~lK~~i~~~~gi~~~~qrLi~~Gk~L~d~~tL~~y~I~~~sti~lvl   71 (73)
T d1bt0a_           1 MLIKVKTLTGKEIEIDIEPTDTIDRIKERVEEKEGIPPVQQRLIYAGKQLADDKTAKDYNIEGGSVLHLVL   71 (73)
T ss_dssp             CEEEEECTTSCEEEEECCTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEE
T ss_pred             CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHhCCChHHEEEEECCeEcCCCCcHHHcCCCCCCEEEEEe
Confidence            99999999999999999999999999999999999999999999999999999999999999999999974

>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=99.76  E-value=1.7e-18  Score=131.93  Aligned_cols=72  Identities=32%  Similarity=0.583  Sum_probs=70.2

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++.+|++++++|++++||.+||++|+.++|+|+++|+|+|+|++|+|+.||++|||++|++|||+.+
T Consensus         1 MqI~Vk~l~G~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~qrL~~~Gk~L~d~~tL~~y~i~~~s~I~L~~r   72 (76)
T d1ogwa_           1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR   72 (76)
T ss_dssp             CEEEEEETTSCEEEEECCTTSBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEEC
T ss_pred             CEEEEEcCCCCEEEEEECCCCcHHHHHHhhhhhcCCChHHEEeEECCeEcCCCCCHHHcCCCCCCEEEEEEe
Confidence            999999999999999999999999999999999999999999999999999999999999999999999854

>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=99.75  E-value=1.2e-18  Score=133.54  Aligned_cols=73  Identities=18%  Similarity=0.347  Sum_probs=70.8

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeecC
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNA   73 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~~   73 (380)
                      |+|+|++.+|++++++|++++||.+||++|+.++|+|+++|+|+|+|+.|+|+.+|++|||++|++||++.+.
T Consensus         3 M~I~Vk~~~g~t~~l~v~~~~tV~~lK~~i~~~~gip~~~qrLi~~Gk~L~d~~tL~~y~I~~~sti~lv~R~   75 (78)
T d2zeqa1           3 MIVFVRFNSSYGFPVEVDSDTSILQLKEVVAKRQGVPADQLRVIFAGKELPNHLTVQNCDLEQQSIVHIVQRP   75 (78)
T ss_dssp             EEEEEESSSSSCEEEEECTTCBHHHHHHHHHHHHTCCGGGEEEEETTEEECTTCBGGGSSCCTTCEEEEEESS
T ss_pred             eEEEEEcCCCCEEEEEEcccccHHHHHHHHHHHHCcChhHeEEEEeeeEcCCCCCHHHcCCCCCCEEEEEecc
Confidence            8999999999999999999999999999999999999999999999999999999999999999999998653

>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=99.74  E-value=2.4e-18  Score=130.99  Aligned_cols=71  Identities=20%  Similarity=0.218  Sum_probs=69.4

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS   71 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~   71 (380)
                      |+|+|++.+|++++++|++++||.+||++|+.++|+|+++|+|+|+|+.|+|++||++|||++|++||++.
T Consensus         4 ~qi~Vk~~~G~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~qrL~~~gk~L~d~~tL~~y~I~~~sti~l~l   74 (76)
T d1z2ma2           4 LSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNL   74 (76)
T ss_dssp             EEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEEEE
T ss_pred             EEEEEEcCCCCEEEEEECCCCcHHHHHHHHHHHhcCChhHeEEEECCeECCCCCcHHHcCCCCCCEEEEEE
Confidence            79999999999999999999999999999999999999999999999999999999999999999999974

>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=99.73  E-value=4.8e-18  Score=129.42  Aligned_cols=72  Identities=24%  Similarity=0.358  Sum_probs=68.7

Q ss_pred             CEEEEEeCCCC-EEEEE-eCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQ-IISLD-VDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~-~~~i~-V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++.+|+ +++++ +++++||++||++|+.+.|+|+++|+|+|+|+.|+|+.+|++|||++|++|||+.+
T Consensus         1 M~I~Vktl~Gk~t~~l~~v~~~~tV~~lK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~y~I~~~sti~lv~r   74 (76)
T d2faza1           1 MWIQVRTMDGRQTHTVDSLSRLTKVEELRRKIQELFHVEPGLQRLFYRGKQMEDGHTLFDYEVRLNDTIQLLVR   74 (76)
T ss_dssp             EEEEEEETTSSCEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTCBTTTTTCCTTCEEEEEEC
T ss_pred             CEEEEEeCCCCcEEEEecCCCCCCHHHHHHHHHHHHCcChHHeEEEEeeEeccCCCcHHHcCCCCCCEEEEEEE
Confidence            89999999995 78885 99999999999999999999999999999999999999999999999999999864

>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=99.73  E-value=9.2e-18  Score=133.22  Aligned_cols=74  Identities=28%  Similarity=0.574  Sum_probs=70.1

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhC---CCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeecCC
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQ---VPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNAA   74 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~g---ip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~~~   74 (380)
                      |+|+||+.+|++|.++|++++||.+||++|+.++|   +|+++|+|+|+|+.|+|+++|++|||++|++||++.+.+
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 MQVTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALKEYKIDEKNFVVVMVTKP   77 (95)
T ss_dssp             CEEEEEETTCCEEEEECCTTSBHHHHHHHHHHHHCTTTCCTTTEEEEETTEECCTTSBGGGGTCCSSSEEEEEESSC
T ss_pred             CEEEEEeCCCCEEEEEECCCccHHHHHHHHHhhhcccCCCccceEEEECCeEccCCCcHHHcCCCCCCEEEEEECCC
Confidence            99999999999999999999999999999999886   899999999999999999999999999999999986543

>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=99.73  E-value=1.6e-18  Score=131.04  Aligned_cols=72  Identities=25%  Similarity=0.451  Sum_probs=69.1

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeecC
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNA   73 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~~   73 (380)
                      |+|+|++.+|+.+.++|++++||.+||++|+.++|+|+++|+|+|+|+.|+|+++|++|+| +|++|||+.+.
T Consensus         1 m~I~Vk~~~g~~~~l~V~~~~tV~~lK~~I~~~~gip~~~qrLi~~Gk~L~d~~tL~dy~i-~~~ti~lv~r~   72 (73)
T d1wx9a1           1 LEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEYNV-GGKVIHLVERA   72 (73)
T ss_dssp             EEEEEECTTSCEEEEEECTTSBHHHHHHHHHHHHCCCTTTCCCEETTEECCSSSBHHHHTC-TTEEEBCCCSS
T ss_pred             CEEEEEcCCCCEEEEEECCCChHHHHHHHHHHHhCCChHHEEEEECCeEccCCCCHHHhCC-CCCEEEEEecC
Confidence            8999999999999999999999999999999999999999999999999999999999999 58999998763

>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=99.73  E-value=6e-18  Score=128.88  Aligned_cols=72  Identities=25%  Similarity=0.373  Sum_probs=68.6

Q ss_pred             CEEEEEeCCC-CEEEE-EeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADE-QIISL-DVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g-~~~~i-~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++.+| +++.+ +|++++||++||.+|+.++|+|+++|+|+|+|+.|+|+.||++|||++|++|||+.+
T Consensus         1 M~I~Vk~l~G~~t~~~~~v~~~~TV~~lK~~I~~~~gip~~~qrLi~~Gk~L~d~~tL~~y~I~~~s~i~lv~r   74 (76)
T d1wy8a1           1 MWIQVRTIDGSKTCTIEDVSRKATIEELRERVWALFDVRPECQRLFYRGKQLENGYTLFDYDVGLNDIIQLLVR   74 (76)
T ss_dssp             EEEEEEETTCSCEEEEEEECTTCBHHHHHHHHHHHSCCCTTTEEEEETTEECCSSSBHHHHTCCTTCEEEEEEC
T ss_pred             CEEEEEeCCCCceEEEeccCCCChHHHHHHHHHHHHCCCchhcEEEEEeeEecCCCCHHHcCCCCCCEEEEEEc
Confidence            8999999998 57887 599999999999999999999999999999999999999999999999999999865

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

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

Probab=99.73  E-value=4.4e-18  Score=130.92  Aligned_cols=73  Identities=18%  Similarity=0.291  Sum_probs=70.3

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeecC
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNA   73 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~~   73 (380)
                      |+|+||+.+|+++.++|++++||.+||++|+.++|+|+++|+|+|+|+.|+|+.||++|||++|++|||+.+.
T Consensus         4 ~qi~Vk~~~G~~~~l~V~~~~tV~~lK~~I~~~~~ip~~~qrLi~~Gk~L~d~~tL~~y~I~~~sti~lvi~~   76 (80)
T d1ttna1           4 CQLRLRLSTGKDLKLVVRSTDTVFHMKRRLHAAEGVEPGSQRWFFSGRPLTDKMKFEELKIPKDYVVQVIVSQ   76 (80)
T ss_dssp             EEEEEEETTTEEEEEEECTTSHHHHHHHHHHHTTCCCSTTCEEEETTEECCTTSHHHHCCCSSSCEEEEECCC
T ss_pred             EEEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhCCCcccEEEEECceEcCCCCcHHHcCCCCCCEEEEEecC
Confidence            5899999999999999999999999999999999999999999999999999999999999999999998653

>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=99.72  E-value=5e-18  Score=128.32  Aligned_cols=70  Identities=13%  Similarity=0.187  Sum_probs=68.3

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEe
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMV   70 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~   70 (380)
                      |+|+|++..|+.+.++|++++||.+||++|+.++|+|+++|+|+|+|+.|+|+.||++|||++|++|||.
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 IEVVVNDRLGKKVRVKCLAEDSVGDFKKVLSLQIGTQPNKIVLQKGGSVLKDHISLEDYEVHDQTNLELY   71 (73)
T ss_dssp             EEEEEEETTTEEEEEEECTTSBHHHHHHHHHHHHCCTTTSEEEESSSCEECTTSBHHHHTCCTTEEEEEE
T ss_pred             eEEEEECCCCCEEEEEECCcCcHHHHHHHHHHhhcccccEEEEEEEeEEecccCcHHHcCCCCCCEEEEE
Confidence            6899999999999999999999999999999999999999999999999999999999999999999985

>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=99.71  E-value=1.4e-17  Score=125.81  Aligned_cols=71  Identities=20%  Similarity=0.454  Sum_probs=67.1

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++. ++.+.++|++++||.+||++|+.++|+|+++|+|+|+|+.|+|+.+|++|||++|++|||+.+
T Consensus         2 i~I~Vk~~-~~~~~i~v~~~~tV~~lK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~~~~I~~g~~i~lV~~   72 (73)
T d2bwfa1           2 LNIHIKSG-QDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESYHIQDGHSVHLVKS   72 (73)
T ss_dssp             EEEEEEET-TEEEEEEECTTCBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEEC
T ss_pred             EEEEEEeC-CeEEEEEECCCChHHHHHHHHHHHHCcChHHeEEEECCeEccCCCcHHHCCCCCCCEEEEEee
Confidence            68999984 567999999999999999999999999999999999999999999999999999999999864

>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=99.71  E-value=2e-17  Score=125.88  Aligned_cols=71  Identities=20%  Similarity=0.270  Sum_probs=68.7

Q ss_pred             EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEec--CCeecCCcccchhcCCCCCcEEEEeec
Q 016931            2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLY--NGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~--~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      +|+||+.+|+.+.++|++++||.+||++|+.++|+|+++|+|+|  +|+.|+|+.+|++|||++|++|||+.+
T Consensus         2 ~l~Vk~l~G~~~~v~V~~~~tV~~lK~~I~~~~gip~~~QrLi~~~~Gk~L~D~~tL~~y~i~~g~~i~lv~~   74 (76)
T d1z2ma1           2 DLTVKMLAGNEFQVSLSSSMSVSELKAQITQKIGVHAFQQRLAVHPSGVALQDRVPLASQGLGPGSTVLLVVD   74 (76)
T ss_dssp             EEEEEESSSCEEEEECCSSCCHHHHHHHHHHHHCCCGGGEEEEEETTCCBCCSSSCSGGGTCCTTCEEEEEEC
T ss_pred             EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHhccCCccEEEEEcCCCeeccCCCcHHHcCCCCCCEEEEEEE
Confidence            69999999999999999999999999999999999999999999  699999999999999999999999865

>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=99.71  E-value=1.4e-17  Score=133.77  Aligned_cols=75  Identities=31%  Similarity=0.499  Sum_probs=68.3

Q ss_pred             CEEEE----EeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecC-CcccchhcCCCCCcEEEEeecCCC
Q 016931            1 MRITV----MTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMN-NAEKLSALGVKDEDLVMMVSNAAS   75 (380)
Q Consensus         1 M~ItV----k~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~-D~~tL~~~gI~dg~~I~l~~~~~~   75 (380)
                      |+|||    +..++.+|.++|++++||.+||++|+.++|+|+++|+|+|+|+.|. |.+||++|||++|++|+|+.+...
T Consensus         8 m~itV~~~~~~~~~~t~~l~V~~~~tV~~LK~~Ie~~~gip~~~Q~Li~~Gk~L~dd~~tL~~~gI~~g~~i~l~~r~~~   87 (102)
T d1v5oa_           8 MLITVYCVRRDLTEVTFSLQVNPDFELSNFRVLCELESGVPAEEAQIVYMEQLLTDDHCSLGSYGLKDGDMVVLLQKDNV   87 (102)
T ss_dssp             EEEEEEECCCCCCCCEEEEEECTTCBHHHHHHHHHHHTCCCGGGBCEEETTEEECCSSSBHHHHTCCTTEEEEECBCCCC
T ss_pred             EEEEEEecccCCCCCEEEEEECCcccHHHHHHHHHHHhCCCcceEEEEeCCeEeecccCCHHHcCCCCCCEEEEEECCCC
Confidence            88999    5566899999999999999999999999999999999999999996 457999999999999999865443

>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=99.70  E-value=1.3e-17  Score=127.25  Aligned_cols=71  Identities=24%  Similarity=0.506  Sum_probs=68.2

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhC---CCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQ---VPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS   71 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~g---ip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~   71 (380)
                      |+|+||+.+|+.+.++|++++||.+||++|+.+.|   +|+++|+|+|+|+.|+|++||++|||++|++|+++.
T Consensus         3 ~~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           3 VTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIRDYRIDEKNFVVVMV   76 (77)
T ss_dssp             CCEEEEETTTEEEEECCCTTCBHHHHHHHHHHHTCSSSCCSTEEEEESSSSEECSSSBTTTTCCCTTSCEEEEE
T ss_pred             EEEEEECCCCCEEEEEECCCCcHHHHHHHHHHhcCCCCCChHHEEeEECCcCccCCCcHHHcCCCCCCEEEEEE
Confidence            78999999999999999999999999999999987   899999999999999999999999999999998863

>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=99.69  E-value=3.1e-17  Score=127.21  Aligned_cols=73  Identities=21%  Similarity=0.336  Sum_probs=68.1

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeecCC
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNAA   74 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~~~   74 (380)
                      |+|+|++.++ .+.++|++++||.+||++|+.++|+|+++|+|+|+|+.|+|+.+|++|||++|++|||+.+..
T Consensus         8 i~I~Vkt~~~-~~~~~V~~~~tV~~lK~~i~~~~gi~~~~qrL~~~Gk~L~D~~tL~~y~i~~gsti~lv~r~~   80 (84)
T d1yqba1           8 IKVTVKTPKD-KEDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQCGVRDGLTVHLVIKRQ   80 (84)
T ss_dssp             EEEEEECSSC-EEEEEEETTCBHHHHHHHHHHHHTCCGGGEEEEETTEECCTTSBHHHHTCCTTCEEEEEECCC
T ss_pred             EEEEEEcCCC-cEEEEECCCCcHHHHHHHHHHHHCcCchhEEEEEeeeeccccCcHHHcCCCCCCEEEEEECCC
Confidence            6899999755 579999999999999999999999999999999999999999999999999999999986643

>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=99.65  E-value=1.6e-16  Score=126.30  Aligned_cols=72  Identities=21%  Similarity=0.276  Sum_probs=67.4

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeecC
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNA   73 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~~   73 (380)
                      |+|+||+.+++.+.++|+++.||.+||++|+..+|+|+++|+|+|+|+.|+|+ +|++|||++|++|||+..+
T Consensus         8 ~~I~VK~~~~~~~~v~v~~~~tV~~lK~~i~~~~gvp~~~QkLi~~Gk~L~d~-tL~~~gi~~g~~i~lv~t~   79 (96)
T d1wgga_           8 YSVTVKWGKEKFEGVELNTDEPPMVFKAQLFALTGVQPARQKVMVKGGTLKDD-DWGNIKMKNGMTVLMMGSA   79 (96)
T ss_dssp             EEEEEEETTEEEEEEEEESSSCHHHHHHHHHHHTCCCTTTSCCEETTEECCSS-CCCSCCCCSSCEEECCCCC
T ss_pred             eEEEEEeCCCCEEEEEECCCCcHHHHHHHhhhhcCccceeeEEeecCcccCCC-cHHHCCCCCCCEEEEEeeC
Confidence            58999998888889999999999999999999999999999999999999985 7999999999999998543

>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=99.65  E-value=1.9e-16  Score=127.36  Aligned_cols=70  Identities=21%  Similarity=0.339  Sum_probs=66.4

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEee
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVS   71 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~   71 (380)
                      |+|+|++.++ .++++|+++.||.+||++|+.++|+|+++|+|+|+|+.|+|+.+|++|||++|++|||+.
T Consensus        33 i~V~Vk~~~~-~~~i~V~~~~tV~~LK~~I~~~~gi~~~~qrLi~~Gk~L~D~~tL~~~~I~~g~~I~lvl  102 (103)
T d1j8ca_          33 IKVTVKTPKE-KEEFAVPENSSVQQFKEAISKRFKSQTDQLVLIFAGKILKDQDTLIQHGIHDGLTVHLVI  102 (103)
T ss_dssp             EEEEEECSSC-EEEEEECTTCCHHHHHHHHHHHHCSCSSSEEEEETTEEESTTSCGGGTTCSSSEEEEEEE
T ss_pred             EEEEEECCCc-cEEEEECCCChHHHHHHHHHHHHCcCHHHeeeeeeeecccCCCcHHHcCCCCCCEEEEEE
Confidence            6899999765 579999999999999999999999999999999999999999999999999999999974

>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=99.65  E-value=8.7e-17  Score=128.54  Aligned_cols=70  Identities=10%  Similarity=0.121  Sum_probs=67.7

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEe
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMV   70 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~   70 (380)
                      ++|+|++..|+.+.++|++++||.+||++|+.++|+|+++|+|+|+|++|+|+.||++|||++|++|+|.
T Consensus        29 i~V~V~~~~Gk~~~v~V~p~~TV~~LK~~I~~~~gip~~~qrLi~~Gk~L~D~~tL~dygI~~GstI~L~   98 (100)
T d1uh6a_          29 IEVVCNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTRWNKIVLKKWYTIFKDHVSLGDYEIHDGMNLELY   98 (100)
T ss_dssp             EEEEEECSSSSCEEEEEETTSBHHHHHHHHHHHHCCCGGGCEEEETTEECCSSCBHHHHTCCTTEEEEEE
T ss_pred             EEEEEECCCCCEEEEEECCcChHHHHHHHHHHHHCCCcceEEEEEEeecccCcCCHHHcCCCCCCEEEEE
Confidence            4799999999999999999999999999999999999999999999999999999999999999999985

>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=99.64  E-value=9.2e-17  Score=124.25  Aligned_cols=71  Identities=18%  Similarity=0.303  Sum_probs=66.8

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+|++.++ .++++|++++||.+||++|+..+|+|+++|+|+|+|+.|+|+++|++|||++|++|||+.+
T Consensus        11 i~v~Vk~~~~-~~~i~v~~~~tV~~lK~~I~~~~~v~~~~qrL~f~Gk~L~d~~tL~~~gI~~gs~I~lv~r   81 (83)
T d1wx8a1          11 IRVSVKTPQD-CHEFFLAENSNVRRFKKQISKYLHCNADRLVLIFTGKILRDQDILSQRGILDGSTVHVVVR   81 (83)
T ss_dssp             EEEEEECSSS-EEEEEEETTCCHHHHHHHHHHHTCSCTTTBCCEETTEECCTTSCHHHHTCCTTEEEECCBC
T ss_pred             EEEEEEcCCC-cEEEEECCCChHHHHHHHHHHHhCCChhHEEEEEEhhccccCCcHHHcCCCCCCEEEEEEe
Confidence            6899999665 4689999999999999999999999999999999999999999999999999999999865

>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=99.61  E-value=1.6e-16  Score=128.31  Aligned_cols=73  Identities=21%  Similarity=0.364  Sum_probs=69.1

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeE---------------EecCCeecCCc-ccchhcCCCCC
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQ---------------LLYNGREMNNA-EKLSALGVKDE   64 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~---------------Li~~Gk~L~D~-~tL~~~gI~dg   64 (380)
                      |+|+|++.+|+.+.++|+++.||.+||++|+.++++|+++|+               |+|+|+.|.|+ .||++|||++|
T Consensus         8 M~v~Vk~~~G~~~~v~V~~~~TV~~LK~~I~~~~~ip~~~Qr~~~~~~~~~~~~~~~Li~~G~~L~d~~~tL~~~gI~~g   87 (105)
T d1v2ya_           8 MTVRVCKMDGEVMPVVVVQNATVLDLKKAIQRYVQLKQEREGGVQHISWSYVWRTYHLTSAGEKLTEDRKKLRDYGIRNR   87 (105)
T ss_dssp             EEEEEECSSSCEEEEEECTTCBHHHHHHHHHHHHHHHHHHTTCCCCCCHHHHHTTEEEESSSCEECCSSSBHHHHTCCSS
T ss_pred             EEEEEEeCCCCEEEEEECCCChHHHHHHHHHHHHCcCHHHhcccccccccccccceEEEECCEECcccCCCHHHcCCCCC
Confidence            899999999999999999999999999999999999999997               99999999876 59999999999


Q ss_pred             cEEEEeecC
Q 016931           65 DLVMMVSNA   73 (380)
Q Consensus        65 ~~I~l~~~~   73 (380)
                      ++|||+.+.
T Consensus        88 ~~l~lv~r~   96 (105)
T d1v2ya_          88 DEVSFIKKL   96 (105)
T ss_dssp             EEEEEEECS
T ss_pred             CEEEEEEec
Confidence            999998654

>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=99.59  E-value=2.2e-15  Score=119.21  Aligned_cols=71  Identities=18%  Similarity=0.261  Sum_probs=64.9

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecC-CcccchhcCCCCCcEEEEeecCC
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMN-NAEKLSALGVKDEDLVMMVSNAA   74 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~-D~~tL~~~gI~dg~~I~l~~~~~   74 (380)
                      |+|+||+++|+.+.++|++++||.+||.+|+   .+++++|+|+|+|+.|. |.++|++|||++|++|||+...+
T Consensus         8 m~i~vK~l~~~~~~v~v~~~~TV~~lK~~i~---~~~~~~qrLi~~Gk~L~dd~~tL~~y~i~~g~~v~l~~~~~   79 (95)
T d1wiaa_           8 INVRLKFLNDTEELAVARPEDTVGTLKSKYF---PGQESQMKLIYQGRLLQDPARTLSSLNITNNCVIHCHRSPP   79 (95)
T ss_dssp             EEEEEEETTTEEEEEEECSSSBHHHHHHHHS---SSTTTTCEEEETTEECCCSSCBTTTTTCCTTEEEEEECCCC
T ss_pred             EEEEEEcCCCCEEEEEECCcCcHHHHHHHHh---cCCcceeEEEECCEEcccCCCCHHHcCCCCCCEEEEEEcCC
Confidence            7999999999999999999999999999986   56889999999999997 55899999999999999986543

>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=99.59  E-value=9.2e-16  Score=120.30  Aligned_cols=74  Identities=31%  Similarity=0.378  Sum_probs=67.0

Q ss_pred             CEEEEEeCCCCEEEE-EeCCCCCHHHHHHHHHHHhCCCCcCeEEe---cCCeecCCcccchhcCCCCCcEEEEeecCCC
Q 016931            1 MRITVMTADEQIISL-DVDPHETVENVKALLEVETQVPLQQQQLL---YNGREMNNAEKLSALGVKDEDLVMMVSNAAS   75 (380)
Q Consensus         1 M~ItVk~~~g~~~~i-~V~~~~TV~~LK~~I~~~~gip~~~q~Li---~~Gk~L~D~~tL~~~gI~dg~~I~l~~~~~~   75 (380)
                      |+|+||+ .++.+.+ +|++++||.+||++|+.++|+|+++|+|+   |.|+.|+|+.+|++|||++|++|||+..+..
T Consensus         8 ~~i~Vk~-~~~~~~i~~v~~~~tV~~LK~~i~~~t~vp~~~QkLi~~~~~Gk~L~D~~tL~~~~i~~g~~i~lv~s~~~   85 (90)
T d1v5ta_           8 LPIIVKW-GGQEYSVTTLSEDDTVLDLKQFLKTLTGVLPERQKLLGLKVKGKPAENDVKLGALKLKPNTKIMMMGTRES   85 (90)
T ss_dssp             CCEEEEE-TTEEEEECSCCSSSBHHHHHHHHHHHTCCCTTTCEEESCEETTEECCTTSBHHHHTCCTTEEEEEECCCSS
T ss_pred             EEEEEEE-CCeEEEEEEeCCCCcHHHHHHHHHHHHcCCHHHhhhhhhccCCcCCCCcCcHHHcCCCCCCEEEEEeeCCC
Confidence            7899998 5566676 79999999999999999999999999999   5899999999999999999999999966443

>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=99.58  E-value=2.3e-15  Score=116.99  Aligned_cols=65  Identities=15%  Similarity=0.319  Sum_probs=62.4

Q ss_pred             CCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            8 ADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         8 ~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      ++|++++++|++++||++||.+|+.++|+|+++|+|+|+|+.|+|+.||++|||++|++|||+.+
T Consensus        19 L~G~~~~l~v~~~~tV~~lK~~I~~~~~ip~~~q~Li~~Gk~L~D~~tL~dY~I~~gsti~l~~r   83 (86)
T d1zkha1          19 LNGQVLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDSNSLAYYNMANGAVIHLALK   83 (86)
T ss_dssp             CSSCEEEEEECTTSBHHHHHHHHHHHTCCCTTTEEEEETTEEECTTSBHHHHTCCTTEEEEEEES
T ss_pred             cCCeEEEEEECCCChHHHHHHHHHhhhcCChHHEEEEeCCcCcCCCCCHHHcCCCCCCEEEEEEe
Confidence            46899999999999999999999999999999999999999999999999999999999999854

>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=99.57  E-value=2.2e-15  Score=119.29  Aligned_cols=71  Identities=17%  Similarity=0.302  Sum_probs=66.1

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeecC
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNA   73 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~~   73 (380)
                      |+|+|++ +++.|.|+|+++.||.+||++|+..+|+|+++|+|+|+|+ |+|+.+|++|+|++|++|+|+...
T Consensus        18 i~v~V~~-~~k~~~i~v~~~~TV~~LK~~I~~~tgvp~~~q~Li~~g~-l~D~~tL~~~~I~~gs~i~lvgs~   88 (95)
T d1v86a_          18 VDLKIIW-NKTKHDVKVPLDSTGSELKQKIHSITGLPPAMQKVMYKGL-VPEDKTLREIKVTSGAKIMVVGST   88 (95)
T ss_dssp             EEEEEEE-TTEEEEEEECTTSBHHHHHHHHHHHHCSCSTTCCCBSSSB-CCSSSBHHHHCCCTTEEEEECCSS
T ss_pred             EEEEEEE-CCEEEEEEECCCCcHHHHHHHHHHHhCCChhHEEEEeccc-ccCCCcHHHCCCCCCCEEEEEecC
Confidence            5678886 7889999999999999999999999999999999999997 999999999999999999999653

>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=99.57  E-value=1.5e-15  Score=121.41  Aligned_cols=74  Identities=11%  Similarity=0.148  Sum_probs=66.7

Q ss_pred             CEEEE--EeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeecCC
Q 016931            1 MRITV--MTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNAA   74 (380)
Q Consensus         1 M~ItV--k~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~~~   74 (380)
                      |+|++  +...|+.+.++|++++||.+||.+|+.++|+|+++|+|+|+|++|+|++||++|||++|++||++....
T Consensus        18 i~V~~~~~~~~g~~~~lev~~~~TV~~LK~~I~~~~gi~~~~qkLi~~Gk~L~d~~tL~~~gI~~~s~i~vi~~~~   93 (100)
T d1wjua_          18 IEVFLPPRLKKDRKNLLETRLHITGRELRSKIAETFGLQENYIKIVINKKQLQLGKTLEEQGVAHNVKAMVLELKQ   93 (100)
T ss_dssp             EEEECCTTTCCSSSEEEEEESSSBHHHHHHHHHHHTTCCSTTCEEEETTEECCTTSBHHHHTCCSSEEEEEECCCC
T ss_pred             EEEEEeeccCCCeEEEEEECCCcHHHHHHHHHHHHHCCCCeeEEEEEcccCcCCCcCHHHcCCCCCCEEEEEEcCC
Confidence            34555  345689999999999999999999999999999999999999999999999999999999999986543

>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=99.57  E-value=3.9e-15  Score=114.44  Aligned_cols=72  Identities=26%  Similarity=0.463  Sum_probs=64.5

Q ss_pred             CEEEEEeCCCCEEEEEe-----CCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecC-CcccchhcCCCCCcEEEEeecC
Q 016931            1 MRITVMTADEQIISLDV-----DPHETVENVKALLEVETQVPLQQQQLLYNGREMN-NAEKLSALGVKDEDLVMMVSNA   73 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V-----~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~-D~~tL~~~gI~dg~~I~l~~~~   73 (380)
                      |.|+|+. .++.+.++|     ++++||++||++|+..+|+|+++|+|+|+|+.|+ |+.+|++|||++|++|+|+.+.
T Consensus         2 i~i~V~~-~~~~~~i~v~~~~~~~~~Tv~~LK~~I~~~tgvp~~~QkL~~~G~~L~~d~~tL~~~gi~~g~~i~lv~~~   79 (81)
T d1wxva1           2 LTVTVTH-SNEKHDLHVTSQQGSSEPVVQDLAQVVEEVIGVPQSFQKLIFKGKSLKEMETPLSALGIQDGCRVMLIGKK   79 (81)
T ss_dssp             EEEEEEC-SSSEEEEEECCCSSSSSCBHHHHHHHHHHHTCCCTTTCEEEETTEEECCSSSBHHHHTCCSSEEEEEESCC
T ss_pred             EEEEEEE-CCeeEEEEEecCCCCCccHHHHHHHHHHHHHCcCHHHEEeeecCeEeCcCCCChHHCCCCCCCEEEEEEec
Confidence            6788877 567788888     4689999999999999999999999999999997 5689999999999999999653

>d1se9a_ d.15.1.1 (A:) Hypothetical protein At3g01050 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Hypothetical protein At3g01050
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.56  E-value=7.8e-15  Score=116.72  Aligned_cols=74  Identities=16%  Similarity=0.236  Sum_probs=67.7

Q ss_pred             CEEEEEeCCCCEE-EEEeCCCCCHHHHHHHHHHH-----hCCC--CcCeEEecCCeecCCcccchhcCCCCCc------E
Q 016931            1 MRITVMTADEQII-SLDVDPHETVENVKALLEVE-----TQVP--LQQQQLLYNGREMNNAEKLSALGVKDED------L   66 (380)
Q Consensus         1 M~ItVk~~~g~~~-~i~V~~~~TV~~LK~~I~~~-----~gip--~~~q~Li~~Gk~L~D~~tL~~~gI~dg~------~   66 (380)
                      |+|++++.+|+.+ .+.|++++||.+||++|+..     .|+|  +++|||+|.||+|+|++||++|+|.+|+      +
T Consensus         8 i~I~~r~~~G~~i~~~~v~~s~TV~~lK~~I~~~~~~~k~~iP~~~~~qRLIf~Gk~L~D~~tL~dy~i~~g~~~~~~~t   87 (101)
T d1se9a_           8 LEIKFRLTDGSDIGPKAFPDATTVSALKETVISEWPREKENGPKTVKEVKLISAGKVLENSKTVKDYRSPVSNLAGAVTT   87 (101)
T ss_dssp             EEEEEEETTSCEEEEEEECTTCBHHHHHHHHHHHSCTTCSSSCCSGGGEEEEETTEECCTTSBGGGGSCCTTSCTTCCEE
T ss_pred             EEEEEEeCCCCeecceecCccCHHHHHHHHHHHhccccccCCCCCcccEEEEECCeEecCCCCHHHcCCCCCCcCCCceE
Confidence            6899999999876 69999999999999999876     6788  7899999999999999999999999998      9


Q ss_pred             EEEeecCC
Q 016931           67 VMMVSNAA   74 (380)
Q Consensus        67 I~l~~~~~   74 (380)
                      +||+.+++
T Consensus        88 mHlVvrpp   95 (101)
T d1se9a_          88 MHVIIQAP   95 (101)
T ss_dssp             EEEEECCC
T ss_pred             EEEEeCCC
Confidence            99997753

>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=99.56  E-value=7.4e-15  Score=120.18  Aligned_cols=73  Identities=15%  Similarity=0.279  Sum_probs=66.9

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHH--------HHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcE--EEEe
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALL--------EVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDL--VMMV   70 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I--------~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~--I~l~   70 (380)
                      |+|+|++.+|+.+.++|++++||.+||++|        +++.++|+++|||+|.||.|+|+.+|++|+|.+|++  |||+
T Consensus        17 i~i~v~~l~Gk~~~~~v~p~~TV~~lK~~I~~~~p~~~~e~~~~~~~~qRLiy~Gk~L~D~~tL~~~~i~~g~~~~lhlv   96 (116)
T d1wgha_          17 INLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVTLGALKLPFGKTTVMHLV   96 (116)
T ss_dssp             EEEEEECSSSCEEEEEECTTCBHHHHHHHHHHSSSCCSSCCCCCCTTTEEEEETTEEECSSCBTTTTTCCSSCEEEEEEE
T ss_pred             EEEEEEEcCCCEEEEEECCcchHHHHHHHHHhhcccccccccCCChHHeEEEECCEEecCCCCHHHcCCCCCCEEEEEEE
Confidence            578999999999999999999999999999        567899999999999999999999999999999986  7777


Q ss_pred             ecC
Q 016931           71 SNA   73 (380)
Q Consensus        71 ~~~   73 (380)
                      .+.
T Consensus        97 ~r~   99 (116)
T d1wgha_          97 ARE   99 (116)
T ss_dssp             ECS
T ss_pred             eCC
Confidence            553

>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=99.54  E-value=1.5e-14  Score=114.05  Aligned_cols=75  Identities=24%  Similarity=0.300  Sum_probs=65.7

Q ss_pred             CEEEEEeCCCC--EEEEEeCCCCCHHHHHHHHHHHhC--CCCcCeEEecCCeecCCcccchhcCCCCC--cEEEEeecCC
Q 016931            1 MRITVMTADEQ--IISLDVDPHETVENVKALLEVETQ--VPLQQQQLLYNGREMNNAEKLSALGVKDE--DLVMMVSNAA   74 (380)
Q Consensus         1 M~ItVk~~~g~--~~~i~V~~~~TV~~LK~~I~~~~g--ip~~~q~Li~~Gk~L~D~~tL~~~gI~dg--~~I~l~~~~~   74 (380)
                      |+|+|++++++  .+.+++++++||.+||++|+.+.+  +|+++|||+|+||+|.|+.+|++|+.+.+  .+|||+.+..
T Consensus         8 i~l~Ik~~~~~~~~~~~~v~~~~TV~~LK~~I~~~~~~~~~~~~qrLIy~Gk~L~D~~~L~d~~~~~~~~~viHLV~~~~   87 (93)
T d1wgda_           8 VTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLLDHQCLRDLLPKQEKRHVLHLVCNVK   87 (93)
T ss_dssp             CEEEEECSSSSCCCEEEECCTTSCHHHHHHHHHHHSTTCCCTTTCEEEETTEECCSSSCHHHHSCSSSCSEEEEEECCCC
T ss_pred             EEEEEECCCCCceeEEEEcCCCCcHHHHHHHHHHHcCCCCChHHEEEEECCeEccCCCCHHHhCcccCCCCEEEEEecCC
Confidence            78999998765  488999999999999999999965  99999999999999999999999977544  4999997644


Q ss_pred             C
Q 016931           75 S   75 (380)
Q Consensus        75 ~   75 (380)
                      +
T Consensus        88 ~   88 (93)
T d1wgda_          88 S   88 (93)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.49  E-value=2.6e-14  Score=112.99  Aligned_cols=77  Identities=16%  Similarity=0.167  Sum_probs=67.7

Q ss_pred             CEEEEEeC-CCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCe-------ecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTA-DEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGR-------EMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~-~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk-------~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |.|+|++. ++..++..+++++||.+||++|+..+|+|+++|+|+|.|+       .++|+++|++|+|.+|++|||+.+
T Consensus         8 v~v~I~s~~~~~~~E~r~~~~~TV~~LK~kle~~tGip~~~qrL~~~~~~~~~~~~l~~d~~~L~~y~i~dg~~ihlvd~   87 (95)
T d1v6ea_           8 VMVFISSSLNSFRSEKRYSRSLTIAEFKCKLELVVGSPASCMELELYGADDKFYSKLDQEDALLGSYPVDDGCRIHVIDH   87 (95)
T ss_dssp             EEEEEEETTSSSCEEEEECTTSBHHHHHHHHHHHTCSCTTTCBCEEECSSSCEEEECCCSSSBTTSSSCCTTCEEEEBCC
T ss_pred             EEEEEEECCCCcEEEEEeCCCCCHHHHHHHHHHHhCcCchhEEEEEeCCCCceeecccCCcCCHHHCCCCCCCEEEEEeC
Confidence            57888874 5566889999999999999999999999999999999886       577889999999999999999987


Q ss_pred             CCCCC
Q 016931           73 AASSP   77 (380)
Q Consensus        73 ~~~s~   77 (380)
                      .+.++
T Consensus        88 ~p~~~   92 (95)
T d1v6ea_          88 SGSGP   92 (95)
T ss_dssp             SCCSS
T ss_pred             CCCCC
Confidence            65533

>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=99.49  E-value=1.7e-14  Score=117.16  Aligned_cols=64  Identities=20%  Similarity=0.312  Sum_probs=61.3

Q ss_pred             CCCEEEEEeCC-CCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            9 DEQIISLDVDP-HETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         9 ~g~~~~i~V~~-~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      +|++++++|.+ ++||.+||.+|+.++|+|+++|+|+|+|+.|+|+.||++|+|++|++|||+.+
T Consensus        39 ~G~~i~l~v~~~sdtV~~lK~~I~~~~gip~~~QrLi~~Gk~L~D~~tL~~ynI~~gsti~L~lr  103 (111)
T d1we6a_          39 DGQFMEITVQSLSENVGSLKEKIAGEIQIPANKQKLSGKAGFLKDNMSLAHYNVGAGEILTLSLR  103 (111)
T ss_dssp             SSCCEEEEESCSSSBHHHHHHHHHHHTTCCTTTSEEECSSSBCCTTSBTTTTTCSSSCEEEEECS
T ss_pred             CCeEEEEEecCCccHHHHHHHHHHHHHCCCccceEEEEeeEEccccCCHHHcCCCCCCEEEEEee
Confidence            58999999986 89999999999999999999999999999999999999999999999999965

>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=99.35  E-value=6.2e-13  Score=106.19  Aligned_cols=70  Identities=19%  Similarity=0.248  Sum_probs=60.9

Q ss_pred             EEEEEeCCC-CEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCC-------cEEEEee
Q 016931            2 RITVMTADE-QIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDE-------DLVMMVS   71 (380)
Q Consensus         2 ~ItVk~~~g-~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg-------~~I~l~~   71 (380)
                      +|+|+...+ .++.++|++++||.+||++|+.++|+|+++|+|+|+|+.|+|++||++|||.++       +++++.-
T Consensus         1 qifv~i~~~k~Ti~l~v~~~~TV~~lK~~I~~~~gip~~~QrLi~~Gk~L~D~~TL~dYgI~~~~~~~~~~~~~~l~~   78 (103)
T d2c9wb1           1 DVFLMIRRHKTTIFTDAKESSTVFELKRIVEGILKRPPDEQRLYKDDQLLDDGKTLGECGFTSQTARPQAPATVGLAF   78 (103)
T ss_dssp             CEEEEEEEBTEEEEEEECTTSBHHHHHHHHHHHHCCCGGGEEEEETTEECCTTSBHHHHTCCTTTSBTTBCEEEEEEE
T ss_pred             CEEEEEeCCCEEEEEEeCCCCcHHHHHHHHHHHhCCCcccEEEEECCEEcCCCCCHHHcCCCcccccccCCcEEEEEE
Confidence            366666555 468899999999999999999999999999999999999999999999999654       4777763

>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=99.32  E-value=1.6e-12  Score=102.83  Aligned_cols=71  Identities=21%  Similarity=0.358  Sum_probs=61.6

Q ss_pred             EEEEEeCC---CCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCee-------cC-CcccchhcCCCCCcEEEEe
Q 016931            2 RITVMTAD---EQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGRE-------MN-NAEKLSALGVKDEDLVMMV   70 (380)
Q Consensus         2 ~ItVk~~~---g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~-------L~-D~~tL~~~gI~dg~~I~l~   70 (380)
                      .|+|++.+   ++.++++|+.++||.+||.+|+..+|+|+++|+|+|.|+.       |. |+++|.+|||++|++|+|.
T Consensus        11 ti~i~~~~~~~~~~~~~kv~~~~TV~~LK~~i~~~~gip~~~qrL~y~~~~~~~~~~~l~~d~~tL~~YgI~dg~~I~V~   90 (97)
T d1wjna_          11 TLKIKCSNQPERQILEKQLPDSMTVQKVKGLLSRLLKVPVSELLLSYESSKMPGREIELENDLQPLQFYSVENGDCLLVR   90 (97)
T ss_dssp             EEEEEESSCSSSCCEEEEEETTSBHHHHHHHHHTTTTCCTTTCEEEEECTTSCSCEEECCCSSSBSGGGTCCTTCEEEEE
T ss_pred             EEEEEeCCCCCCceEEEEcCCCCCHHHHHHHHHHHHCcChHHeEEEecCCCCCcccceecCCCcCHhhccCCCCCEEEEE
Confidence            46666543   6778999999999999999999999999999999998863       44 5699999999999999997


Q ss_pred             ec
Q 016931           71 SN   72 (380)
Q Consensus        71 ~~   72 (380)
                      ..
T Consensus        91 ~~   92 (97)
T d1wjna_          91 WS   92 (97)
T ss_dssp             CC
T ss_pred             eC
Confidence            54

>d1t0ya_ d.15.1.1 (A:) Ubiquitin-like domain of tubulin folding cofactor B {Nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: Ubiquitin-like domain of tubulin folding cofactor B
species: Nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=99.23  E-value=1.2e-11  Score=96.38  Aligned_cols=73  Identities=15%  Similarity=0.199  Sum_probs=61.2

Q ss_pred             EEEEEeC-CCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCe-------ecCCcccchhcCCCCCcEEEEeecC
Q 016931            2 RITVMTA-DEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGR-------EMNNAEKLSALGVKDEDLVMMVSNA   73 (380)
Q Consensus         2 ~ItVk~~-~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk-------~L~D~~tL~~~gI~dg~~I~l~~~~   73 (380)
                      .|.|.+. .+..++..+++++||.+||.+|+..+|+|++.|+|+|.|+       .++|+++|++|||.+|++|||+...
T Consensus         6 ~l~it~~~t~~~~E~r~~~~~TV~~LK~kle~~~Gip~~~q~L~~~~~~~~~~~~l~dd~~~L~~ygi~dG~~Ihvvd~~   85 (90)
T d1t0ya_           6 DLEITTNATDFPMEKKYPAGMSLNDLKKKLELVVGTTVDSMRIQLFDGDDQLKGELTDGAKSLKDLGVRDGYRIHAVDVT   85 (90)
T ss_dssp             EEEEEESSCCSCEEEEEETTSBHHHHHHHHHHHHCCCTTTEEEEEECSSSSEEEECCCCSSBTTTTTCCSSEEEEEEECT
T ss_pred             EEEEEECCCccEEEEecCCCCCHHHHHHHHHHHHCCChhheEEEEeCCCCCcccccccCCCCHHHCCCCCCCEEEEEeCC
Confidence            3556552 2444678899999999999999999999999999999876       3456799999999999999999764


Q ss_pred             C
Q 016931           74 A   74 (380)
Q Consensus        74 ~   74 (380)
                      +
T Consensus        86 ~   86 (90)
T d1t0ya_          86 G   86 (90)
T ss_dssp             T
T ss_pred             C
Confidence            3

>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=99.20  E-value=1.7e-11  Score=93.07  Aligned_cols=69  Identities=12%  Similarity=0.262  Sum_probs=63.3

Q ss_pred             EEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            3 ITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         3 ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|+. +|+.+.+.|..++++..||..++++.|+++++++|+|+|+.|.++.|+++|||++||+|+++..
T Consensus         7 ikv~~-~~~~~~f~v~~~~~~~~l~~~~~~~~~i~~~~~~l~f~G~~l~~~~T~~~~~i~dgd~I~v~~~   75 (79)
T d1euvb_           7 LKVSD-GSSEIFFKIKKTTPLRRLMEAFAKRQGKEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHRE   75 (79)
T ss_dssp             EEEES-SSCEEEEEEETTSCTHHHHHHHHHHTTCCGGGEEEEETTEECCTTCCTTTTTCCTTEEEEEEEC
T ss_pred             EEECC-CCeEEEEEECCCCcHHHHHHHHHHHhCCChHhEEEEECCEEeCCCCCHHHCCCCCCCEEEEEEe
Confidence            44544 5777889999999999999999999999999999999999999999999999999999999854

>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=99.18  E-value=1.8e-11  Score=95.73  Aligned_cols=55  Identities=22%  Similarity=0.399  Sum_probs=49.8

Q ss_pred             CCCCHHHHHHHHHHHhC--CC-CcCeEEecCCeecCCcccchhcCCCCCcEEEEeecC
Q 016931           19 PHETVENVKALLEVETQ--VP-LQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSNA   73 (380)
Q Consensus        19 ~~~TV~~LK~~I~~~~g--ip-~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~~   73 (380)
                      .+.||.+||++|+.++.  +| +++|+|+|+||.|+|+.+|++|||++|++|||+.+.
T Consensus        36 ~~~tV~~lK~~i~~~~~~~~P~p~~~rLIy~Gk~L~D~~tL~~y~I~~gstihLV~r~   93 (94)
T d1x1ma1          36 GGYSISFLKQLIAGKLQESVPDPELIDLIYCGRKLKDDQTLDFYGIQPGSTVHVLRKS   93 (94)
T ss_dssp             CCCBHHHHHHHHHHHCTTTCCCSSSEEEEETTEECCTTCBHHHHTCCTTCEEEEEESS
T ss_pred             CccCHHHHHHHHHHHcccCCCChhheEEEECCeEECCCccHHHcCCCCCCEEEEEEeC
Confidence            46799999999999874  44 699999999999999999999999999999999764

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

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

Probab=99.17  E-value=3.4e-11  Score=90.99  Aligned_cols=72  Identities=18%  Similarity=0.419  Sum_probs=68.5

Q ss_pred             CEEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            1 MRITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         1 M~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      ++|+|++.+|+.+.+.|..++++..|+...+.+.|+++++++|+|+|+.|.++.|++++++++||+|+++..
T Consensus         3 I~ikv~~~dg~~v~f~v~~~t~l~kl~~~y~~~~~~~~~~~~f~fdG~~l~~~~T~~~l~~edgD~Idv~~~   74 (77)
T d2uyzb1           3 IKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQE   74 (77)
T ss_dssp             EEEEEECTTCCEEEEEEETTSCTHHHHHHHHHHHTCCGGGEEEEETTEECCTTCCHHHHTCCTTEEEEEEEC
T ss_pred             EEEEEECCCCCEEEEEECCCChHHHHHHHHHHHhCCChhHEEEEECCEECCCCCCHHHcCCCCCCEEEEEEe
Confidence            468889999999999999999999999999999999999999999999999999999999999999999864

>d2fmba_ b.50.1.1 (A:) EIAV protease {Equine infectious anemia virus [TaxId: 11665]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Retroviral protease (retropepsin)
domain: EIAV protease
species: Equine infectious anemia virus [TaxId: 11665]

Probab=98.96  E-value=1.8e-09  Score=85.90  Aligned_cols=97  Identities=19%  Similarity=0.260  Sum_probs=68.4

Q ss_pred             ccceeEEeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcce-eEeecCcceeEEeEEEEEeEEEcCEEEeEEE
Q 016931          193 RVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYR-GVAHGVGQSEILGRIHVAPIKIGNVFYPCSF  271 (380)
Q Consensus       193 ~~~~lyv~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~-~~~~gvg~~~~~g~i~~~~i~ig~~~~~~~~  271 (380)
                      --.+..+.++|+|+++++|+||||++|+|+.....+....   ..... ....|.|. ...-+...+.+++.+......+
T Consensus         5 L~~RP~~~i~I~Gq~v~~LLDTGAD~TVI~~~~~p~~~~~---~~~~~~~~igg~g~-~~~~~~~~v~i~~~g~~~~~~~   80 (104)
T d2fmba_           5 LEKRPTTIVLINDTPLNVLLDTGADTSVLTTAHYNRLKYR---GRKYQGTGIGGVGG-NVETFSTPVTIKKKGRHIKTRM   80 (104)
T ss_dssp             SSSCCEEEEEETTEEEEEEECTTCSSCEEEHHHHHHCSSC---CCCEECCCEEETTE-EECCEEEEEEEEETTEEEEEEE
T ss_pred             cccCeEEEEEECCEEEEEEEeCCCCeEEEcccccCccCCC---CCCcceeEEEEecc-eEEEEEEEEEEEECCeEEEEEE
Confidence            3456788999999999999999999999999888765431   11111 12223332 2222233467888888888888


Q ss_pred             EEecCCCCceeeeHHHHhhcCeEE
Q 016931          272 VVLDSPNMEFLFGLDMLRKHQCII  295 (380)
Q Consensus       272 ~Vl~~~~~d~iLG~D~L~~~~~~I  295 (380)
                      .|.+. .++ |||-|+|.+++|.+
T Consensus        81 lV~p~-Pvn-LlGRdlL~qlG~~L  102 (104)
T d2fmba_          81 LVADI-PVT-ILGRDILQDLGAKL  102 (104)
T ss_dssp             EEESC-SSC-EECHHHHHHHTCCC
T ss_pred             EECCC-Ccc-eecHHHHHHhCCEE
Confidence            88884 343 99999999999875

>d4fiva_ b.50.1.1 (A:) Feline immunodeficiency virus (FIV) protease {Feline immunodeficiency virus [TaxId: 11673]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Retroviral protease (retropepsin)
domain: Feline immunodeficiency virus (FIV) protease
species: Feline immunodeficiency virus [TaxId: 11673]

Probab=98.64  E-value=5.1e-08  Score=78.32  Aligned_cols=97  Identities=22%  Similarity=0.218  Sum_probs=67.8

Q ss_pred             ceeEEeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEEEcC-----EEEeE
Q 016931          195 VMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGN-----VFYPC  269 (380)
Q Consensus       195 ~~lyv~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~-----~~~~~  269 (380)
                      .+..+.+.|||+++++|+||||++|+|+..-....+=   . ........|+|.....-+...+.+++.+     ..+.-
T Consensus         9 ~RP~v~v~I~Gq~v~~LLDTGAD~TVi~~~d~p~~~~---~-~~~~~~~~GIGG~~~v~~~~~v~i~~~~~~~~gtvl~g   84 (113)
T d4fiva_           9 KRPEILIFVNGYPIKFLLDTGADITILNRRDFQVKNS---I-ENGRQNMIGVGGGKRGTNYINVHLEIRDENYKTQCIFG   84 (113)
T ss_dssp             SCCEEEEEETTEEEEEEECTTCSSCEEEGGGCCCTTC---E-EEEEEEEECSSCEEEEEEEEEEEEEECCTTSCCCEEEE
T ss_pred             cCCeEEEEECCEEEEEEEcCCCCcEEEeccccCCCCC---C-CCCCCeEEecCeEEeeeEEceEEEEEcCCeEeEEEEEc
Confidence            3567899999999999999999999998764322110   1 1122345588876555566666778765     34445


Q ss_pred             EEEEecCCCCc-eeeeHHHHhhcCeEE
Q 016931          270 SFVVLDSPNME-FLFGLDMLRKHQCII  295 (380)
Q Consensus       270 ~~~Vl~~~~~d-~iLG~D~L~~~~~~I  295 (380)
                      ++.|++..++. =|||-|.|.+++|.+
T Consensus        85 ~~pvlp~~~~p~nllGRd~LtqlG~~L  111 (113)
T d4fiva_          85 NVCVLEDNSLIQPLLGRDNMIKFNIRL  111 (113)
T ss_dssp             EEEEETTCCCSSCEECHHHHHHTTCCC
T ss_pred             cccccCCCCCcCCEEChhhhHHhCCEE
Confidence            66777755442 499999999999875

>d2nmza1 b.50.1.1 (A:1-99) Human immunodeficiency virus type 1 protease {Human immunodeficiency virus type 1 [TaxId: 11676]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Retroviral protease (retropepsin)
domain: Human immunodeficiency virus type 1 protease
species: Human immunodeficiency virus type 1 [TaxId: 11676]

Probab=98.54  E-value=5.7e-07  Score=69.01  Aligned_cols=93  Identities=18%  Similarity=0.272  Sum_probs=74.4

Q ss_pred             cceeEEeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcce-eEeecCcceeEEeEEEEEeEEEcCEEEeEEEE
Q 016931          194 VVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYR-GVAHGVGQSEILGRIHVAPIKIGNVFYPCSFV  272 (380)
Q Consensus       194 ~~~lyv~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~-~~~~gvg~~~~~g~i~~~~i~ig~~~~~~~~~  272 (380)
                      ..+-.|.++|.|+.+.||+||||..|++.     .+.|.    .++. .+..|+|..--+-....+.++|.+......+.
T Consensus         6 wqRP~vtvkIgGq~~eaLLDTGADdTVle-----ei~lp----g~WkPk~IgGIGGfikVrqYd~i~iei~g~k~~gtVL   76 (99)
T d2nmza1           6 WKRPLVTIKIGGQLKEALLDTGADDTVIE-----EMSLP----GRWKPKMIGGIGGFIKVRQYDQIIIEIAGHKAIGTVL   76 (99)
T ss_dssp             SSCCEEEEEETTEEEEEEECTTCSSCEEE-----SCCCC----SCCEEEEEEETTEEEEEEEEEEEEEEETTEEEEEEEE
T ss_pred             cCCCeEEEEECCEEEEEeeccCCCceEEe-----cccCC----CCCCceEEEeccceEEEEEeCceEEEECCcEEEEEEE
Confidence            34678999999999999999999999994     34442    2443 35677776555556677899999999998999


Q ss_pred             EecCCCCceeeeHHHHhhcCeEEEc
Q 016931          273 VLDSPNMEFLFGLDMLRKHQCIIDL  297 (380)
Q Consensus       273 Vl~~~~~d~iLG~D~L~~~~~~ID~  297 (380)
                      |-+. .++ |+|-|.|.+++|.+||
T Consensus        77 VgpT-PvN-IiGRN~Ltq~GctLnf   99 (99)
T d2nmza1          77 VGPT-PAN-IIGRNLLTQIGATLNF   99 (99)
T ss_dssp             EESC-SSC-EECHHHHTTTTCEEEC
T ss_pred             ECCC-Ccc-EEcccchhhcCceecC
Confidence            9885 444 9999999999999986

>d1hvca_ b.50.1.1 (A:) Human immunodeficiency virus type 1 protease {Human immunodeficiency virus type 1 [TaxId: 11676]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Retroviral protease (retropepsin)
domain: Human immunodeficiency virus type 1 protease
species: Human immunodeficiency virus type 1 [TaxId: 11676]

Probab=98.51  E-value=3.9e-07  Score=78.29  Aligned_cols=92  Identities=17%  Similarity=0.311  Sum_probs=74.5

Q ss_pred             ceeEEeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcce-eEeecCcceeEEeEEEEEeEEEcCEEEeEEEEE
Q 016931          195 VMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYR-GVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVV  273 (380)
Q Consensus       195 ~~lyv~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~-~~~~gvg~~~~~g~i~~~~i~ig~~~~~~~~~V  273 (380)
                      .+-.|.++|.|+.+.||+||||..|++.     ..+|.    .++. .+..|+|..-.+-+...+.++|.+.....++.|
T Consensus         7 qRP~VtVkIgGQ~~eaLLDTGADDTVLe-----~inLp----G~WkPkiIGGIGGfIkVrqY~~V~IeI~gkk~~gTVLV   77 (203)
T d1hvca_           7 QRPLVTIRIGGQLKEALLDTGADDTVLE-----EMNLP----GKWKPKMIGGIGGFIKVRQYDQILIEICGHKAIGTVLV   77 (203)
T ss_dssp             SCCEEEEESSSCEEEEEECTTCSSEEEE-----CCCCS----SCEEEEEEEETTEEEEEEEEEEEEEEETTEEEEEEEEE
T ss_pred             CCCeEEEEECCEEEEEEecCCCCceEEe-----cccCC----CCCcccEEEecCceEEEEEeCCEEEEECCcEEEEEEEE
Confidence            4678999999999999999999999993     34442    2333 356677765556666788999999999999999


Q ss_pred             ecCCCCceeeeHHHHhhcCeEEEc
Q 016931          274 LDSPNMEFLFGLDMLRKHQCIIDL  297 (380)
Q Consensus       274 l~~~~~d~iLG~D~L~~~~~~ID~  297 (380)
                      .+. .++ |||-|.|.+.+|.++|
T Consensus        78 gPT-PvN-IIGRNlLtqlG~tLnF   99 (203)
T d1hvca_          78 GPT-PVN-IIGRNLLTQIGCTLNF   99 (203)
T ss_dssp             ESC-SSC-EECHHHHGGGTCEEEC
T ss_pred             CCC-Ccc-ccchhhhhhhhheeec
Confidence            984 444 9999999999999999

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

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

Probab=98.47  E-value=3e-07  Score=67.82  Aligned_cols=69  Identities=14%  Similarity=0.362  Sum_probs=65.2

Q ss_pred             EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEe
Q 016931            2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMV   70 (380)
Q Consensus         2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~   70 (380)
                      .|+|+..+|+.+.+.|..++++..|....+.+.++++...+++|+|+.|..+.|-+++++++||+|-+-
T Consensus         3 ~lkv~~~~g~~v~f~vk~~t~l~kl~~~y~~~~~~~~~~~~f~fdG~~i~~~~Tp~~l~med~D~Idv~   71 (72)
T d1wm3a_           3 NLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETDTPAQLEMEDEDTIDVF   71 (72)
T ss_dssp             EEEEECTTSCEEEEEECTTSCTHHHHHHHHHHHTCCTTTCEEEETTEECCTTCCTTTTTCCTTEEEEEE
T ss_pred             EEEEECCCCCEEEEEEcCCChHHHHHHHHHHHhCCCccceEEEECCEEcCCCCCHHHcCCCCCCEEEEE
Confidence            578888889999999999999999999999999999999999999999999999999999999999764

>d3ecga1 b.50.1.1 (A:1-99) Human immunodeficiency virus type 2 (HIV-2) protease {Human immunodeficiency virus type 2 [TaxId: 11709]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Retroviral protease (retropepsin)
domain: Human immunodeficiency virus type 2 (HIV-2) protease
species: Human immunodeficiency virus type 2 [TaxId: 11709]

Probab=98.41  E-value=2.2e-06  Score=65.59  Aligned_cols=92  Identities=20%  Similarity=0.305  Sum_probs=72.2

Q ss_pred             ceeEEeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcce-eEeecCcceeEEeEEEEEeEEEcCEEEeEEEEE
Q 016931          195 VMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYR-GVAHGVGQSEILGRIHVAPIKIGNVFYPCSFVV  273 (380)
Q Consensus       195 ~~lyv~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~-~~~~gvg~~~~~g~i~~~~i~ig~~~~~~~~~V  273 (380)
                      .+-.|.++|+|+.+.||+||||..|++.     ...|.    .++. .+..|+|..-.+-....++++|.+......+.|
T Consensus         7 qRP~vtvkIgGq~~eaLLDTGADdTVle-----~i~lp----g~WkPk~iGGIGGfikVrqYd~i~Ieicg~k~~gtVLv   77 (99)
T d3ecga1           7 KRPVVTAYIEGQPVEVLLDTGADDSIVA-----GIELG----NNYSPKIVGGIGGFINTKEYKNVEIEVLNKKVRATIMT   77 (99)
T ss_dssp             SCCEEEEEETTEEEEEEECTTCSSCEEC-----SCCCC----SCCEEEEEEETTEEEEEEEEEEEEEEETTEEEEEEEEE
T ss_pred             CCCeEEEEECCEEeeeecccCCCceeee-----ccCCC----CCCcceEEEEeeeeEEEEEeCcEEEEECCcEEEEEEEe
Confidence            4678999999999999999999999993     34442    2343 366677765555566778999999988888888


Q ss_pred             ecCCCCceeeeHHHHhhcCeEEEc
Q 016931          274 LDSPNMEFLFGLDMLRKHQCIIDL  297 (380)
Q Consensus       274 l~~~~~d~iLG~D~L~~~~~~ID~  297 (380)
                      -+. .+ =|+|-+.|.+++|.+|+
T Consensus        78 gpT-Pv-NIiGRNlLtqlGctLn~   99 (99)
T d3ecga1          78 GDT-PI-NIFGRNILTALGMSLNL   99 (99)
T ss_dssp             ECC-SS-CEECHHHHHHTTCEEEC
T ss_pred             CCC-Cc-eEEccchhhhhCcccCC
Confidence            665 33 49999999999999874

>d1wf9a1 d.15.1.1 (A:8-101) NPL4-like protein 1 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: Ubiquitin-related
domain: NPL4-like protein 1
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.40  E-value=2.8e-07  Score=70.23  Aligned_cols=69  Identities=26%  Similarity=0.425  Sum_probs=55.8

Q ss_pred             EEEEeCCCCEEEEEeCC-CCCHHHHHHHHHHHhCCCCcCeEEecC--------------CeecCCc-ccchhcCCCCCcE
Q 016931            3 ITVMTADEQIISLDVDP-HETVENVKALLEVETQVPLQQQQLLYN--------------GREMNNA-EKLSALGVKDEDL   66 (380)
Q Consensus         3 ItVk~~~g~~~~i~V~~-~~TV~~LK~~I~~~~gip~~~q~Li~~--------------Gk~L~D~-~tL~~~gI~dg~~   66 (380)
                      |.|++.+| +..++|+. +.||.+||.+|+++++||.+.|.|..+              -..|.|+ .+|+++||.+|++
T Consensus         3 iRiRsrdG-~eRv~v~~~~~Tl~~LK~~Ie~~L~VPv~~Q~LSl~~~llL~k~P~~~~~~~~l~d~~~~L~sl~i~hGsi   81 (94)
T d1wf9a1           3 LRVRSRDG-LERVSVDGPHITVSQLKTLIQDQLQIPIHNQTLSTNRNLLLAKSPSDFLAFTDMADPNLRISSLNLAHGSM   81 (94)
T ss_dssp             EEEECSSC-EEEEEECCTTSBHHHHHHHHHHHSCCCTTTCCCBSSGGGGTCCSHHHHTTCCSSCCTTCBGGGTCCCTTCE
T ss_pred             EEEEecCC-ceEEEecCCCCcHHHHHHHHHHHhCCCcccceeecChhhhccCCccccchhhhccCCccCHHHcCccCceE
Confidence            56778665 46788864 789999999999999999999999543              1235555 6899999999999


Q ss_pred             EEEeec
Q 016931           67 VMMVSN   72 (380)
Q Consensus        67 I~l~~~   72 (380)
                      |++...
T Consensus        82 vyL~y~   87 (94)
T d1wf9a1          82 VYLAYE   87 (94)
T ss_dssp             EECCCS
T ss_pred             EEEEee
Confidence            999743

>d1nsoa_ b.50.1.1 (A:) Mason-Pfizer monkey virus protease {Simian retrovirus 1, SRV-1 [TaxId: 11942]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Retroviral protease (retropepsin)
domain: Mason-Pfizer monkey virus protease
species: Simian retrovirus 1, SRV-1 [TaxId: 11942]

Probab=98.30  E-value=2.8e-07  Score=73.33  Aligned_cols=95  Identities=15%  Similarity=0.102  Sum_probs=57.7

Q ss_pred             eeEEeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeEEeEEEEE-eEEEcC-EEEeEEEEE
Q 016931          196 MLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVA-PIKIGN-VFYPCSFVV  273 (380)
Q Consensus       196 ~lyv~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~-~i~ig~-~~~~~~~~V  273 (380)
                      +..+.+.|+|+++.+|+||||++|+|+..-..   ..-.. ........|+|.....-+.... ...-+. ....+..+|
T Consensus         9 RP~~~v~I~G~~v~~LLDTGAD~TVI~~~~~p---~~wp~-~~~~~~~~GiGg~~~~~~~~~~l~~~~~~~~~~~~~p~v   84 (107)
T d1nsoa_           9 KPSLTLWLDDKMFTGLINTGADVTIIKLEDWP---PNWPI-TDTLTNLRGIGQSNNPKQSSKYLTWRDKENNSGLIKPFV   84 (107)
T ss_dssp             SSCEEEEETTEEEEECCCSSCSSCBCCGGGSC---TTSCC-CCCEEEECSSSEEEECCCBCCCEEEEETTTEEEEECCBB
T ss_pred             CcEEEEEECCEEEEeeecCCCCcEEEeccccC---CCCCc-CcCccEEEEecCeeeEEEeeeeEEEEeCCCceEEEcceE
Confidence            45577899999999999999999999876532   11101 1123456677643222222221 222233 333333346


Q ss_pred             ecCCCCceeeeHHHHhhcCeEE
Q 016931          274 LDSPNMEFLFGLDMLRKHQCII  295 (380)
Q Consensus       274 l~~~~~d~iLG~D~L~~~~~~I  295 (380)
                      +....++ |||-|.|.+++|.+
T Consensus        85 v~~~Pvn-llGRd~L~qlg~~L  105 (107)
T d1nsoa_          85 IPNLPVN-LWGRDLLSQMKIMM  105 (107)
T ss_dssp             CTTCCCC-BCCHHHHHHHHTSC
T ss_pred             CCCCCcC-cccHHHHHHhCCEE
Confidence            7655565 99999999998753

>d1hvca_ b.50.1.1 (A:) Human immunodeficiency virus type 1 protease {Human immunodeficiency virus type 1 [TaxId: 11676]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Retroviral protease (retropepsin)
domain: Human immunodeficiency virus type 1 protease
species: Human immunodeficiency virus type 1 [TaxId: 11676]

Probab=97.76  E-value=0.00012  Score=62.54  Aligned_cols=96  Identities=20%  Similarity=0.324  Sum_probs=77.0

Q ss_pred             ccccceeEEeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcce-eEeecCcceeEEeEEEEEeEEEcCEEEeE
Q 016931          191 FARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYR-GVAHGVGQSEILGRIHVAPIKIGNVFYPC  269 (380)
Q Consensus       191 f~~~~~lyv~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~-~~~~gvg~~~~~g~i~~~~i~ig~~~~~~  269 (380)
                      +....+..|.++|.|+...||+||||.-|++     +...|.    .|+. .+..|+|.---+-....++++|-++....
T Consensus       107 i~~wqrp~vt~ki~gq~~ealldtgaddtv~-----e~~~lp----grwkpk~iggiggfikvrqy~~v~iei~g~k~~g  177 (203)
T d1hvca_         107 ITLWQRPLVTIKIGGQLKEALLDTGADDTVL-----EEMSLP----GRWKPKMIGGIGGFIKVRQYDQILIEICGHKAIG  177 (203)
T ss_dssp             ECSSSCCEEEEEETTEEEEEEECTTCSSCEE-----ESCCCS----SCCEEEEEEETTEEEEEEEEEEEEEEETTEEEEE
T ss_pred             eeecccceEEEecchhHHHHHhcccCCceEE-----ecccCC----CCCcceEEEEeccccceeeEccEEEEECCCEEEE
Confidence            4456788999999999999999999999998     445553    2444 46677786655667778899999999888


Q ss_pred             EEEEecCCCCceeeeHHHHhhcCeEEEc
Q 016931          270 SFVVLDSPNMEFLFGLDMLRKHQCIIDL  297 (380)
Q Consensus       270 ~~~Vl~~~~~d~iLG~D~L~~~~~~ID~  297 (380)
                      .+.|-+.. + =|+|-+.|.+++|.+||
T Consensus       178 tvlvgptp-~-niigrn~ltq~g~tlnf  203 (203)
T d1hvca_         178 TVLVGPTP-V-NIIGRNLLTQIGCTLNF  203 (203)
T ss_dssp             EEEEECCS-S-CEECHHHHTTTTCEEEC
T ss_pred             EEEECCCC-c-eEEcccchhhcCccccC
Confidence            88888753 3 49999999999999986

>d2al3a1 d.15.1.2 (A:10-85) Tether containing UBX domain for GLUT4 (Tug) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: UBX domain
domain: Tether containing UBX domain for GLUT4 (Tug)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.36  E-value=0.00048  Score=50.35  Aligned_cols=70  Identities=10%  Similarity=0.119  Sum_probs=66.6

Q ss_pred             EEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEecCCeecCCcccchhcCCCCCcEEEEeec
Q 016931            3 ITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLLYNGREMNNAEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         3 ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li~~Gk~L~D~~tL~~~gI~dg~~I~l~~~   72 (380)
                      |+|-+++|+..++.|.|++|+.++-+....++|+.+++..|.|++|.|+-+.++.-.|+.+|..+-|+..
T Consensus         3 V~Vl~~~~rR~~VKvtP~t~l~~VL~eaC~k~~~~~~~~~Lkh~~k~ldLsl~~R~sgLpnnakLELv~~   72 (76)
T d2al3a1           3 VSVLAPNGRRHTVKVTPSTVLLQVLEDTCRRQDFNPSEYDLKFQRTVLDLSLQWRFANLPNNAKLEMVPV   72 (76)
T ss_dssp             EEEECTTSCEEEECCCTTSBHHHHHHHHHHHTTCCGGGCEEEETTEEESSSCBHHHHCCCSSCEEEEECS
T ss_pred             EEEECCCCcEEEEEeCCCcCHHHHHHHHHHHhCCChhHceeeeCCEEcCccceeeecCCCCCCEEEEEEc
Confidence            6788889999999999999999999999999999999999999999999999999999999999999854

>d2rspa_ b.50.1.1 (A:) Rous sarcoma virus protease {Rous sarcoma virus, strain pr-C [TaxId: 11886]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Retroviral protease (retropepsin)
domain: Rous sarcoma virus protease
species: Rous sarcoma virus, strain pr-C [TaxId: 11886]

Probab=97.21  E-value=9.5e-05  Score=59.61  Aligned_cols=91  Identities=18%  Similarity=0.121  Sum_probs=46.6

Q ss_pred             eeecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcce---eEEeEEEEEeEEEcC----EEEeEEEEE
Q 016931          201 MEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQS---EILGRIHVAPIKIGN----VFYPCSFVV  273 (380)
Q Consensus       201 v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~---~~~g~i~~~~i~ig~----~~~~~~~~V  273 (380)
                      ++++|+.+.+|+||||..|+|+..-... ..+ ..+ .......|+|..   +..-.+....+....    ..+-+..+|
T Consensus        25 ~k~~g~~i~~LLDTGAD~TVI~~~dwp~-~Wp-~~~-~~~~~i~GIGg~~~v~~~~~~~~~~~~~~~~~~~~~~~~~p~V  101 (124)
T d2rspa_          25 VKQRSVYITALLDSGADITIISEEDWPT-DWP-VME-AANPQIHGIGGGIPMRKSRDMIELGVINRDGSLERPLLLFPAV  101 (124)
T ss_dssp             CSCSEEEEEEEECTTCSSCEEETTTSCT-TSC-EEE-CC---------CCCEEEESSCEEEEEECTTSCBCCCEEECCEE
T ss_pred             EeeCCEEEEEEEcCCCCeEEEcCCccCC-CCc-cCC-CCCCEEEEcCCceeeEEeeeeEEEeeEecCCceeeeEEEecCC
Confidence            6788899999999999999998654211 000 000 001123455532   222222222333322    122223344


Q ss_pred             ecCCCCceeeeHHHHhhcCeEEE
Q 016931          274 LDSPNMEFLFGLDMLRKHQCIID  296 (380)
Q Consensus       274 l~~~~~d~iLG~D~L~~~~~~ID  296 (380)
                      .+.  ..=|+|-|.|.+++|.+.
T Consensus       102 ~~t--Pvni~GRdiL~qlG~tLt  122 (124)
T d2rspa_         102 AMV--RGSILGRDCLQGLGLRLT  122 (124)
T ss_dssp             ESC--SSEEECHHHHHHTTCEEE
T ss_pred             CCC--cccEECHhHHHHhCCEEe
Confidence            443  235999999999999874

>d1h8ca_ d.15.1.2 (A:) Fas-associated factor 1, Faf1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: UBX domain
domain: Fas-associated factor 1, Faf1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.89  E-value=0.0028  Score=46.76  Aligned_cols=69  Identities=10%  Similarity=0.254  Sum_probs=59.3

Q ss_pred             EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEe--cCCeecC---CcccchhcCCCCCcEEEEee
Q 016931            2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLL--YNGREMN---NAEKLSALGVKDEDLVMMVS   71 (380)
Q Consensus         2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li--~~Gk~L~---D~~tL~~~gI~dg~~I~l~~   71 (380)
                      +|.|+.++|+.+.-.+..++||.+|...|... +.++....|+  |-.+.+.   .++||.+.|+.+..+|+|-.
T Consensus         7 ~i~iRlPdG~~~~~~F~~~~tl~~v~~~v~~~-~~~~~~~~l~~~~Pr~~l~~~d~~~TL~e~gL~p~~~L~vq~   80 (82)
T d1h8ca_           7 KLRIRTPSGEFLERRFLASNKLQIVFDFVASK-GFPWDEYKLLSTFPRRDVTQLDPNKSLLEVKLFPQETLFLEA   80 (82)
T ss_dssp             EEEEECTTSCEEEEEECTTSBHHHHHHHHHHH-TCCSSSEEEEETTTTEETTTCCTTSBHHHHCCCSEEEEEEEE
T ss_pred             EEEEECCCCCEEEEEECCCCcHHHHHHHHHhc-CCCCCceEEEecCcccccccccccCCHHHCCCCCCCEEEEEe
Confidence            57899999999999999999999999999875 6777778877  6788885   35799999999999998854

>d2pmaa1 b.50.1.3 (A:26-166) Uncharacterized protein LPG0085 {Legionella pneumophila [TaxId: 446]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: LPG0085-like
domain: Uncharacterized protein LPG0085
species: Legionella pneumophila [TaxId: 446]

Probab=96.61  E-value=0.0018  Score=53.03  Aligned_cols=46  Identities=15%  Similarity=0.214  Sum_probs=39.7

Q ss_pred             EEEEeEEEcCEEEeEEEEEecCC--CCceeeeHHHHhhcCeEEEcCCC
Q 016931          255 IHVAPIKIGNVFYPCSFVVLDSP--NMEFLFGLDMLRKHQCIIDLKEN  300 (380)
Q Consensus       255 i~~~~i~ig~~~~~~~~~Vl~~~--~~d~iLG~D~L~~~~~~ID~~~~  300 (380)
                      +-...++||+..+++.|..-+..  .+.+|||-+||+.+++.||..+.
T Consensus        90 vV~~~i~ig~~~~~ie~tL~dR~~m~yp~LiGR~~L~~~~~~VD~s~~  137 (141)
T d2pmaa1          90 VVLLNIKLGDKVRTIKVNLTNRKRFLYPLLLGRDAIIDFNGAVDPALT  137 (141)
T ss_dssp             EEEEEEEETTEEEEEEEEEECCCCCSCSEEECHHHHHHTTEEEETTCC
T ss_pred             EEEEEEEECCEEEEEEEEECCCCCCCCCEEECHHHHhcCCEEECCchh
Confidence            44458999999999999999943  68999999999999999998764

>d1i42a_ d.15.1.2 (A:) p47 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: UBX domain
domain: p47
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=96.28  E-value=0.0073  Score=45.23  Aligned_cols=64  Identities=9%  Similarity=0.220  Sum_probs=53.0

Q ss_pred             EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHh-CCCCcCeEEe--cCCeecCC-cccchhcCCCCCc
Q 016931            2 RITVMTADEQIISLDVDPHETVENVKALLEVET-QVPLQQQQLL--YNGREMNN-AEKLSALGVKDED   65 (380)
Q Consensus         2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~-gip~~~q~Li--~~Gk~L~D-~~tL~~~gI~dg~   65 (380)
                      +|.|+.++|+.+...+..+.||.+|...|.... +.+.....|+  |-.|.|.| +.||.++|+.+..
T Consensus        16 ~I~iRlPdG~~~~~~F~~~~tl~dv~~~v~~~~~~~~~~~f~L~t~~Prr~l~d~~~TL~e~gL~~s~   83 (89)
T d1i42a_          16 NIQIRLADGGRLVQKFNHSHRISDIRLFIVDARPAMAATSFVLMTTFPNKELADENQTLKEANLLNAV   83 (89)
T ss_dssp             EEEEEETTTCCEEEEECSSSCGGGHHHHHHHHCTTTSSCCEEEEETTTTEECCCCSSCSGGGTTCCSE
T ss_pred             EEEEEcCCCCEEEEEECCchhHHHHHHHHHHhCccCCCCCEEEecCCCCcccCCCcCcHHHCCCcCce
Confidence            577899999999999999999999999998764 5666678887  45678865 5899999998653

>d1wj4a_ d.15.1.2 (A:) Hypothetical protein KIAA0794 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: UBX domain
domain: Hypothetical protein KIAA0794
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.14  E-value=0.0099  Score=47.31  Aligned_cols=71  Identities=11%  Similarity=0.237  Sum_probs=58.8

Q ss_pred             EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEe--cCCeecC--C-cccchhcCCCCCcEEEEeecC
Q 016931            2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLL--YNGREMN--N-AEKLSALGVKDEDLVMMVSNA   73 (380)
Q Consensus         2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li--~~Gk~L~--D-~~tL~~~gI~dg~~I~l~~~~   73 (380)
                      +|.|+.++|+.+.-.+..+.||.+|.+.|... +.......|+  |--+.|.  | ++||.++|+.+..+|+|-...
T Consensus        45 ~l~iRlPdG~r~~r~F~~~~tl~~l~~~v~~~-~~~~~~~~L~~~fPr~~l~~~d~~~TL~e~gL~P~~~L~vee~~  120 (124)
T d1wj4a_          45 QLMLRYPDGKREQITLPEQAKLLALVKHVQSK-GYPNERFELLTNFPRRKLSHLDYDITLQEAGLCPQETVFVQESG  120 (124)
T ss_dssp             EEEEECTTSCEEEEEEETTSCHHHHHHHHHHH-HCCTTTEEEECSSSCCEETSSCSSSCTTTTTCCSSBCCEEEECC
T ss_pred             EEEEECCCCCEEEEEeCCCCcHHHHHHHHHhc-ccCCcceEEeecccccccccccccCcHHHcCCCCCCEEEEEecC
Confidence            57889999999999999999999999999876 4566677776  5667774  3 589999999999999987654

>d2cr5a1 d.15.1.2 (A:8-103) UBX domain-containing protein 6 (Reproduction 8) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: Ubiquitin-like
family: UBX domain
domain: UBX domain-containing protein 6 (Reproduction 8)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.63  E-value=0.03  Score=42.12  Aligned_cols=70  Identities=6%  Similarity=0.105  Sum_probs=56.7

Q ss_pred             EEEEEeCCCCEEEEEeCCCCCHHHHHHHHHHHhCCCCcCeEEe--cCCeecC-C-cccchhcCCCCCcEEEEeec
Q 016931            2 RITVMTADEQIISLDVDPHETVENVKALLEVETQVPLQQQQLL--YNGREMN-N-AEKLSALGVKDEDLVMMVSN   72 (380)
Q Consensus         2 ~ItVk~~~g~~~~i~V~~~~TV~~LK~~I~~~~gip~~~q~Li--~~Gk~L~-D-~~tL~~~gI~dg~~I~l~~~   72 (380)
                      +|.|+..+|+.+.-.+..++||.+|...|.... ......+|+  |-.+.+. | ++||.++|+.+..+|+|..+
T Consensus        18 ~i~iRlPdG~r~~r~F~~~dtl~~l~~fv~~~~-~~~~~f~l~~~~Pr~~~~~d~~~TL~e~gl~p~~~L~v~~~   91 (96)
T d2cr5a1          18 TVALRCPNGRVLRRRFFKSWNSQVLLDWMMKVG-YHKSLYRLSTSFPRRALEVEGGSSLEDIGITVDTVLNVEEK   91 (96)
T ss_dssp             EEEEECTTSCEEEEEEESSSBTHHHHHHHHHHT-CCTTTEEEECSSSCCBCCCCSSCBHHHHTCSSCEEEEEEEC
T ss_pred             EEEEECCCCCEEEEEECCcccHHHHHHHHHHhc-cCcccceeecCCCceecCccCCCcHHHCCCCCCCEEEEecC
Confidence            578899999999999999999999999997754 455666776  4456664 3 58999999999999988754

>d1izea_ b.50.1.2 (A:) Acid protease {Fungus (Aspergillus oryzae) [TaxId: 5062]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Acid protease
species: Fungus (Aspergillus oryzae) [TaxId: 5062]

Probab=94.56  E-value=0.032  Score=50.18  Aligned_cols=110  Identities=10%  Similarity=0.057  Sum_probs=63.5

Q ss_pred             cccceeEEeeeecCeeEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcce--eEEeEEEEEeEEEcCEEEe-
Q 016931          192 ARVVMLYVDMEVNGIPLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQS--EILGRIHVAPIKIGNVFYP-  268 (380)
Q Consensus       192 ~~~~~lyv~v~Ing~~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~--~~~g~i~~~~i~ig~~~~~-  268 (380)
                      ..+..++|+-+.......++||||.+.+.++.+.++.+--.  +...  ......+..  ..........+.+|+..+. 
T Consensus       193 v~~~~i~v~~~~~~~~~~~ivDSGts~~~lp~~~~~~~~~~--~~~~--~~~~~~~~~~~~~~~~~p~i~f~f~g~~~~i  268 (323)
T d1izea_         193 FTADGYSIGSDSSSDSITGIADTGTTLLLLDDSIVDAYYEQ--VNGA--SYDSSQGGYVFPSSASLPDFSVTIGDYTATV  268 (323)
T ss_dssp             EEESEEEETTEEECCCEEEEECTTCCSEEECHHHHHHHHTT--STTC--EEETTTTEEEEETTCCCCCEEEEETTEEEEE
T ss_pred             EEeceEEECCCccccCceEEeccCCccccCCHHHHHHHHHH--cCCc--cccCCCCcEEeecccCCceEEEEECCEEEEc
Confidence            34555555555555568899999999999999998875321  0000  001111100  0011112335566664433 


Q ss_pred             --------------EEEEEecCC-CCceeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931          269 --------------CSFVVLDSP-NMEFLFGLDMLRKHQCIIDLKENVLRVG  305 (380)
Q Consensus       269 --------------~~~~Vl~~~-~~d~iLG~D~L~~~~~~ID~~~~~l~i~  305 (380)
                                    |-+.+.... .-..|||..||+.+-.+.|+++++|-|.
T Consensus       269 p~~~~~~~~~~~~~C~~~i~~~~~~~~~iLG~~flr~~y~vfD~~~~~IGfA  320 (323)
T d1izea_         269 PGEYISFADVGNGQTFGGIQSNSGIGFSIFGDVFLKSQYVVFDASGPRLGFA  320 (323)
T ss_dssp             CHHHHEEEECSTTEEEESEEECTTTSSEEECHHHHTTEEEEEETTTTEEEEE
T ss_pred             ChHHEEEEeCCCCEEEEEEECCCCCCCEEECHHHhCCEEEEEECCCCEEEEc
Confidence                          222222222 2235999999999999999999998774

>d1bxoa_ b.50.1.2 (A:) Acid protease {Fungus (Penicillium janthinellum), penicillopepsin [TaxId: 5079]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Acid protease
species: Fungus (Penicillium janthinellum), penicillopepsin [TaxId: 5079]

Probab=94.10  E-value=0.04  Score=49.39  Aligned_cols=95  Identities=12%  Similarity=0.148  Sum_probs=55.7

Q ss_pred             eEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcc--eeEEeEEEEEeEEEcCEEEe----------------
Q 016931          207 PLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQ--SEILGRIHVAPIKIGNVFYP----------------  268 (380)
Q Consensus       207 ~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~--~~~~g~i~~~~i~ig~~~~~----------------  268 (380)
                      ...++||||.+.+.++.+.++++--.  +....  .....+.  ..+.-......+.+|+..+.                
T Consensus       207 ~~~aiiDSGTs~~~lp~~~~~~l~~~--i~~~~--~~~~~~~~~~~c~~~~p~itf~f~g~~~~i~~~~~~~~~~~~~~~  282 (323)
T d1bxoa_         207 GFSGIADTGTTLLLLDDSVVSQYYSQ--VSGAQ--QDSNAGGYVFDCSTNLPDFSVSISGYTATVPGSLINYGPSGDGST  282 (323)
T ss_dssp             EEEEEECTTCSSEEECHHHHHHHHTT--STTCE--EETTTTEEEECTTCCCCCEEEEETTEEEEECHHHHEEEECSSSSC
T ss_pred             CcceEEecccccccCCHHHHHHHHHH--hCCcc--ccCCCCcEEEeccCCCCcEEEEECCEEEEEChHHeEEEEcCCCCE
Confidence            47899999999999999999986210  00000  0000000  00001122334555654433                


Q ss_pred             EEEEEecCCCCc-eeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931          269 CSFVVLDSPNME-FLFGLDMLRKHQCIIDLKENVLRVG  305 (380)
Q Consensus       269 ~~~~Vl~~~~~d-~iLG~D~L~~~~~~ID~~~~~l~i~  305 (380)
                      |-+.+......+ .|||-.||+.+-.+.|+++++|-|.
T Consensus       283 C~~~i~~~~~~~~~ILG~~flr~~y~vfD~~~~~IGfA  320 (323)
T d1bxoa_         283 CLGGIQSNSGIGFSIFGDIFLKSQYVVFDSDGPQLGFA  320 (323)
T ss_dssp             EEESEEECTTCSSEEECHHHHTTEEEEEETTTTEEEEE
T ss_pred             EEEEEECCCCCCcEEECHHHhCCEEEEEECCCCEEeEE
Confidence            222232332333 5899999999999999999998774

>d2f4mb1 a.189.1.1 (B:275-332) XPC-binding domain of Rad23 homolog B (Hhr23b) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: XPC-binding domain
superfamily: XPC-binding domain
family: XPC-binding domain
domain: XPC-binding domain of Rad23 homolog B (Hhr23b)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.68  E-value=0.037  Score=37.85  Aligned_cols=40  Identities=20%  Similarity=0.392  Sum_probs=30.1

Q ss_pred             HHHHHHHhcCHH----HHHHHhhcCHHHHHHhcCCCHHHHHHHHH
Q 016931           94 AAFQQHIRNDAN----LMTQLFQSDPELAQVLLGNDLNKLQDLLR  134 (380)
Q Consensus        94 ~~~~q~~l~nP~----~l~qL~~~nP~La~ai~~~d~~~~~~~l~  134 (380)
                      ..+|+.+.+||+    ++++|.++||+|.++|. .|++.|-+++.
T Consensus        12 q~lR~~vq~nP~~L~~lLqql~~~NP~L~q~I~-~nqe~Fl~lln   55 (58)
T d2f4mb1          12 QQMRQIIQQNPSLLPALLQQIGRENPQLLQQIS-QHQEHFIQMLN   55 (58)
T ss_dssp             HHHHHHHHHCGGGHHHHHHHHHHHCHHHHHHHH-HSHHHHHHHHT
T ss_pred             HHHHHHHHHCHHHHHHHHHHHHhhCHHHHHHHH-HCHHHHHHHHc
Confidence            568888888875    46667778999999885 57777776653

>d1vjka_ d.15.3.1 (A:) Molybdopterin synthase subunit MoaD {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a+b)
fold: beta-Grasp (ubiquitin-like)
superfamily: MoaD/ThiS
family: MoaD
domain: Molybdopterin synthase subunit MoaD
species: Pyrococcus furiosus [TaxId: 2261]

Probab=92.96  E-value=0.32  Score=35.26  Aligned_cols=65  Identities=14%  Similarity=0.139  Sum_probs=46.5

Q ss_pred             CEEEEEeCC------C-CEEEEEeCCCCCHHHHHHHHHHHhCCC-----------CcCeEEecCCeecCCcccchhcCCC
Q 016931            1 MRITVMTAD------E-QIISLDVDPHETVENVKALLEVETQVP-----------LQQQQLLYNGREMNNAEKLSALGVK   62 (380)
Q Consensus         1 M~ItVk~~~------g-~~~~i~V~~~~TV~~LK~~I~~~~gip-----------~~~q~Li~~Gk~L~D~~tL~~~gI~   62 (380)
                      |+|+|+.-.      | ....++++...||.+|++.+..+++--           ....++..||+...++     +-++
T Consensus         2 mkI~v~~Fa~lre~~G~~~~~~~~~~~~Tv~~l~~~L~~~~~~~~~~l~~~~~~~~~~i~iavN~~~~~~d-----~~L~   76 (88)
T d1vjka_           2 VKVKVKYFARFRQLAGVDEEEIELPEGARVRDLIEEIKKRHEKFKEEVFGEGYDEDADVNIAVNGRYVSWD-----EELK   76 (88)
T ss_dssp             EEEEEEECTHHHHHHSSSEEEEEECTTCBHHHHHHHHHHHCGGGGGSCBCSSSCTTSSBEEEETTBCCCTT-----CBCC
T ss_pred             eEEEEEEhHHHHHHhCCCeEEEECCCCCCHHHHHHHHHHHChHHHHHhhhccccccccEEEEEcceEcCCC-----cCcC
Confidence            889998642      3 567889999999999999998876321           1223455577666543     4578


Q ss_pred             CCcEEEEe
Q 016931           63 DEDLVMMV   70 (380)
Q Consensus        63 dg~~I~l~   70 (380)
                      +||.|-+.
T Consensus        77 ~gDevai~   84 (88)
T d1vjka_          77 DGDVVGVF   84 (88)
T ss_dssp             TTCEEEEE
T ss_pred             CCCEEEEe
Confidence            99999886

>d1wkra_ b.50.1.2 (A:) Acid protease {Irpex lacteus (Polyporus tulipiferae), Polyporopepsin [TaxId: 5319]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Acid protease
species: Irpex lacteus (Polyporus tulipiferae), Polyporopepsin [TaxId: 5319]

Probab=91.96  E-value=0.13  Score=46.44  Aligned_cols=94  Identities=16%  Similarity=0.268  Sum_probs=56.0

Q ss_pred             EEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcceeE----EeEEEEEeEEEcCEEEeEE-------------
Q 016931          208 LKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQSEI----LGRIHVAPIKIGNVFYPCS-------------  270 (380)
Q Consensus       208 v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~~~----~g~i~~~~i~ig~~~~~~~-------------  270 (380)
                      ..|+||||++.+.+..++++++--  .+...   .....|...+    ........+.+++..+.++             
T Consensus       207 ~~aiiDSGtt~~~lP~~~~~~l~~--~~~~~---~~~~~~~~~~~c~~~~~~P~i~f~f~g~~~~i~~~~yi~~~~~~~~  281 (340)
T d1wkra_         207 TAGIVDTGTTLTLIASDAFAKYKK--ATGAV---ADNNTGLLRLTTAQYANLQSLFFTIGGQTFELTANAQIWPRNLNTA  281 (340)
T ss_dssp             EEEEECTTBCSEEECHHHHHHHHH--HHTCE---ECTTTSSEEECHHHHHTCCCEEEEETTEEEEECTGGGBCCGGGGGG
T ss_pred             cceEEecCCccEeccHHHHHHHHH--HhCcc---ccCCceEEEEeccccCCCCceEEEECCEEEEEChHHeEeeccCcee
Confidence            568999999999999988876521  11100   0011111000    0112334566777554432             


Q ss_pred             -----------EEEec---CCCCceeeeHHHHhhcCeEEEcCCCEEEEcC
Q 016931          271 -----------FVVLD---SPNMEFLFGLDMLRKHQCIIDLKENVLRVGG  306 (380)
Q Consensus       271 -----------~~Vl~---~~~~d~iLG~D~L~~~~~~ID~~~~~l~i~~  306 (380)
                                 +..+.   ......|||..||+.+-.+.|++++++-|..
T Consensus       282 ~~~~~~~~~~~~~~~~~~~~~~~~~ILG~~fl~~~yvvfD~~~~~iGfA~  331 (340)
T d1wkra_         282 IGGSASSVYLIVGDLGSDSGEGLDFINGLTFLERFYSVYDTTNKRLGLAT  331 (340)
T ss_dssp             GTCCSSCEEBCEEECSSCTTSSCCEEECHHHHTSEEEEEETTTTEEEEEE
T ss_pred             ecCccceEEEEEecccCCCCCCCCEEechHHhCCEEEEEECCCCEEEEEE
Confidence                       11111   1123569999999999999999999999964

>d2f4mb1 a.189.1.1 (B:275-332) XPC-binding domain of Rad23 homolog B (Hhr23b) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: XPC-binding domain
superfamily: XPC-binding domain
family: XPC-binding domain
domain: XPC-binding domain of Rad23 homolog B (Hhr23b)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.52  E-value=0.2  Score=34.09  Aligned_cols=52  Identities=23%  Similarity=0.411  Sum_probs=35.5

Q ss_pred             HHhcCHH--HHHHHhhcCHHHHHHhcCCCHHHHHHHHHHhHHHHHHHHHhhHHHHHHhhCCC
Q 016931           99 HIRNDAN--LMTQLFQSDPELAQVLLGNDLNKLQDLLRERSRQRSELRRRQEEEMALLYADP  158 (380)
Q Consensus        99 ~~l~nP~--~l~qL~~~nP~La~ai~~~d~~~~~~~l~~~~~q~~~~~~~~~~el~~l~~dP  158 (380)
                      .++++|.  .|+++.++||++...+.        +-+...+++..+...+.+++.-.|++.|
T Consensus         4 ~Lr~~PqFq~lR~~vq~nP~~L~~lL--------qql~~~NP~L~q~I~~nqe~Fl~llnep   57 (58)
T d2f4mb1           4 FLRNQPQFQQMRQIIQQNPSLLPALL--------QQIGRENPQLLQQISQHQEHFIQMLNEP   57 (58)
T ss_dssp             GGTTCHHHHHHHHHHHHCGGGHHHHH--------HHHHHHCHHHHHHHHHSHHHHHHHHTSC
T ss_pred             HHhcChHHHHHHHHHHHCHHHHHHHH--------HHHHhhCHHHHHHHHHCHHHHHHHHcCC
Confidence            4567887  47888889998776652        3344444666666666777777777776

>d3cmsa_ b.50.1.2 (A:) Chymosin (synonym: renin) {Cow (Bos taurus) [TaxId: 9913]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Chymosin (synonym: renin)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=89.96  E-value=0.097  Score=46.41  Aligned_cols=93  Identities=15%  Similarity=0.267  Sum_probs=53.5

Q ss_pred             eEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcce----eEEeEEEEEeEEEcCEEEe-------------E
Q 016931          207 PLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQS----EILGRIHVAPIKIGNVFYP-------------C  269 (380)
Q Consensus       207 ~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~----~~~g~i~~~~i~ig~~~~~-------------~  269 (380)
                      ...++||||.+.+.++.+.++++--  .+..    .....+..    ..........+.+++..+.             |
T Consensus       210 ~~~~iiDSGtt~~~lp~~~~~~l~~--~~~~----~~~~~~~~~~~~~~~~~~p~i~f~f~g~~~~l~~~~y~~~~~~~c  283 (323)
T d3cmsa_         210 GCQAILDTGTSKLVGPSSDILNIQQ--AIGA----TQNQYGEFDIDCDNLSYMPTVVFEINGKMYPLTPSAYTSQDQGFC  283 (323)
T ss_dssp             CEEEEECTTCCSEEECHHHHHHHHH--HHTC----EEETTTEEEECTTCTTTSCCEEEEETTEEEEECHHHHEEEETTEE
T ss_pred             CeeEEEecCcceEEecHHHHHHHHH--HhCc----eeccCCceeEeccccCCCCeEEEEECCEEEEECHHHeEEcCCCEE
Confidence            3689999999999999999886521  0000    00000000    0000112233444543332             1


Q ss_pred             EEEEecCC-CCceeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931          270 SFVVLDSP-NMEFLFGLDMLRKHQCIIDLKENVLRVG  305 (380)
Q Consensus       270 ~~~Vl~~~-~~d~iLG~D~L~~~~~~ID~~~~~l~i~  305 (380)
                      -+.+.... ....|||..||+.+-.+.|+++++|-|.
T Consensus       284 ~~~i~~~~~~~~~iLG~~~l~~~yvvfD~~~~~igfa  320 (323)
T d3cmsa_         284 TSGFQSENHSQKWILGDVFIREYYSVFDRANNLVGLA  320 (323)
T ss_dssp             EESEEEC---CCEEECHHHHTTEEEEEETTTTEEEEE
T ss_pred             EEEEEeCCCCCCEEEcHHhhCcEEEEEECCCCEEEEE
Confidence            22222222 2347999999999999999999999885

>d2apra_ b.50.1.2 (A:) Acid protease {Bread mold (Rhizopus chinensis) [TaxId: 4843]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Acid protease
species: Bread mold (Rhizopus chinensis) [TaxId: 4843]

Probab=89.70  E-value=0.26  Score=44.12  Aligned_cols=97  Identities=13%  Similarity=0.143  Sum_probs=55.6

Q ss_pred             eecCee----EEEEEcCCccccccCHHHHHHc----CCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEe-----
Q 016931          202 EVNGIP----LKAFVDSGAQSTIISKSCAERC----GLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYP-----  268 (380)
Q Consensus       202 ~Ing~~----v~alVDTGA~~siIs~~~a~rl----gL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~-----  268 (380)
                      .|++..    ..++||||.+.+.++.+.++++    +.....+..+..   .....    ......+.+++..+.     
T Consensus       203 ~i~~~~~~~~~~~iiDSGt~~~~lp~~~~~~l~~~~~~~~~~~~~~~~---~C~~~----~~p~i~f~f~g~~~~i~~~~  275 (325)
T d2apra_         203 TVGTSTVASSFDGILDTGTTLLILPNNIAASVARAYGASDNGDGTYTI---SCDTS----AFKPLVFSINGASFQVSPDS  275 (325)
T ss_dssp             EETTEEEECCEEEEECTTCSSEEEEHHHHHHHHHHHTCEECSSSCEEE---CSCGG----GCCCEEEEETTEEEEECGGG
T ss_pred             EECCEeecceeeeeccCCCccccCCHHHHHHHHHHhCCcccCCCceee---cccCC----CCCcEEEEECCEEEEEChHH
Confidence            345554    6899999999999999887765    321111111100   00000    001123344443333     


Q ss_pred             ---------EEEEEecCCCCceeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931          269 ---------CSFVVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRVG  305 (380)
Q Consensus       269 ---------~~~~Vl~~~~~d~iLG~D~L~~~~~~ID~~~~~l~i~  305 (380)
                               |-+.+-.......|||..||+.+-.+.|+++++|-|.
T Consensus       276 y~~~~~~~~C~~~i~~~~~~~~iLG~~flr~~y~vfD~~~~~IGfA  321 (325)
T d2apra_         276 LVFEEFQGQCIAGFGYGNWGFAIIGDTFLKNNYVVFNQGVPEVQIA  321 (325)
T ss_dssp             GEEEEETTEEEESEEEESSSSEEECHHHHTTEEEEEETTTTEEEEE
T ss_pred             eEEecCCCEEEEEEccCCCCCEEECHHHhCcEEEEEECCCCEEeEE
Confidence                     2222222222346999999999999999999998874

>d2bjua1 b.50.1.2 (A:1-329) Plasmepsin (a hemoglobin-degrading enzyme) {Plasmodium falciparum, plasmepsin II [TaxId: 5833]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Plasmepsin (a hemoglobin-degrading enzyme)
species: Plasmodium falciparum, plasmepsin II [TaxId: 5833]

Probab=89.67  E-value=0.2  Score=44.42  Aligned_cols=96  Identities=19%  Similarity=0.191  Sum_probs=54.4

Q ss_pred             eEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcce--eEEeEEEEEeEEEcCEEEe----------------
Q 016931          207 PLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQS--EILGRIHVAPIKIGNVFYP----------------  268 (380)
Q Consensus       207 ~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~--~~~g~i~~~~i~ig~~~~~----------------  268 (380)
                      ...++||||++.+.++.+.++++--.  +....  ........  ..........+.+++..+.                
T Consensus       208 ~~~~~iDSGt~~~~lp~~~~~~l~~~--~~~~~--~~~~~~~~~~~~~~~~p~~~f~~~g~~~~i~p~~y~~~~~~~~~~  283 (329)
T d2bjua1         208 KANCIVDSGTSAITVPTDFLNKMLQN--LDVIK--VPFLPFYVTLCNNSKLPTFEFTSENGKYTLEPEYYLQHIEDVGPG  283 (329)
T ss_dssp             EEEEEECTTCCSEEECHHHHHHHTTT--SSCEE--CTTSSCEEEETTCTTCCCEEEECSSCEEEECHHHHEEECTTTSTT
T ss_pred             CCcccccccccceeCCHHHHHHHHHH--hCCee--cCCCCeeEeecccCCCCceeEEeCCEEEEECHHHhEEEeecCCCC
Confidence            57899999999999999999987221  00000  00000000  0000111122233332222                


Q ss_pred             -EEEEE--ecCCCCceeeeHHHHhhcCeEEEcCCCEEEEcC
Q 016931          269 -CSFVV--LDSPNMEFLFGLDMLRKHQCIIDLKENVLRVGG  306 (380)
Q Consensus       269 -~~~~V--l~~~~~d~iLG~D~L~~~~~~ID~~~~~l~i~~  306 (380)
                       |-+.+  .+......|||..||+.+-.+.|+++++|-|..
T Consensus       284 ~C~~~i~~~~~~~~~~IlG~~fl~~~y~vfD~~~~~iGfA~  324 (329)
T d2bjua1         284 LCMLNIIGLDFPVPTFILGDPFMRKYFTVFDYDNHSVGIAL  324 (329)
T ss_dssp             EEEECEEECCCSSCEEEECHHHHHHEEEEEETTTTEEEEEE
T ss_pred             EEEEEEEECCCCCCCEEEchHhhCcEEEEEECCCCEEEEEE
Confidence             22222  333333468999999999999999999998863

>d1am5a_ b.50.1.2 (A:) Pepsin(ogen) {Atlantic cod (Gadus morhua) [TaxId: 8049]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Pepsin(ogen)
species: Atlantic cod (Gadus morhua) [TaxId: 8049]

Probab=89.34  E-value=0.3  Score=43.34  Aligned_cols=93  Identities=19%  Similarity=0.178  Sum_probs=55.4

Q ss_pred             eeEEEEEcCCccccccCHHHHHHc----CCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEeEE-----------
Q 016931          206 IPLKAFVDSGAQSTIISKSCAERC----GLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPCS-----------  270 (380)
Q Consensus       206 ~~v~alVDTGA~~siIs~~~a~rl----gL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~~~-----------  270 (380)
                      ....++||||++.+.++.+..+++    +......     .....  ...........+.+++..+.++           
T Consensus       207 ~~~~~iiDsGts~~~lp~~~~~~l~~~i~~~~~~~-----~~~~~--~~~~~~~P~i~f~f~g~~~~l~~~~y~~~~~~~  279 (324)
T d1am5a_         207 EGCQAIVDTGTSKIVAPVSALANIMKDIGASENQG-----EMMGN--CASVQSLPDITFTINGVKQPLPPSAYIEGDQAF  279 (324)
T ss_dssp             CCEEEEECTTCSSEEECTTTHHHHHHHHTCEECCC-----CEECC--TTSSSSSCCEEEEETTEEEEECHHHHEEESSSC
T ss_pred             CCcceeeccCcccccCCHHHHHHHHHHhCCcccCC-----ccccc--ccccccCCceEEEECCEEEEECHHHhEecCCCe
Confidence            347899999999999998877654    3211100     00000  0001122334566666555432           


Q ss_pred             ----EEEec--C-CCCceeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931          271 ----FVVLD--S-PNMEFLFGLDMLRKHQCIIDLKENVLRVG  305 (380)
Q Consensus       271 ----~~Vl~--~-~~~d~iLG~D~L~~~~~~ID~~~~~l~i~  305 (380)
                          +..++  . ...-.|||..||+.+-.+.|+++++|-|.
T Consensus       280 c~~~i~~~~~~~~~~~~~ILG~~fl~~~y~vfD~~~~~igfA  321 (324)
T d1am5a_         280 CTSGLGSSGVPSNTSELWIFGDVFLRNYYTIYDRTNNKVGFA  321 (324)
T ss_dssp             EEECEEECCSCCSSSCEEEECHHHHHHEEEEEETTTTEEEEE
T ss_pred             EEEEEEecCcCCCCCCCEEECHHhhcCEEEEEECCCCEEEEE
Confidence                22221  1 12225899999999999999999999874

>d1miqa_ b.50.1.2 (A:) Plasmepsin (a hemoglobin-degrading enzyme) {Plasmodium vivax [TaxId: 5855]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Plasmepsin (a hemoglobin-degrading enzyme)
species: Plasmodium vivax [TaxId: 5855]

Probab=88.95  E-value=0.34  Score=44.08  Aligned_cols=74  Identities=20%  Similarity=0.382  Sum_probs=46.7

Q ss_pred             eeEEeeeec--CeeEEEEEcCCccccccCHHHHHHcCC--ccccCC----cce------eEeecCcceeEEeEEEEEeEE
Q 016931          196 MLYVDMEVN--GIPLKAFVDSGAQSTIISKSCAERCGL--LRLLDD----RYR------GVAHGVGQSEILGRIHVAPIK  261 (380)
Q Consensus       196 ~lyv~v~In--g~~v~alVDTGA~~siIs~~~a~rlgL--~~~~~~----~~~------~~~~gvg~~~~~g~i~~~~i~  261 (380)
                      ..|.++.|.  .+++.+++|||++.+.+...-+..|+.  ....+.    .+.      ....|  .....|.+....|.
T Consensus        61 ~Y~~~I~iGtP~Q~~~v~~DTGSs~lWv~~~~C~~~~c~~~~~y~~~~SsT~~~~~~~~~~~y~--~G~~~G~~~~D~v~  138 (373)
T d1miqa_          61 MFYGEGEVGDNHQKFMLIFDTGSANLWVPSKKCNSSGCSIKNLYDSSKSKSYEKDGTKVDITYG--SGTVKGFFSKDLVT  138 (373)
T ss_dssp             EEECCCEETTTTEECCEEEETTCCCEEEEBTTCCSSGGGGSCCBCGGGCTTCEEEEEEEEEEET--TEEEEEEEEEEEEE
T ss_pred             EEEEEEEECCCCEEEEEEEECCchheEEECCCCCCccccCCCccCCCCCCceeECCccEEEEeC--CcEEEEEEEEEEEE
Confidence            458899996  688999999999999984322222322  111111    111      12233  33578999999999


Q ss_pred             EcCEEEeEEE
Q 016931          262 IGNVFYPCSF  271 (380)
Q Consensus       262 ig~~~~~~~~  271 (380)
                      +|+...+..+
T Consensus       139 ig~~~~~~~~  148 (373)
T d1miqa_         139 LGHLSMPYKF  148 (373)
T ss_dssp             ETTEEEEEEE
T ss_pred             EcCcceEeeE
Confidence            9997666443

>d1smra_ b.50.1.2 (A:) Chymosin (synonym: renin) {Mouse (Mus musculus) [TaxId: 10090]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Chymosin (synonym: renin)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=88.92  E-value=0.87  Score=40.34  Aligned_cols=90  Identities=18%  Similarity=0.442  Sum_probs=56.4

Q ss_pred             ceeEEeeeec--CeeEEEEEcCCcccccc-CHHHHH---HcCCccccCCc----ce------eEeecCcceeEEeEEEEE
Q 016931          195 VMLYVDMEVN--GIPLKAFVDSGAQSTII-SKSCAE---RCGLLRLLDDR----YR------GVAHGVGQSEILGRIHVA  258 (380)
Q Consensus       195 ~~lyv~v~In--g~~v~alVDTGA~~siI-s~~~a~---rlgL~~~~~~~----~~------~~~~gvg~~~~~g~i~~~  258 (380)
                      ...|+++.|.  ++++.++||||++.+.+ +..|..   .|+.....+..    +.      ....|-|  .+.|.+...
T Consensus        15 ~~Y~~~i~iGtP~Q~~~l~~DTGSs~~Wv~~~~C~~~~~~c~~~~~f~~~~SsT~~~~~~~~~~~Y~~g--s~~G~~~~D   92 (335)
T d1smra_          15 SQYYGEIGIGTPPQTFKVIFDTGSANLWVPSTKCSRLYLACGIHSLYESSDSSSYMENGDDFTIHYGSG--RVKGFLSQD   92 (335)
T ss_dssp             TEEEEEEEETTTTEEEEEEEETTCCCEEEEBTTCCTTCGGGGGSCCBCGGGCTTCEEEEEEEEEEETTE--EEEEEEEEE
T ss_pred             CEEEEEEEECCCCeEEEEEEECCcccEEEEcCCCCCccccccCCCcCCCccCcccccCCCcEEEEecCc--eEEEEEEEE
Confidence            3678999997  88999999999999876 334422   22221212211    11      1223333  567989889


Q ss_pred             eEEEcCEEEeEEEEEec--------CCCCceeeeHH
Q 016931          259 PIKIGNVFYPCSFVVLD--------SPNMEFLFGLD  286 (380)
Q Consensus       259 ~i~ig~~~~~~~~~Vl~--------~~~~d~iLG~D  286 (380)
                      .+.+++......+..+.        ....++++|+.
T Consensus        93 ~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~Gi~glg  128 (335)
T d1smra_          93 SVTVGGITVTQTFGEVTQLPLIPFMLAQFDGVLGMG  128 (335)
T ss_dssp             EEEETTEEEEEEEEEEEECCHHHHTTCSSSEEEECS
T ss_pred             EEEecccccccEEEEEEecccccccccccccccccc
Confidence            99999966655444332        33568999984

>d1wkra_ b.50.1.2 (A:) Acid protease {Irpex lacteus (Polyporus tulipiferae), Polyporopepsin [TaxId: 5319]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Acid protease
species: Irpex lacteus (Polyporus tulipiferae), Polyporopepsin [TaxId: 5319]

Probab=88.46  E-value=0.62  Score=41.67  Aligned_cols=89  Identities=18%  Similarity=0.265  Sum_probs=52.3

Q ss_pred             eeEEeeeec--CeeEEEEEcCCccccccC-HHHHHHcCCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEe-EEE
Q 016931          196 MLYVDMEVN--GIPLKAFVDSGAQSTIIS-KSCAERCGLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYP-CSF  271 (380)
Q Consensus       196 ~lyv~v~In--g~~v~alVDTGA~~siIs-~~~a~rlgL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~-~~~  271 (380)
                      -.|+++.|.  .++++++||||++.+.+. ..|-.+..--...... ..+..|-|  ...|.+....+.+++..+. ..|
T Consensus        13 ~Y~~~i~iGtP~Q~~~~i~DTGSs~~wv~~~~c~~~sst~~~~~~~-~~i~Y~~g--s~~G~~~~D~~~~~~~~~~~~~f   89 (340)
T d1wkra_          13 DYVVNVGVGSPATTYSLLVDTGSSNTWLGADKSYVKTSTSSATSDK-VSVTYGSG--SFSGTEYTDTVTLGSLTIPKQSI   89 (340)
T ss_dssp             CEEEEEEETTTTEEEEEEEETTCCCCEECSSSCCCCCTTCEEEEEE-EEEECSSC--EEEEEEEEEEEEETTEEEEEEEE
T ss_pred             EEEEEEEEcCCCeEEEEEEECCCcceEEcCCCCCCCCCCcCCCCCe-EEEEeCCe--EEEEEEEEEEEeeCCeeeccEEE
Confidence            378999996  488999999999988873 3221110000111111 11233333  4678888888999984443 334


Q ss_pred             EEec----CCCCceeeeHHH
Q 016931          272 VVLD----SPNMEFLFGLDM  287 (380)
Q Consensus       272 ~Vl~----~~~~d~iLG~D~  287 (380)
                      .+..    ....|.|+|+-+
T Consensus        90 g~~~~~~~~~~~~gi~g~g~  109 (340)
T d1wkra_          90 GVASRDSGFDGVDGILGVGP  109 (340)
T ss_dssp             EEEEEEESCTTCSEEEECSC
T ss_pred             EEEEeccCcccccceecccc
Confidence            4433    346788888753

>d1miqa_ b.50.1.2 (A:) Plasmepsin (a hemoglobin-degrading enzyme) {Plasmodium vivax [TaxId: 5855]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Plasmepsin (a hemoglobin-degrading enzyme)
species: Plasmodium vivax [TaxId: 5855]

Probab=88.09  E-value=0.29  Score=44.57  Aligned_cols=100  Identities=15%  Similarity=0.243  Sum_probs=55.7

Q ss_pred             eeeecCe---eEEEEEcCCccccccCHHHHHHc----CCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEe----
Q 016931          200 DMEVNGI---PLKAFVDSGAQSTIISKSCAERC----GLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYP----  268 (380)
Q Consensus       200 ~v~Ing~---~v~alVDTGA~~siIs~~~a~rl----gL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~----  268 (380)
                      ++.+.+.   ...++||||.+.+.++.+.++++    +...............      ........+.+|+..+.    
T Consensus       244 ~~~~~~~~~~~~~~iiDTGTs~~~lP~~~~~~l~~~i~~~~~~~~~~~~~~~~------~~~~P~itf~f~g~~~~l~p~  317 (373)
T d1miqa_         244 DVHFGKQTMEKANVIVDSGTTTITAPSEFLNKFFANLNVIKVPFLPFYVTTCD------NKEMPTLEFKSANNTYTLEPE  317 (373)
T ss_dssp             EEEETTEEEEEEEEEECTTBSSEEECHHHHHHHHHHHTCEECTTSSCEEEETT------CTTCCCEEEECSSCEEEECGG
T ss_pred             EEEECcEecCCcceEeccCCceeccCHHHHHHHHHHhCCeeccCCCeeEeccc------cCCCceEEEEECCEEEEECHH
Confidence            3444443   47899999999999999887764    2211000000000000      00111223333442222    


Q ss_pred             -------------EEE--EEecCCCCceeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931          269 -------------CSF--VVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRVG  305 (380)
Q Consensus       269 -------------~~~--~Vl~~~~~d~iLG~D~L~~~~~~ID~~~~~l~i~  305 (380)
                                   |-+  ...+....-.|||..||+.+-.+.|+++++|-|.
T Consensus       318 ~y~~~~~~~~~~~C~~~~~~~~~~~~~~ILG~~fl~~~y~vfD~~~~rIGfA  369 (373)
T d1miqa_         318 YYMNPILEVDDTLCMITMLPVDIDSNTFILGDPFMRKYFTVFDYDKESVGFA  369 (373)
T ss_dssp             GSEEESSSSSCSEEEESEEECCSSSSEEEECHHHHHHEEEEEETTTTEEEEE
T ss_pred             HeeEEEEeCCCCEEEEEEEECCCCCCCEEEcHHhhCcEEEEEECCCCEEEEE
Confidence                         222  2223323346999999999999999999998875

>d1dpja_ b.50.1.2 (A:) Acid protease {Baker's yeast (Saccharomyces cerevisiae), proteinase A [TaxId: 4932]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Acid protease
species: Baker's yeast (Saccharomyces cerevisiae), proteinase A [TaxId: 4932]

Probab=87.55  E-value=1.5  Score=38.56  Aligned_cols=92  Identities=16%  Similarity=0.145  Sum_probs=53.4

Q ss_pred             EEEEEcCCccccccCHHHHHHcCC----ccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEeE-------------E
Q 016931          208 LKAFVDSGAQSTIISKSCAERCGL----LRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPC-------------S  270 (380)
Q Consensus       208 v~alVDTGA~~siIs~~~a~rlgL----~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~~-------------~  270 (380)
                      ..++||||.+.+.+..+.++++--    .......+..   -...   ........+.+++..+.+             -
T Consensus       213 ~~~iiDSGts~~~lp~~~~~~l~~~~~~~~~~~~~~~~---~c~~---~~~~P~i~f~f~g~~~~l~p~~y~~~~~~~c~  286 (329)
T d1dpja_         213 HGAAIDTGTSLITLPSGLAEMINAEIGAKKGWTGQYTL---DCNT---RDNLPDLIFNFNGYNFTIGPYDYTLEVSGSCI  286 (329)
T ss_dssp             CEEEECTTCSCEEECHHHHHHHHHHHTCEECTTSSEEE---CGGG---GGGCCCEEEEETTEEEEECTTTSEEEETTEEE
T ss_pred             cccccCcccceeeCCHHHHHHHHHHhCCccccceeEEE---eccc---cCccceEEEEECCEEEEECHHHeEEecCCcEE
Confidence            578999999999999999887621    1000000000   0000   001122344555544332             1


Q ss_pred             --EEEecC---CCCceeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931          271 --FVVLDS---PNMEFLFGLDMLRKHQCIIDLKENVLRVG  305 (380)
Q Consensus       271 --~~Vl~~---~~~d~iLG~D~L~~~~~~ID~~~~~l~i~  305 (380)
                        +.-++.   ...-.|||..||+.+-.+.|+++++|-|.
T Consensus       287 ~~~~~~~~~~~~~~~~iLG~~fl~~~y~vfD~~~~~igfA  326 (329)
T d1dpja_         287 SAITPMDFPEPVGPLAIVGDAFLRKYYSIYDLGNNAVGLA  326 (329)
T ss_dssp             ECEEECCCCTTTCSEEEECHHHHTTEEEEEETTTTEEEEE
T ss_pred             EEEEECccCCCCCCcEEEcHHhhCcEEEEEECCCCEEEEE
Confidence              222221   12225899999999999999999999885

>d3psga_ b.50.1.2 (A:) Pepsin(ogen) {Pig (Sus scrofa) [TaxId: 9823]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Pepsin(ogen)
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=87.54  E-value=0.77  Score=41.77  Aligned_cols=91  Identities=10%  Similarity=0.259  Sum_probs=56.1

Q ss_pred             ceeEEeeeec--CeeEEEEEcCCccccccCHHHHHHcCC--ccccCC----cce------eEeecCcceeEEeEEEEEeE
Q 016931          195 VMLYVDMEVN--GIPLKAFVDSGAQSTIISKSCAERCGL--LRLLDD----RYR------GVAHGVGQSEILGRIHVAPI  260 (380)
Q Consensus       195 ~~lyv~v~In--g~~v~alVDTGA~~siIs~~~a~rlgL--~~~~~~----~~~------~~~~gvg~~~~~g~i~~~~i  260 (380)
                      ...|+++.|.  ++++.++||||+..+-+...-...|..  ....+.    .+.      ....|-|  ...|.+-...+
T Consensus        56 ~~Y~~~i~iGtP~Q~~~vi~DTGSs~~Wv~~~~C~~~~~~~~~~yd~~~Sst~~~~~~~~~~~Yg~G--s~~G~~~~d~~  133 (370)
T d3psga_          56 TEYFGTIGIGTPAQDFTVIFDTGSSNLWVPSVYCSSLACSDHNQFNPDDSSTFEATSQELSITYGTG--SMTGILGYDTV  133 (370)
T ss_dssp             CCEEEEEEETTTTEEEEEEEETTCCCEEEEBTTCCSGGGTTSCCBCGGGCTTCEEEEEEEEEESSSC--EEEEEEEEEEE
T ss_pred             CEEEEEEEEcCCCeEEEEEEeCCCCCeEEECccCCCcccccccccCCCcccccccCCCcEEEEeCCc--eEEEEEEEEEE
Confidence            4678899997  689999999999999885433333432  111111    111      1223333  46688888889


Q ss_pred             EEcCEEEe-EEEEEec--------CCCCceeeeHHH
Q 016931          261 KIGNVFYP-CSFVVLD--------SPNMEFLFGLDM  287 (380)
Q Consensus       261 ~ig~~~~~-~~~~Vl~--------~~~~d~iLG~D~  287 (380)
                      .+++...+ ..|.+..        ....|+|+|+.|
T Consensus       134 ~~~~~~~~~~~f~~~~~~~~~~~~~~~~~Gi~gl~~  169 (370)
T d3psga_         134 QVGGISDTNQIFGLSETEPGSFLYYAPFDGILGLAY  169 (370)
T ss_dssp             EETTEEEEEEEEEEECSCCCGGGGGCSCSEEEECSC
T ss_pred             eeeceeeeeeEEEEEeeccCceeccccccccccccc
Confidence            99985544 3344433        224689999854

>d1y8xb1 c.111.1.2 (B:349-440) UBA3 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Activating enzymes of the ubiquitin-like proteins
superfamily: Activating enzymes of the ubiquitin-like proteins
family: Ubiquitin activating enzymes (UBA)
domain: UBA3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.39  E-value=0.54  Score=34.85  Aligned_cols=60  Identities=13%  Similarity=0.322  Sum_probs=42.3

Q ss_pred             EEEeCCCCCHHHHHHHHHHHhCCCCcC----------e-EEecCC-eecCC------cccchhcCCCCCcEEEEeecC
Q 016931           14 SLDVDPHETVENVKALLEVETQVPLQQ----------Q-QLLYNG-REMNN------AEKLSALGVKDEDLVMMVSNA   73 (380)
Q Consensus        14 ~i~V~~~~TV~~LK~~I~~~~gip~~~----------q-~Li~~G-k~L~D------~~tL~~~gI~dg~~I~l~~~~   73 (380)
                      .++++++.|+.+|-+.+.+.-......          . .|+..+ ..|..      +++|.++|+.+|+.|+|.+..
T Consensus         4 ~l~~~~~~TL~~li~~L~e~p~~qlk~Psltt~~~g~~ktLYm~~pp~Lee~Tr~NL~k~L~eLgl~dG~ei~VtD~t   81 (92)
T d1y8xb1           4 NIQFSPSAKLQEVLDYLTNSASLQMKSPAITATLEGKNRTLYMQSVTSIEERTRPNLSKTLKELGLVDGQELAVADVT   81 (92)
T ss_dssp             CEECCTTCBHHHHHHHHHHCTTCCCSSCEEEEEETTEEEEEECSSCHHHHHHHHHHHHSBSGGGTCCTTCEEEEECTT
T ss_pred             eEEcCCCCcHHHHHHHHhhChHhhccCCceeeecCCCccEEEecCcHHHHHHhhhccccCHHHhCCcCCCEEEEecCC
Confidence            478999999999999999874332222          2 233322 11432      589999999999999998754

>d1izea_ b.50.1.2 (A:) Acid protease {Fungus (Aspergillus oryzae) [TaxId: 5062]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Acid protease
species: Fungus (Aspergillus oryzae) [TaxId: 5062]

Probab=87.21  E-value=0.76  Score=40.53  Aligned_cols=89  Identities=16%  Similarity=0.174  Sum_probs=53.9

Q ss_pred             eeEEeeeecCeeEEEEEcCCccccccC-HHHHHHc--CCccccCCcce-e--------EeecCcceeEEeEEEEEeEEEc
Q 016931          196 MLYVDMEVNGIPLKAFVDSGAQSTIIS-KSCAERC--GLLRLLDDRYR-G--------VAHGVGQSEILGRIHVAPIKIG  263 (380)
Q Consensus       196 ~lyv~v~Ing~~v~alVDTGA~~siIs-~~~a~rl--gL~~~~~~~~~-~--------~~~gvg~~~~~g~i~~~~i~ig  263 (380)
                      ..|+++.|+.+++.+++|||+..+-+. ..| ..|  ......+.... .        +..|-| ....|.+....+.++
T Consensus        16 ~Y~~~i~iG~q~~~l~~DTGSs~~Wv~~~~C-~~~~~~~~~~~~~~sSt~~~~~~~~~i~Y~~G-~~~~G~~~~d~~~~~   93 (323)
T d1izea_          16 EYITQVTVGDDTLGLDFDTGSADLWVFSSQT-PSSERSGHDYYTPGSSAQKIDGATWSISYGDG-SSASGDVYKDKVTVG   93 (323)
T ss_dssp             CEEEEEEETTEEEEEEEETTCCCCEECBTTS-CHHHHTTSCCBCCCTTCEEEEEEEEEEECTTS-CEEEEEEEEEEEEET
T ss_pred             EEEEEEEECCeeEEEEEECCCcceEEEcCCC-CChhhcCCCccCccccccccCCCEEEEEcCCc-ceeeeEEEeeeeecc
Confidence            467999999999999999999887763 333 222  22111111111 1        122322 356788888889999


Q ss_pred             CEEEeE-EEEEec--------CCCCceeeeHH
Q 016931          264 NVFYPC-SFVVLD--------SPNMEFLFGLD  286 (380)
Q Consensus       264 ~~~~~~-~~~Vl~--------~~~~d~iLG~D  286 (380)
                      +..++- .+.+..        ....|+||||.
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~dGilGLg  125 (323)
T d1izea_          94 GVSYDSQAVESAEKVSSEFTQDTANDGLLGLA  125 (323)
T ss_dssp             TEEEEEEEEEEEEEECHHHHHCTTCCEEEECS
T ss_pred             CccccceEEEEEEeccCccccccccccccccc
Confidence            855442 233332        33568999995

>d1bxoa_ b.50.1.2 (A:) Acid protease {Fungus (Penicillium janthinellum), penicillopepsin [TaxId: 5079]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Acid protease
species: Fungus (Penicillium janthinellum), penicillopepsin [TaxId: 5079]

Probab=87.21  E-value=0.46  Score=41.96  Aligned_cols=90  Identities=16%  Similarity=0.208  Sum_probs=54.9

Q ss_pred             ceeEEeeeecCeeEEEEEcCCccccccCH-HHHHHc--CCccccCCcc---------eeEeecCcceeEEeEEEEEeEEE
Q 016931          195 VMLYVDMEVNGIPLKAFVDSGAQSTIISK-SCAERC--GLLRLLDDRY---------RGVAHGVGQSEILGRIHVAPIKI  262 (380)
Q Consensus       195 ~~lyv~v~Ing~~v~alVDTGA~~siIs~-~~a~rl--gL~~~~~~~~---------~~~~~gvg~~~~~g~i~~~~i~i  262 (380)
                      ...|++++|+.++.+++||||++.+-+.. .| ..|  ......+...         .....|-| ....|.+....+.+
T Consensus        15 ~~Y~~~i~vG~~~~~v~~DTGSs~~Wv~~~~C-~~c~~~~~~~y~~s~Sst~~~~~~~~~~Y~~G-~~~~G~~~~D~~~~   92 (323)
T d1bxoa_          15 EEYITPVTIGGTTLNLNFDTGSADLWVFSTEL-PASQQSGHSVYNPSATGKELSGYTWSISYGDG-SSASGNVFTDSVTV   92 (323)
T ss_dssp             SCEEEEEEETTEEEEEEEETTCCCEEECBTTS-CHHHHTTSCCBCHHHHCEEEEEEEEEEECTTS-CEEEEEEEEEEEEE
T ss_pred             cEEEEEEEECCccEEEEEECCCcceEEECCCC-CchhhcCCCCCCCcccccccCCCEEEEEeCCC-CcEEEEEEEEeeec
Confidence            45679999999999999999999876643 33 222  2212222111         01222222 35678888889999


Q ss_pred             cCEEEeE-EEEEec--------CCCCceeeeHH
Q 016931          263 GNVFYPC-SFVVLD--------SPNMEFLFGLD  286 (380)
Q Consensus       263 g~~~~~~-~~~Vl~--------~~~~d~iLG~D  286 (380)
                      ++....- .+.+..        ....|+|||+-
T Consensus        93 ~~~~~~~~~~~~~~~~~~~~~~~~~~~GilGlg  125 (323)
T d1bxoa_          93 GGVTAHGQAVQAAQQISAQFQQDTNNDGLLGLA  125 (323)
T ss_dssp             TTEEEEEEEEEEEEEECHHHHTCTTCSEEEECS
T ss_pred             cCcccccceeeeeeeeecccccccccccccccc
Confidence            9855442 222222        24568999984

>d1j71a_ b.50.1.2 (A:) Acid protease {Yeast (Candida tropicalis) [TaxId: 5482]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Acid protease
species: Yeast (Candida tropicalis) [TaxId: 5482]

Probab=86.78  E-value=0.41  Score=43.06  Aligned_cols=27  Identities=19%  Similarity=0.432  Sum_probs=24.4

Q ss_pred             ceeeeHHHHhhcCeEEEcCCCEEEEcC
Q 016931          280 EFLFGLDMLRKHQCIIDLKENVLRVGG  306 (380)
Q Consensus       280 d~iLG~D~L~~~~~~ID~~~~~l~i~~  306 (380)
                      ..|||-.||+.+-.+.|+++++|-|..
T Consensus       296 ~~ILG~~fl~~~y~vfD~~n~~iGfA~  322 (334)
T d1j71a_         296 ANILGDNFLRRAYIVYDLDDKTISLAQ  322 (334)
T ss_dssp             TCEECHHHHTTEEEEEETTTTEEEEEE
T ss_pred             CcEECHHhhCcEEEEEECCCCEEEEEE
Confidence            358999999999999999999999963

>d1t6ex_ b.50.1.2 (X:) Xylanase inhibitor TAXI-I {Wheat (Triticum aestivum) [TaxId: 4565]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Xylanase inhibitor TAXI-I
species: Wheat (Triticum aestivum) [TaxId: 4565]

Probab=86.32  E-value=0.7  Score=41.82  Aligned_cols=27  Identities=11%  Similarity=0.167  Sum_probs=24.8

Q ss_pred             CceeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931          279 MEFLFGLDMLRKHQCIIDLKENVLRVG  305 (380)
Q Consensus       279 ~d~iLG~D~L~~~~~~ID~~~~~l~i~  305 (380)
                      ...|||..||+.+-.+.|+++++|-|.
T Consensus       344 ~~~ILG~~flr~~y~vfD~~~~~IGfA  370 (381)
T d1t6ex_         344 PAVILGGAQMEDFVLDFDMEKKRLGFS  370 (381)
T ss_dssp             CSEEECHHHHTTEEEEEETTTTEEEEE
T ss_pred             CcEEECHHHhCcEEEEEECCCCEEEEE
Confidence            357999999999999999999999985

>d3psga_ b.50.1.2 (A:) Pepsin(ogen) {Pig (Sus scrofa) [TaxId: 9823]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Pepsin(ogen)
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=85.97  E-value=1.4  Score=40.01  Aligned_cols=92  Identities=17%  Similarity=0.196  Sum_probs=55.7

Q ss_pred             EEEEEcCCccccccCHHHHHHcC----CccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEeE--------------
Q 016931          208 LKAFVDSGAQSTIISKSCAERCG----LLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPC--------------  269 (380)
Q Consensus       208 v~alVDTGA~~siIs~~~a~rlg----L~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~~--------------  269 (380)
                      ..++||||.+.+.++.+.++++-    -....+..+...+...      .......+.+||..+.+              
T Consensus       254 ~~aiiDSGTs~~~lp~~~~~~i~~~l~~~~~~~~~~~~~C~~~------~~~P~l~f~f~g~~~~l~~~~yi~~~~~~c~  327 (370)
T d3psga_         254 CQAIVDTGTSLLTGPTSAIANIQSDIGASENSDGEMVISCSSI------DSLPDIVFTIDGVQYPLSPSAYILQDDDSCT  327 (370)
T ss_dssp             EEEEECTTCCSEEEEHHHHHHHHHHTTCEECTTCCEECCGGGG------GGCCCEEEEETTEEEEECHHHHEEECSSCEE
T ss_pred             ccEEEecCCceEeCCHHHHHHHHHHhCCeeecCCcEEEecccc------CCCceEEEEECCEEEEEChHHeEEEcCCeEE
Confidence            58999999999999999888762    1111110000001110      11233455667655543              


Q ss_pred             -EEEEecC---CCCceeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931          270 -SFVVLDS---PNMEFLFGLDMLRKHQCIIDLKENVLRVG  305 (380)
Q Consensus       270 -~~~Vl~~---~~~d~iLG~D~L~~~~~~ID~~~~~l~i~  305 (380)
                       .|..++.   .+.-.|||.-||+.+-.+.|+++++|-|.
T Consensus       328 ~~~~~~~~~~~~~~~~ILG~~flr~~y~vfD~~~~~IGfA  367 (370)
T d3psga_         328 SGFEGMDVPTSSGELWILGDVFIRQYYTVFDRANNKVGLA  367 (370)
T ss_dssp             ESEEEECCCTTSCCEEEECHHHHTTEEEEEETTTTEEEEE
T ss_pred             EEEEEcccCCCCCCcEEECHHhhcCEEEEEECCCCEEEEE
Confidence             1222221   12236999999999999999999998774

>d1qdma2 b.50.1.2 (A:2-247,A:248-338) Plant acid proteinase, phytepsin {Barley (Hordeum vulgare) [TaxId: 4513]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Plant acid proteinase, phytepsin
species: Barley (Hordeum vulgare) [TaxId: 4513]

Probab=85.96  E-value=0.37  Score=42.50  Aligned_cols=96  Identities=15%  Similarity=0.092  Sum_probs=55.2

Q ss_pred             cCeeEEEEEcCCccccccCHHHHHHc----CCccccCCcceeEeecCcceeEEeEEEEEeEEEcCEEEeE----------
Q 016931          204 NGIPLKAFVDSGAQSTIISKSCAERC----GLLRLLDDRYRGVAHGVGQSEILGRIHVAPIKIGNVFYPC----------  269 (380)
Q Consensus       204 ng~~v~alVDTGA~~siIs~~~a~rl----gL~~~~~~~~~~~~~gvg~~~~~g~i~~~~i~ig~~~~~~----------  269 (380)
                      +.....+++|||.+.+.++.+..+.+    +...... ..  .......   ........+.+||..+.+          
T Consensus       213 ~~~~~~~iiDtgt~~~~l~~~~~~~~~~~l~~~~~~~-~~--~~~~~~~---~~~~p~itf~f~g~~~~l~~~~~~~~~~  286 (337)
T d1qdma2         213 CAGGCAAIADSGTSLLAGPTAIITEINEKIGAAGSPM-GE--SAVDCGS---LGSMPDIEFTIGGKKFALKPEEYILKVG  286 (337)
T ss_dssp             TTTCEEEEECSSCCSEEECHHHHHHHHHHHTCCCCSS-SC--CEECGGG---GTTCCCEEEEETTEEEEECHHHHEEECS
T ss_pred             cCCCceEEeeccCcceecchHHHHHHHHHhccccccC-Cc--ccccccc---cCCCCceEEEECCEEEEEChHHeEEEec
Confidence            34457899999999999998887764    2110000 00  0000000   011122334445543332          


Q ss_pred             -------EEEE--ec---CCCCceeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931          270 -------SFVV--LD---SPNMEFLFGLDMLRKHQCIIDLKENVLRVG  305 (380)
Q Consensus       270 -------~~~V--l~---~~~~d~iLG~D~L~~~~~~ID~~~~~l~i~  305 (380)
                             -..+  ++   ......|||..||+.+-.+.|+++++|-|.
T Consensus       287 ~~~~~~C~~~i~~~~~~~~~~~~~IlG~~fl~~~y~vfD~~~~~igfA  334 (337)
T d1qdma2         287 EGAAAQCISGFTAMDIPPPRGPLWILGDVFMGPYHTVFDYGKLRIGFA  334 (337)
T ss_dssp             CGGGCCEEESEEECCCCTTSCSEEEECHHHHTTEEEEEETTTTEEEEE
T ss_pred             cCCCCEEEEEEEecCcCCCCCCcEEEhHHhhcCEEEEEECCCCEEEEE
Confidence                   1111  11   123457899999999999999999999885

>d1oewa_ b.50.1.2 (A:) Endothiapepsin {Chestnut blight fungus (Endothia parasitica) [TaxId: 5116]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Endothiapepsin
species: Chestnut blight fungus (Endothia parasitica) [TaxId: 5116]

Probab=85.62  E-value=0.62  Score=41.70  Aligned_cols=101  Identities=11%  Similarity=0.081  Sum_probs=55.8

Q ss_pred             eeeecCee-----EEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcc--eeEEeEEEEEeEEEcCEEEeE---
Q 016931          200 DMEVNGIP-----LKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQ--SEILGRIHVAPIKIGNVFYPC---  269 (380)
Q Consensus       200 ~v~Ing~~-----v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~--~~~~g~i~~~~i~ig~~~~~~---  269 (380)
                      .+.|+|+.     ..++||||.+.+.++.+.++.+--.  +...  ......|.  ..+........+.+|+..+.+   
T Consensus       201 ~i~v~~~~~~~~~~~~iiDSGts~~~lp~~~~~~i~~~--~~~~--~~~~~~~~~~~~C~~~~P~i~f~f~g~~~~lp~~  276 (330)
T d1oewa_         201 GYAVGSGTFKSTSIDGIADTGTTLLYLPATVVSAYWAQ--VSGA--KSSSSVGGYVFPCSATLPSFTFGVGSARIVIPGD  276 (330)
T ss_dssp             EEEETTSCCEEEEEEEEECTTCCSEEECHHHHHHHHTT--STTC--EEETTTTEEEEETTCCCCCEEEEETTEEEEECHH
T ss_pred             EEEEEeeeeecCCcceeeccccccccCCHHHHHHHHHH--ccCc--ccCcccceEEecccCCCCcEEEEECCEEEecCHH
Confidence            35566654     5789999999999999999876210  0000  00001110  001111223455666644443   


Q ss_pred             --------------EEEEecCCCC-ceeeeHHHHhhcCeEEEcCCC-EEEE
Q 016931          270 --------------SFVVLDSPNM-EFLFGLDMLRKHQCIIDLKEN-VLRV  304 (380)
Q Consensus       270 --------------~~~Vl~~~~~-d~iLG~D~L~~~~~~ID~~~~-~l~i  304 (380)
                                    -+.+....+. ..|||-.||+.+-.+.|+.++ +|-|
T Consensus       277 ~~~~~~~~~~~~~C~~~i~~~~~~~~~ILG~~flr~~y~vfD~~~~~~IGf  327 (330)
T d1oewa_         277 YIDFGPISTGSSSCFGGIQSSAGIGINIFGDVALKAAFVVFNGATTPTLGF  327 (330)
T ss_dssp             HHEEEESSTTCSEEEESEEESTTTSSEEECHHHHTTEEEEEECSSSCEEEE
T ss_pred             HeeEEEecCCCCEEEEEEECCCCCCCEEECHHHhCCEEEEEECCCCCEEEE
Confidence                          1111112222 258999999999999998544 5665

>d2apra_ b.50.1.2 (A:) Acid protease {Bread mold (Rhizopus chinensis) [TaxId: 4843]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Acid protease
species: Bread mold (Rhizopus chinensis) [TaxId: 4843]

Probab=85.49  E-value=0.98  Score=40.00  Aligned_cols=90  Identities=21%  Similarity=0.378  Sum_probs=54.7

Q ss_pred             eeEEeeeec--CeeEEEEEcCCccccccC-HHHHHHcCCc-cccCC----cce------eEeecCcceeEEeEEEEEeEE
Q 016931          196 MLYVDMEVN--GIPLKAFVDSGAQSTIIS-KSCAERCGLL-RLLDD----RYR------GVAHGVGQSEILGRIHVAPIK  261 (380)
Q Consensus       196 ~lyv~v~In--g~~v~alVDTGA~~siIs-~~~a~rlgL~-~~~~~----~~~------~~~~gvg~~~~~g~i~~~~i~  261 (380)
                      -.|+++.|.  .+++.++||||++.+.+. ..| ..|+.. ...+.    .+.      .+..+-| ....|.+....+.
T Consensus        16 ~Y~~~i~iGtP~Q~~~v~vDTGS~~~Wv~~~~C-~~c~~~~~~y~~~~SsT~~~~~~~~~~~y~~g-~~~~G~~~~D~~~   93 (325)
T d2apra_          16 EYYGQVTIGTPGKKFNLDFDTGSSDLWIASTLC-TNCGSGQTKYDPNQSSTYQADGRTWSISYGDG-SSASGILAKDNVN   93 (325)
T ss_dssp             EEEEEEEETTTTEEEEEEEETTCCCCEEEBTTC-SSCCTTSCCBCGGGCTTCEEEEEEEEEECTTS-CEEEEEEEEEEEE
T ss_pred             EEEEEEEEeCCCEEEEEEEECCCCcEEEeCCCC-CccccCCCccCcccCCceeECCeEEEEEeCCC-CeEEEEEEeeeEE
Confidence            357999994  688999999999999884 444 344431 11111    011      1223333 3567888888999


Q ss_pred             EcCEEEeEE-EEEec-------CCCCceeeeHHH
Q 016931          262 IGNVFYPCS-FVVLD-------SPNMEFLFGLDM  287 (380)
Q Consensus       262 ig~~~~~~~-~~Vl~-------~~~~d~iLG~D~  287 (380)
                      +++...+.. +.+..       ....|++||+.+
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~GilGlg~  127 (325)
T d2apra_          94 LGGLLIKGQTIELAKREAASFASGPNDGLLGLGF  127 (325)
T ss_dssp             ETTEEEEEEEEEEEEEECHHHHTSSCSEEEECSC
T ss_pred             eeeeeccCcceeeeeeecccccccccCccccccc
Confidence            998554422 22222       335789999653

>d1smra_ b.50.1.2 (A:) Chymosin (synonym: renin) {Mouse (Mus musculus) [TaxId: 10090]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Chymosin (synonym: renin)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=84.89  E-value=0.29  Score=43.67  Aligned_cols=95  Identities=15%  Similarity=0.122  Sum_probs=54.3

Q ss_pred             eEEEEEcCCccccccCHHHHHHcCCccccCCcceeEeecCcce--eEEeEEEEEeEEEcCEEEeEEE-------------
Q 016931          207 PLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYRGVAHGVGQS--EILGRIHVAPIKIGNVFYPCSF-------------  271 (380)
Q Consensus       207 ~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~~~~~gvg~~--~~~g~i~~~~i~ig~~~~~~~~-------------  271 (380)
                      ...++||||.+.+.++.+.++++--  .+....  ........  ..........+.+|+..+.++.             
T Consensus       214 ~~~~iiDSGtt~~~lp~~~~~~l~~--~~~~~~--~~~~~~~~~c~~~~~~P~i~f~f~g~~~~l~~~~y~~~~~~~~~~  289 (335)
T d1smra_         214 GCEVVVDTGSSFISAPTSSLKLIMQ--ALGAKE--KRLHEYVVSCSQVPTLPDISFNLGGRAYTLSSTDYVLQYPNRRDK  289 (335)
T ss_dssp             CEEEEECTTBSSEEECHHHHHHHHH--HHTCEE--EETTEEEEEGGGGGGSCCEEEEETTEEEEECHHHHBTT----CCC
T ss_pred             CceEEEeCCCCcccCCHHHHHHHHH--HhCCee--ccCCceeecccccCCCCccEEEECCeEEEEChHHeEEEeccCCCC
Confidence            4689999999999999999987621  110000  00000000  0000112334555664444321             


Q ss_pred             ------EEec---CCCCceeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931          272 ------VVLD---SPNMEFLFGLDMLRKHQCIIDLKENVLRVG  305 (380)
Q Consensus       272 ------~Vl~---~~~~d~iLG~D~L~~~~~~ID~~~~~l~i~  305 (380)
                            .-++   ......|||..||+.+-.+.|+++++|-|.
T Consensus       290 ~C~~~~~~~~~~~~~~~~~ILG~~fl~~~yvvfD~~~~~iGfA  332 (335)
T d1smra_         290 LCTVALHAMDIPPPTGPVWVLGATFIRKFYTEFDRHNNRIGFA  332 (335)
T ss_dssp             EEEBSEEECCCCTTTCSCEEECHHHHTTEEEEEETTTTEEEEE
T ss_pred             EEEEEEEecCcCCCCCCcEEECHHHhCcEEEEEECCCCEEEEE
Confidence                  1111   112236899999999999999999999885

>d2qp8a1 b.50.1.2 (A:60-446) beta-secretase (memapsin) {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: beta-secretase (memapsin)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.42  E-value=0.47  Score=43.42  Aligned_cols=30  Identities=7%  Similarity=0.123  Sum_probs=26.0

Q ss_pred             CCCceeeeHHHHhhcCeEEEcCCCEEEEcC
Q 016931          277 PNMEFLFGLDMLRKHQCIIDLKENVLRVGG  306 (380)
Q Consensus       277 ~~~d~iLG~D~L~~~~~~ID~~~~~l~i~~  306 (380)
                      .....|||..||+.+-.+.|+.+++|-|..
T Consensus       329 ~~~~~ILG~~Flr~~y~vfD~~~~~IGfA~  358 (387)
T d2qp8a1         329 SSTGTVMGAVIMEGFYVVFDRARKRIGFAV  358 (387)
T ss_dssp             ESSCEEECHHHHTTEEEEEETTTTEEEEEE
T ss_pred             CCCCEEEhHHhhCcEEEEEECCCCEEEEEE
Confidence            345579999999999999999999999864

>d1mppa_ b.50.1.2 (A:) Pepsin {Mucor pusillus [TaxId: 4840]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Pepsin
species: Mucor pusillus [TaxId: 4840]

Probab=84.41  E-value=0.45  Score=42.88  Aligned_cols=37  Identities=27%  Similarity=0.471  Sum_probs=29.4

Q ss_pred             EEEEEecCCCCceeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931          269 CSFVVLDSPNMEFLFGLDMLRKHQCIIDLKENVLRVG  305 (380)
Q Consensus       269 ~~~~Vl~~~~~d~iLG~D~L~~~~~~ID~~~~~l~i~  305 (380)
                      |-+.+.+......|||..||+.+-.+.|+++++|-|.
T Consensus       312 c~~~~~~~~~~~~ILG~~fl~~~yvvfD~~~~~iGfA  348 (357)
T d1mppa_         312 CMFIVLPDGGNQFIVGNLFLRFFVNVYDFGKNRIGFA  348 (357)
T ss_dssp             EEESEEEESSSCCEEEHHHHTTEEEEEETTTTEEEEE
T ss_pred             EEEEEcCCCCCCEEechHHhCCEEEEEECCCCEEEEE
Confidence            4445555444557999999999999999999999885

>d2qp8a1 b.50.1.2 (A:60-446) beta-secretase (memapsin) {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: beta-secretase (memapsin)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.06  E-value=1.4  Score=40.09  Aligned_cols=85  Identities=25%  Similarity=0.340  Sum_probs=51.0

Q ss_pred             eEEeeeec--CeeEEEEEcCCcccccc-CHHHHHHcCCccccCCc----ce------eEeecCcceeEEeEEEEEeEEEc
Q 016931          197 LYVDMEVN--GIPLKAFVDSGAQSTII-SKSCAERCGLLRLLDDR----YR------GVAHGVGQSEILGRIHVAPIKIG  263 (380)
Q Consensus       197 lyv~v~In--g~~v~alVDTGA~~siI-s~~~a~rlgL~~~~~~~----~~------~~~~gvg~~~~~g~i~~~~i~ig  263 (380)
                      .|+++.|.  .+++.++||||++.+.+ +..|   |.+.+..+..    +.      .+..|  .....|.+....+.|+
T Consensus        16 Y~~~i~IGtP~Q~~~li~DTGSs~lWv~~~~c---~~~~~~f~~~~SsT~~~~~~~~~i~Y~--~g~~~G~~~~D~v~i~   90 (387)
T d2qp8a1          16 YYVEMTVGSPPQTLNILVDTGSSNFAVGAAPH---PFLHRYYQRQLSSTYRDLRKGVYVPYT--QGKWEGELGTDLVSIP   90 (387)
T ss_dssp             EEEEEEETTTTEEEEEEEETTCCCEEEECSCC---TTCSCCCCGGGCTTCEEEEEEEEEECS--SCEEEEEEEEEEEECT
T ss_pred             EEEEEEECCCCEEEEEEEECCccceEEccCCC---CcCCCccCcccCCCcEeCCCcEEEEeC--CccEEEEEEEEEEEEc
Confidence            48899995  47899999999999877 3443   2332222211    11      12222  2356788888899997


Q ss_pred             C---EEEeEEEEEec--------CCCCceeeeHH
Q 016931          264 N---VFYPCSFVVLD--------SPNMEFLFGLD  286 (380)
Q Consensus       264 ~---~~~~~~~~Vl~--------~~~~d~iLG~D  286 (380)
                      +   ......+..+.        ....|+||||-
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~~~~~dGilGLg  124 (387)
T d2qp8a1          91 HGPNVTVRANIAAITESDKFFINGSNWEGILGLA  124 (387)
T ss_dssp             TSCSCEEEEEEEEEEEEESCSCTTCCCCEEEECS
T ss_pred             CCCceeEeEEEEEEEecCCccccccccccccccc
Confidence            5   22222232222        24568999974

>d1hrna_ b.50.1.2 (A:) Chymosin (synonym: renin) {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Chymosin (synonym: renin)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.39  E-value=0.89  Score=40.24  Aligned_cols=94  Identities=20%  Similarity=0.202  Sum_probs=54.6

Q ss_pred             eEEEEEcCCccccccCHHHHHHcCCccccCCcce--eEeecCcceeEEeEEEEEeEEEcCEEEeEEE--EEe--------
Q 016931          207 PLKAFVDSGAQSTIISKSCAERCGLLRLLDDRYR--GVAHGVGQSEILGRIHVAPIKIGNVFYPCSF--VVL--------  274 (380)
Q Consensus       207 ~v~alVDTGA~~siIs~~~a~rlgL~~~~~~~~~--~~~~gvg~~~~~g~i~~~~i~ig~~~~~~~~--~Vl--------  274 (380)
                      ...++||||++.+.+..+.++++--  .+.....  ....-...   ......+.+.+|+..+.++.  +++        
T Consensus       217 ~~~~iiDSGtt~~~lp~~~~~~l~~--~~~~~~~~~~~~~~c~~---~~~~P~l~f~f~g~~~~l~p~~yl~~~~~~~~~  291 (337)
T d1hrna_         217 GCLALVDTGASYISGSTSSIEKLME--ALGAKKRLFDYVVKCNE---GPTLPDISFHLGGKEYTLTSADYVFQESYSSKK  291 (337)
T ss_dssp             CEEEEECTTCSSEEECHHHHHHHHH--HHTCEECSSCEEEETTT---GGGCCCEEEEETTEEEEECHHHHBCCCCCCTTS
T ss_pred             CcceEEeCCCcceeccHHHHHHHHH--HhCCcccccceeeeccc---cCCCCceeEEECCEEEEEChHHeEEEecCCCCC
Confidence            3578999999999999998887511  1110000  00000000   01123345666665555421  111        


Q ss_pred             ---------c---CCCCceeeeHHHHhhcCeEEEcCCCEEEEc
Q 016931          275 ---------D---SPNMEFLFGLDMLRKHQCIIDLKENVLRVG  305 (380)
Q Consensus       275 ---------~---~~~~d~iLG~D~L~~~~~~ID~~~~~l~i~  305 (380)
                               +   ......|||..||+.+-.+.|+++++|-|.
T Consensus       292 ~C~~~i~~~~~~~~~~~~~ILG~~fl~~~y~vfD~~~~~IGfA  334 (337)
T d1hrna_         292 LCTLAIHAMDIPPPTGPTWALGATFIRKFYTEFDRRNNRIGFA  334 (337)
T ss_dssp             EEEBSEEECCCCTTTCSCEEECHHHHTTEEEEEETTTTEEEEE
T ss_pred             EEEEEEEcCCcCCCCCCCEEECHHhhCCEEEEEECCCCEEEEE
Confidence                     1   111224899999999999999999999875

>d1eaga_ b.50.1.2 (A:) Acid protease {Yeast (Candida albicans) [TaxId: 5476]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Acid protease
species: Yeast (Candida albicans) [TaxId: 5476]

Probab=81.04  E-value=1.5  Score=38.85  Aligned_cols=26  Identities=23%  Similarity=0.429  Sum_probs=23.9

Q ss_pred             eeeeHHHHhhcCeEEEcCCCEEEEcC
Q 016931          281 FLFGLDMLRKHQCIIDLKENVLRVGG  306 (380)
Q Consensus       281 ~iLG~D~L~~~~~~ID~~~~~l~i~~  306 (380)
                      .|||..||+.+-.+.|+++++|-|..
T Consensus       304 ~ILG~~fl~~~y~vfD~~~~~iGfA~  329 (342)
T d1eaga_         304 NILGDNFLRSAYIVYDLDDNEISLAQ  329 (342)
T ss_dssp             CEECHHHHTTEEEEEETTTTEEEEEE
T ss_pred             cEECHHhhCcEEEEEECCCCEEEEEE
Confidence            48999999999999999999999963

>d2bjua1 b.50.1.2 (A:1-329) Plasmepsin (a hemoglobin-degrading enzyme) {Plasmodium falciparum, plasmepsin II [TaxId: 5833]}

class: All beta proteins
fold: Acid proteases
superfamily: Acid proteases
family: Pepsin-like
domain: Plasmepsin (a hemoglobin-degrading enzyme)
species: Plasmodium falciparum, plasmepsin II [TaxId: 5833]

Probab=81.02  E-value=1.2  Score=39.04  Aligned_cols=90  Identities=24%  Similarity=0.476  Sum_probs=54.0

Q ss_pred             ceeEEeeeecC--eeEEEEEcCCccccccCHHHHHHcCCcc--ccCC----cce------eEeecCcceeEEeEEEEEeE
Q 016931          195 VMLYVDMEVNG--IPLKAFVDSGAQSTIISKSCAERCGLLR--LLDD----RYR------GVAHGVGQSEILGRIHVAPI  260 (380)
Q Consensus       195 ~~lyv~v~Ing--~~v~alVDTGA~~siIs~~~a~rlgL~~--~~~~----~~~------~~~~gvg~~~~~g~i~~~~i  260 (380)
                      ...|+++.|.-  +++.+++|||+..+-+....+..|+...  ..+.    .+.      ....+.|  .+.|......+
T Consensus        14 ~~Y~~~v~iGtP~q~~~~~~DTGS~~~Wv~~~~C~~~~~~~~~~y~~~~SsT~~~~~~~~~~~Y~~g--~~~G~~~~d~~   91 (329)
T d2bjua1          14 IMFYGDAEVGDNQQPFTFILDTGSANLWVPSVKCTTAGCLTKHLYDSSKSRTYEKDGTKVEMNYVSG--TVSGFFSKDLV   91 (329)
T ss_dssp             TEEEEEEEETTTTEEEEEEEETTCCCEEEEBTTCCSTTGGGSCCBCGGGCTTCEEEEEEEEEECSSS--EEEEEEEEEEE
T ss_pred             CEEEEEEEECCCCEEEEEEEECCCcceEEECCCCCCccccCCCCCCcccCCCccCCCccEEEEcCCC--cEEEEEEEeee
Confidence            46799999954  8899999999998876433223343211  1111    011      1223323  47788888999


Q ss_pred             EEcCEEEeEEEEE-ec---------CCCCceeeeHH
Q 016931          261 KIGNVFYPCSFVV-LD---------SPNMEFLFGLD  286 (380)
Q Consensus       261 ~ig~~~~~~~~~V-l~---------~~~~d~iLG~D  286 (380)
                      .+++..+...+.. ..         ....++++|+.
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~g~~  127 (329)
T d2bjua1          92 TVGNLSLPYKFIEVIDTNGFEPTYTASTFDGILGLG  127 (329)
T ss_dssp             EETTEEEEEEEEEEEECGGGTTHHHHSSCCEEEECS
T ss_pred             eeeeeeeccceEEEEEeeccCccccccccCcccccc
Confidence            9999665543322 22         12457788865