Citrus Sinensis ID: 022703

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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---
Protein Sequence
MAGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEVPKATADSEEAIDVDMSGSQPEEMVEPEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPVSGGGGASKSSLTPEEIKLKAQELRERARKKKEEEEKRMEREREKERIRIGKELLEAKRIEEENERKRILALRKAEKEEEKRAREKIRQKLEEDKAERRRRLGLPPEDPATTKSSAPVVEEKKHVAY
Secondary Structure (PSIPRED)
ccccccccccHHHHHHHHHHHHHHHHHHcccccccHHHHHHccccccccccccccccccccccccccccccHHHHHccccccccccccccccHHHHccccccccccccccccccHHHHHHHHHccccHHHHHHHHHHHccccHHHHHHHHHHcccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccEEEEEccccHHHHHHHHHHHHHHHHcccccHHHcHHHHHHcEccHcccccccccHcccccccccccccccccEEcccccEEEcccccccccHHcccccccccccccccccccHHHHHHHHHccccHHHHHHHHHHcccccHHHHHHHHHHHccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccEEEHHHHcc
Coil and Loop (DISEMBL)
magvslkcgdcGALLRSVQEAQEHaeltshsnfseSTEAVLNLVCAtcgkpcrsktetdlhrkrtghtdfvdktseaakpislevpkatadseeaidvdmsgsqpeemvepEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEhendpdidempmvpvsggggaskssltPEEIKLKAQELRERARKKKEEEEKRMEREREKERIRIGKELLEAKRIEEENERKRILALRKAEKEEEKRAREKIRQKLEEDKAERrrrlglppedpattkssapvveekkhvay
Flexible Loop (DISEMBL)
magvslkcgdCGALLRSVQEAQEHAELtshsnfsesTEAVLNLVCATCGKpcrsktetdlhrkrtghtdfvdktseaakpislevpkatadseeaIDVDmsgsqpeemvEPEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPVSGGggaskssltpeeIKLKAQELRerarkkkeeeekrmererekeririgkelleakrieeenerkrilalrkaekeeekrAREKIrqkleedkaerrrrlglppedpattkssapvveekkhvay
Low Complexity Region (SEG)
MAGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEVPKATADSEEAIDVDMSGSQPEEMVEPEVDKELLKELEAMGFPVARATRALHYSGnanveaavnwvvehenDPDIDEMPMVPVSGGGGASKSSLTPEEIKLKAQelrerarkkkeeeekrmererekeririgkelleakrieeenerkrilalrkaekeeekrarekirQKLEEDKAERRRRLGLPPEDPATTKSSAPVVEEKKHVAY
Disordered region (IsUnstruct)
*******CGDCGALL**********************EAVLNLVCATCGKPC********************************************************************LEAMGFPVARATRALHYSGNANVEAAVNWVVE*********************************************************************************************************************************************
Disordered Region (DISOPRED)
****SLKCGDCGALLRSV************SNFSESTEAVLNLVCATCGKPCR*****DLHRKRTGHTDFVDKTSEAAKPISLEVPKATAD***********************KELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHEN******************************************************************************************************************************************
Disordered Region (DISEMBL)
MAGVSLKCGDCGALLRSVQEA**************STEAVLNLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEVPKATADSEEAIDV***************DKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPVSG*********TPEEIKLKAQEL*********************ERIRIGKELLEAKRIEEENERKRILALRK***********KIRQKLEEDKAERRRRLGLPPE********************
Disordered Region (DISPRO)
*AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPCR**T*TDLHRKRTGHTDFVDKTSEAAKPISLEVPKATA**E**************MVEPEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVP************************RERARKKK***********EKERIRIGKELLEAKRIEEENERKRILALRKAEKEEEKRAREKIRQKLEEDKAERRRRLGLPP**********PVVEEK***A*
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEVPKATADSEEAIDVDMSGSQPEEMVEPEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPVSGGGGASKSSLTPEEIxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxIGKELLEAKRxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxRRRRLGLPPEDPATTKSSAPVVEEKKHVAY
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	293	2.2.26 [Sep-21-2011]
Q6IP50	296	UBX domain-containing pro	N/A	no	0.573	0.567	0.367	3e-17
Q6GL77	287	UBX domain-containing pro	yes	no	0.576	0.588	0.370	1e-16
Q6NXA9	294	UBX domain-containing pro	yes	no	0.511	0.510	0.333	1e-15
Q6GLV4	290	UBX domain-containing pro	N/A	no	0.587	0.593	0.341	2e-14
Q499N6	297	UBX domain-containing pro	yes	no	0.559	0.552	0.381	9e-14
Q922Y1	297	UBX domain-containing pro	yes	no	0.559	0.552	0.376	1e-13
P45974	858	Ubiquitin carboxyl-termin	yes	no	0.238	0.081	0.371	6e-10
P56399	858	Ubiquitin carboxyl-termin	no	no	0.238	0.081	0.371	6e-10
Q5R407	858	Ubiquitin carboxyl-termin	yes	no	0.238	0.081	0.371	6e-10
Q32KW2	297	UBX domain-containing pro	yes	no	0.566	0.558	0.359	7e-10

>sp|Q6IP50|UBX1A_XENLA UBX domain-containing protein 1-A OS=Xenopus laevis GN=ubxn1-a PE=2 SV=1

 Score = 89.4 bits (220), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 75/204 (36%), Positives = 106/204 (51%), Gaps = 36/204 (17%)

Query: 118 LKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPVSGGGGASKSS 177
           L+ L  MGF   RA +AL  +GN  +E A++W+VEHE+DPDIDE P V V  G     + 
Sbjct: 7   LESLIEMGFSSTRAEKALTATGNQGIEPAMDWLVEHEDDPDIDE-PSVVVPEGSSTDTAD 65

Query: 178 LTPEEIKLKAQELRERARK------KKEEEEKRM------------------EREREKER 213
            T        Q +   A +      +KE++ KRM                    E+EK+R
Sbjct: 66  TTDTTDTTDTQGMDTSAERLPLTEEEKEKQTKRMMELVAQKQNEREEREKKERIEQEKQR 125

Query: 214 IRIGKELLEAKRIEEENERKRILALRKAEKEEEKRAREKIRQKLEEDKAERRRRLG---- 269
            + G+EL   K+  +E E ++    R+ EK+EEK ARE++R+K+  DKA+R RR G    
Sbjct: 126 RKHGQELSAIKQKMQEQEMQKAAEDRRREKQEEKMARERVREKIARDKADRARRFGGASS 185

Query: 270 ---LPPED---PATTKS-SAPVVE 286
               PP +   PATT S S+PV E
Sbjct: 186 EPISPPAETSIPATTPSPSSPVQE 209

Component of a complex required to couple deglycosylation and proteasome-mediated degradation of misfolded proteins in the endoplasmic reticulun that are retrotranslocated in the cytosol. Involved in ubiquitin-proteasome systems.
Xenopus laevis (taxid: 8355)

>sp|Q6GL77|UBXN1_XENTR UBX domain-containing protein 1 OS=Xenopus tropicalis GN=ubxn1 PE=2 SV=1

 Score = 87.4 bits (215), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 77/208 (37%), Positives = 110/208 (52%), Gaps = 39/208 (18%)

Query: 118 LKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPV---SGGGGAS 174
           L+ L  MGF  +RA +AL  +GN  +E A++W+VEHE+DPDIDE P V V   S  G   
Sbjct: 7   LESLIEMGFSPSRAEKALAATGNQGIEPAMDWLVEHEDDPDIDE-PSVVVPEDSDSGTTD 65

Query: 175 KSSLTPEEIKLKAQELRERARKKKEEEEKRM------------------EREREKERIRI 216
              +   E +L   E      ++KE++ KRM                    E+EK+R + 
Sbjct: 66  TQGMDTCEERLPLTE------EEKEKQTKRMMELIAQKQKEREEREKRERIEQEKQRRKQ 119

Query: 217 GKELLEAKRIEEENERKRILALRKAEKEEEKRAREKIRQKLEEDKAERRRRLG------- 269
           G+EL   K+  +E E ++ +  R+ EK+EEK AR+++R+K+  DKAER RR G       
Sbjct: 120 GQELSAVKQKIQEQEMQKAVEDRRREKQEEKLARDRVREKIARDKAERARRFGGAGSEPI 179

Query: 270 LPPED---PATTKS-SAPVVEEKKHVAY 293
            PP +   PATT S S+PV E      Y
Sbjct: 180 SPPAEASIPATTPSPSSPVQEPPTKKEY 207

Component of a complex required to couple deglycosylation and proteasome-mediated degradation of misfolded proteins in the endoplasmic reticulun that are retrotranslocated in the cytosol. Involved in ubiquitin-proteasome systems.

Xenopus tropicalis (taxid: 8364)

>sp|Q6NXA9|UBXN1_DANRE UBX domain-containing protein 1 OS=Danio rerio GN=ubxn1 PE=2 SV=1

 Score = 83.6 bits (205), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 59/177 (33%), Positives = 100/177 (56%), Gaps = 27/177 (15%)

Query: 118 LKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPVSGG--GGASK 175
           L  L  MGF   RA +A+ ++GN  +E A++W++EHENDPDIDE P VP +G   G A +
Sbjct: 7   LDSLLEMGFGRNRAEKAVAHTGNQGIERAMDWLMEHENDPDIDE-PYVPPAGNTLGPAEE 65

Query: 176 SSLTPEEIKLKAQELRE-RARKKKEEEEKRMERER-----------------------EK 211
            S +P EI    ++  E  AR+   EEE++ + +R                       EK
Sbjct: 66  QSQSPTEIPESIEDTEEGNARQPMTEEERKEQVKRLEDLMKARQEERRERERQEGIEREK 125

Query: 212 ERIRIGKELLEAKRIEEENERKRILALRKAEKEEEKRAREKIRQKLEEDKAERRRRL 268
           +R + G+ELL+ ++  +E+E K++   R+ EK E++ A+++++ K+  D+ ER ++ 
Sbjct: 126 QRRKQGQELLQVRQKLQEDEMKKLADQRRKEKMEDRLAKQRVKDKIARDREERAQKF 182

Ubiquitin-binding protein that specifically binds 'Lys-6'-linked polyubiquitin chains. Component of a complex required to couple deglycosylation and proteasome-mediated degradation of misfolded proteins in the endoplasmic reticulun that are retrotranslocated in the cytosol. Involved in ubiquitin-proteasome systems.

Danio rerio (taxid: 7955)

>sp|Q6GLV4|UBX1B_XENLA UBX domain-containing protein 1-B OS=Xenopus laevis GN=ubxn1-b PE=2 SV=1

 Score = 80.1 bits (196), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 69/202 (34%), Positives = 107/202 (52%), Gaps = 30/202 (14%)

Query: 114 DKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPVSGGGGA 173
           D   L+ L  MGF  +RA +AL  +GN  +E A++W+VEHE+DPDI E  +V     G  
Sbjct: 3   DCSALESLIEMGFSPSRAEKALSATGNQGIEPAMDWLVEHEDDPDIKEPSVVIPEDSGTD 62

Query: 174 SKSSLTPEEIKLKAQELRERARKKKEEEEKRM------------------EREREKERIR 215
           +  +   + +   A+ L     ++KE++ KRM                    E+EK+R +
Sbjct: 63  TTDTTDTQAMDTSAERL-PLTEEEKEKQTKRMMELIAQKQKEREEREKRERIEQEKQRRK 121

Query: 216 IGKELLEAKRIEEENERKRILALRKAEKEEEKRAREKIRQKLEEDKAERRRRLG------ 269
            G+EL   K+  +E E ++    R+ EK+EE+ ARE++R+K+  DKA+R R+ G      
Sbjct: 122 HGQELSAIKQRMQEQEMQKAAEDRRREKQEERLARERVREKIARDKADRARKFGGAGSEP 181

Query: 270 -LPPED---PATTKS-SAPVVE 286
             PP +   PAT  S S+PV E
Sbjct: 182 ISPPAETSVPATAPSPSSPVQE 203

Component of a complex required to couple deglycosylation and proteasome-mediated degradation of misfolded proteins in the endoplasmic reticulun that are retrotranslocated in the cytosol. Involved in ubiquitin-proteasome systems.

Xenopus laevis (taxid: 8355)

>sp|Q499N6|UBXN1_RAT UBX domain-containing protein 1 OS=Rattus norvegicus GN=Ubxn1 PE=2 SV=2

 Score = 77.8 bits (190), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 74/194 (38%), Positives = 107/194 (55%), Gaps = 30/194 (15%)

Query: 118 LKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPVS--------- 168
           L+ L  MGFP  RA +AL  +GN  +EAA++W++EHE+DPD+DE    P+S         
Sbjct: 7   LESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPLETPLSHILGREPTP 66

Query: 169 -------GGG---GASKSSLTPEEIKLKAQELRERARKKKEEEEKRMERERE---KERIR 215
                  G G   G SK  LT EE + + + + E   +K+ E E+R ERE     K+R R
Sbjct: 67  SEQVGPEGSGSAAGESKPVLTEEERQEQTKRMLELVAQKQREREEREEREALEREKQRRR 126

Query: 216 IGKELLEAKRIEEENERKRILALRKAEKEEEKRAREKIRQKLEEDKAERRRRLG------ 269
            G+EL  A++  +E+E +R    R+ EK EE  AR+++R+K+E DKAER ++ G      
Sbjct: 127 QGQELSAARQKLQEDEIRRAAEERRREKAEELAARQRVREKIERDKAERAQKYGGTVGSR 186

Query: 270 --LPPEDPATTKSS 281
              P  DP    SS
Sbjct: 187 SSPPATDPGPVPSS 200

Ubiquitin-binding protein that interacts with the BRCA1-BARD1 heterodimer, and regulates its activity. Specifically binds 'Lys-6'-linked polyubiquitin chains. Interaction with autoubiquitinated BRCA1, leads to inhibit the E3 ubiquitin-protein ligase activity of the BRCA1-BARD1 heterodimer. Component of a complex required to couple deglycosylation and proteasome-mediated degradation of misfolded proteins in the endoplasmic reticulun that are retrotranslocated in the cytosol.

Rattus norvegicus (taxid: 10116)

>sp|Q922Y1|UBXN1_MOUSE UBX domain-containing protein 1 OS=Mus musculus GN=Ubxn1 PE=1 SV=1

 Score = 77.0 bits (188), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 73/194 (37%), Positives = 107/194 (55%), Gaps = 30/194 (15%)

Query: 118 LKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPVS--------- 168
           L+ L  MGFP  RA +AL  +GN  +EAA++W++EHE+DPD+DE    P+S         
Sbjct: 7   LESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPLETPLSHVLGREPTP 66

Query: 169 -------GGG---GASKSSLTPEEIKLKAQELRERARKKKEEEEKRMERERE---KERIR 215
                  G G   G S+  LT EE + + + + E   +K+ E E+R ERE     K+R R
Sbjct: 67  SEQVGPEGSGSAAGESRPILTEEERQEQTKRMLELVAQKQREREEREEREALEREKQRRR 126

Query: 216 IGKELLEAKRIEEENERKRILALRKAEKEEEKRAREKIRQKLEEDKAERRRRLG------ 269
            G+EL  A++  +E+E +R    R+ EK EE  AR+++R+K+E DKAER ++ G      
Sbjct: 127 QGQELSVARQKLQEDEMRRAAEERRREKAEELAARQRVREKIERDKAERAKKYGGSVGSR 186

Query: 270 --LPPEDPATTKSS 281
              P  DP    SS
Sbjct: 187 SSPPATDPGPVPSS 200

Ubiquitin-binding protein that interacts with the BRCA1-BARD1 heterodimer, and regulates its activity. Specifically binds 'Lys-6'-linked polyubiquitin chains. Interaction with autoubiquitinated BRCA1, leads to inhibit the E3 ubiquitin-protein ligase activity of the BRCA1-BARD1 heterodimer (By similarity) Component of a complex required to couple deglycosylation and proteasome-mediated degradation of misfolded proteins in the endoplasmic reticulun that are retrotranslocated in the cytosol. Involved in ubiquitin-proteasome systems.

Mus musculus (taxid: 10090)

>sp|P45974|UBP5_HUMAN Ubiquitin carboxyl-terminal hydrolase 5 OS=Homo sapiens GN=USP5 PE=1 SV=2

 Score = 65.1 bits (157), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 26/70 (37%), Positives = 46/70 (65%)

Query: 111 PEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPVSGG 170
           P +D+ ++ +L  MGFP+    +A++Y+GN+  EAA+NWV+ H +DPD     ++P S G
Sbjct: 653 PMLDESVIIQLVEMGFPMDACRKAVYYTGNSGAEAAMNWVMSHMDDPDFANPLILPGSSG 712

Query: 171 GGASKSSLTP 180
            G++ ++  P
Sbjct: 713 PGSTSAAADP 722

Cleaves linear and branched multiubiquitin polymers with a marked preference for branched polymers. Involved in unanchored 'Lys-48'-linked polyubiquitin disassembly. Binds linear and 'Lys-63'-linked polyubiquitin with a lower affinity. Knock-down of USP5 causes the accumulation of p53/TP53 and an increase in p53/TP53 transcriptional activity because the unanchored polyubiquitin that accumulates is able to compete with ubiquitinated p53/TP53 but not with MDM2 for proteasomal recognition.

Homo sapiens (taxid: 9606)

EC: 3

EC: .

EC: 4

EC: .

EC: 1

EC: 9

EC: .

EC: 1

EC: 2

>sp|P56399|UBP5_MOUSE Ubiquitin carboxyl-terminal hydrolase 5 OS=Mus musculus GN=Usp5 PE=1 SV=1

 Score = 65.1 bits (157), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 26/70 (37%), Positives = 46/70 (65%)

Query: 111 PEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPVSGG 170
           P +D+ ++ +L  MGFP+    +A++Y+GN+  EAA+NWV+ H +DPD     ++P S G
Sbjct: 653 PMLDESVIIQLVEMGFPMDACRKAVYYTGNSGAEAAMNWVMSHMDDPDFANPLILPGSSG 712

Query: 171 GGASKSSLTP 180
            G++ ++  P
Sbjct: 713 PGSTSAAADP 722

Cleaves linear and branched multiubiquitin polymers with a marked preference for branched polymers. Involved in unanchored 'Lys-48'-linked polyubiquitin disassembly. Binds linear and 'Lys-63'-linked polyubiquitin with a lower affinity.

Mus musculus (taxid: 10090)

EC: 3

EC: .

EC: 4

EC: .

EC: 1

EC: 9

EC: .

EC: 1

EC: 2

>sp|Q5R407|UBP5_PONAB Ubiquitin carboxyl-terminal hydrolase 5 OS=Pongo abelii GN=UBP5 PE=2 SV=1

 Score = 65.1 bits (157), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 26/70 (37%), Positives = 46/70 (65%)

Query: 111 PEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPVSGG 170
           P +D+ ++ +L  MGFP+    +A++Y+GN+  EAA+NWV+ H +DPD     ++P S G
Sbjct: 653 PMLDESVIIQLVEMGFPMDACRKAVYYTGNSGAEAAMNWVMSHMDDPDFANPLILPGSSG 712

Query: 171 GGASKSSLTP 180
            G++ ++  P
Sbjct: 713 PGSTSAAADP 722

Cleaves linear and branched multiubiquitin polymers with a marked preference for branched polymers. Involved in unanchored 'Lys-48'-linked polyubiquitin disassembly. Binds linear and 'Lys-63'-linked polyubiquitin with a lower affinity.

Pongo abelii (taxid: 9601)

EC: 3

EC: .

EC: 4

EC: .

EC: 1

EC: 9

EC: .

EC: 1

EC: 2

>sp|Q32KW2|UBXN1_BOVIN UBX domain-containing protein 1 OS=Bos taurus GN=UBXN1 PE=2 SV=1

 Score = 65.1 bits (157), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 69/192 (35%), Positives = 105/192 (54%), Gaps = 26/192 (13%)

Query: 118 LKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDE---MPMVPVSG----- 169
           L+ L  MGFP  RA +AL  +GN  +EAA++W++EHE+DPD+DE    P+  V G     
Sbjct: 7   LESLIEMGFPKGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPLATPLGHVLGREPTP 66

Query: 170 ---GG--------GASKSSLTPEEIKLKAQELRERARKKKEEEEKRMEREREKERIRIGK 218
              GG        G  K  LT EE + + + + E   +K+ E E+R ERE  +   +  +
Sbjct: 67  SEQGGPKGPGSAVGEGKPVLTEEERQEQTKRMLELVAQKQREREEREEREALERERQRRR 126

Query: 219 E---LLEAKRIEEENERKRILALRKAEKEEEKRAREKIRQKLEEDKAERRRR----LGLP 271
           +   L  A++  +E+E +R    R+ EK EE  AR+++R+K+E DKAER ++    +G  
Sbjct: 127 QGQELTAARQRLQEDEMRRAAEERRREKAEELEARQRVREKIERDKAERAKKYGGNVGSQ 186

Query: 272 PEDPATTKSSAP 283
           P  PAT     P
Sbjct: 187 PSPPATEPGPVP 198

Ubiquitin-binding protein that interacts with the BRCA1-BARD1 heterodimer, and regulates its activity. Specifically binds 'Lys-6'-linked polyubiquitin chains. Interaction with autoubiquitinated BRCA1, leads to inhibit the E3 ubiquitin-protein ligase activity of the BRCA1-BARD1 heterodimer. Component of a complex required to couple deglycosylation and proteasome-mediated degradation of misfolded proteins in the endoplasmic reticulun that are retrotranslocated in the cytosol.

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	293
225433606	413	PREDICTED: uncharacterized protein LOC10	0.986	0.699	0.830	1e-134
224140845	414	predicted protein [Populus trichocarpa]	0.993	0.702	0.832	1e-115
427199320	411	ubiquitin-associated/TS-N domain-contain	0.979	0.698	0.833	1e-111
224060373	415	predicted protein [Populus trichocarpa]	0.976	0.689	0.805	1e-111
356525231	415	PREDICTED: UBX domain-containing protein	0.989	0.698	0.792	1e-108
449442391	411	PREDICTED: uncharacterized protein LOC10	0.979	0.698	0.795	1e-101
18390444	413	ubiquitin-associated (UBA)/TS-N domain-c	0.972	0.690	0.791	1e-100
356512473	415	PREDICTED: UBX domain-containing protein	0.982	0.693	0.791	1e-100
297848730	413	ubiquitin-associated /TS-N domain-contai	0.972	0.690	0.784	1e-99
388495734	410	unknown [Lotus japonicus]	0.976	0.697	0.775	2e-97

>gi|225433606|ref|XP_002273725.1| PREDICTED: uncharacterized protein LOC100248761 [Vitis vinifera] gi|298205155|emb|CBI17214.3| unnamed protein product [Vitis vinifera]

 Score =  484 bits (1246), Expect = e-134,   Method: Compositional matrix adjust.
 Identities = 240/289 (83%), Positives = 265/289 (91%)

Query: 1   MAGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPCRSKTETDL 60
           MAGVSLKCGDCGALL+SV+EAQEHAELTSHSNFSESTEAVLNL+C  C KPCRSKTE+DL
Sbjct: 1   MAGVSLKCGDCGALLKSVEEAQEHAELTSHSNFSESTEAVLNLICTICSKPCRSKTESDL 60

Query: 61  HRKRTGHTDFVDKTSEAAKPISLEVPKATADSEEAIDVDMSGSQPEEMVEPEVDKELLKE 120
           H KRTGHT+FVDKTSEAAKPISLEVPKAT +S+E +D   S SQP+EM+ PEVDK+LL+E
Sbjct: 61  HTKRTGHTEFVDKTSEAAKPISLEVPKATDESQEVVDASGSSSQPQEMIAPEVDKKLLEE 120

Query: 121 LEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPVSGGGGASKSSLTP 180
           LEAMGFP ARATRALHYSGN ++EAAVNWVVEHEND DIDEMP+VPV+    A K SLTP
Sbjct: 121 LEAMGFPTARATRALHYSGNTSLEAAVNWVVEHENDSDIDEMPLVPVNTKVEAPKPSLTP 180

Query: 181 EEIKLKAQELRERARKKKEEEEKRMEREREKERIRIGKELLEAKRIEEENERKRILALRK 240
           EE+K+KAQELRERARKKKEEE+KRMERE+EKERIR+GKELLEAKRIEEENERKRILALR+
Sbjct: 181 EEMKIKAQELRERARKKKEEEDKRMEREKEKERIRVGKELLEAKRIEEENERKRILALRR 240

Query: 241 AEKEEEKRAREKIRQKLEEDKAERRRRLGLPPEDPATTKSSAPVVEEKK 289
           AEKEEE+RAREKIRQKLEEDKAERRR+LGLPPEDPA  K SA VV+EKK
Sbjct: 241 AEKEEEQRAREKIRQKLEEDKAERRRKLGLPPEDPAAVKPSASVVQEKK 289

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224140845|ref|XP_002323789.1| predicted protein [Populus trichocarpa] gi|222866791|gb|EEF03922.1| predicted protein [Populus trichocarpa]

 Score =  422 bits (1084), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 243/292 (83%), Positives = 263/292 (90%), Gaps = 1/292 (0%)

Query: 1   MAGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPCRSKTETDL 60
           MAG+SLKCGDCGA LRSVQEAQ+HAELTSHSNFSESTEAVLNLVCATC KPCRSKTE+DL
Sbjct: 1   MAGLSLKCGDCGASLRSVQEAQDHAELTSHSNFSESTEAVLNLVCATCDKPCRSKTESDL 60

Query: 61  HRKRTGHTDFVDKTSEAAKPISLEVPKAT-ADSEEAIDVDMSGSQPEEMVEPEVDKELLK 119
           H KRTGH++F DKT+EAA+PISLEVPKAT  D+ E      + +QPEEMV PEVDK++L+
Sbjct: 61  HTKRTGHSEFTDKTAEAAEPISLEVPKATPMDANEPAADASTSTQPEEMVAPEVDKKILE 120

Query: 120 ELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPVSGGGGASKSSLT 179
           ELEAMGFP ARATRALHYSGNA +EAAVNWVVEHENDPDIDEMPMVPV+    ASK SLT
Sbjct: 121 ELEAMGFPTARATRALHYSGNAGLEAAVNWVVEHENDPDIDEMPMVPVNSNAEASKPSLT 180

Query: 180 PEEIKLKAQELRERARKKKEEEEKRMEREREKERIRIGKELLEAKRIEEENERKRILALR 239
           PEE+K KAQELRERARKKKEEEE   EREREKERIRIGKELLEAKRIEEENERKR++ALR
Sbjct: 181 PEEVKQKAQELRERARKKKEEEEMIAEREREKERIRIGKELLEAKRIEEENERKRLMALR 240

Query: 240 KAEKEEEKRAREKIRQKLEEDKAERRRRLGLPPEDPATTKSSAPVVEEKKHV 291
           KAEKEEEKRAREKIRQKLEEDKAERRR+LGLPPEDPAT K SAPVVEEKK +
Sbjct: 241 KAEKEEEKRAREKIRQKLEEDKAERRRKLGLPPEDPATVKPSAPVVEEKKSM 292

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|427199320|gb|AFY26887.1| ubiquitin-associated/TS-N domain-containing protein [Morella rubra]

 Score =  408 bits (1048), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 241/289 (83%), Positives = 260/289 (89%), Gaps = 2/289 (0%)

Query: 1   MAGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPCRSKTETDL 60
           MAGVSLKCGDCGALLRSV+EAQEHAELTSHSNFSESTEAVLNLVC  CGKPCRSKTE+DL
Sbjct: 1   MAGVSLKCGDCGALLRSVEEAQEHAELTSHSNFSESTEAVLNLVCTACGKPCRSKTESDL 60

Query: 61  HRKRTGHTDFVDKTSEAAKPISLEVPKATADSEEAIDVDMSGSQPEEMVEPEVDKELLKE 120
           H KRTGHT+FVDKTSEA KPISLEVPKA A+S++A   + S SQ EEMV PEVDK LL+E
Sbjct: 61  HTKRTGHTEFVDKTSEATKPISLEVPKAAAESDQA--ANASTSQSEEMVVPEVDKNLLEE 118

Query: 121 LEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPVSGGGGASKSSLTP 180
           LEAMGF  ARATRALHYSGNA +EAAVNWVVEHEND DID+MPMVPV+    A K SLTP
Sbjct: 119 LEAMGFSTARATRALHYSGNAGIEAAVNWVVEHENDTDIDQMPMVPVNTKAEAPKPSLTP 178

Query: 181 EEIKLKAQELRERARKKKEEEEKRMEREREKERIRIGKELLEAKRIEEENERKRILALRK 240
           EE+K K QELRE+ARKKKEEEE+R ERE+EKERIR+GKELLEAKRIEEENERKRILALRK
Sbjct: 179 EELKAKQQELREKARKKKEEEERRTEREKEKERIRVGKELLEAKRIEEENERKRILALRK 238

Query: 241 AEKEEEKRAREKIRQKLEEDKAERRRRLGLPPEDPATTKSSAPVVEEKK 289
           AEKEEEKRAREKIRQKLEEDKAERRR+LGLPPEDP+  K S+PVVEEKK
Sbjct: 239 AEKEEEKRAREKIRQKLEEDKAERRRKLGLPPEDPSVVKPSSPVVEEKK 287

Source: Morella rubra

Species: Morella rubra

Genus: Morella

Family: Myricaceae

Order: Fagales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224060373|ref|XP_002300167.1| predicted protein [Populus trichocarpa] gi|118482259|gb|ABK93057.1| unknown [Populus trichocarpa] gi|222847425|gb|EEE84972.1| predicted protein [Populus trichocarpa]

 Score =  407 bits (1045), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 240/298 (80%), Positives = 264/298 (88%), Gaps = 12/298 (4%)

Query: 1   MAGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPCRSKTETDL 60
           MAGVSLKCGDCGALL+SVQEAQ+HAELTSHSNFSESTEAVLNLVC TCGKPCRSKTE+DL
Sbjct: 1   MAGVSLKCGDCGALLKSVQEAQDHAELTSHSNFSESTEAVLNLVCTTCGKPCRSKTESDL 60

Query: 61  HRKRTGHTDFVDKTSEAAKPISLEVPKATADSEEAIDVDM-------SGSQPEEMVEPEV 113
           H KRTGHT+F DKT+E  KPISLEVPKA A     +D+D+       + SQPEEMV PEV
Sbjct: 61  HTKRTGHTEFADKTAEVTKPISLEVPKAAA-----MDIDVPAAADASTTSQPEEMVAPEV 115

Query: 114 DKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPVSGGGGA 173
           DK++L ELEAMGFP ARATRALHYSGNA++EAAVNWVVEHENDPDIDEMPMV ++    A
Sbjct: 116 DKKILDELEAMGFPTARATRALHYSGNASLEAAVNWVVEHENDPDIDEMPMVSINSKVEA 175

Query: 174 SKSSLTPEEIKLKAQELRERARKKKEEEEKRMEREREKERIRIGKELLEAKRIEEENERK 233
            K SLTPEE+K KAQELRERARKKKEEEEK+ ERE+EKERIRIGKELLEAKRIEE+NERK
Sbjct: 176 PKPSLTPEEMKQKAQELRERARKKKEEEEKKTEREKEKERIRIGKELLEAKRIEEQNERK 235

Query: 234 RILALRKAEKEEEKRAREKIRQKLEEDKAERRRRLGLPPEDPATTKSSAPVVEEKKHV 291
           R++ALRKAEKEEEKRAREKIRQK+EEDKAERRR+LGLPPEDPAT K SAPVVEEKK +
Sbjct: 236 RLMALRKAEKEEEKRAREKIRQKVEEDKAERRRKLGLPPEDPATVKPSAPVVEEKKSM 293

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356525231|ref|XP_003531230.1| PREDICTED: UBX domain-containing protein 1-A-like [Glycine max]

 Score =  397 bits (1019), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 233/294 (79%), Positives = 253/294 (86%), Gaps = 4/294 (1%)

Query: 1   MAGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPCRSKTETDL 60
           MAGVSLKCGDCGALLR+V+EAQEHAELTSHSNFSESTE VLNL+C  C KPCRSKTE+DL
Sbjct: 1   MAGVSLKCGDCGALLRTVEEAQEHAELTSHSNFSESTEPVLNLICTACSKPCRSKTESDL 60

Query: 61  HRKRTGHTDFVDKTSEAAKPISLEVPK--ATADSEEAIDVDMSGSQPEEMVEPEVDKELL 118
           H KRTGHT+FVDKTSEA KPISLE PK  ATA SE       S  Q EEMV PEVDK+LL
Sbjct: 61  HTKRTGHTEFVDKTSEAVKPISLEAPKVDATASSENP-SAAASTDQNEEMVVPEVDKKLL 119

Query: 119 KELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPVSGGGGASKSSL 178
           +ELE+MGF  ARATRALHYSGNA +E+AVNW+VEHENDPDID+MP+VP +    A K SL
Sbjct: 120 EELESMGFSTARATRALHYSGNAGLESAVNWIVEHENDPDIDQMPLVPTNTKIEAPKPSL 179

Query: 179 TPEEIKLKAQELRERARKKKEEEEKRMEREREKERIRIGKELLEAKRIEEENERKRILAL 238
           TPEE+K K QELRERARKKKEEEEKRMEREREKERIRIGKELLEAKRIE +NERKR+LAL
Sbjct: 180 TPEELKAKQQELRERARKKKEEEEKRMEREREKERIRIGKELLEAKRIEADNERKRLLAL 239

Query: 239 RKAEKEEEKRAREKIRQKLEEDKAERRRRLGLPPEDPATTK-SSAPVVEEKKHV 291
           RKAEKEEEK AREKI+QKLEEDKAERRRRLGLPPE+P+  K S APVVEEKK  
Sbjct: 240 RKAEKEEEKSAREKIKQKLEEDKAERRRRLGLPPEEPSAAKPSPAPVVEEKKSF 293

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449442391|ref|XP_004138965.1| PREDICTED: uncharacterized protein LOC101215434 [Cucumis sativus] gi|449505284|ref|XP_004162425.1| PREDICTED: uncharacterized LOC101215434 [Cucumis sativus]

 Score =  375 bits (963), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 230/289 (79%), Positives = 254/289 (87%), Gaps = 2/289 (0%)

Query: 1   MAGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPCRSKTETDL 60
           MAG+SL+CGDCG LL+SV+EAQ+HAELTSHSNFSESTEAVLNLVC  CGKPCRSKTE+DL
Sbjct: 1   MAGLSLQCGDCGVLLKSVEEAQQHAELTSHSNFSESTEAVLNLVCTACGKPCRSKTESDL 60

Query: 61  HRKRTGHTDFVDKTSEAAKPISLEVPKATADSEEAIDVDMSGSQPEEMVEPEVDKELLKE 120
           H KRTGHT+F DKT EAAKPISLE PK  A++E+  D   S S+ EEMV PEV+K +L+E
Sbjct: 61  HTKRTGHTEFADKTLEAAKPISLEAPKVDAEAEDGGDA--SASKSEEMVVPEVNKNILEE 118

Query: 121 LEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPVSGGGGASKSSLTP 180
           LEAMGFP A+ATRAL YSGN+++EAAVNWVVEHENDP+ID+MP+VP      A K SLTP
Sbjct: 119 LEAMGFPTAQATRALFYSGNSSLEAAVNWVVEHENDPEIDQMPLVPKDTKVEAPKPSLTP 178

Query: 181 EEIKLKAQELRERARKKKEEEEKRMEREREKERIRIGKELLEAKRIEEENERKRILALRK 240
           E++K K QELRERARKKKEEEEK  EREREKERIRIGKELLEAKRIEEENERKRILALRK
Sbjct: 179 EQLKAKQQELRERARKKKEEEEKITEREREKERIRIGKELLEAKRIEEENERKRILALRK 238

Query: 241 AEKEEEKRAREKIRQKLEEDKAERRRRLGLPPEDPATTKSSAPVVEEKK 289
           AEKEEEKRAREKIRQKLEEDKAERRRRLGLPPEDP+T K  APVVEEKK
Sbjct: 239 AEKEEEKRAREKIRQKLEEDKAERRRRLGLPPEDPSTAKPPAPVVEEKK 287

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18390444|ref|NP_563718.1| ubiquitin-associated (UBA)/TS-N domain-containing protein [Arabidopsis thaliana] gi|7211981|gb|AAF40452.1|AC004809_10 ESTs gb|N65605, gb|N38087, gb|T20485, gb|T13726, gb|N38339, gb|F15440 and gb|N97201 come from this gene [Arabidopsis thaliana] gi|17065066|gb|AAL32687.1| Unknown protein [Arabidopsis thaliana] gi|21594053|gb|AAM65971.1| unknown [Arabidopsis thaliana] gi|23197878|gb|AAN15466.1| Unknown protein [Arabidopsis thaliana] gi|332189630|gb|AEE27751.1| ubiquitin-associated (UBA)/TS-N domain-containing protein [Arabidopsis thaliana]

 Score =  372 bits (954), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 232/293 (79%), Positives = 253/293 (86%), Gaps = 8/293 (2%)

Query: 1   MAGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPCRSKTETDL 60
           MAGVSLKCGDCG LL+SV+EAQEHAELTSHSNF+ESTEAVLNLVC TC KPCRSK E+DL
Sbjct: 1   MAGVSLKCGDCGTLLKSVEEAQEHAELTSHSNFAESTEAVLNLVCTTCTKPCRSKIESDL 60

Query: 61  HRKRTGHTDFVDKTSEAAKPISLEVPKATADSEEAIDVDMSGS--QPEEMVEPEVDKELL 118
           H KRTGHT+FVDKT E  KPISLE PK   +    ID + SGS    EEMV P+VD  +L
Sbjct: 61  HTKRTGHTEFVDKTLETIKPISLEAPKVAME----IDDNASGSGEAAEEMVVPDVDNNIL 116

Query: 119 KELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPVSGGGGASKSSL 178
           +ELEAMGFP ARATRALHYSGNA++EAAVNWVVEHENDPD+DEMP VP +   G +K +L
Sbjct: 117 EELEAMGFPKARATRALHYSGNASLEAAVNWVVEHENDPDVDEMPKVPSNSNVGPAKPAL 176

Query: 179 TPEEIKLKAQELRERARKKKEEEEKRMEREREKERIRIGKELLEAKRIEEENERKRILAL 238
           TPEE+KLKAQELRERARKKKEEEEKRMEREREKERIRIGKELLEAKR+EE NERKR++ L
Sbjct: 177 TPEEVKLKAQELRERARKKKEEEEKRMEREREKERIRIGKELLEAKRMEEVNERKRLMFL 236

Query: 239 RKAEKEEEKRAREKIRQKLEEDKAERRRRLGLPPEDPAT--TKSSAPVVEEKK 289
           RKAEKEEEKRAREKIRQKLEEDKAERRR+LGLPPEDPAT   K S PVVEEKK
Sbjct: 237 RKAEKEEEKRAREKIRQKLEEDKAERRRKLGLPPEDPATAAAKPSVPVVEEKK 289

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356512473|ref|XP_003524943.1| PREDICTED: UBX domain-containing protein 1-A-like [Glycine max]

 Score =  370 bits (951), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 231/292 (79%), Positives = 254/292 (86%), Gaps = 4/292 (1%)

Query: 1   MAGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPCRSKTETDL 60
           MAGVSLKCGDCGALLR+V+EAQEHAELTSHSNFSESTE VLNL+C+ C KPCRSKTE+DL
Sbjct: 1   MAGVSLKCGDCGALLRTVEEAQEHAELTSHSNFSESTEPVLNLICSVCSKPCRSKTESDL 60

Query: 61  HRKRTGHTDFVDKTSEAAKPISLEVPK--ATADSEEAIDVDMSGSQPEEMVEPEVDKELL 118
           H KRTGHT+FVDKTSEA KPISLE PK  ATA SE       S  + EEMV PEVDK+LL
Sbjct: 61  HTKRTGHTEFVDKTSEAVKPISLEAPKVDATASSENP-SAAASTDKNEEMVVPEVDKKLL 119

Query: 119 KELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPVSGGGGASKSSL 178
           KELE+MGF  ARATRALHYSGNA +E+AVNW+VEHENDPDID+MP+VP +    A K  L
Sbjct: 120 KELESMGFSTARATRALHYSGNAGLESAVNWIVEHENDPDIDQMPLVPANTKIEAPKPLL 179

Query: 179 TPEEIKLKAQELRERARKKKEEEEKRMEREREKERIRIGKELLEAKRIEEENERKRILAL 238
           TPEE+K K QELRERARKKKEEEEKRMEREREKERIRIGKELLEAKRIEEENERKR+LAL
Sbjct: 180 TPEEMKAKQQELRERARKKKEEEEKRMEREREKERIRIGKELLEAKRIEEENERKRLLAL 239

Query: 239 RKAEKEEEKRAREKIRQKLEEDKAERRRRLGLPPEDPATTK-SSAPVVEEKK 289
           +K EKEEEKRAREKI++KLEEDKAERRRRLGLPPE+P+  K S AP+VEEKK
Sbjct: 240 KKVEKEEEKRAREKIKKKLEEDKAERRRRLGLPPEEPSAAKPSPAPIVEEKK 291

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297848730|ref|XP_002892246.1| ubiquitin-associated /TS-N domain-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297338088|gb|EFH68505.1| ubiquitin-associated /TS-N domain-containing protein [Arabidopsis lyrata subsp. lyrata]

 Score =  368 bits (945), Expect = 1e-99,   Method: Compositional matrix adjust.
 Identities = 230/293 (78%), Positives = 252/293 (86%), Gaps = 8/293 (2%)

Query: 1   MAGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPCRSKTETDL 60
           MAGVSLKCGDCG LL+SV+EAQEHAELTSHSNF+ESTEAVLNLVC TC KPCRSKTE+DL
Sbjct: 1   MAGVSLKCGDCGTLLKSVEEAQEHAELTSHSNFAESTEAVLNLVCTTCSKPCRSKTESDL 60

Query: 61  HRKRTGHTDFVDKTSEAAKPISLEVPKATADSEEAIDVDMSGS--QPEEMVEPEVDKELL 118
           H KRTGHT+FVDKT E  KPI+LE PK   +    ID + SGS    EEMV P+VD  +L
Sbjct: 61  HTKRTGHTEFVDKTLETVKPITLEAPKVAME----IDDNASGSGEAAEEMVVPDVDNNIL 116

Query: 119 KELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPVSGGGGASKSSL 178
           +ELEAMGFP ARATRALHYSGNA++EAAVNWVVEHENDPD+DEMP VP +   G +K +L
Sbjct: 117 EELEAMGFPKARATRALHYSGNASLEAAVNWVVEHENDPDVDEMPKVPANSNVGPAKPAL 176

Query: 179 TPEEIKLKAQELRERARKKKEEEEKRMEREREKERIRIGKELLEAKRIEEENERKRILAL 238
           TPEE+KLKAQELRERARKKKEEEEKRMEREREKERIRIGKELLEAKR+EE NERKR++ L
Sbjct: 177 TPEEVKLKAQELRERARKKKEEEEKRMEREREKERIRIGKELLEAKRMEEVNERKRLMFL 236

Query: 239 RKAEKEEEKRAREKIRQKLEEDKAERRRRLGLPPEDPAT--TKSSAPVVEEKK 289
           RKAEKEEEKRAREKIRQKLEEDKAERRR+LGLP EDPAT   K S PV EEKK
Sbjct: 237 RKAEKEEEKRAREKIRQKLEEDKAERRRKLGLPLEDPATAAAKPSVPVAEEKK 289

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388495734|gb|AFK35933.1| unknown [Lotus japonicus]

 Score =  361 bits (926), Expect = 2e-97,   Method: Compositional matrix adjust.
 Identities = 224/289 (77%), Positives = 249/289 (86%), Gaps = 3/289 (1%)

Query: 1   MAGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPCRSKTETDL 60
           MAGVSL CGDCG LLRSV+EAQEHAELTSHSNFSESTE VLNLVC+ C KPCRSKTE+DL
Sbjct: 1   MAGVSLMCGDCGVLLRSVEEAQEHAELTSHSNFSESTEPVLNLVCSACSKPCRSKTESDL 60

Query: 61  HRKRTGHTDFVDKTSEAAKPISLEVPKATADSEEAIDVDMSGSQPEEMVEPEVDKELLKE 120
           H KRTGHT+F DKTSE  KPISLE PK  A +E+ I    +  Q EEM+ PEVDK+LL+E
Sbjct: 61  HTKRTGHTEFTDKTSETVKPISLEAPKVDAMAEDPIGA--TTGQTEEMIVPEVDKKLLEE 118

Query: 121 LEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPVSGGGGASKSSLTP 180
           LE+MGF  ARATRALHYSGNA +E+AVNW+VEHEND DID+MP+VP +    ASK SLTP
Sbjct: 119 LESMGFSTARATRALHYSGNAGLESAVNWIVEHENDSDIDQMPLVPANTKVVASKPSLTP 178

Query: 181 EEIKLKAQELRERARKKKEEEEKRMEREREKERIRIGKELLEAKRIEEENERKRILALRK 240
           EE+K K QELRERARKKKEEEEKRMEREREKERIRIGKELLE KRIEE+NERKR+LALRK
Sbjct: 179 EELKAKQQELRERARKKKEEEEKRMEREREKERIRIGKELLEVKRIEEDNERKRLLALRK 238

Query: 241 AEKEEEKRAREKIRQKLEEDKAERRRRLGLPPEDPATTKSSAPVVEEKK 289
           AEKEEE+RAREKI+QKLEEDKAERRR+LGLPPE+P+  K S  VVEEKK
Sbjct: 239 AEKEEERRAREKIKQKLEEDKAERRRKLGLPPEEPSAAKPST-VVEEKK 286

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	293
TAIR|locus:2010637	413	AT1G04850 [Arabidopsis thalian	0.634	0.450	0.654	4.1e-75
TAIR|locus:2156489	323	AT5G48690 "AT5G48690" [Arabido	0.184	0.167	0.407	6.2e-06
UNIPROTKB|G4MXB0	787	MGG_08270 "Ubiquitin carboxyl-	0.508	0.189	0.282	1.8e-05
UNIPROTKB|G4N023	316	MGG_06184 "Uncharacterized pro	0.385	0.357	0.302	0.00012

TAIR|locus:2010637 AT1G04850 [Arabidopsis thaliana (taxid:3702)]

 Score = 628 (226.1 bits), Expect = 4.1e-75, Sum P(2) = 4.1e-75
 Identities = 123/188 (65%), Positives = 140/188 (74%)

Query:     1 MAGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPCRSKTETDL 60
             MAGVSLKCGDCG LL+SV+EAQEHAELTSHSNF+ESTEAVLNLVC TC KPCRSK E+DL
Sbjct:     1 MAGVSLKCGDCGTLLKSVEEAQEHAELTSHSNFAESTEAVLNLVCTTCTKPCRSKIESDL 60

Query:    61 HRKRTGHTDFVDKTSEAAKPISLEVPKATADSEEAIDVDMSGSQPEEMVEPEVDKELLKE 120
             H KRTGHT+FVDKT E  KPISLE PK   + ++  +   SG   EEMV P+VD  +L+E
Sbjct:    61 HTKRTGHTEFVDKTLETIKPISLEAPKVAMEIDD--NASGSGEAAEEMVVPDVDNNILEE 118

Query:   121 LEAMGFPVARATRALHYSGXXXXXXXXXXXXXXXXDPDIDEMPMVPVSGGGGASKSSLTP 180
             LEAMGFP ARATRALHYSG                DPD+DEMP VP +   G +K +LTP
Sbjct:   119 LEAMGFPKARATRALHYSGNASLEAAVNWVVEHENDPDVDEMPKVPSNSNVGPAKPALTP 178

Query:   181 EEIKLKAQ 188
             EE+KLKAQ
Sbjct:   179 EEVKLKAQ 186

GO:0005737 "cytoplasm" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005829 "cytosol" evidence=IDA

GO:0006486 "protein glycosylation" evidence=RCA

GO:0006623 "protein targeting to vacuole" evidence=RCA

TAIR|locus:2156489 AT5G48690 "AT5G48690" [Arabidopsis thaliana (taxid:3702)]

 Score = 95 (38.5 bits), Expect = 6.2e-06, Sum P(2) = 6.2e-06
 Identities = 22/54 (40%), Positives = 28/54 (51%)

Query:   112 EVDKELLKELEAMGFPVARATRALHYSGXXXXXXXXXXXXXXXXDPDIDEMPMV 165
             EV+  LLKELE MGF +ARA  ALH+SG                +   + MP+V
Sbjct:    11 EVNHGLLKELEDMGFSMARAAWALHHSGNSSLEAAVNWIIDHENESQFENMPLV 64

GO:0003674 "molecular_function" evidence=ND

GO:0005737 "cytoplasm" evidence=ISM

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|G4MXB0 MGG_08270 "Ubiquitin carboxyl-terminal hydrolase" [Magnaporthe oryzae 70-15 (taxid:242507)]

 Score = 127 (49.8 bits), Expect = 1.8e-05, P = 1.8e-05
 Identities = 46/163 (28%), Positives = 68/163 (41%)

Query:    36 STEAVLNLVCATCG-KPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEVPKATADSEE 94
             + E ++ L C++CG K   +K        +    +    T     PI ++VP    D   
Sbjct:   499 TAEEIVELTCSSCGSKAGYTKRSCFKTLPQVLVVNARKMTIVNWVPIKVDVPVLVNDDPY 558

Query:    95 AIDVDMS-GSQPEEMVEPE-----------VDKELLKELEAMGFPVARATRALHYSGXXX 142
              +D  +S G QP E + PE            + E + +LEAMGFP  R  +ALH +G   
Sbjct:   559 LLDNYLSQGQQPGEELLPEDASSSSAPAFTPNPEAVAQLEAMGFPRNRCEKALHATGNSD 618

Query:   143 XXXXXXXXXXXXXDPDIDEMPMVPVSGGGGASKSSLTPEEIKL 185
                          DPDIDE P+     G GA   +  P  I++
Sbjct:   619 ANTAMEWLFGHMEDPDIDE-PLKLEGSGDGAGGFTADPSSIEM 660

GO:0005575 "cellular_component" evidence=ND

UNIPROTKB|G4N023 MGG_06184 "Uncharacterized protein" [Magnaporthe oryzae 70-15 (taxid:242507)]

 Score = 105 (42.0 bits), Expect = 0.00012, Sum P(2) = 0.00012
 Identities = 36/119 (30%), Positives = 57/119 (47%)

Query:     5 SLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPCRSKTETDLHRKR 64
             SL C +CG   R+   A  HA  + H++FSESTEA+ +L      K   ++    L  K+
Sbjct:    72 SLVCNECGKKFRNSDSATFHATKSGHTDFSESTEAIAHLT-EEQKKERLAELREQLKAKK 130

Query:    65 TGHTDFVDKTSEAAKPISLEVPKATADSEEAIDVDMSGSQPEEMVEPEVDKELLKELEA 123
                ++  DK  E AK       KAT ++++  +      Q +E  +   +K  L +LEA
Sbjct:   131 AAQSE-ADK--EDAKRNEKIRQKATRETQDLKEEIARKEQIKEAAKKRQEK--LDDLEA 184

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	293
COG5207	749	COG5207, UBP14, Isopeptidase T [Posttranslational	7e-08
cd00194	38	cd00194, UBA, Ubiquitin Associated domain	5e-07
pfam00627	37	pfam00627, UBA, UBA/TS-N domain	1e-05
smart00165	37	smart00165, UBA, Ubiquitin associated domain	1e-04
pfam07946	322	pfam07946, DUF1682, Protein of unknown function (D	2e-04
pfam07227	446	pfam07227, DUF1423, Protein of unknown function (D	4e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	4e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	5e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	6e-04
PTZ00266	1021	PTZ00266, PTZ00266, NIMA-related protein kinase; P	7e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	0.001
PRK12704	520	PRK12704, PRK12704, phosphodiesterase; Provisional	0.001
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	0.002
PRK12705	508	PRK12705, PRK12705, hypothetical protein; Provisio	0.003
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	0.004
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	0.004

>gnl|CDD|227532 COG5207, UBP14, Isopeptidase T [Posttranslational modification, protein turnover, chaperones]

 Score = 53.1 bits (127), Expect = 7e-08
 Identities = 29/85 (34%), Positives = 50/85 (58%), Gaps = 9/85 (10%)

Query: 91  DSEEAIDVD--MSGSQPE-EMVEPEVD------KELLKELEAMGFPVARATRALHYSGNA 141
            S++ I +   MS   P+ E + P+ D      + L+++L  MGFP   A RAL  +GN 
Sbjct: 526 RSDDMIKLGSFMSKFDPQTENLLPDEDEAFTDNQSLIRQLVDMGFPEEDAARALGITGNQ 585

Query: 142 NVEAAVNWVVEHENDPDIDEMPMVP 166
           + E+A+NW+ +H +DPD+++  + P
Sbjct: 586 DAESAMNWLFQHMDDPDLNDPFVPP 610

Length = 749

>gnl|CDD|238116 cd00194, UBA, Ubiquitin Associated domain

 Score = 45.1 bits (108), Expect = 5e-07
 Identities = 18/39 (46%), Positives = 25/39 (64%), Gaps = 1/39 (2%)

Query: 114 DKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVE 152
           D+E L++L  MGF    A +AL  + N NVE AV W++E
Sbjct: 1   DEEKLEQLLEMGFSREEARKALRATNN-NVERAVEWLLE 38

The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been suggested that UBA domains are involved in conferring protein target specificity. The domain, a compact three helix bundle, has a conserved GFP-loop and the proline is thought to be critical for binding. The UBA domain is distinct from the conserved three helical domain seen in the N-terminus of EF-TS and eukaryotic NAC proteins. Length = 38

>gnl|CDD|201355 pfam00627, UBA, UBA/TS-N domain

 Score = 40.9 bits (97), Expect = 1e-05
 Identities = 16/37 (43%), Positives = 23/37 (62%), Gaps = 1/37 (2%)

Query: 113 VDKELLKELEAMGFPVARATRALHYSGNANVEAAVNW 149
           +D+EL+K+L  MGF    A +AL  +   NVE AV +
Sbjct: 1   IDEELIKQLREMGFSREEAKKALRATNG-NVERAVEY 36

This small domain is composed of three alpha helices. This family includes the previously defined UBA and TS-N domains. The UBA-domain (ubiquitin associated domain) is a novel sequence motif found in several proteins having connections to ubiquitin and the ubiquitination pathway. The structure of the UBA domain consists of a compact three helix bundle. This domain is found at the N terminus of EF-TS hence the name TS-N. The structure of EF-TS is known and this domain is implicated in its interaction with EF-TU. The domain has been found in non EF-TS proteins such as alpha-NAC and MJ0280. Length = 37

>gnl|CDD|197551 smart00165, UBA, Ubiquitin associated domain

 Score = 38.6 bits (91), Expect = 1e-04
 Identities = 13/36 (36%), Positives = 19/36 (52%), Gaps = 1/36 (2%)

Query: 114 DKELLKELEAMGFPVARATRALHYSGNANVEAAVNW 149
           D+E + +L  MGF    A +AL  +   NVE A  +
Sbjct: 1   DEEKIDQLLEMGFSREEALKALRAANG-NVERAAEY 35

Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin. Length = 37

>gnl|CDD|219655 pfam07946, DUF1682, Protein of unknown function (DUF1682)

 Score = 41.9 bits (99), Expect = 2e-04
 Identities = 22/86 (25%), Positives = 38/86 (44%), Gaps = 13/86 (15%)

Query: 184 KLKAQELRERARKKKEEEEKRMEREREKERIRIGKELLEAKRIEEENERKRILALRKAEK 243
           KL   +L     +K ++  +  E +  K          E +R EE  E+K     +K E+
Sbjct: 247 KLANLKLSPEVLRKVDKTREEEEEKILKA--------AEEERQEEAQEKKE--EKKKEER 296

Query: 244 EEEKRA--REKIRQKLEEDKAERRRR 267
           E +      E+ R KLEE + +++ R
Sbjct: 297 EAKLAKLSPEEQR-KLEEKERKKQAR 321

The members of this family are all hypothetical eukaryotic proteins of unknown function. One member is described as being an adipocyte-specific protein, but no evidence of this was found. Length = 322

>gnl|CDD|219342 pfam07227, DUF1423, Protein of unknown function (DUF1423)

 Score = 41.3 bits (97), Expect = 4e-04
 Identities = 29/108 (26%), Positives = 53/108 (49%), Gaps = 4/108 (3%)

Query: 162 MPMVPVSGGGGASKSSLTPEEIKLKAQELRERARKKKEEEE-KRMEREREKERIRIGKEL 220
           M M+  +     +      E+ +  ++   ER RKK + +E + + R ++ E      + 
Sbjct: 314 MRMLKKARSALDACDRELEEKAREVSELKMERQRKKPQIDELESIVRLKQAEADMFQLKA 373

Query: 221 LEAKRIEEENERKRILALRKAEKEEEKRAREKIRQKLEEDKAERRRRL 268
            EA+R   E ER + +AL K EK EE+ A + ++ +L E + ER+   
Sbjct: 374 DEARR---EAERLQRIALAKTEKSEEEYASKYLKLRLSEAEEERQYLF 418

This family represents a conserved region approximately 500 residues long within a number of Arabidopsis thaliana proteins of unknown function. Length = 446

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 41.7 bits (97), Expect = 4e-04
 Identities = 24/78 (30%), Positives = 45/78 (57%), Gaps = 2/78 (2%)

Query: 184  KLKAQELRERARKKKEEEEKRMEREREKERIRIGKELLEAKRIEEENERKRILALRKAEK 243
            K +A+E ++    KK EEE +++   E ++    K+  E  +  EE+E+K   AL+K  +
Sbjct: 1640 KKEAEEKKKAEELKKAEEENKIKAAEEAKKAEEDKKKAEEAKKAEEDEKKAAEALKK--E 1697

Query: 244  EEEKRAREKIRQKLEEDK 261
             EE +  E++++K  E+K
Sbjct: 1698 AEEAKKAEELKKKEAEEK 1715

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 41.3 bits (96), Expect = 5e-04
 Identities = 32/91 (35%), Positives = 51/91 (56%), Gaps = 5/91 (5%)

Query: 181  EEIKLKAQELRERAR-KKKEEEEKRMEREREKERIRIGKELLEAKRIEEENERKRILALR 239
            EE K KA E ++ A  KKK +E K+ E  ++ +  +  +E  +A   ++  E+K+   L+
Sbjct: 1493 EEAKKKADEAKKAAEAKKKADEAKKAEEAKKADEAKKAEEAKKADEAKKAEEKKKADELK 1552

Query: 240  KAE---KEEEKRAREKIRQKLEEDKAERRRR 267
            KAE   K EEK+  E+ + K EEDK    R+
Sbjct: 1553 KAEELKKAEEKKKAEEAK-KAEEDKNMALRK 1582

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 41.3 bits (96), Expect = 6e-04
 Identities = 26/95 (27%), Positives = 51/95 (53%), Gaps = 5/95 (5%)

Query: 181  EEIKLKAQELRERAR--KKKEEEEKRMEREREKERIRIGKELLEAKRIEEENERKRILAL 238
            +E K KA+E +++A   KK  E +K+ +  ++ E  +   E  +A+  ++ +E K+    
Sbjct: 1486 DEAKKKAEEAKKKADEAKKAAEAKKKADEAKKAEEAKKADEAKKAEEAKKADEAKKAEEK 1545

Query: 239  RKAE---KEEEKRAREKIRQKLEEDKAERRRRLGL 270
            +KA+   K EE +  E+ ++  E  KAE  + + L
Sbjct: 1546 KKADELKKAEELKKAEEKKKAEEAKKAEEDKNMAL 1580

Length = 2084

>gnl|CDD|173502 PTZ00266, PTZ00266, NIMA-related protein kinase; Provisional

 Score = 40.9 bits (95), Expect = 7e-04
 Identities = 28/104 (26%), Positives = 51/104 (49%), Gaps = 3/104 (2%)

Query: 167 VSGGGGASKSSLTPEEIKLKAQELRERARKKKEEEEKRMEREREKERIRIGK---ELLEA 223
           V+G  G        E  +++ +    +A + K  E+KR+ER   +ER R+ +   E +E 
Sbjct: 422 VNGHYGGRVDKDHAERARIEKENAHRKALEMKILEKKRIERLEREERERLERERMERIER 481

Query: 224 KRIEEENERKRILALRKAEKEEEKRAREKIRQKLEEDKAERRRR 267
           +R+E E   +  L   + E++   R   +   +LE D+ E+ RR
Sbjct: 482 ERLERERLERERLERDRLERDRLDRLERERVDRLERDRLEKARR 525

Length = 1021

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 40.1 bits (93), Expect = 0.001
 Identities = 25/88 (28%), Positives = 44/88 (50%), Gaps = 2/88 (2%)

Query: 181  EEIKLKAQELRERARKKKEEEEKRMEREREKERIRIGKELLEAKRIEEENERKRILALRK 240
             E K KA E ++    KK +E K+ E  ++ +  +  +E  +A  +++  E K+    +K
Sbjct: 1506 AEAKKKADEAKKAEEAKKADEAKKAEEAKKADEAKKAEEKKKADELKKAEELKKAEEKKK 1565

Query: 241  AE--KEEEKRAREKIRQKLEEDKAERRR 266
            AE  K+ E+     +R+  E  KAE  R
Sbjct: 1566 AEEAKKAEEDKNMALRKAEEAKKAEEAR 1593

Length = 2084

>gnl|CDD|237177 PRK12704, PRK12704, phosphodiesterase; Provisional

 Score = 40.1 bits (95), Expect = 0.001
 Identities = 25/90 (27%), Positives = 54/90 (60%), Gaps = 3/90 (3%)

Query: 181 EEIKLKAQELRERARKKKEEE--EKRMEREREKERIRIGKELLEAKRIEEENERKRILAL 238
           +E  L+A+E   + R + E+E  E+R E ++ ++R+   +E L+ +++E   +R+  L  
Sbjct: 56  KEALLEAKEEIHKLRNEFEKELRERRNELQKLEKRLLQKEENLD-RKLELLEKREEELEK 114

Query: 239 RKAEKEEEKRAREKIRQKLEEDKAERRRRL 268
           ++ E E++++  EK  ++LEE   E+ + L
Sbjct: 115 KEKELEQKQQELEKKEEELEELIEEQLQEL 144

Length = 520

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 39.7 bits (92), Expect = 0.002
 Identities = 31/96 (32%), Positives = 53/96 (55%), Gaps = 11/96 (11%)

Query: 181  EEIKLKAQELR---------ERARKKKEEEEKRMEREREKERIRIGKELLEAKRIEEENE 231
            EE K+KA+EL+         E+ +KK+ EE+K+ E  ++ E     K   EAK+   E +
Sbjct: 1616 EEAKIKAEELKKAEEEKKKVEQLKKKEAEEKKKAEELKKAEEENKIKAAEEAKK--AEED 1673

Query: 232  RKRILALRKAEKEEEKRAREKIRQKLEEDKAERRRR 267
            +K+    +KAE++E+K A    ++  E  KAE  ++
Sbjct: 1674 KKKAEEAKKAEEDEKKAAEALKKEAEEAKKAEELKK 1709

Length = 2084

>gnl|CDD|237178 PRK12705, PRK12705, hypothetical protein; Provisional

 Score = 38.5 bits (90), Expect = 0.003
 Identities = 25/87 (28%), Positives = 39/87 (44%), Gaps = 7/87 (8%)

Query: 181 EEIKLKAQELRERARKKKEEEEKRMEREREKERIRIGKELLEAKRIEEENERKRILALRK 240
           E++     +L ER +     E +  E E++ +      EL     +  E  RK +L L  
Sbjct: 98  EKLDNLENQLEEREKALSARELELEELEKQLDN-----ELYRVAGLTPEQARKLLLKLLD 152

Query: 241 AEKEEEKRAREKIRQKLEEDKAERRRR 267
           AE EEEK  R  +++  EE   E  R+
Sbjct: 153 AELEEEKAQR--VKKIEEEADLEAERK 177

Length = 508

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 38.6 bits (89), Expect = 0.004
 Identities = 26/99 (26%), Positives = 52/99 (52%), Gaps = 12/99 (12%)

Query: 181  EEIKLKAQELR---------ERARKKKEEEEKRMEREREKERIRIGKELLEAKRIEEENE 231
            +E K KA+E +         E A+KK +E +K  E +++ +  +  +E  +A   ++  E
Sbjct: 1473 DEAKKKAEEAKKADEAKKKAEEAKKKADEAKKAAEAKKKADEAKKAEEAKKADEAKKAEE 1532

Query: 232  RKRILALRKAE---KEEEKRAREKIRQKLEEDKAERRRR 267
             K+    +KAE   K +E +  E++++  E+ KAE  ++
Sbjct: 1533 AKKADEAKKAEEKKKADELKKAEELKKAEEKKKAEEAKK 1571

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 38.6 bits (89), Expect = 0.004
 Identities = 35/88 (39%), Positives = 53/88 (60%), Gaps = 8/88 (9%)

Query: 181  EEIKLKAQELRERAR--KKKEEEEKRMEREREKERIRIGKELLEAKRIEE-----ENERK 233
            EE K+KA E  ++A   KKK EE K+ E + +K    + KE  EAK+ EE       E+K
Sbjct: 1657 EENKIKAAEEAKKAEEDKKKAEEAKKAEEDEKKAAEALKKEAEEAKKAEELKKKEAEEKK 1716

Query: 234  RILALRKAEKEEEKRAREKIRQKLEEDK 261
            +   L+KAE+E + +A E+ +++ EEDK
Sbjct: 1717 KAEELKKAEEENKIKA-EEAKKEAEEDK 1743

Length = 2084

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	293
KOG0944	763	consensus Ubiquitin-specific protease UBP14 [Postt	99.97
COG5207	749	UBP14 Isopeptidase T [Posttranslational modificati	99.95
KOG2689	290	consensus Predicted ubiquitin regulatory protein [	99.94
KOG2507	506	consensus Ubiquitin regulatory protein UBXD2, cont	99.26
PF00627	37	UBA: UBA/TS-N domain; InterPro: IPR000449 UBA doma	99.01
smart00165	37	UBA Ubiquitin associated domain. Present in Rad23,	98.84
cd00194	38	UBA Ubiquitin Associated domain. The UBA domain is	98.84
KOG0944	763	consensus Ubiquitin-specific protease UBP14 [Postt	98.57
KOG2699	407	consensus Predicted ubiquitin regulatory protein [	98.52
cd02664	327	Peptidase_C19H A subfamily of Peptidase C19. Pepti	98.39
cd02660	328	Peptidase_C19D A subfamily of Peptidase C19. Pepti	98.25
cd02667	279	Peptidase_C19K A subfamily of Peptidase C19. Pepti	98.23
cd02668	324	Peptidase_C19L A subfamily of Peptidase C19. Pepti	98.22
cd02663	300	Peptidase_C19G A subfamily of Peptidase C19. Pepti	98.12
cd02658	311	Peptidase_C19B A subfamily of Peptidase C19. Pepti	98.08
cd02671	332	Peptidase_C19O A subfamily of Peptidase C19. Pepti	98.02
cd02657	305	Peptidase_C19A A subfamily of Peptidase C19. Pepti	98.02
cd02661	304	Peptidase_C19E A subfamily of Peptidase C19. Pepti	97.98
cd02659	334	peptidase_C19C A subfamily of Peptidase C19. Pepti	97.95
cd02674	230	Peptidase_C19R A subfamily of peptidase C19. Pepti	97.87
cd02673	245	Peptidase_C19Q A subfamily of Peptidase C19. Pepti	97.8
KOG1865	545	consensus Ubiquitin carboxyl-terminal hydrolase [P	97.6
COG5533	415	UBP5 Ubiquitin C-terminal hydrolase [Posttranslati	97.54
cd02662	240	Peptidase_C19F A subfamily of Peptidase C19. Pepti	97.18
TIGR00601	378	rad23 UV excision repair protein Rad23. All protei	97.12
KOG4598	1203	consensus Putative ubiquitin-specific protease [Po	97.1
COG5207	749	UBP14 Isopeptidase T [Posttranslational modificati	96.7
KOG1866	944	consensus Ubiquitin carboxyl-terminal hydrolase [P	96.38
KOG2561	568	consensus Adaptor protein NUB1, contains UBA domai	96.25
cd02672	268	Peptidase_C19P A subfamily of Peptidase C19. Pepti	96.2
cd02257	255	Peptidase_C19 Peptidase C19 contains ubiquitinyl h	95.99
TIGR00601	378	rad23 UV excision repair protein Rad23. All protei	95.83
cd02669	440	Peptidase_C19M A subfamily of Peptidase C19. Pepti	95.64
COG5560	823	UBP12 Ubiquitin C-terminal hydrolase [Posttranslat	95.43
KOG1868	653	consensus Ubiquitin C-terminal hydrolase [Posttran	95.35
KOG0011	340	consensus Nucleotide excision repair factor NEF2,	95.16
KOG0011	340	consensus Nucleotide excision repair factor NEF2,	94.64
KOG2561	568	consensus Adaptor protein NUB1, contains UBA domai	94.1
PF09288	55	UBA_3: Fungal ubiquitin-associated domain ; InterP	93.81
COG1773	55	Rubredoxin [Energy production and conversion]	93.68
PF00443	269	UCH: Ubiquitin carboxyl-terminal hydrolase; InterP	93.56
PF14555	43	UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A	92.66
smart00546	43	CUE Domain that may be involved in binding ubiquit	92.62
cd00350	33	rubredoxin_like Rubredoxin_like; nonheme iron bind	92.31
KOG1863	1093	consensus Ubiquitin carboxyl-terminal hydrolase [P	92.15
PTZ00266	1021	NIMA-related protein kinase; Provisional	91.95
cd02670	241	Peptidase_C19N A subfamily of Peptidase C19. Pepti	91.49
PF08882	112	Acetone_carb_G: Acetone carboxylase gamma subunit;	90.76
cd00730	50	rubredoxin Rubredoxin; nonheme iron binding domain	90.65
PF02845	42	CUE: CUE domain; InterPro: IPR003892 This domain m	90.31
KOG1864	587	consensus Ubiquitin-specific protease [Posttransla	90.2
cd02665	228	Peptidase_C19I A subfamily of Peptidase C19. Pepti	89.96
PHA02768	55	hypothetical protein; Provisional	89.57
KOG0163	1259	consensus Myosin class VI heavy chain [Cytoskeleto	89.53
PF00301	47	Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubred	89.34
PF13423	295	UCH_1: Ubiquitin carboxyl-terminal hydrolase	89.01
KOG1029	1118	consensus Endocytic adaptor protein intersectin [S	88.84
KOG1870	842	consensus Ubiquitin C-terminal hydrolase [Posttran	88.14
KOG0418	200	consensus Ubiquitin-protein ligase [Posttranslatio	87.78
PRK03824	135	hypA hydrogenase nickel incorporation protein; Pro	87.68
PF07499	47	RuvA_C: RuvA, C-terminal domain; InterPro: IPR0111	87.19
PF12756	100	zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB:	85.76
COG5077	1089	Ubiquitin carboxyl-terminal hydrolase [Posttransla	84.78
KOG1029	1118	consensus Endocytic adaptor protein intersectin [S	84.62
cd00729	34	rubredoxin_SM Rubredoxin, Small Modular nonheme ir	84.23
smart00531	147	TFIIE Transcription initiation factor IIE.	84.15
KOG1144	1064	consensus Translation initiation factor 5B (eIF-5B	84.1
KOG0163	1259	consensus Myosin class VI heavy chain [Cytoskeleto	83.83
PHA00732	79	hypothetical protein	83.71
PF14353	128	CpXC: CpXC protein	82.61
PRK12332	198	tsf elongation factor Ts; Reviewed	82.43
KOG4364	811	consensus Chromatin assembly factor-I [Chromatin s	81.3
PF02148	63	zf-UBP: Zn-finger in ubiquitin-hydrolases and othe	81.26
PRK12380	113	hydrogenase nickel incorporation protein HybF; Pro	81.23
PRK09377	290	tsf elongation factor Ts; Provisional	80.53
TIGR00116	290	tsf translation elongation factor Ts. This protein	80.47

>KOG0944 consensus Ubiquitin-specific protease UBP14 [Posttranslational modification, protein turnover, chaperones]

Probab=99.97  E-value=2.3e-32  Score=275.20  Aligned_cols=156  Identities=29%  Similarity=0.449  Sum_probs=133.5

Q ss_pred             ceeecccCCccccCHHH---------------HHHHHHHhccCCCCcchhhhhccccCCCCCCCCCcccccccccccccc
Q 022703            4 VSLKCGDCGALLRSVQE---------------AQEHAELTSHSNFSESTEAVLNLVCATCGKPCRSKTETDLHRKRTGHT   68 (293)
Q Consensus         4 ~~LkC~~Cg~v~~~~~~---------------aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~~~~~~e~~~a~K~t~f~   68 (293)
                      -+++|..|++|......               ++--...+.-++|...   +.+|.|+.||.+       +.|+|+|+|+
T Consensus       439 ~Rv~C~~c~kVrYs~~~~~~i~lpv~~~~~v~~~v~~~~cleaff~pq---~~df~s~ac~~K-------~~a~kt~~~k  508 (763)
T KOG0944|consen  439 DRVSCLGCRKVRYSYESEYLIQLPVPMTNEVREKVPISACLEAFFEPQ---VDDFWSTACGEK-------KGATKTTRFK  508 (763)
T ss_pred             hhhhhhccccccccchhheeeEeeccccccccccCCHHHHHHHhcCCc---chhhhhHhhcCc-------cccccccccc
Confidence            47899999999833222               1112333466788885   789999999998       8999999999


Q ss_pred             ccccchhhccccccccc--Cccc---cCCccccccCC--CCC--CCCcc--------cccccCHHHHHHHHhCCCCHHHH
Q 022703           69 DFVDKTSEAAKPISLEV--PKAT---ADSEEAIDVDM--SGS--QPEEM--------VEPEVDKELLKELEAMGFPVARA  131 (293)
Q Consensus        69 tFP~~Lvv~~~Rf~l~~--p~K~---~~~~~~lDl~~--g~~--~~Ee~--------~~~~~~~~~l~~L~~MGF~~~~a  131 (293)
                      |||+|||||+.||.|.+  |+|+   |.+|+.|||+.  |.|  |+|+.        ..+.+|+.++.+|++||||.++|
T Consensus       509 sfP~yLiiqv~rf~~~dw~pkKld~~iempe~ldls~~rs~g~~p~ee~lpde~~~~~~~~~d~s~i~qL~~MGFp~eac  588 (763)
T KOG0944|consen  509 SFPDYLIIQVGRFTLQDWVPKKLDVSIEMPEELDLSSYRSKGLQPGEEALPDEAPETSEFAADRSVISQLVEMGFPEEAC  588 (763)
T ss_pred             cCCceEEEEeeEEEecCceeeeeccceecchhhchhhhhhcCCCCcccccCCcCcccCccchhHHHHHHHHHcCCCHHHH
Confidence            99999999999999987  9999   77899999998  444  77762        34558999999999999999999


Q ss_pred             HHHHHHhCCCCHHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 022703          132 TRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPVSG  169 (293)
Q Consensus       132 ~kAL~~tgn~~~E~A~~WL~~h~dD~didep~~~~~~~  169 (293)
                      .|||++|||+++|+|||||++||+|||||+|+.+|+++
T Consensus       589 ~rAly~tgN~~aEaA~NWl~~HMdDpd~~~p~vvp~~~  626 (763)
T KOG0944|consen  589 RRALYYTGNSGAEAASNWLMEHMDDPDIDDPFVVPGNS  626 (763)
T ss_pred             HHHHhhhcCccHHHHHHHHHHhccCcccCCceecCCCC
Confidence            99999999999999999999999999999999998764

>COG5207 UBP14 Isopeptidase T [Posttranslational modification, protein turnover, chaperones]

Probab=99.95  E-value=5.1e-29  Score=245.50  Aligned_cols=155  Identities=23%  Similarity=0.370  Sum_probs=134.4

Q ss_pred             cceeecccCCccc-------------cCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCCCCCccccccccccccccc
Q 022703            3 GVSLKCGDCGALL-------------RSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPCRSKTETDLHRKRTGHTD   69 (293)
Q Consensus         3 ~~~LkC~~Cg~v~-------------~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~~~~~~e~~~a~K~t~f~t   69 (293)
                      .-+|.|+.|+.|.             .++.++|+.-+. ..++|.+.   .++|+|.+|+.+       .+|+++++|+|
T Consensus       429 e~rlsC~~C~~v~ySye~~~~i~i~le~n~E~~di~~~-v~a~f~pd---tiE~~CenCk~K-------~~a~~k~~~ks  497 (749)
T COG5207         429 ERRLSCSGCMDVSYSYESMLMICIFLEGNDEPQDIRKS-VEAFFLPD---TIEWSCENCKGK-------KKASRKPFIKS  497 (749)
T ss_pred             cceecccccccccccccceEEEEeecccCcchhhHHHH-HHheECcc---ceeeehhhhcCc-------ccccccchhhc
Confidence            4589999999987             788899998888 99999998   699999999987       89999999999


Q ss_pred             cccchhhccccccccc--Cccc-----cCCccccccCC--CC-CCCCc------ccccccCHHHHHHHHhCCCCHHHHHH
Q 022703           70 FVDKTSEAAKPISLEV--PKAT-----ADSEEAIDVDM--SG-SQPEE------MVEPEVDKELLKELEAMGFPVARATR  133 (293)
Q Consensus        70 FP~~Lvv~~~Rf~l~~--p~K~-----~~~~~~lDl~~--g~-~~~Ee------~~~~~~~~~~l~~L~~MGF~~~~a~k  133 (293)
                      ||.||++|+.||.|.|  ..|+     ++.++.++++.  +. .|..|      .....+|+.++.||++||||.++|.+
T Consensus       498 lPk~LIlq~~R~~lqny~v~kls~pi~~~~D~m~~~~s~msk~~PqtEn~LPdedE~~t~Nqs~I~qL~~mGfp~~~~~r  577 (749)
T COG5207         498 LPKYLILQVGRYSLQNYKVEKLSDPIEMRSDDMIKLGSFMSKFDPQTENLLPDEDEAFTDNQSLIRQLVDMGFPEEDAAR  577 (749)
T ss_pred             cCceeEEecceeeccceeehhccCceEEccccccchhhHhhccCCcccccCCccccccCchHHHHHHHHHcCCCHHHHHH
Confidence            9999999999999998  4455     33467788886  22 23333      23356799999999999999999999


Q ss_pred             HHHHhCCCCHHHHHHHHHHhcCCCCCCCCCCCCCC
Q 022703          134 ALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPVS  168 (293)
Q Consensus       134 AL~~tgn~~~E~A~~WL~~h~dD~didep~~~~~~  168 (293)
                      ||..|||++.|.||||||+||||||+|+|+.+|++
T Consensus       578 AL~~tgNqDaEsAMNWLFqHMdDPdlndP~~~~~~  612 (749)
T COG5207         578 ALGITGNQDAESAMNWLFQHMDDPDLNDPFVPPPN  612 (749)
T ss_pred             HHhhccCcchHHHHHHHHhhccCcccCCCCCCCCC
Confidence            99999999999999999999999999999988875

>KOG2689 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]

Probab=99.94  E-value=6.5e-26  Score=209.50  Aligned_cols=152  Identities=35%  Similarity=0.563  Sum_probs=135.3

Q ss_pred             HHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHH-HHhcCCCCCCCCCCCCCC--------------------CCCCCCCC
Q 022703          118 LKELEAMGFPVARATRALHYSGNANVEAAVNWV-VEHENDPDIDEMPMVPVS--------------------GGGGASKS  176 (293)
Q Consensus       118 l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL-~~h~dD~didep~~~~~~--------------------~~~~~~kk  176 (293)
                      +++|++|||+..++.+||..|||.+++.||+|| .+|.+||. |.|++.|..                    +..+..++
T Consensus         4 ~~~l~~mgfps~k~e~al~~~~n~~~e~al~wl~~d~~~d~~-~ap~~~p~~~~~~~~~~~~~sg~~~~s~~se~~e~ik   82 (290)
T KOG2689|consen    4 AQSLEEMGFPSGKAEKALAVYGNRGIEQALDWLEMDHAGDPI-DAPLSTPLAADLGRLPTSFESGKLSDSGYSESEEEIK   82 (290)
T ss_pred             HHHHHHhcCchhhhhhHhhhhccccHHHHHHHHHhcccCCCc-cccccccchhhhhcccchhcCCCcCCchhhhhhhhcc
Confidence            489999999999999999999999999999999 88988884 777766531                    01123689


Q ss_pred             CCCHHHHHHHHHHHHHHHHH---hHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHH
Q 022703          177 SLTPEEIKLKAQELRERARK---KKEEEEKRMEREREKERIRIGKELLEAKRIEEENERKRILALRKAEKEEEKRAREKI  253 (293)
Q Consensus       177 ~lT~EEk~~k~~el~~k~r~---~r~eeek~e~~e~E~~Rrk~GKe~~~~k~~~ee~e~k~~~e~rrrEK~ee~~ar~ri  253 (293)
                      .||+||+.++...|++++..   ++++-+..+..++++.|+++|++|..+++.+++.++.+++++||++|.++..+|+||
T Consensus        83 ~ls~eE~~~~~~~i~ekik~k~~k~~e~e~~E~~~~~k~~~ks~~~~~~a~~r~q~~e~~~~~qkRrreK~e~~eaRqRV  162 (290)
T KOG2689|consen   83 LLSEEEKKAQTKRILEKIKQKQIKREELELREALEREKQRRKSGDEMSAAKRRLQDDEMRRAAQKRRREKAEDEEARQRV  162 (290)
T ss_pred             ccChHHHHHHHHHHHHHhcchhHHHHHHHHHHhhhhHHhhhhcccHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHH
Confidence            99999999999999999854   455677888899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhcCC
Q 022703          254 RQKLEEDKAERRRRLGL  270 (293)
Q Consensus       254 r~qIe~Dk~eR~~r~~~  270 (293)
                      +.||++||++|+++++.
T Consensus       163 ~~~Ie~DKaeRka~~e~  179 (290)
T KOG2689|consen  163 LRQIERDKAERKAKYEN  179 (290)
T ss_pred             HHHHHHhHHHHHHHhcc
Confidence            99999999999999884

>KOG2507 consensus Ubiquitin regulatory protein UBXD2, contains UAS and UBX domains [General function prediction only]

Probab=99.26  E-value=6e-12  Score=123.05  Aligned_cols=105  Identities=30%  Similarity=0.395  Sum_probs=88.7

Q ss_pred             CCCCCHHHHHHHHHHHHHHH---HHhHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHH
Q 022703          175 KSSLTPEEIKLKAQELRERA---RKKKEEEEKRMEREREKERIRIGKELLEAKRIEEENERKRILALRKAEKEEEKRARE  251 (293)
Q Consensus       175 kk~lT~EEk~~k~~el~~k~---r~~r~eeek~e~~e~E~~Rrk~GKe~~~~k~~~ee~e~k~~~e~rrrEK~ee~~ar~  251 (293)
                      +.||..+  -.++.+|.+++   +.++.+++.+.++++|..||+.|||++..+....+...++++++|+|||.++..+|+
T Consensus       190 qrplea~--~~rl~~ltk~leqkr~Ek~kee~~hekeee~~rr~agkE~~~~~a~~~ee~tkrm~eqrkrer~e~~aare  267 (506)
T KOG2507|consen  190 QRPLEAE--PSRLCDLTKNLEQKRVEKTKEEVEHEKEEEPLRRQAGKEPIRPTAPGTEENTKRMREQRKRERKEGTAARE  267 (506)
T ss_pred             ccchhhh--hhHHHHHHhhccccchhhhHHHHHHHhhhhhHhhhhcccccccccccchHHHHHHHHHHHHHHHhhHHHHH
Confidence            3444433  34555555554   555567788888999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhcCCCCCCCcCCCCC
Q 022703          252 KIRQKLEEDKAERRRRLGLPPEDPATTKSS  281 (293)
Q Consensus       252 rir~qIe~Dk~eR~~r~~~~~~~~~~~~~~  281 (293)
                      ||++||++||++|+.||+.+.+..++.+++
T Consensus       268 RI~aqiaadraera~rf~k~v~t~et~k~a  297 (506)
T KOG2507|consen  268 RILAQIAADRAERAIRFTKSVDTKETMKPA  297 (506)
T ss_pred             HHHHHhhccHHHHHhhhcCccchhhhcchh
Confidence            999999999999999999988877776655

>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []

Probab=99.01  E-value=3.8e-10  Score=75.37  Aligned_cols=37  Identities=41%  Similarity=0.701  Sum_probs=34.1

Q ss_pred             cCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHH
Q 022703          113 VDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWV  150 (293)
Q Consensus       113 ~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL  150 (293)
                      +|++.|.+|++|||+.+.|.+||..++| |++.|++||
T Consensus         1 i~~~~v~~L~~mGf~~~~~~~AL~~~~~-nve~A~~~L   37 (37)
T PF00627_consen    1 IDEEKVQQLMEMGFSREQAREALRACNG-NVERAVDWL   37 (37)
T ss_dssp             SHHHHHHHHHHHTS-HHHHHHHHHHTTT-SHHHHHHHH
T ss_pred             CCHHHHHHHHHcCCCHHHHHHHHHHcCC-CHHHHHHhC
Confidence            4688999999999999999999999998 999999998

The human homologue of yeast Rad23A is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of human Rad23A UBA(2) showed that the domain forms a compact three-helix bundle []. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch which may be a common protein-interacting surface present in diverse UBA domains. Evidence that ubiquitin binds to UBA domains leads to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin []. This domain is similar in sequence to the N-terminal domain of translation elongation factor EF1B (or EF-Ts) from bacteria, mitochondria and chloroplasts. More information about EF1B (EF-Ts) proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005515 protein binding; PDB: 2DAI_A 2OO9_C 2JUJ_A 1WHC_A 1YLA_A 2O25_B 3K9O_A 3K9P_A 3F92_A 3E46_A ....

>smart00165 UBA Ubiquitin associated domain

Probab=98.84  E-value=5.5e-09  Score=69.20  Aligned_cols=37  Identities=35%  Similarity=0.560  Sum_probs=34.4

Q ss_pred             CHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHH
Q 022703          114 DKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVV  151 (293)
Q Consensus       114 ~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~  151 (293)
                      +++.+++|++|||+.+.|..||..++| +++.|++|||
T Consensus         1 ~~~~v~~L~~mGf~~~~a~~aL~~~~~-d~~~A~~~L~   37 (37)
T smart00165        1 DEEKIDQLLEMGFSREEALKALRAANG-NVERAAEYLL   37 (37)
T ss_pred             CHHHHHHHHHcCCCHHHHHHHHHHhCC-CHHHHHHHHC
Confidence            357899999999999999999999998 8999999996

Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.

>cd00194 UBA Ubiquitin Associated domain

Probab=98.84  E-value=6.6e-09  Score=69.11  Aligned_cols=38  Identities=47%  Similarity=0.754  Sum_probs=35.2

Q ss_pred             CHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHH
Q 022703          114 DKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVE  152 (293)
Q Consensus       114 ~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~  152 (293)
                      +++.+++|++|||+.+.|..||..++| |++.|++|||+
T Consensus         1 ~~~~v~~L~~mGf~~~~~~~AL~~~~~-d~~~A~~~L~~   38 (38)
T cd00194           1 DEEKLEQLLEMGFSREEARKALRATNN-NVERAVEWLLE   38 (38)
T ss_pred             CHHHHHHHHHcCCCHHHHHHHHHHhCC-CHHHHHHHHhC
Confidence            357899999999999999999999998 99999999984

The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been suggested that UBA domains are involved in conferring protein target specificity. The domain, a compact three helix bundle, has a conserved GFP-loop and the proline is thought to be critical for binding. The UBA domain is distinct from the conserved three helical domain seen in the N-terminus of EF-TS and eukaryotic NAC proteins.

>KOG0944 consensus Ubiquitin-specific protease UBP14 [Posttranslational modification, protein turnover, chaperones]

Probab=98.57  E-value=5.2e-08  Score=100.12  Aligned_cols=49  Identities=41%  Similarity=0.649  Sum_probs=44.6

Q ss_pred             ccCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhcCCCCCCC
Q 022703          112 EVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDE  161 (293)
Q Consensus       112 ~~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~dD~dide  161 (293)
                      +++++.|.++++|||+.+.|++||..|+| |||.|+||||.|+|++-.|.
T Consensus       633 ~~~e~~v~si~smGf~~~qa~~aL~~~n~-nveravDWif~h~d~~~ed~  681 (763)
T KOG0944|consen  633 EVDEESVASIVSMGFSRNQAIKALKATNN-NVERAVDWIFSHMDIPVEDA  681 (763)
T ss_pred             CCChhHheeeeeecCcHHHHHHHHHhcCc-cHHHHHHHHHhccccccccc
Confidence            68999999999999999999999999977 99999999999999764443

>KOG2699 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]

Probab=98.52  E-value=7.6e-08  Score=94.48  Aligned_cols=237  Identities=32%  Similarity=0.390  Sum_probs=166.3

Q ss_pred             HHHHHHHhccCCCCcchhhhhccccCCCCCCCCCccccccccccccccccccchhhcccccccccCccccCCc--ccccc
Q 022703           21 AQEHAELTSHSNFSESTEAVLNLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEVPKATADSE--EAIDV   98 (293)
Q Consensus        21 aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~~~~~~e~~~a~K~t~f~tFP~~Lvv~~~Rf~l~~p~K~~~~~--~~lDl   98 (293)
                      .+.|.+-+.|.+|...++.+..             .+++.....++.+.++.-+-  ..-..+  |..+.+.+  ..+-+
T Consensus         5 k~~~~ef~~~~~~~ss~~~~~~-------------~e~~~~~~~~s~~~~~~~~~--~~~~~~--~~~~~~~~~~~~~~~   67 (407)
T KOG2699|consen    5 KYNFQEFKCKVNLASSLNDVKH-------------QESVGEQAHTSSTDQSLPHL--PVTLDT--PWPLLNPAPKVNLLL   67 (407)
T ss_pred             HHHHHHHhhcccccccccchhh-------------hHHHHHHhhccCCCCCCCCC--Cccccc--chhhhccCCCCcccc
Confidence            4567777778888766333322             24577777777777665433  222222  22221110  11111


Q ss_pred             CC--CCC-CCCcccccccCHHHHHHHHhCCCCH-HHHHHHHHHhCCCCHHH-HHHHHHHhcCCCCCCCCCCCCCC---CC
Q 022703           99 DM--SGS-QPEEMVEPEVDKELLKELEAMGFPV-ARATRALHYSGNANVEA-AVNWVVEHENDPDIDEMPMVPVS---GG  170 (293)
Q Consensus        99 ~~--g~~-~~Ee~~~~~~~~~~l~~L~~MGF~~-~~a~kAL~~tgn~~~E~-A~~WL~~h~dD~didep~~~~~~---~~  170 (293)
                      +.  +.| ....+..+.+....+.-...|||+. .+...+++..|+...++ |.+|...|..+......+..+.+   ++
T Consensus        68 ~k~~s~gqa~~~~~~~~~~~~i~~~~~~~g~~e~~~t~~~~~~~g~a~~~a~~~~~~~p~~~~~~~~~~~~~e~~~l~~s  147 (407)
T KOG2699|consen   68 SKSSSSGQAAKTNRRNIVFNTILARFDIMGRPEAARTSPALHPSGNQSLEAPAVNFKIPFTSEIQRFKMPKGETNTLESS  147 (407)
T ss_pred             ccccccchhhhcccCCcccchhhccccccCCccccccccCcccchhhhhcCCCCcccccccccchhhccccCCccccccc
Confidence            11  222 2222344555566677788899999 77778899999988888 99999988887654443333332   22


Q ss_pred             CCCCCCCCCHHHHHHHHHHHHHHHHHhHHHHHHHHHH--HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHH
Q 022703          171 GGASKSSLTPEEIKLKAQELRERARKKKEEEEKRMER--EREKERIRIGKELLEAKRIEEENERKRILALRKAEKEEEKR  248 (293)
Q Consensus       171 ~~~~kk~lT~EEk~~k~~el~~k~r~~r~eeek~e~~--e~E~~Rrk~GKe~~~~k~~~ee~e~k~~~e~rrrEK~ee~~  248 (293)
                      ....++.+|...-..+.++|.+..+.-+.++++...+  ++|++|.+.|+++.+.+..-.....+..+..+.-+++|+..
T Consensus       148 ~~~~~ss~~~~~~~~k~~e~se~~~d~~~kqe~~~~~~pE~ek~R~rl~~el~~~~v~g~he~le~v~~~~~ae~eEe~~  227 (407)
T KOG2699|consen  148 GDPEPSSLTKIFVNTKAKELSESGRDIRQKQEQNTERNPEREKERKRLGNELLKEKVLGCHEPLEAVLVLRPAEDEEEYE  227 (407)
T ss_pred             CCcCchhhhhccccccchhhhhhhhhhHHHhhhhhccchhhhhhhhccccchhhcccccccchHHHHHHhcccccHHHHH
Confidence            2335677888888888999999999999988888888  99999999999999888765566666667888889999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhcCCCCCC
Q 022703          249 AREKIRQKLEEDKAERRRRLGLPPED  274 (293)
Q Consensus       249 ar~rir~qIe~Dk~eR~~r~~~~~~~  274 (293)
                      .++.++.+.+.++.+|++.+|.|+.+
T Consensus       228 ~~e~~l~k~~s~~ser~~~l~~P~~t  253 (407)
T KOG2699|consen  228 LVEKTLRKLQSLKSERKRLLGAPPVT  253 (407)
T ss_pred             HHHHHHHHHHHHhhhhhhhhcCCccc
Confidence            99999999999999999999998883

>cd02664 Peptidase_C19H A subfamily of Peptidase C19

Probab=98.39  E-value=7.7e-08  Score=91.28  Aligned_cols=89  Identities=10%  Similarity=0.133  Sum_probs=63.3

Q ss_pred             eeecccCCccccCHHHHHHH------HHHhccCCCCcc-hhhhhccccCCCCCCCCCccccccccccccccccccchhhc
Q 022703            5 SLKCGDCGALLRSVQEAQEH------AELTSHSNFSES-TEAVLNLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEA   77 (293)
Q Consensus         5 ~LkC~~Cg~v~~~~~~aq~h------a~~TgH~~F~e~-~d~i~~~~C~~Cg~~~~~~~e~~~a~K~t~f~tFP~~Lvv~   77 (293)
                      .++|..|+.+.........+      .......+|..+ .+....|.|+.||++       ..+.|++.|.++|++|+||
T Consensus       110 ~i~C~~C~~~s~~~e~f~~l~L~i~sl~~~l~~~~~~E~l~g~n~~~C~~C~~~-------~~a~k~~~i~~lP~vLii~  182 (327)
T cd02664         110 TIRCLNCNSTSARTERFRDLDLSFPSVQDLLNYFLSPEKLTGDNQYYCEKCASL-------QDAEKEMKVTGAPEYLILT  182 (327)
T ss_pred             EEEcCCCCCEecccccceeeecCCCCHHHHHHHhcCeeEccCCCceeCCccCCc-------cceeEEEEcccCChhhEEE
Confidence            58999999776332221111      122244455433 233345999999987       6899999999999999999


Q ss_pred             cccccccc----Cccc---cCCccccccCC
Q 022703           78 AKPISLEV----PKAT---ADSEEAIDVDM  100 (293)
Q Consensus        78 ~~Rf~l~~----p~K~---~~~~~~lDl~~  100 (293)
                      ++||.++.    ..|+   |.+|..|||+.
T Consensus       183 LkRF~~~~~~~~~~Ki~~~v~fp~~ldl~~  212 (327)
T cd02664         183 LLRFSYDQKTHVREKIMDNVSINEVLSLPV  212 (327)
T ss_pred             eeeeEEccccCcceecCceEecCCEEecCc
Confidence            99999874    5677   66788899875

Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.

>cd02660 Peptidase_C19D A subfamily of Peptidase C19

Probab=98.25  E-value=2.7e-07  Score=86.41  Aligned_cols=65  Identities=8%  Similarity=0.070  Sum_probs=51.2

Q ss_pred             hccCCCCcch-hhhhccccCCCCCCCCCccccccccccccccccccchhhccccccccc---Cccc---cCCccccccCC
Q 022703           28 TSHSNFSEST-EAVLNLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEV---PKAT---ADSEEAIDVDM  100 (293)
Q Consensus        28 TgH~~F~e~~-d~i~~~~C~~Cg~~~~~~~e~~~a~K~t~f~tFP~~Lvv~~~Rf~l~~---p~K~---~~~~~~lDl~~  100 (293)
                      .+..+|.++. +... |.|+.||.+       +.+.|++.|.++|++|+|+++||.++.   +.|+   +.+|..|||+.
T Consensus       181 ~L~~~~~~e~~~~~~-~~C~~C~~~-------~~~~~~~~i~~lP~~Lii~lkRf~~~~~~~~~K~~~~v~fp~~Ldl~~  252 (328)
T cd02660         181 CLDRFTRPEKLGDFA-YKCSGCGST-------QEATKQLSIKKLPPVLCFQLKRFEHSLNKTSRKIDTYVQFPLELNMTP  252 (328)
T ss_pred             HHHHhcCccccCCCC-ccCCCCCCc-------cceEEEEEecCCCceeEEEEEeEEecCCCCCcCCCcEEeCCCEechhh
Confidence            3555565441 2222 799999997       689999999999999999999999885   6787   66788899875

Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.

>cd02667 Peptidase_C19K A subfamily of Peptidase C19

Probab=98.23  E-value=2.3e-07  Score=86.03  Aligned_cols=86  Identities=14%  Similarity=0.169  Sum_probs=61.5

Q ss_pred             eeecccCCccccCHHHHHH-------------HHHHhccCCCCcc-hhhhhccccCCCCCCCCCcccccccccccccccc
Q 022703            5 SLKCGDCGALLRSVQEAQE-------------HAELTSHSNFSES-TEAVLNLVCATCGKPCRSKTETDLHRKRTGHTDF   70 (293)
Q Consensus         5 ~LkC~~Cg~v~~~~~~aq~-------------ha~~TgH~~F~e~-~d~i~~~~C~~Cg~~~~~~~e~~~a~K~t~f~tF   70 (293)
                      .++|..|+.+.........             -.+.....+|..+ .+....|.|+.|++          |+|++.|.++
T Consensus        80 ~i~C~~C~~~s~~~E~f~~L~Lp~~~~~~~~~sL~~~L~~~~~~E~l~~~~~~~C~~C~~----------a~k~~~i~~~  149 (279)
T cd02667          80 TIMCESCGTVSLVYEPFLDLSLPRSDEIKSECSIESCLKQFTEVEILEGNNKFACENCTK----------AKKQYLISKL  149 (279)
T ss_pred             EEEcCCCCCEeCccccceEEecCCCcccCCCCCHHHHHHhhcCeeEecCCCcccCCccCc----------eeeEeEhhhC
Confidence            5789999988743222111             1222244556544 22223489999977          6889999999


Q ss_pred             ccchhhccccccccc---Cccc---cCCccccccCC
Q 022703           71 VDKTSEAAKPISLEV---PKAT---ADSEEAIDVDM  100 (293)
Q Consensus        71 P~~Lvv~~~Rf~l~~---p~K~---~~~~~~lDl~~  100 (293)
                      |++|+|+++||.++.   +.|+   |.+|..|||+.
T Consensus       150 P~~Lii~LkRF~~~~~~~~~Ki~~~v~fP~~Ldl~~  185 (279)
T cd02667         150 PPVLVIHLKRFQQPRSANLRKVSRHVSFPEILDLAP  185 (279)
T ss_pred             CCeEEEEEeccccCcccCceecCceEeCCCccchhh
Confidence            999999999999994   6787   66888999986

Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.

>cd02668 Peptidase_C19L A subfamily of Peptidase C19

Probab=98.22  E-value=2.8e-07  Score=87.09  Aligned_cols=89  Identities=13%  Similarity=0.153  Sum_probs=62.2

Q ss_pred             ceeecccCCccccCHHHH----------HHHHHHhccCCCCcc-hhhhhccccCCCCCCCCCcccccccccccccccccc
Q 022703            4 VSLKCGDCGALLRSVQEA----------QEHAELTSHSNFSES-TEAVLNLVCATCGKPCRSKTETDLHRKRTGHTDFVD   72 (293)
Q Consensus         4 ~~LkC~~Cg~v~~~~~~a----------q~ha~~TgH~~F~e~-~d~i~~~~C~~Cg~~~~~~~e~~~a~K~t~f~tFP~   72 (293)
                      ..++|..||.+.......          ... ......+|..+ .+....|.|+.|+++       +.+.|++.|.++|+
T Consensus       128 ~~~~C~~C~~~s~~~e~f~~l~l~i~~~~sl-~~~L~~~~~~e~l~g~~~~~C~~C~~~-------~~a~k~~~i~~lP~  199 (324)
T cd02668         128 YVTQCSKCGRESSLPSKFYELELQLKGHKTL-EECIDEFLKEEQLTGDNQYFCESCNSK-------TDATRRIRLTTLPP  199 (324)
T ss_pred             EEEEeCCCCCccccccccEEEEEEecccCCH-HHHHHHhhCceecCCCccccCCCCCce-------eeeEEEEEecCCCC
Confidence            358899999874221111          111 11133345433 122234899999987       78999999999999


Q ss_pred             chhhccccccccc----Cccc---cCCccccccCC
Q 022703           73 KTSEAAKPISLEV----PKAT---ADSEEAIDVDM  100 (293)
Q Consensus        73 ~Lvv~~~Rf~l~~----p~K~---~~~~~~lDl~~  100 (293)
                      +|+|+++||.++.    +.|+   +.+|..|||+.
T Consensus       200 iLii~LkRf~~d~~~~~~~Ki~~~v~fp~~Ldl~~  234 (324)
T cd02668         200 TLNFQLLRFVFDRKTGAKKKLNASISFPEILDMGE  234 (324)
T ss_pred             eEEEEEEcceeecccCcceeCCcEEECCCeEechh
Confidence            9999999999874    6777   66888999985

Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.

>cd02663 Peptidase_C19G A subfamily of Peptidase C19

Probab=98.12  E-value=1.7e-06  Score=80.85  Aligned_cols=89  Identities=8%  Similarity=-0.007  Sum_probs=62.2

Q ss_pred             eeecccCCccccCHHHHH---------HHHHHhccCCCCcc-hhhhhccccCCCCCCCCCccccccccccccccccccch
Q 022703            5 SLKCGDCGALLRSVQEAQ---------EHAELTSHSNFSES-TEAVLNLVCATCGKPCRSKTETDLHRKRTGHTDFVDKT   74 (293)
Q Consensus         5 ~LkC~~Cg~v~~~~~~aq---------~ha~~TgH~~F~e~-~d~i~~~~C~~Cg~~~~~~~e~~~a~K~t~f~tFP~~L   74 (293)
                      .++|..|+.+........         .....+...+|..+ .+....|+|+.|+++       ..|+|++.|..+|++|
T Consensus       120 ~~~C~~C~~~s~~~e~f~~Lsl~i~~~~sl~~~L~~~~~~E~l~~~~~~~C~~C~~~-------~~a~k~~~i~~lP~vL  192 (300)
T cd02663         120 ETRCLTCETVSSRDETFLDLSIDVEQNTSITSCLRQFSATETLCGRNKFYCDECCSL-------QEAEKRMKIKKLPKIL  192 (300)
T ss_pred             eEEeCCCCCCccccceeEEeccCCCCcCCHHHHHHHhhcccccCCCCcEECCCCCCc-------eeEEEEEEeccCCcee
Confidence            579999998763222111         01122233445433 222345999999987       7899999999999999


Q ss_pred             hhccccccccc----Cccc---cCCccccccCC
Q 022703           75 SEAAKPISLEV----PKAT---ADSEEAIDVDM  100 (293)
Q Consensus        75 vv~~~Rf~l~~----p~K~---~~~~~~lDl~~  100 (293)
                      +|+++||.++.    ..|+   |.+|..||+..
T Consensus       193 ii~LkRF~~~~~~~~~~Ki~~~v~fp~~L~~~~  225 (300)
T cd02663         193 ALHLKRFKYDEQLNRYIKLFYRVVFPLELRLFN  225 (300)
T ss_pred             EEEEEeEEeecccCCceecCceEecCcEEeccc
Confidence            99999999884    5677   66788888874

Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.

>cd02658 Peptidase_C19B A subfamily of Peptidase C19

Probab=98.08  E-value=7.3e-07  Score=83.13  Aligned_cols=51  Identities=25%  Similarity=0.361  Sum_probs=43.2

Q ss_pred             ccCCCCcchhhhhccccCCCCCCCCCccccccccccccccccccchhhcccccccc-c--Cccc
Q 022703           29 SHSNFSESTEAVLNLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLE-V--PKAT   89 (293)
Q Consensus        29 gH~~F~e~~d~i~~~~C~~Cg~~~~~~~e~~~a~K~t~f~tFP~~Lvv~~~Rf~l~-~--p~K~   89 (293)
                      ...+|..+   .+++.|+.||++       ..|.|++.|.++|++|+||++||.+. +  |+|+
T Consensus       184 L~~~~~~e---~i~~~C~~C~~~-------~~a~k~~~i~~lP~vLii~LkRF~~~~~~~~~Ki  237 (311)
T cd02658         184 LKAYFAPE---TIEDFCSTCKEK-------TTATKTTGFKTFPDYLVINMKRFQLLENWVPKKL  237 (311)
T ss_pred             HHHHcCcc---cccccccCCCCc-------ccEEEEEEeecCCceEEEEeEEEEecCCCceEee
Confidence            55556654   567899999987       78999999999999999999999994 3  8887

Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.

>cd02671 Peptidase_C19O A subfamily of Peptidase C19

Probab=98.02  E-value=1.2e-06  Score=84.14  Aligned_cols=65  Identities=6%  Similarity=-0.040  Sum_probs=47.1

Q ss_pred             ccCCCCcc-hhhhhccccCCCCCCCCCccccccccccccccccccchhhccccccccc--------Cccc---cCCcccc
Q 022703           29 SHSNFSES-TEAVLNLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEV--------PKAT---ADSEEAI   96 (293)
Q Consensus        29 gH~~F~e~-~d~i~~~~C~~Cg~~~~~~~e~~~a~K~t~f~tFP~~Lvv~~~Rf~l~~--------p~K~---~~~~~~l   96 (293)
                      ...+|.++ .+....|.|+.|+++       +.|+|++.|.++|++|+|+++||.+..        ..|+   +..|..|
T Consensus       186 L~~f~~~E~l~g~n~y~C~~C~~~-------~~a~k~~~~~~~P~vL~i~LkRF~~~~~~~~~~~~~~Ki~~~v~fp~~L  258 (332)
T cd02671         186 ISQFASVERIVGEDKYFCENCHHY-------TEAERSLLFDKLPEVITIHLKCFAANGSEFDCYGGLSKVNTPLLTPLKL  258 (332)
T ss_pred             HHHhCCcceecCCCCeeCCCCCCc-------eeEEEEEEEecCCCEEEEEeeeeccccccccccCCceecCccccCcccc
Confidence            34455444 111234999999987       789999999999999999999999652        4455   5556666


Q ss_pred             ccCC
Q 022703           97 DVDM  100 (293)
Q Consensus        97 Dl~~  100 (293)
                      |+..
T Consensus       259 ~~~~  262 (332)
T cd02671         259 SLEE  262 (332)
T ss_pred             cccc
Confidence            6653

Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.

>cd02657 Peptidase_C19A A subfamily of Peptidase C19

Probab=98.02  E-value=1.8e-06  Score=80.24  Aligned_cols=85  Identities=9%  Similarity=0.037  Sum_probs=59.6

Q ss_pred             ceeecccCC-ccc-------------cCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCCCCCccccccccccccccc
Q 022703            4 VSLKCGDCG-ALL-------------RSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPCRSKTETDLHRKRTGHTD   69 (293)
Q Consensus         4 ~~LkC~~Cg-~v~-------------~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~~~~~~e~~~a~K~t~f~t   69 (293)
                      .+++|..|+ .+-             .+...... ...+....|.+.    +...|+.||..       ..++|++.|.+
T Consensus       128 ~~~~C~~C~~~~~~~~e~f~~Lsl~i~~~~~~~~-l~~~L~~~~~~~----~~~~~~~~~~~-------~~~~k~~~i~~  195 (305)
T cd02657         128 TKMKCTESPDEEEVSTESEYKLQCHISITTEVNY-LQDGLKKGLEEE----IEKHSPTLGRD-------AIYTKTSRISR  195 (305)
T ss_pred             EEEEcCCCCCCCccccccceEEEeecCCCccccc-HHHHHHHhhhhh----hhhcCcccCCC-------ceEEEEEEecc
Confidence            468999999 333             11111111 223355566655    33589999886       67899999999


Q ss_pred             cccchhhccccccccc----Cccc---cCCccccccCC
Q 022703           70 FVDKTSEAAKPISLEV----PKAT---ADSEEAIDVDM  100 (293)
Q Consensus        70 FP~~Lvv~~~Rf~l~~----p~K~---~~~~~~lDl~~  100 (293)
                      +|++|+|+++||.+++    ..|+   |.+|..||++.
T Consensus       196 lP~vLii~LkRF~~~~~~~~~~Ki~~~v~fP~~Ldl~~  233 (305)
T cd02657         196 LPKYLTVQFVRFFWKRDIQKKAKILRKVKFPFELDLYE  233 (305)
T ss_pred             CCcEEEEEEECCccccccCceeecCcEEECCceEeccc
Confidence            9999999999999874    4455   66788899874

Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyse bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.

>cd02661 Peptidase_C19E A subfamily of Peptidase C19

Probab=97.98  E-value=2.1e-06  Score=78.74  Aligned_cols=89  Identities=13%  Similarity=0.085  Sum_probs=62.1

Q ss_pred             eeecccCCccccCHHHHH---------HHHHHhccCCCCcc-hhhhhccccCCCCCCCCCccccccccccccccccccch
Q 022703            5 SLKCGDCGALLRSVQEAQ---------EHAELTSHSNFSES-TEAVLNLVCATCGKPCRSKTETDLHRKRTGHTDFVDKT   74 (293)
Q Consensus         5 ~LkC~~Cg~v~~~~~~aq---------~ha~~TgH~~F~e~-~d~i~~~~C~~Cg~~~~~~~e~~~a~K~t~f~tFP~~L   74 (293)
                      .++|..||.+........         .....+...+|... .+....|.|+.||++       ..+.+++.|.++|++|
T Consensus       135 ~~~C~~C~~~s~~~e~~~~l~l~i~~~~~l~~~l~~~~~~e~~~~~~~~~C~~C~~~-------~~~~~~~~i~~~P~iL  207 (304)
T cd02661         135 QVKCLNCKHVSNTYDPFLDLSLDIKGADSLEDALEQFTKPEQLDGENKYKCERCKKK-------VKASKQLTIHRAPNVL  207 (304)
T ss_pred             eEEeCCCCCCcCccccceeeeeecCCCCcHHHHHHHhcCceeeCCCCCeeCCCCCCc-------cceEEEEEEecCCcEE
Confidence            578999997764322110         12223344456543 233334899999997       6789999999999999


Q ss_pred             hhcccccccccCccc---cCCccccccCC
Q 022703           75 SEAAKPISLEVPKAT---ADSEEAIDVDM  100 (293)
Q Consensus        75 vv~~~Rf~l~~p~K~---~~~~~~lDl~~  100 (293)
                      +|+++||.++...|+   +.+|..|||+.
T Consensus       208 ~i~l~Rf~~~~~~Ki~~~v~f~~~L~l~~  236 (304)
T cd02661         208 TIHLKRFSNFRGGKINKQISFPETLDLSP  236 (304)
T ss_pred             EEEEeccccCCccccCCeEecCCeechhh
Confidence            999999999854555   55677888875

Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.

>cd02659 peptidase_C19C A subfamily of Peptidase C19

Probab=97.95  E-value=1.8e-06  Score=81.04  Aligned_cols=89  Identities=12%  Similarity=0.137  Sum_probs=61.8

Q ss_pred             eeecccCCccccCHHHHH---------HHHHHhccCCCCcc-hhhhhccccCCCCCCCCCccccccccccccccccccch
Q 022703            5 SLKCGDCGALLRSVQEAQ---------EHAELTSHSNFSES-TEAVLNLVCATCGKPCRSKTETDLHRKRTGHTDFVDKT   74 (293)
Q Consensus         5 ~LkC~~Cg~v~~~~~~aq---------~ha~~TgH~~F~e~-~d~i~~~~C~~Cg~~~~~~~e~~~a~K~t~f~tFP~~L   74 (293)
                      .++|..|+.+........         .....+...+|..+ .+....|.|++||++       +.+.|+..|.++|++|
T Consensus       124 ~~~C~~C~~~s~~~e~f~~l~l~i~~~~~l~~~l~~~~~~e~l~~~~~~~C~~C~~~-------~~~~k~~~i~~lP~vL  196 (334)
T cd02659         124 YIICKECPHESEREEYFLDLQVAVKGKKNLEESLDAYVQGETLEGDNKYFCEKCGKK-------VDAEKGVCFKKLPPVL  196 (334)
T ss_pred             EEEecCCCceecccccceEEEEEcCCCCCHHHHHHHhcCeeEecCCccEecCcCCCc-------ccEEEEEEeecCCCEE
Confidence            578999987642221110         11222344555543 222334999999997       6889999999999999


Q ss_pred             hhccccccccc----Cccc---cCCccccccCC
Q 022703           75 SEAAKPISLEV----PKAT---ADSEEAIDVDM  100 (293)
Q Consensus        75 vv~~~Rf~l~~----p~K~---~~~~~~lDl~~  100 (293)
                      +|+++||.++.    .+|+   +.+|..|||+.
T Consensus       197 ii~l~Rf~~~~~~~~~~K~~~~v~fp~~Ldl~~  229 (334)
T cd02659         197 TLQLKRFEFDFETMMRIKINDRFEFPLELDMEP  229 (334)
T ss_pred             EEEeeeeEEccccCcceeCCceEeCCceecCcc
Confidence            99999999863    5676   66788899875

Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.

>cd02674 Peptidase_C19R A subfamily of peptidase C19

Probab=97.87  E-value=3.9e-06  Score=74.30  Aligned_cols=88  Identities=14%  Similarity=0.162  Sum_probs=60.6

Q ss_pred             ceeecccCCccccCHHH----------------HHHHHHHhccCCCCcc-hhhhhccccCCCCCCCCCcccccccccccc
Q 022703            4 VSLKCGDCGALLRSVQE----------------AQEHAELTSHSNFSES-TEAVLNLVCATCGKPCRSKTETDLHRKRTG   66 (293)
Q Consensus         4 ~~LkC~~Cg~v~~~~~~----------------aq~ha~~TgH~~F~e~-~d~i~~~~C~~Cg~~~~~~~e~~~a~K~t~   66 (293)
                      -+++|..||.+......                .....+ ....+|... .+....+.|+.||..       +.+.++..
T Consensus        50 ~~~~C~~C~~~~~~~e~~~~l~l~ip~~~~~~~~~sl~~-~L~~~~~~e~~~~~~~~~C~~C~~~-------~~~~~~~~  121 (230)
T cd02674          50 SRLTCLTCGKTSTTFEPFTYLSLPIPSGSGDAPKVTLED-CLRLFTKEETLDGDNAWKCPKCKKK-------RKATKKLT  121 (230)
T ss_pred             CcEEcCCCcCCcceecceeEEEEecccccCCCCCCCHHH-HHHHhcCccccCCCCceeCCCCCCc-------cceEEEEE
Confidence            35799999987632110                011112 245556543 233456999999987       78899999


Q ss_pred             ccccccchhhccccccccc--Cccc---cCCc-cccccC
Q 022703           67 HTDFVDKTSEAAKPISLEV--PKAT---ADSE-EAIDVD   99 (293)
Q Consensus        67 f~tFP~~Lvv~~~Rf~l~~--p~K~---~~~~-~~lDl~   99 (293)
                      |.++|++|+|+++||...+  ..|+   +.+| +.||++
T Consensus       122 i~~lP~iLii~l~R~~~~~~~~~K~~~~v~~~~~~l~l~  160 (230)
T cd02674         122 ISRLPKVLIIHLKRFSFSRGSTRKLTTPVTFPLNDLDLT  160 (230)
T ss_pred             EecCChhhEeEhhheecCCCCcccCCceEeccccccccc
Confidence            9999999999999999986  6666   4444 457765

Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.

>cd02673 Peptidase_C19Q A subfamily of Peptidase C19

Probab=97.80  E-value=6.8e-06  Score=75.91  Aligned_cols=70  Identities=17%  Similarity=0.107  Sum_probs=47.6

Q ss_pred             eeecccCCccccCHHHHHHH-----------HHHhccCCCCcchhhhhccccCCCCCCCCCccccccccccccccccccc
Q 022703            5 SLKCGDCGALLRSVQEAQEH-----------AELTSHSNFSESTEAVLNLVCATCGKPCRSKTETDLHRKRTGHTDFVDK   73 (293)
Q Consensus         5 ~LkC~~Cg~v~~~~~~aq~h-----------a~~TgH~~F~e~~d~i~~~~C~~Cg~~~~~~~e~~~a~K~t~f~tFP~~   73 (293)
                      +++|..||.+-......-++           .+......|.+.   .++|.|+.|+..        .+.|+++|.+||++
T Consensus        81 ~i~C~~C~~~s~~~e~~~~L~L~i~~~~~~~le~l~~~~~~~~---~~e~~C~~C~~~--------~a~k~~~i~~~P~v  149 (245)
T cd02673          81 SYVCIGCSFEENVSDVGNFLDVSMIDNKLDIDELLISNFKTWS---PIEKDCSSCKCE--------SAISSERIMTFPEC  149 (245)
T ss_pred             EEEecCCCCeeeeccccceeccccccCCcchHHHHHHHhhccc---ccCccCCCCCCc--------cceeechhhhCChh
Confidence            58999999886222111110           111122233333   467999999874        67889999999999


Q ss_pred             hhhccccccccc
Q 022703           74 TSEAAKPISLEV   85 (293)
Q Consensus        74 Lvv~~~Rf~l~~   85 (293)
                      |+||++||.+..
T Consensus       150 L~i~lkRf~~~~  161 (245)
T cd02673         150 LSINLKRYKLRI  161 (245)
T ss_pred             hEEeeEeeeecc
Confidence            999999998764

Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.

>KOG1865 consensus Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]

Probab=97.60  E-value=4.3e-05  Score=77.64  Aligned_cols=87  Identities=16%  Similarity=0.218  Sum_probs=65.2

Q ss_pred             eeecccCCccccC----------HHHHHHHHHHhccCCCC--cchhhhhccccCCCCCCCCCcccccccccccccccccc
Q 022703            5 SLKCGDCGALLRS----------VQEAQEHAELTSHSNFS--ESTEAVLNLVCATCGKPCRSKTETDLHRKRTGHTDFVD   72 (293)
Q Consensus         5 ~LkC~~Cg~v~~~----------~~~aq~ha~~TgH~~F~--e~~d~i~~~~C~~Cg~~~~~~~e~~~a~K~t~f~tFP~   72 (293)
                      .|+|..|..|..-          -.+++.+.+. + ..|.  |.+|-..-|+|..|.++       +.|.|+..+-.-|+
T Consensus       239 ~vkC~~C~~vS~tyE~~~dltvei~d~~sl~~A-L-~qFt~~E~L~gen~Y~C~~Ck~~-------v~A~K~lti~raPn  309 (545)
T KOG1865|consen  239 QIKCLHCKGVSDTYEPYLDLTLEIQDASSLQQA-L-EQFTKPEKLDGENAYHCGRCKQK-------VPASKQLTIHRAPN  309 (545)
T ss_pred             ceecccCCCcccccccccceEEEeccchhHHHH-H-HHhhhHHhhCCccccccchhhhh-------CcccceeeeecCCc
Confidence            5899999999721          1133332222 0 0243  44444456999999997       89999999999999


Q ss_pred             chhhcccccccccCccc---cCCccccccCC
Q 022703           73 KTSEAAKPISLEVPKAT---ADSEEAIDVDM  100 (293)
Q Consensus        73 ~Lvv~~~Rf~l~~p~K~---~~~~~~lDl~~  100 (293)
                      +|.|+++||+.+.--|+   |.+|+.|||..
T Consensus       310 VLTi~LKRF~~~~~gKI~K~I~fPE~LDl~P  340 (545)
T KOG1865|consen  310 VLTLHLKRFSNGTGGKISKPVSFPETLDLQP  340 (545)
T ss_pred             eEEEeeehhccCcccccccccCCcccccccc
Confidence            99999999999875555   88899999997

>COG5533 UBP5 Ubiquitin C-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]

Probab=97.54  E-value=3.1e-05  Score=74.40  Aligned_cols=79  Identities=19%  Similarity=0.233  Sum_probs=52.0

Q ss_pred             ceeecccCCccccCHHHHHHHH---HHhccCC-------CCcc--hhhhhccccCCCCCCCCCccccccccccccccccc
Q 022703            4 VSLKCGDCGALLRSVQEAQEHA---ELTSHSN-------FSES--TEAVLNLVCATCGKPCRSKTETDLHRKRTGHTDFV   71 (293)
Q Consensus         4 ~~LkC~~Cg~v~~~~~~aq~ha---~~TgH~~-------F~e~--~d~i~~~~C~~Cg~~~~~~~e~~~a~K~t~f~tFP   71 (293)
                      -+|+|..||.....-+-...++   -++-|.+       |.+.  .+-...|.||.||++       ..+.|+..+.-.|
T Consensus       234 srlqC~~C~~TStT~a~fs~l~vp~~~v~~~~l~eC~~~f~~~e~L~g~d~W~CpkC~~k-------~ss~K~~~I~~lP  306 (415)
T COG5533         234 SRLQCEACNYTSTTIAMFSTLLVPPYEVVQLGLQECIDRFYEEEKLEGKDAWRCPKCGRK-------ESSRKRMEILVLP  306 (415)
T ss_pred             hhhhhhhcCCceeEEeccceeeeccchheeecHHHHHHHhhhHHhhcCcccccCchhccc-------ccchheEEEEecC
Confidence            4789999998762221111110   0111222       4322  333455999999998       6788999999999


Q ss_pred             cchhhccccccccc--Cccc
Q 022703           72 DKTSEAAKPISLEV--PKAT   89 (293)
Q Consensus        72 ~~Lvv~~~Rf~l~~--p~K~   89 (293)
                      ++|+||++||++-.  |.|+
T Consensus       307 ~~LII~i~RF~i~V~~~~ki  326 (415)
T COG5533         307 DVLIIHISRFHISVMGRKKI  326 (415)
T ss_pred             ceEEEEeeeeeEEeeccccc
Confidence            99999999999543  6665

>cd02662 Peptidase_C19F A subfamily of Peptidase C19

Probab=97.18  E-value=8.6e-05  Score=67.58  Aligned_cols=75  Identities=13%  Similarity=0.168  Sum_probs=49.9

Q ss_pred             eeecccCCccccCHHH---------H------HHHHHHhccCCCCcchhhhhccccCCCCCCCCCccccccccccccccc
Q 022703            5 SLKCGDCGALLRSVQE---------A------QEHAELTSHSNFSESTEAVLNLVCATCGKPCRSKTETDLHRKRTGHTD   69 (293)
Q Consensus         5 ~LkC~~Cg~v~~~~~~---------a------q~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~~~~~~e~~~a~K~t~f~t   69 (293)
                      .++|..||.+.....+         +      ....+.....+|..+  .+..|.|+.|               ++.|.+
T Consensus        63 ~i~C~~C~~~s~~~~e~f~~LsL~ip~~~~~~~~sl~~~L~~~~~~E--~l~~~~C~~C---------------~~~i~~  125 (240)
T cd02662          63 RIVCLQCGESSKVRYESFTMLSLPVPNQSSGSGTTLEHCLDDFLSTE--IIDDYKCDRC---------------QTVIVR  125 (240)
T ss_pred             EEEeCCCCCccCcceeeeeeeEecccccCCCCCCCHHHHHHHhcCcc--cccCcCCCCC---------------eEEeec
Confidence            5899999987432111         0      112233355566544  1335999999               345999


Q ss_pred             cccchhhccccccccc---Cccc---cCCcccc
Q 022703           70 FVDKTSEAAKPISLEV---PKAT---ADSEEAI   96 (293)
Q Consensus        70 FP~~Lvv~~~Rf~l~~---p~K~---~~~~~~l   96 (293)
                      +|++|+|+++||.++.   +.|+   +.+|..|
T Consensus       126 lP~vLii~LkRF~~~~~~~~~K~~~~v~fp~~l  158 (240)
T cd02662         126 LPQILCIHLSRSVFDGRGTSTKNSCKVSFPERL  158 (240)
T ss_pred             CCcEEEEEEEEEEEcCCCceeeeccEEECCCcc
Confidence            9999999999999885   6777   5556555

Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.

>TIGR00601 rad23 UV excision repair protein Rad23

Probab=97.12  E-value=0.00059  Score=67.24  Aligned_cols=40  Identities=25%  Similarity=0.379  Sum_probs=36.9

Q ss_pred             CHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhc
Q 022703          114 DKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHE  154 (293)
Q Consensus       114 ~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~  154 (293)
                      -+..|..|++|||+++.+.+||++.-| |.++|++||+...
T Consensus       156 ~e~~I~~i~eMGf~R~qV~~ALRAafN-NPdRAVEYL~tGI  195 (378)
T TIGR00601       156 RETTIEEIMEMGYEREEVERALRAAFN-NPDRAVEYLLTGI  195 (378)
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHhC-CHHHHHHHHHhCC
Confidence            467899999999999999999999988 8999999999874

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).

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

Probab=97.10  E-value=0.0001  Score=76.92  Aligned_cols=88  Identities=15%  Similarity=0.158  Sum_probs=64.0

Q ss_pred             eecccCCcccc---------------CHHHHHHHHHHhccCCCC-cchhhhhccccCCCCCCCCCccccccccccccccc
Q 022703            6 LKCGDCGALLR---------------SVQEAQEHAELTSHSNFS-ESTEAVLNLVCATCGKPCRSKTETDLHRKRTGHTD   69 (293)
Q Consensus         6 LkC~~Cg~v~~---------------~~~~aq~ha~~TgH~~F~-e~~d~i~~~~C~~Cg~~~~~~~e~~~a~K~t~f~t   69 (293)
                      .+|..||.-..               |.--|-...++...++-. |..|-...|-|..|+++|       -|.|..+|++
T Consensus       182 v~cl~c~~e~~~~d~fld~pl~v~pfg~~~ay~sieeal~afvqpe~ldg~nqy~ce~ck~k~-------dahkgl~~~~  254 (1203)
T KOG4598|consen  182 VACLKCGRESVKTDYFLDLPLAVKPFGAIHAYKSVEEALTAFVQPELLDGSNQYMCENCKSKQ-------DAHKGLRITQ  254 (1203)
T ss_pred             HHHHHcCccccccceeecccccccCCcchhhhhhHHHHHHHhcChhhcCCccHHHHhhhhhhh-------hhhcCceeec
Confidence            47889987652               222233333332333333 334666679999999984       6899999999


Q ss_pred             cccchhhcccccccc-c---Cccc---cCCccccccCC
Q 022703           70 FVDKTSEAAKPISLE-V---PKAT---ADSEEAIDVDM  100 (293)
Q Consensus        70 FP~~Lvv~~~Rf~l~-~---p~K~---~~~~~~lDl~~  100 (293)
                      ||=.|.||++||+|+ |   -+||   +.+|+.|||+.
T Consensus       255 fpy~lt~~lkrfdfdy~tmhriklnd~~tfp~~l~ln~  292 (1203)
T KOG4598|consen  255 FPYLLTIQLKRFDFDYNTMHRIKLNDKMTFPDVLDLND  292 (1203)
T ss_pred             cceeeEEeeecccccchheeeeeecccccCcccccHHH
Confidence            999999999999999 3   7888   55899999964

>COG5207 UBP14 Isopeptidase T [Posttranslational modification, protein turnover, chaperones]

Probab=96.70  E-value=0.00073  Score=68.70  Aligned_cols=52  Identities=19%  Similarity=0.309  Sum_probs=44.1

Q ss_pred             cccCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhcCCCCCCCCCC
Q 022703          111 PEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPM  164 (293)
Q Consensus       111 ~~~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~dD~didep~~  164 (293)
                      .+||+..+..|.+|||..+.|++||..+++ +++.+++|++.|.|. .+++|..
T Consensus       618 keVdE~~~~Slle~Gln~n~~Rkal~~~n~-d~~r~V~w~~N~~D~-tF~EP~v  669 (749)
T COG5207         618 KEVDESKARSLLENGLNPNLCRKALMDMNT-DSKRRVVWCINDDDG-TFPEPEV  669 (749)
T ss_pred             ccccHHHHHHHHHcCCCHHHHHHHHHHccC-CchheEEEEEeCCCC-CCCCCCC
Confidence            368999999999999999999999988765 999999999996544 4666643

>KOG1866 consensus Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]

Probab=96.38  E-value=0.0003  Score=73.83  Aligned_cols=56  Identities=14%  Similarity=0.115  Sum_probs=48.3

Q ss_pred             hhhhccccCCCCCCCCCccccccccccccccccccchhhcccccccc--c--Cccc---cCCccccccCC
Q 022703           38 EAVLNLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLE--V--PKAT---ADSEEAIDVDM  100 (293)
Q Consensus        38 d~i~~~~C~~Cg~~~~~~~e~~~a~K~t~f~tFP~~Lvv~~~Rf~l~--~--p~K~---~~~~~~lDl~~  100 (293)
                      |-..-|.|..|.++       +.-+|+|.|+..|.+|+||++||.++  +  .+|-   +.+|-.||+..
T Consensus       262 EG~nAYhCeKCdeK-------~~TvkRt~ik~LPsvl~IqLkRF~yD~e~~~~iK~n~~frFP~~ldMeP  324 (944)
T KOG1866|consen  262 EGANAYHCEKCDEK-------VDTVKRTCIKKLPSVLAIQLKRFDYDWERECAIKFNDYFRFPRELDMEP  324 (944)
T ss_pred             cCcchhhhhhhhhh-------hHhHHHHHHhhCChhheehhhhccchhhhccccccchhcccchhhcCCc
Confidence            44456999999998       78899999999999999999999998  2  7777   66788899875

>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=96.25  E-value=0.011  Score=59.57  Aligned_cols=48  Identities=31%  Similarity=0.385  Sum_probs=42.9

Q ss_pred             ccccCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhcCCCC
Q 022703          110 EPEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPD  158 (293)
Q Consensus       110 ~~~~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~dD~d  158 (293)
                      ++.||...|++|+.|||+...|.-||..+|| +++.|+..|..+..++.
T Consensus       425 p~~vd~~~la~Lv~mGF~e~~A~~ALe~~gn-n~~~a~~~L~~s~~n~~  472 (568)
T KOG2561|consen  425 PEQVDGISLAELVSMGFEEGKARSALEAGGN-NEDTAQRLLSASVANEG  472 (568)
T ss_pred             CcccchhhHHHHHHhccccchHHHHHHhcCC-cHHHHHHHHHHhCCCCc
Confidence            4458999999999999999999999999888 89999999988877764

>cd02672 Peptidase_C19P A subfamily of Peptidase C19

Probab=96.20  E-value=0.0016  Score=61.01  Aligned_cols=39  Identities=21%  Similarity=0.137  Sum_probs=34.8

Q ss_pred             hhhccccCCCCCCCCCcccccccccccccccccc----chhhcccccccc
Q 022703           39 AVLNLVCATCGKPCRSKTETDLHRKRTGHTDFVD----KTSEAAKPISLE   84 (293)
Q Consensus        39 ~i~~~~C~~Cg~~~~~~~e~~~a~K~t~f~tFP~----~Lvv~~~Rf~l~   84 (293)
                      .+..+.|+.|+++       ..++|+++|.+||+    +|+||++||..+
T Consensus       131 ~~~~~~C~~C~~~-------~~a~k~~~i~~lP~~L~~VL~i~lkrf~~~  173 (268)
T cd02672         131 KVTKAWCDTCCKY-------QPLEQTTSIRHLPDILLLVLVINLSVTNGE  173 (268)
T ss_pred             hcccccccccCcc-------cccEEEEEeecCCCcccceEEEEEeccChh
Confidence            3557899999987       78999999999999    999999999854

Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.

>cd02257 Peptidase_C19 Peptidase C19 contains ubiquitinyl hydrolases

Probab=95.99  E-value=0.0032  Score=54.05  Aligned_cols=54  Identities=15%  Similarity=0.100  Sum_probs=43.4

Q ss_pred             hhhccccCCCC--CCCCCccccccccccccccccccchhhccccccccc---Cccc---cCCccccccC
Q 022703           39 AVLNLVCATCG--KPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEV---PKAT---ADSEEAIDVD   99 (293)
Q Consensus        39 ~i~~~~C~~Cg--~~~~~~~e~~~a~K~t~f~tFP~~Lvv~~~Rf~l~~---p~K~---~~~~~~lDl~   99 (293)
                      .+..+.|..|+  +.       ..+.++..|.++|++|+|++.||....   +.|+   +.+++.|++.
T Consensus       113 ~~~~~~~~~c~~~~~-------~~~~~~~~i~~lP~~L~i~l~R~~~~~~~~~~k~~~~v~~~~~l~~~  174 (255)
T cd02257         113 ILEGDNCYKCEKKKK-------QEATKRLKIKKLPPVLIIHLKRFSFNEDGTKEKLNTKVSFPLELDLS  174 (255)
T ss_pred             ccCCCCcccCCCCcc-------cceeEEEecccCCceeEEEeeceeeccccccccCCCeEeCCCcccCc
Confidence            35568899998  33       678899999999999999999999874   6666   5567777764

They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyse bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.

>TIGR00601 rad23 UV excision repair protein Rad23

Probab=95.83  E-value=0.014  Score=57.77  Aligned_cols=43  Identities=28%  Similarity=0.383  Sum_probs=39.2

Q ss_pred             cCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhcCC
Q 022703          113 VDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHEND  156 (293)
Q Consensus       113 ~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~dD  156 (293)
                      -+.++|+.|.+|||+++.+.-|-++++ +|-|.|.||||+|..|
T Consensus       336 eE~~AIeRL~~LGF~r~~viqaY~ACd-KNEelAAn~Lf~~~~~  378 (378)
T TIGR00601       336 EEKEAIERLCALGFDRGLVIQAYFACD-KNEELAANYLLSQNFD  378 (378)
T ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHhcC-CcHHHHHHHHHhhcCC
Confidence            377899999999999999999999886 5999999999999776

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).

>cd02669 Peptidase_C19M A subfamily of Peptidase C19

Probab=95.64  E-value=0.0037  Score=62.26  Aligned_cols=54  Identities=11%  Similarity=-0.104  Sum_probs=43.3

Q ss_pred             hhccccCCCCCCCCCccccccccccccccccccchhhccccccccc--Cccc---cCCccc-cccCC
Q 022703           40 VLNLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEV--PKAT---ADSEEA-IDVDM  100 (293)
Q Consensus        40 i~~~~C~~Cg~~~~~~~e~~~a~K~t~f~tFP~~Lvv~~~Rf~l~~--p~K~---~~~~~~-lDl~~  100 (293)
                      ...|.|+.|...       ..++|+..+...|++|+||.+||...+  ..|.   |.+|.. |||+.
T Consensus       309 L~ky~~~~c~~~-------~~a~k~~~I~~LP~vLiihLKRF~~~~~~~~K~~t~V~FP~~~LDm~~  368 (440)
T cd02669         309 LKKYDGKTETEL-------KDSLKRYLISRLPKYLIFHIKRFSKNNFFKEKNPTIVNFPIKNLDLSD  368 (440)
T ss_pred             HHhcCCccceec-------ccceEEEEEeeCCcEEEEEEecccCCCCccccCCCEEECCCCccchhh
Confidence            344999999875       567999999999999999999999875  3444   556764 78875

Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.

>COG5560 UBP12 Ubiquitin C-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]

Probab=95.43  E-value=0.0037  Score=65.00  Aligned_cols=68  Identities=16%  Similarity=0.050  Sum_probs=52.6

Q ss_pred             HHhccCC-----CC--cchhhhhccccCCCCCCCCCccccccccccccccccccchhhccccccccc--Cccc---cCC-
Q 022703           26 ELTSHSN-----FS--ESTEAVLNLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEV--PKAT---ADS-   92 (293)
Q Consensus        26 ~~TgH~~-----F~--e~~d~i~~~~C~~Cg~~~~~~~e~~~a~K~t~f~tFP~~Lvv~~~Rf~l~~--p~K~---~~~-   92 (293)
                      .+|+.-+     |+  |.......|+||.|+..       -.|+|+.-+-..|++|+||++||.-++  +.|.   |+. 
T Consensus       672 ~rtiTL~dCl~eFskpEqLgl~DswyCpgCkef-------rqasKqmelwrlP~iLiihLkRFss~rsfrdKiddlVeyP  744 (823)
T COG5560         672 ERTITLQDCLNEFSKPEQLGLSDSWYCPGCKEF-------RQASKQMELWRLPMILIIHLKRFSSVRSFRDKIDDLVEYP  744 (823)
T ss_pred             cCCCcHHHHHHHhccHhhcCCcccccCCchHhh-------hhhhhhhhhhcCChheeeehhhhhhcccchhhhhhhhccc
Confidence            5555443     65  33455567999999876       789999999999999999999999887  8888   443 


Q ss_pred             ccccccCC
Q 022703           93 EEAIDVDM  100 (293)
Q Consensus        93 ~~~lDl~~  100 (293)
                      -+.|||+.
T Consensus       745 iddldLs~  752 (823)
T COG5560         745 IDDLDLSG  752 (823)
T ss_pred             cccccccc
Confidence            34577774

>KOG1868 consensus Ubiquitin C-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]

Probab=95.35  E-value=0.0029  Score=66.29  Aligned_cols=75  Identities=16%  Similarity=0.159  Sum_probs=49.4

Q ss_pred             ceeecccCCccccCHHHHHHHHHHh---ccC------------CCCcc-hhhhhccccCCCCCCCCCccccccc--cccc
Q 022703            4 VSLKCGDCGALLRSVQEAQEHAELT---SHS------------NFSES-TEAVLNLVCATCGKPCRSKTETDLH--RKRT   65 (293)
Q Consensus         4 ~~LkC~~Cg~v~~~~~~aq~ha~~T---gH~------------~F~e~-~d~i~~~~C~~Cg~~~~~~~e~~~a--~K~t   65 (293)
                      ..|+|..||..-.+-.-.....-.-   |+.            ++.++ .|.-..|.||.|+.+       ...  +|+.
T Consensus       463 s~Lkc~~cg~~s~t~~~f~~lslpIp~~~~~~~~~~L~~C~~~ft~~ekle~~~~w~Cp~c~~~-------~~~~~lK~~  535 (653)
T KOG1868|consen  463 SYLKCQACGYTSTTFETFTDLSLPIPKKGFAGGKVSLEDCLSLFTKEEKLEGDEAWLCPRCKHK-------ESSKTLKKL  535 (653)
T ss_pred             hheehhhcCCcceeeecceeeEEecccccccccccchHhhhccccchhhcccccccCCccccCc-------cccccccee
Confidence            5799999999874443322222111   111            22222 233334999999987       222  5999


Q ss_pred             cccccccchhhccccccccc
Q 022703           66 GHTDFVDKTSEAAKPISLEV   85 (293)
Q Consensus        66 ~f~tFP~~Lvv~~~Rf~l~~   85 (293)
                      .|-.||++|+|+++||..+.
T Consensus       536 ~i~~lp~iLiihL~Rf~~~~  555 (653)
T KOG1868|consen  536 TILRLPKILIIHLKRFSSDG  555 (653)
T ss_pred             eeecCCHHHHHHHHHhccCc
Confidence            99999999999999999984

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

Probab=95.16  E-value=0.03  Score=54.33  Aligned_cols=40  Identities=38%  Similarity=0.588  Sum_probs=37.0

Q ss_pred             CHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhc
Q 022703          114 DKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHE  154 (293)
Q Consensus       114 ~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~  154 (293)
                      +.++++-|..|||++..+.-|.+++. .|-|.|.||||+|+
T Consensus       298 e~eAIeRL~alGF~ralViqayfACd-KNEelAAN~Ll~~~  337 (340)
T KOG0011|consen  298 EKEAIERLEALGFPRALVIQAYFACD-KNEELAANYLLSHS  337 (340)
T ss_pred             HHHHHHHHHHhCCcHHHHHHHHHhcC-ccHHHHHHHHHhhc
Confidence            66889999999999999999998875 58999999999999

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

Probab=94.64  E-value=0.041  Score=53.36  Aligned_cols=41  Identities=24%  Similarity=0.341  Sum_probs=37.2

Q ss_pred             cCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhc
Q 022703          113 VDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHE  154 (293)
Q Consensus       113 ~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~  154 (293)
                      ..+..|.+|++||+.+....+||++.=| |.++|++||+...
T Consensus       134 ~~e~~V~~Im~MGy~re~V~~AlRAafN-NPeRAVEYLl~GI  174 (340)
T KOG0011|consen  134 EYEQTVQQIMEMGYDREEVERALRAAFN-NPERAVEYLLNGI  174 (340)
T ss_pred             hhHHHHHHHHHhCccHHHHHHHHHHhhC-ChhhhHHHHhcCC
Confidence            4678899999999999999999999888 8999999998753

>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=94.10  E-value=0.17  Score=51.15  Aligned_cols=39  Identities=33%  Similarity=0.544  Sum_probs=35.1

Q ss_pred             cCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHH
Q 022703          113 VDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVE  152 (293)
Q Consensus       113 ~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~  152 (293)
                      ++.+-++.|++|||-+..|+.||+...+ +|+.|++||.+
T Consensus       302 i~d~~lsllv~mGfeesdaRlaLRsc~g-~Vd~AvqfI~e  340 (568)
T KOG2561|consen  302 INDETLSLLVGMGFEESDARLALRSCNG-DVDSAVQFIIE  340 (568)
T ss_pred             ccchHHHHHHHcCCCchHHHHHHHhccc-cHHHHHHHHHH
Confidence            6778899999999999999999998866 89999999843

>PF09288 UBA_3: Fungal ubiquitin-associated domain ; InterPro: IPR015368 This C-terminal domain is found in ubiquitin binding proteins, it adopts a structure consisting of a three alpha-helix bundle

Probab=93.81  E-value=0.063  Score=39.37  Aligned_cols=29  Identities=31%  Similarity=0.565  Sum_probs=22.1

Q ss_pred             ccCHHHHHHHHhCCCCHHHHHHHHHHhCC
Q 022703          112 EVDKELLKELEAMGFPVARATRALHYSGN  140 (293)
Q Consensus       112 ~~~~~~l~~L~~MGF~~~~a~kAL~~tgn  140 (293)
                      -+|.++|+++.+|||+.+.+..||+.-|=
T Consensus         7 Gi~~~lVd~F~~mGF~~dkVvevlrrlgi   35 (55)
T PF09288_consen    7 GIDKDLVDQFENMGFERDKVVEVLRRLGI   35 (55)
T ss_dssp             --SHHHHHHHHHHT--HHHHHHHHHHS--
T ss_pred             CCCHHHHHHHHHcCCcHHHHHHHHHHhCC
Confidence            36899999999999999999999998763

This domain is predominantly found in fungi []. ; PDB: 1TTE_A.

>COG1773 Rubredoxin [Energy production and conversion]

Probab=93.68  E-value=0.013  Score=42.89  Aligned_cols=42  Identities=19%  Similarity=0.455  Sum_probs=34.8

Q ss_pred             eeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCC
Q 022703            5 SLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGK   50 (293)
Q Consensus         5 ~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~   50 (293)
                      +.+|..||+|.....+...+.-. +-+-|.+.   -.++.||-||-
T Consensus         3 ~~~C~~CG~vYd~e~Gdp~~gi~-pgT~fedl---Pd~w~CP~Cg~   44 (55)
T COG1773           3 RWRCSVCGYVYDPEKGDPRCGIA-PGTPFEDL---PDDWVCPECGV   44 (55)
T ss_pred             ceEecCCceEeccccCCccCCCC-CCCchhhC---CCccCCCCCCC
Confidence            67999999999888887777766 55568888   57799999984

>PF00443 UCH: Ubiquitin carboxyl-terminal hydrolase; InterPro: IPR001394 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families

Probab=93.56  E-value=0.016  Score=50.77  Aligned_cols=47  Identities=13%  Similarity=0.292  Sum_probs=35.5

Q ss_pred             ccccCCCCCCCCCccccccccccccccccccchhhccccccccc----Cccc---cCCc-cccccCC
Q 022703           42 NLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEV----PKAT---ADSE-EAIDVDM  100 (293)
Q Consensus        42 ~~~C~~Cg~~~~~~~e~~~a~K~t~f~tFP~~Lvv~~~Rf~l~~----p~K~---~~~~-~~lDl~~  100 (293)
                      .+.|..|+..            ...|.++|++|+|+.+||.+..    ..|.   +.+| +.|||+.
T Consensus       142 ~~~c~~c~~~------------~~~~~~~P~~L~i~l~R~~~~~~~~~~~K~~~~v~~~~~~l~l~~  196 (269)
T PF00443_consen  142 SIKCSSCKNS------------QSSISSLPPILIIQLKRFEFDQETGRSKKINNPVEFPLEELDLSP  196 (269)
T ss_dssp             EEEETTTTCE------------EEEEEEBBSEEEEEEE-EEEESTSSEEEE--CEEB--SSEEEGGG
T ss_pred             cccccccccc------------ccccccccceeeeccccceeccccccccccccccccCchhhhhhh
Confidence            4789999883            7889999999999999996663    5666   6678 6899986

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. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to the MEROPS peptidase family C19 (ubiquitin-specific protease family, clan CA). Families within the CA clan are loosely termed papain-like as protein fold of the peptidase unit resembles that of papain, the type example for clan CA. Predicted active site residues for members of this family and family C1 occur in the same order in the sequence: N/Q, C, H. The type example is human ubiquitin-specific protease 14. Ubiquitin is highly conserved, commonly found conjugated to proteins in eukaryotic cells, where it may act as a marker for rapid degradation, or it may have a chaperone function in protein assembly []. The ubiquitin is released by cleavage from the bound protein by a protease []. A number of deubiquitinising proteases are known: all are activated by thiol compounds [, ], and inhibited by thiol-blocking agents and ubiquitin aldehyde [, ], and as such have the properties of cysteine proteases []. The deubiquitinsing proteases can be split into 2 size ranges (20-30 kDa, IPR001578 from INTERPRO, and 100-200 kDa) []: this family are the 100-200 kDa peptides which includes the Ubp1 ubiquitin peptidase from yeast. Only one conserved cysteine can be identified, along with two conserved histidines. The spacing between the cysteine and the second histidine is thought to be more representative of the cysteine/histidine spacing of a cysteine protease catalytic dyad [].; GO: 0004221 ubiquitin thiolesterase activity, 0006511 ubiquitin-dependent protein catabolic process; PDB: 2LBC_A 3MHH_A 3MHS_A 3M99_A 2Y6E_D 2VHF_A 2HD5_A 3NHE_A 2IBI_A 1NBF_B ....

>PF14555 UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A 2L4F_A 2DZL_A 2L2D_A 2DAM_A 1V92_A 3E21_A

Probab=92.66  E-value=0.34  Score=33.12  Aligned_cols=40  Identities=23%  Similarity=0.223  Sum_probs=29.4

Q ss_pred             HHHHHH-hCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhcCCC
Q 022703          117 LLKELE-AMGFPVARATRALHYSGNANVEAAVNWVVEHENDP  157 (293)
Q Consensus       117 ~l~~L~-~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~dD~  157 (293)
                      .|.+++ -.|.+...|...|..+++ +++.|++-.|++.++|
T Consensus         3 ~i~~F~~iTg~~~~~A~~~L~~~~w-dle~Av~~y~~~~~~~   43 (43)
T PF14555_consen    3 KIAQFMSITGADEDVAIQYLEANNW-DLEAAVNAYFDDGEAP   43 (43)
T ss_dssp             HHHHHHHHH-SSHHHHHHHHHHTTT--HHHHHHHHHHSS-S-
T ss_pred             HHHHHHHHHCcCHHHHHHHHHHcCC-CHHHHHHHHHhCCCCC
Confidence            344444 248899999999999887 9999999999987765

>smart00546 CUE Domain that may be involved in binding ubiquitin-conjugating enzymes (UBCs)

Probab=92.62  E-value=0.26  Score=33.46  Aligned_cols=37  Identities=35%  Similarity=0.532  Sum_probs=30.3

Q ss_pred             CHHHHHHHHhCCCCH---HHHHHHHHHhCCCCHHHHHHHHHH
Q 022703          114 DKELLKELEAMGFPV---ARATRALHYSGNANVEAAVNWVVE  152 (293)
Q Consensus       114 ~~~~l~~L~~MGF~~---~~a~kAL~~tgn~~~E~A~~WL~~  152 (293)
                      +.+.+.+|.+| ||.   ..+++.|...+| +++.|++-|++
T Consensus         2 ~~~~v~~L~~m-FP~l~~~~I~~~L~~~~g-~ve~~i~~LL~   41 (43)
T smart00546        2 NDEALHDLKDM-FPNLDEEVIKAVLEANNG-NVEATINNLLE   41 (43)
T ss_pred             hHHHHHHHHHH-CCCCCHHHHHHHHHHcCC-CHHHHHHHHHc
Confidence            46789999999 775   777888887665 89999999875

CUE domains also occur in two protein of the IL-1 signal transduction pathway, tollip and TAB2. Ponting (Biochem. J.) "Proteins of the Endoplasmic reticulum" (in press)

>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center

Probab=92.31  E-value=0.069  Score=34.76  Aligned_cols=25  Identities=32%  Similarity=0.821  Sum_probs=20.2

Q ss_pred             eecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCC
Q 022703            6 LKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKP   51 (293)
Q Consensus         6 LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~   51 (293)
                      .+|.+||++..+..                     ..+.||.||.+
T Consensus         2 ~~C~~CGy~y~~~~---------------------~~~~CP~Cg~~   26 (33)
T cd00350           2 YVCPVCGYIYDGEE---------------------APWVCPVCGAP   26 (33)
T ss_pred             EECCCCCCEECCCc---------------------CCCcCcCCCCc
Confidence            58999999876654                     45799999985

The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.

>KOG1863 consensus Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]

Probab=92.15  E-value=0.068  Score=59.32  Aligned_cols=88  Identities=14%  Similarity=0.023  Sum_probs=63.0

Q ss_pred             ceeecccCCccccCH----------HHHHHHHHHhccCCCCcc-hhhhhccccCCCCCCCCCcccccccccccccccccc
Q 022703            4 VSLKCGDCGALLRSV----------QEAQEHAELTSHSNFSES-TEAVLNLVCATCGKPCRSKTETDLHRKRTGHTDFVD   72 (293)
Q Consensus         4 ~~LkC~~Cg~v~~~~----------~~aq~ha~~TgH~~F~e~-~d~i~~~~C~~Cg~~~~~~~e~~~a~K~t~f~tFP~   72 (293)
                      ..+.|..|+.-....          .+.-. ...+.|.+|+.+ .+.... .|..|...       ..|.|...|.+||.
T Consensus       290 ~~i~c~~~~~~s~r~e~f~d~ql~~~g~~n-l~~sf~~y~~~E~l~gdn~-~~~~~~~~-------~~a~k~~~f~~lPp  360 (1093)
T KOG1863|consen  290 SVIKCIDVDFESSRSESFLDLQLNGKGVKN-LEDSLHLYFEAEILLGDNK-YDAECHGL-------QDAKKGVLFDSLPP  360 (1093)
T ss_pred             eEEEEEeeeeeccccccccCccccccchhh-HHHHHHHhhhHHHhcCCcc-ccccccch-------hhhhcceeeccCCc
Confidence            467888877655111          11112 555689999844 333332 79999875       67888999999999


Q ss_pred             chhhccccccccc----Cccc---cCCccccccCC
Q 022703           73 KTSEAAKPISLEV----PKAT---ADSEEAIDVDM  100 (293)
Q Consensus        73 ~Lvv~~~Rf~l~~----p~K~---~~~~~~lDl~~  100 (293)
                      +|.+++.||.++.    ++|+   ..+|..||++.
T Consensus       361 vl~~qL~Rf~~~~~~~~~~Ki~d~~~fp~~i~~d~  395 (1093)
T KOG1863|consen  361 VLFIQLMRFEYDFSTGQKIKINDKFEFPLIIDMDR  395 (1093)
T ss_pred             hhhhhhhheeeeccCCceeehhhccCCccccccch
Confidence            9999999999984    8888   44677888876

>PTZ00266 NIMA-related protein kinase; Provisional

Probab=91.95  E-value=2.5  Score=47.05  Aligned_cols=17  Identities=41%  Similarity=0.806  Sum_probs=8.0

Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 022703          249 AREKIRQKLEEDKAERRR  266 (293)
Q Consensus       249 ar~rir~qIe~Dk~eR~~  266 (293)
                      .++|++ .++.++.+|++
T Consensus       508 e~er~~-r~e~e~~e~~r  524 (1021)
T PTZ00266        508 ERERVD-RLERDRLEKAR  524 (1021)
T ss_pred             HHHHHH-HHHHHHHHHHH
Confidence            344443 34555555554

>cd02670 Peptidase_C19N A subfamily of Peptidase C19

Probab=91.49  E-value=0.068  Score=49.66  Aligned_cols=41  Identities=7%  Similarity=-0.137  Sum_probs=33.9

Q ss_pred             cccccccccccccchhhccccccccc--Cccc---cCCccccccCC
Q 022703           60 LHRKRTGHTDFVDKTSEAAKPISLEV--PKAT---ADSEEAIDVDM  100 (293)
Q Consensus        60 ~a~K~t~f~tFP~~Lvv~~~Rf~l~~--p~K~---~~~~~~lDl~~  100 (293)
                      .+.+...|..+|++|+||++||.+..  +.|+   |.+|..|||+.
T Consensus        88 ~~~~~e~i~~lP~vLiIhLKRF~~~~~~~~Kl~~~I~fP~~Ldl~~  133 (241)
T cd02670          88 QYFNNSVFAKAPSCLIICLKRYGKTEGKAQKMFKKILIPDEIDIPD  133 (241)
T ss_pred             HHhchhhhhhCCCeEEEEEEccccCCCcceeCCcEECCCCcCCchh
Confidence            34444459999999999999999975  7888   77888999986

Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.

>PF08882 Acetone_carb_G: Acetone carboxylase gamma subunit; InterPro: IPR014979 Acetone carboxylase is the key enzyme of bacterial acetone metabolism, catalysing the condensation of acetone and CO2 to form acetoacetate [] according to the following reaction: CH3COCH3 + CO2 + ATP = CH3COCH2COO- + AMP + 2P(i) + H+ It has the subunit composition: (alpha(2)beta(2)gamma(2) multimers of 85kDa, 78kDa, and 20kDa subunits)

Probab=90.76  E-value=0.11  Score=43.25  Aligned_cols=46  Identities=24%  Similarity=0.549  Sum_probs=28.8

Q ss_pred             ceeecccCCccccCHHH------------HH-HHHHHhccCCCCcc--hhhhhccccCCCCCC
Q 022703            4 VSLKCGDCGALLRSVQE------------AQ-EHAELTSHSNFSES--TEAVLNLVCATCGKP   51 (293)
Q Consensus         4 ~~LkC~~Cg~v~~~~~~------------aq-~ha~~TgH~~F~e~--~d~i~~~~C~~Cg~~   51 (293)
                      ..++| +||+.|-+-.+            .. .|.+- .-..|...  -..+.+|.||.||..
T Consensus        23 k~vkc-~CGh~f~d~r~NwK~~alv~vRd~~E~~~~i-Yp~~~aPdp~w~~irEyyCP~Cgt~   83 (112)
T PF08882_consen   23 KVVKC-DCGHEFCDARENWKLGALVYVRDPEEIHPEI-YPFTMAPDPEWQVIREYYCPGCGTQ   83 (112)
T ss_pred             ceeec-cCCCeecChhcChhhCcEEEecChHHhhhhh-cccccCCCCCcEEEEEEECCCCcce
Confidence            36788 89999933222            22 23222 34446533  366899999999985

It is expressed to high levels (17 to 25% of soluble protein) in cells grown with acetone as the carbon source but are not present at detectable levels in cells grown with other carbon sources []. Acetone carboxylase may enable Helicobacter pylori to survive off acetone in the stomach of humans and other mammals where it is the etiological agent of peptic ulcer disease []. This entry represents the family of gamma subunit-related acetone carboxylase proteins.

>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center

Probab=90.65  E-value=0.05  Score=39.03  Aligned_cols=43  Identities=19%  Similarity=0.480  Sum_probs=28.2

Q ss_pred             eeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCC
Q 022703            5 SLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKP   51 (293)
Q Consensus         5 ~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~   51 (293)
                      +.+|..||+|.....+-..+.-..| +.|...   -.+|+||.||.+
T Consensus         1 ~y~C~~CgyiYd~~~Gd~~~~i~pG-t~f~~L---p~~w~CP~C~a~   43 (50)
T cd00730           1 KYECRICGYIYDPAEGDPDEGIPPG-TPFEDL---PDDWVCPVCGAG   43 (50)
T ss_pred             CcCCCCCCeEECCCCCCcccCcCCC-CCHhHC---CCCCCCCCCCCc
Confidence            3689999999976554333333322 335555   456999999875

Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.

>PF02845 CUE: CUE domain; InterPro: IPR003892 This domain may be involved in binding ubiquitin-conjugating enzymes (UBCs)

Probab=90.31  E-value=0.9  Score=30.72  Aligned_cols=38  Identities=24%  Similarity=0.395  Sum_probs=30.3

Q ss_pred             HHHHHHHHhC--CCCHHHHHHHHHHhCCCCHHHHHHHHHHh
Q 022703          115 KELLKELEAM--GFPVARATRALHYSGNANVEAAVNWVVEH  153 (293)
Q Consensus       115 ~~~l~~L~~M--GF~~~~a~kAL~~tgn~~~E~A~~WL~~h  153 (293)
                      ++.+.+|.+|  .++......+|..++| +++.|++-|++.
T Consensus         2 ~~~v~~L~~mFP~~~~~~I~~~L~~~~~-~ve~ai~~LL~~   41 (42)
T PF02845_consen    2 EEMVQQLQEMFPDLDREVIEAVLQANNG-DVEAAIDALLEM   41 (42)
T ss_dssp             HHHHHHHHHHSSSS-HHHHHHHHHHTTT-THHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCCCHHHHHHHHHHcCC-CHHHHHHHHHcC
Confidence            5678899998  3556888888977766 899999999874

CUE domains also occur in two proteins of the IL-1 signal transduction pathway, tollip and TAB2.; GO: 0005515 protein binding; PDB: 2EKF_A 1OTR_A 1P3Q_Q 1MN3_A 1WGL_A 2EJS_A 2DAE_A 2DHY_A 2DI0_A.

>KOG1864 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]

Probab=90.20  E-value=0.081  Score=55.13  Aligned_cols=137  Identities=11%  Similarity=0.139  Sum_probs=85.6

Q ss_pred             ceeecccCCccccCHHHHHHHHHHhc---c-------CCCC--cchhhhhccccCCCCCCCCCccccccccccccccccc
Q 022703            4 VSLKCGDCGALLRSVQEAQEHAELTS---H-------SNFS--ESTEAVLNLVCATCGKPCRSKTETDLHRKRTGHTDFV   71 (293)
Q Consensus         4 ~~LkC~~Cg~v~~~~~~aq~ha~~Tg---H-------~~F~--e~~d~i~~~~C~~Cg~~~~~~~e~~~a~K~t~f~tFP   71 (293)
                      +..+|..|+++-.-.+..++.--.+.   +       .+|.  |......-|.|..|...       ..|.++.+++..|
T Consensus       391 ~et~Clsc~t~T~~de~f~D~~~~v~~de~~si~~~l~~~~~~e~l~g~nky~c~~c~s~-------qeae~~l~~k~lp  463 (587)
T KOG1864|consen  391 NETRCLSCETITSRDEGFLDLSVAVEIDENTSITNLLKSFSSTETLSGENKYSCENCCSL-------QEAERRLKIKKLP  463 (587)
T ss_pred             eeeeeccccccccccccccccceeccccccccHHHHHHHhcchhhccCCCcccccccCch-------hhHHHhccccCCc
Confidence            56789999998844443332222211   0       1232  22233456999999886       6899999999999


Q ss_pred             cchhhccccccccc----Cccc---cCCccccccCCCCCCCCcccccccCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHH
Q 022703           72 DKTSEAAKPISLEV----PKAT---ADSEEAIDVDMSGSQPEEMVEPEVDKELLKELEAMGFPVARATRALHYSGNANVE  144 (293)
Q Consensus        72 ~~Lvv~~~Rf~l~~----p~K~---~~~~~~lDl~~g~~~~Ee~~~~~~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E  144 (293)
                      .+|+|+.+||..+-    =+|+   +++|-.|++-...+.+   ..+..-..+++.++.+|-++++..+--+.--+    
T Consensus       464 ~~L~l~Lkrfk~~~~~~~~~kl~~~v~~plel~l~~~~~~~---~~~~~~Y~L~avVvH~G~~p~~GHYia~~r~~----  536 (587)
T KOG1864|consen  464 YVLTLHLKRFKYSEQQNRYTKLLYRVVFPLELRLKDTLKDD---NNPDRKYDLVAVVVHLGSTPNRGHYVAYVKSL----  536 (587)
T ss_pred             ceeeeehhccccccccccccccccccccccceeeccccccc---cCccceeeEEEEEEeccCCCCCcceEEEEeeC----
Confidence            99999999999984    3455   5556666665311111   11123456778888999999988864322111    


Q ss_pred             HHHHHHHHhcC
Q 022703          145 AAVNWVVEHEN  155 (293)
Q Consensus       145 ~A~~WL~~h~d  155 (293)
                       +.+||+-..|
T Consensus       537 -~~nWl~fdD~  546 (587)
T KOG1864|consen  537 -DFNWLLFDDD  546 (587)
T ss_pred             -CCCceecccc
Confidence             2239876433

>cd02665 Peptidase_C19I A subfamily of Peptidase C19

Probab=89.96  E-value=0.095  Score=48.33  Aligned_cols=37  Identities=8%  Similarity=0.048  Sum_probs=29.0

Q ss_pred             cccccccccccccchhhccccccccc--Cccc---cCCcccc
Q 022703           60 LHRKRTGHTDFVDKTSEAAKPISLEV--PKAT---ADSEEAI   96 (293)
Q Consensus        60 ~a~K~t~f~tFP~~Lvv~~~Rf~l~~--p~K~---~~~~~~l   96 (293)
                      .+.|+..|..+|++|+|+++||.+..  ..|+   +.+|..|
T Consensus       118 ~~~~~~~i~~lP~vL~i~LkRF~~~~~~~~Ki~~~v~FP~~l  159 (228)
T cd02665         118 KSGQERWFTELPPVLTFELSRFEFNQGRPEKIHDKLEFPQII  159 (228)
T ss_pred             hhhhhhhhhhCChhhEEEeEeeEEcCCccEECCEEEEeeCcc
Confidence            46778889999999999999999974  6666   4455433

Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.

>PHA02768 hypothetical protein; Provisional

Probab=89.57  E-value=0.37  Score=35.39  Aligned_cols=39  Identities=23%  Similarity=0.416  Sum_probs=32.2

Q ss_pred             CcceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCC
Q 022703            2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKP   51 (293)
Q Consensus         2 ~~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~   51 (293)
                      +-+-.+|..||+.+.....-+.|...  |+         ..|+|..||+-
T Consensus         2 ~~~~y~C~~CGK~Fs~~~~L~~H~r~--H~---------k~~kc~~C~k~   40 (55)
T PHA02768          2 ALLGYECPICGEIYIKRKSMITHLRK--HN---------TNLKLSNCKRI   40 (55)
T ss_pred             cccccCcchhCCeeccHHHHHHHHHh--cC---------CcccCCcccce
Confidence            44456999999999999888999987  66         25799999985

>KOG0163 consensus Myosin class VI heavy chain [Cytoskeleton]

Probab=89.53  E-value=5.4  Score=43.24  Aligned_cols=82  Identities=30%  Similarity=0.369  Sum_probs=42.0

Q ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHc------HHHHHHHH-HHHH
Q 022703          182 EIKLKAQELRERARKKKEEEEKRMEREREKERIRIGKELLEAKRIEEENERKRILALRKAE------KEEEKRAR-EKIR  254 (293)
Q Consensus       182 Ek~~k~~el~~k~r~~r~eeek~e~~e~E~~Rrk~GKe~~~~k~~~ee~e~k~~~e~rrrE------K~ee~~ar-~rir  254 (293)
                      |+..+++|+.+.-|+.|+.+|++...   .+--+..+.-+++|+++++.++++.-+.-++=      +.+..... .+-+
T Consensus       924 er~rk~qE~~E~ER~rrEaeek~rre---~ee~k~~k~e~e~kRK~eEeqr~~qee~e~~l~~e~q~qla~e~eee~k~q 1000 (1259)
T KOG0163|consen  924 ERLRKIQELAEAERKRREAEEKRRRE---EEEKKRAKAEMETKRKAEEEQRKAQEEEERRLALELQEQLAKEAEEEAKRQ 1000 (1259)
T ss_pred             HHHHHHHHHHHHHHHhhhhhHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45556777776666666655443332   23333344455677777776666554443331      11111111 1334


Q ss_pred             HHHHHHHHHHHH
Q 022703          255 QKLEEDKAERRR  266 (293)
Q Consensus       255 ~qIe~Dk~eR~~  266 (293)
                      .|++++|+.+.-
T Consensus      1001 ~~~Eqer~D~~l 1012 (1259)
T KOG0163|consen 1001 NQLEQERRDHEL 1012 (1259)
T ss_pred             hHHHHHHHHHHH
Confidence            557777777653

>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []

Probab=89.34  E-value=0.062  Score=38.10  Aligned_cols=43  Identities=23%  Similarity=0.532  Sum_probs=24.1

Q ss_pred             eeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCC
Q 022703            5 SLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKP   51 (293)
Q Consensus         5 ~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~   51 (293)
                      +.+|.+||+|-....+=-.+.-. --+-|.+.   -.+|+||.||..
T Consensus         1 ky~C~~CgyvYd~~~Gd~~~~i~-pGt~F~~L---p~~w~CP~C~a~   43 (47)
T PF00301_consen    1 KYQCPVCGYVYDPEKGDPENGIP-PGTPFEDL---PDDWVCPVCGAP   43 (47)
T ss_dssp             EEEETTTSBEEETTTBBGGGTB--TT--GGGS----TT-B-TTTSSB
T ss_pred             CcCCCCCCEEEcCCcCCcccCcC-CCCCHHHC---CCCCcCcCCCCc
Confidence            46899999999654432222111 22447766   456999999864

The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....

>PF13423 UCH_1: Ubiquitin carboxyl-terminal hydrolase

Probab=89.01  E-value=0.1  Score=48.76  Aligned_cols=53  Identities=19%  Similarity=0.156  Sum_probs=38.9

Q ss_pred             hccccCCCCCCCCCccccccccccccccccccchhhccccccccc--Cccc---cCCccccccCC
Q 022703           41 LNLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEV--PKAT---ADSEEAIDVDM  100 (293)
Q Consensus        41 ~~~~C~~Cg~~~~~~~e~~~a~K~t~f~tFP~~Lvv~~~Rf~l~~--p~K~---~~~~~~lDl~~  100 (293)
                      ....|+.|++.       ....-+..|.+.|++|+|++.+...+.  +.|.   +.+|..++++.
T Consensus       179 ~~a~C~~C~~~-------~~~~~~r~i~~LPpVL~In~~~~~~~~~w~~~~~~~~~ip~~i~~~~  236 (295)
T PF13423_consen  179 TRAWCEKCNKY-------QPTEQRRTIRSLPPVLSINLNRYSEEEFWPKKNWLKIWIPPSINLPH  236 (295)
T ss_pred             ccccccccccc-------cceeeeeeccCCCcEEEEEccCCCcccccccccCCceecceeeeccc
Confidence            34789999986       456667778999999999999988883  5444   44455565554

>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=88.84  E-value=7.4  Score=42.23  Aligned_cols=31  Identities=23%  Similarity=0.275  Sum_probs=20.5

Q ss_pred             CCHHHHHHHHHHhCCCCHHHHHHHHHHhcCC
Q 022703          126 FPVARATRALHYSGNANVEAAVNWVVEHEND  156 (293)
Q Consensus       126 F~~~~a~kAL~~tgn~~~E~A~~WL~~h~dD  156 (293)
                      .+-..|+-||-.+|=.....|-=|-++..|-
T Consensus       212 Lsg~qaR~aL~qS~Lpq~~LA~IW~LsDvd~  242 (1118)
T KOG1029|consen  212 LSGQQARSALGQSGLPQNQLAHIWTLSDVDG  242 (1118)
T ss_pred             cccHHHHHHHHhcCCchhhHhhheeeeccCC
Confidence            4556777788777655566677777665553

>KOG1870 consensus Ubiquitin C-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]

Probab=88.14  E-value=0.097  Score=56.65  Aligned_cols=57  Identities=9%  Similarity=0.059  Sum_probs=45.0

Q ss_pred             hhhhhccccCCCCCCCCCccccccccccccccccccchhhccccccccc--Cccc---cC-CccccccCC
Q 022703           37 TEAVLNLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEV--PKAT---AD-SEEAIDVDM  100 (293)
Q Consensus        37 ~d~i~~~~C~~Cg~~~~~~~e~~~a~K~t~f~tFP~~Lvv~~~Rf~l~~--p~K~---~~-~~~~lDl~~  100 (293)
                      .+.-..|.||.|.+.       ..|+|..-.-..|++||||.+||.+.+  .-|+   ++ +...||++.
T Consensus       711 L~~~~~w~C~~Cke~-------~~A~Kk~~lwrlPeiLiihLKrF~~~r~~~~k~~~~v~fPi~~ld~s~  773 (842)
T KOG1870|consen  711 LGKDDRWYCPQCKEL-------RQATKKLDLWRLPEILIIHLKRFQYSRESSSKVKTKVEFPLGSLDLSE  773 (842)
T ss_pred             CCccccccChHHHHH-------HHHhhhhhhhhCCceEEEEeecceeechhhhhhCccccCCCcCCCcch
Confidence            344456999999986       889999999999999999999999997  4444   44 345577665

>KOG0418 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]

Probab=87.78  E-value=0.57  Score=42.37  Aligned_cols=39  Identities=28%  Similarity=0.273  Sum_probs=33.1

Q ss_pred             cCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHH
Q 022703          113 VDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVE  152 (293)
Q Consensus       113 ~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~  152 (293)
                      .+...++.|.+|||+++.+..+|...+- +++.|.+.|++
T Consensus       161 ~~~~~v~~l~~mGf~~~~~i~~L~~~~w-~~~~a~~~~~s  199 (200)
T KOG0418|consen  161 WDKKKVDSLIEMGFSELEAILVLSGSDW-NLADATEQLLS  199 (200)
T ss_pred             hhHHHHHHHHHhcccHHHHHHHhhcccc-chhhhhHhhcc
Confidence            4778899999999999999999977654 78888887765

>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional

Probab=87.68  E-value=0.24  Score=42.18  Aligned_cols=46  Identities=22%  Similarity=0.412  Sum_probs=26.7

Q ss_pred             ceeecccCCccccCHHHHHHHHHHhccCCC--CcchhhhhccccCCCCCC
Q 022703            4 VSLKCGDCGALLRSVQEAQEHAELTSHSNF--SESTEAVLNLVCATCGKP   51 (293)
Q Consensus         4 ~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F--~e~~d~i~~~~C~~Cg~~   51 (293)
                      ....|.+||..+.... ++.+...+.++.|  ...+.. ..+.||.||+.
T Consensus        69 ~~~~C~~CG~~~~~~~-~~~~~~~~~~~~~~~~~~~~~-~~~~CP~Cgs~  116 (135)
T PRK03824         69 AVLKCRNCGNEWSLKE-VKESLDEEIREAIHFIPEVVH-AFLKCPKCGSR  116 (135)
T ss_pred             eEEECCCCCCEEeccc-ccccccccccccccccccccc-cCcCCcCCCCC
Confidence            5689999998876553 2222223344443  333211 23679999985

>PF07499 RuvA_C: RuvA, C-terminal domain; InterPro: IPR011114 In prokaryotes, RuvA, RuvB, and RuvC process the universal DNA intermediate of homologous recombination, termed Holliday junction

Probab=87.19  E-value=1.6  Score=30.43  Aligned_cols=32  Identities=25%  Similarity=0.361  Sum_probs=23.7

Q ss_pred             CHHHHHHHHhCCCCHHHHHHHHHHh---CCCCHHH
Q 022703          114 DKELLKELEAMGFPVARATRALHYS---GNANVEA  145 (293)
Q Consensus       114 ~~~~l~~L~~MGF~~~~a~kAL~~t---gn~~~E~  145 (293)
                      -++++..|++.||++..+.+|+...   .+.+++.
T Consensus         3 ~~d~~~AL~~LGy~~~e~~~av~~~~~~~~~~~e~   37 (47)
T PF07499_consen    3 LEDALEALISLGYSKAEAQKAVSKLLEKPGMDVEE   37 (47)
T ss_dssp             HHHHHHHHHHTTS-HHHHHHHHHHHHHSTTS-HHH
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHhhcCCCCCHHH
Confidence            3578999999999999999998765   3345553

The tetrameric DNA helicase RuvA specifically binds to the Holliday junction and facilitates the isomerization of the junction from the stacked folded configuration to the square-planar structure []. In the RuvA tetramer, each subunit consists of three domains, I, II and III, where I and II form the major core that is responsible for Holliday junction binding and base pair rearrangements of Holliday junction executed at the crossover point, whereas domain III regulates branch migration through direct contact with RuvB. The domain represents the C-terminal domain III of RuvA. This domain plays a significant role in the ATP-dependent branch migration of the hetero-duplex through direct contact with RuvB []. Within the Holliday junction, this domain makes no interaction with the DNA.; GO: 0005524 ATP binding, 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination, 0009379 Holliday junction helicase complex; PDB: 1HJP_A 1CUK_A 1C7Y_A 1IXS_A 1IXR_B 1BVS_E 2ZTC_A 2ZTD_B 2H5X_A.

>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A

Probab=85.76  E-value=0.18  Score=38.58  Aligned_cols=65  Identities=22%  Similarity=0.392  Sum_probs=23.0

Q ss_pred             ecccCCccccCHHHHHHHHHHhccCC-CCcc-------------hhhhhc-cccCCCCCCCCCccccccccccccccccc
Q 022703            7 KCGDCGALLRSVQEAQEHAELTSHSN-FSES-------------TEAVLN-LVCATCGKPCRSKTETDLHRKRTGHTDFV   71 (293)
Q Consensus         7 kC~~Cg~v~~~~~~aq~ha~~TgH~~-F~e~-------------~d~i~~-~~C~~Cg~~~~~~~e~~~a~K~t~f~tFP   71 (293)
                      +|..|+..+.+......|... -|.. +...             ...+.. +.|+.|++.+++...+..|..+.++..+.
T Consensus         1 ~C~~C~~~f~~~~~l~~H~~~-~H~~~~~~~~~l~~~~~~~~~~~~~~~~~~~C~~C~~~f~s~~~l~~Hm~~~~H~~~~   79 (100)
T PF12756_consen    1 QCLFCDESFSSVDDLLQHMKK-KHGFDIPDQKYLVDPNRLLNYLRKKVKESFRCPYCNKTFRSREALQEHMRSKHHKKRN   79 (100)
T ss_dssp             -------------------------------------------------SSEEBSSSS-EESSHHHHHHHHHHTTTTC-S
T ss_pred             Ccccccccccccccccccccc-ccccccccccccccccccccccccccCCCCCCCccCCCCcCHHHHHHHHcCccCCCcc
Confidence            699999999999999999976 5543 2210             022333 89999999988888888888887777654


Q ss_pred             c
Q 022703           72 D   72 (293)
Q Consensus        72 ~   72 (293)
                      .
T Consensus        80 ~   80 (100)
T PF12756_consen   80 S   80 (100)
T ss_dssp             -
T ss_pred             c
Confidence            3

>COG5077 Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]

Probab=84.78  E-value=0.36  Score=51.82  Aligned_cols=51  Identities=10%  Similarity=-0.059  Sum_probs=41.1

Q ss_pred             ccccCCCCCCCCCccccccccccccccccccchhhccccccccc----Cccc---cCCccccccCC
Q 022703           42 NLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEV----PKAT---ADSEEAIDVDM  100 (293)
Q Consensus        42 ~~~C~~Cg~~~~~~~e~~~a~K~t~f~tFP~~Lvv~~~Rf~l~~----p~K~---~~~~~~lDl~~  100 (293)
                      .|.|..-|-        .-|.|.--|.|||++|-+|++||..+.    -+|+   -.+|..+|+.+
T Consensus       358 ~Y~ae~~Gl--------qdAkKGViFeSlPpVlhlqLKRFeyDfe~d~mvKINDryEFP~eiDl~p  415 (1089)
T COG5077         358 RYNAEKHGL--------QDAKKGVIFESLPPVLHLQLKRFEYDFERDMMVKINDRYEFPLEIDLLP  415 (1089)
T ss_pred             ccccccccc--------hhhccceeeccCchHHHHHHHHhccccccCceeeecccccCcchhcccc
Confidence            355555554        578999999999999999999999985    6676   44788999876

>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=84.62  E-value=12  Score=40.79  Aligned_cols=19  Identities=16%  Similarity=0.298  Sum_probs=13.2

Q ss_pred             CHHHHHHHHhCCCCHHHHH
Q 022703          114 DKELLKELEAMGFPVARAT  132 (293)
Q Consensus       114 ~~~~l~~L~~MGF~~~~a~  132 (293)
                      .+.+-..|+--|.|.+.--
T Consensus       214 g~qaR~aL~qS~Lpq~~LA  232 (1118)
T KOG1029|consen  214 GQQARSALGQSGLPQNQLA  232 (1118)
T ss_pred             cHHHHHHHHhcCCchhhHh
Confidence            4556677888888876543

>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase

Probab=84.23  E-value=0.61  Score=30.68  Aligned_cols=26  Identities=27%  Similarity=0.653  Sum_probs=19.8

Q ss_pred             eeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCC
Q 022703            5 SLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKP   51 (293)
Q Consensus         5 ~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~   51 (293)
                      ..+|.+||.+..|..                     .-..||.||.+
T Consensus         2 ~~~C~~CG~i~~g~~---------------------~p~~CP~Cg~~   27 (34)
T cd00729           2 VWVCPVCGYIHEGEE---------------------APEKCPICGAP   27 (34)
T ss_pred             eEECCCCCCEeECCc---------------------CCCcCcCCCCc
Confidence            468999999987752                     11399999986

In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.

>smart00531 TFIIE Transcription initiation factor IIE

Probab=84.15  E-value=0.74  Score=39.41  Aligned_cols=37  Identities=22%  Similarity=0.541  Sum_probs=25.3

Q ss_pred             CcceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCC
Q 022703            2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKP   51 (293)
Q Consensus         2 ~~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~   51 (293)
                      +...+.|..||..+. ..+|..+..      +.      ..|.||.||..
T Consensus        96 ~~~~Y~Cp~C~~~y~-~~ea~~~~d------~~------~~f~Cp~Cg~~  132 (147)
T smart00531       96 NNAYYKCPNCQSKYT-FLEANQLLD------MD------GTFTCPRCGEE  132 (147)
T ss_pred             CCcEEECcCCCCEee-HHHHHHhcC------CC------CcEECCCCCCE
Confidence            456789999998887 445544321      11      23899999985

>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]

Probab=84.10  E-value=11  Score=41.14  Aligned_cols=13  Identities=23%  Similarity=0.465  Sum_probs=5.1

Q ss_pred             HHHHHHHHHHhHH
Q 022703          187 AQELRERARKKKE  199 (293)
Q Consensus       187 ~~el~~k~r~~r~  199 (293)
                      +..|++.+...++
T Consensus       216 v~~~qe~La~~qe  228 (1064)
T KOG1144|consen  216 VRAMQEALAKRQE  228 (1064)
T ss_pred             HHHHHHHHHHHHH
Confidence            3344444433333

>KOG0163 consensus Myosin class VI heavy chain [Cytoskeleton]

Probab=83.83  E-value=16  Score=39.75  Aligned_cols=55  Identities=35%  Similarity=0.401  Sum_probs=34.5

Q ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHH
Q 022703          208 EREKERIRIGKELLEAKRIEEENERKRILALRKAEKEEEKRAREKIRQKLEEDKAE  263 (293)
Q Consensus       208 e~E~~Rrk~GKe~~~~k~~~ee~e~k~~~e~rrrEK~ee~~ar~rir~qIe~Dk~e  263 (293)
                      +.|..||+.--+-..++.+++ ..+|.+-++++++++++...---|-+|++....+
T Consensus       941 Eaeek~rre~ee~k~~k~e~e-~kRK~eEeqr~~qee~e~~l~~e~q~qla~e~ee  995 (1259)
T KOG0163|consen  941 EAEEKRRREEEEKKRAKAEME-TKRKAEEEQRKAQEEEERRLALELQEQLAKEAEE  995 (1259)
T ss_pred             hhhHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHH
Confidence            444455555445445555444 3355555667778888888878888888777665

>PHA00732 hypothetical protein

Probab=83.71  E-value=1.3  Score=34.58  Aligned_cols=36  Identities=28%  Similarity=0.565  Sum_probs=29.7

Q ss_pred             eecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCCC
Q 022703            6 LKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPC   52 (293)
Q Consensus         6 LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~~   52 (293)
                      .+|..||..+.....-+.|... .|..          +.|+.||+.+
T Consensus         2 y~C~~Cgk~F~s~s~Lk~H~r~-~H~~----------~~C~~CgKsF   37 (79)
T PHA00732          2 FKCPICGFTTVTLFALKQHARR-NHTL----------TKCPVCNKSY   37 (79)
T ss_pred             ccCCCCCCccCCHHHHHHHhhc-ccCC----------CccCCCCCEe
Confidence            4799999999999999999875 4553          3799999974

>PF14353 CpXC: CpXC protein

Probab=82.61  E-value=0.75  Score=38.12  Aligned_cols=39  Identities=26%  Similarity=0.628  Sum_probs=22.5

Q ss_pred             eecccCCccccC-------HHHHHHHHHHhccCCCCcchhhhhccccCCCCCC
Q 022703            6 LKCGDCGALLRS-------VQEAQEHAELTSHSNFSESTEAVLNLVCATCGKP   51 (293)
Q Consensus         6 LkC~~Cg~v~~~-------~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~   51 (293)
                      |.|..||+.+.-       ...-.+.-++    -++++   ...++||+||..
T Consensus         2 itCP~C~~~~~~~v~~~I~~~~~p~l~e~----il~g~---l~~~~CP~Cg~~   47 (128)
T PF14353_consen    2 ITCPHCGHEFEFEVWTSINADEDPELKEK----ILDGS---LFSFTCPSCGHK   47 (128)
T ss_pred             cCCCCCCCeeEEEEEeEEcCcCCHHHHHH----HHcCC---cCEEECCCCCCc
Confidence            689999998811       1111111111    12333   567999999996

>PRK12332 tsf elongation factor Ts; Reviewed

Probab=82.43  E-value=2.5  Score=38.34  Aligned_cols=41  Identities=27%  Similarity=0.519  Sum_probs=35.2

Q ss_pred             cCHHHHHHHHh-CCCCHHHHHHHHHHhCCCCHHHHHHHHHHhc
Q 022703          113 VDKELLKELEA-MGFPVARATRALHYSGNANVEAAVNWVVEHE  154 (293)
Q Consensus       113 ~~~~~l~~L~~-MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~  154 (293)
                      ++..++..|-+ -|.+.-.|.+||..++| |++.|++||-.+.
T Consensus         3 i~a~~ik~LR~~tga~~~~ck~AL~~~~g-d~~~A~~~lr~~g   44 (198)
T PRK12332          3 ITAKLVKELREKTGAGMMDCKKALEEANG-DMEKAIEWLREKG   44 (198)
T ss_pred             CCHHHHHHHHHHHCCCHHHHHHHHHHcCC-CHHHHHHHHHHhh
Confidence            56678888875 58999999999999987 9999999998754

>KOG4364 consensus Chromatin assembly factor-I [Chromatin structure and dynamics]

Probab=81.30  E-value=70  Score=34.48  Aligned_cols=30  Identities=10%  Similarity=0.242  Sum_probs=13.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHcHHHHHHHHHH
Q 022703          223 AKRIEEENERKRILALRKAEKEEEKRAREK  252 (293)
Q Consensus       223 ~k~~~ee~e~k~~~e~rrrEK~ee~~ar~r  252 (293)
                      .++..+.++.++..+++|+.++++..-+++
T Consensus       301 lekd~KKqqkekEkeEKrrKdE~Ek~kKqe  330 (811)
T KOG4364|consen  301 LEKDIKKQQKEKEKEEKRRKDEQEKLKKQE  330 (811)
T ss_pred             HHHHHHHHHHHHHHHHHhhhhHHHHHHHHH
Confidence            333444444444455555544444444433

>PF02148 zf-UBP: Zn-finger in ubiquitin-hydrolases and other protein; InterPro: IPR001607 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=81.26  E-value=0.75  Score=33.81  Aligned_cols=44  Identities=20%  Similarity=0.277  Sum_probs=30.8

Q ss_pred             eeecccCCccccC---HHHHHHHHHHhccCCCCcchhhhhccccCCCCC
Q 022703            5 SLKCGDCGALLRS---VQEAQEHAELTSHSNFSESTEAVLNLVCATCGK   50 (293)
Q Consensus         5 ~LkC~~Cg~v~~~---~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~   50 (293)
                      ..-|..||.++=+   +.-|..|++.|||..|-...  .....|-.|+.
T Consensus        11 lw~CL~Cg~~~C~~~~~~Ha~~H~~~~~H~l~v~~~--~~~i~C~~C~~   57 (63)
T PF02148_consen   11 LWLCLTCGYVGCGRYSNGHALKHYKETGHPLAVSLS--TGSIWCYACDD   57 (63)
T ss_dssp             EEEETTTS-EEETTTSTSHHHHHHHHHT--EEEETT--TTCEEETTTTE
T ss_pred             eEEeCCCCcccccCCcCcHHHHhhcccCCeEEEECC--CCeEEEcCCCc
Confidence            4569999999955   47799999999999987663  23357777764

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents UBP-type zinc finger domains, which display some similarity with the Zn-binding domain of the insulinase family. The UBP-type zinc finger domain is found only in a small subfamily of ubiquitin C-terminal hydrolases (deubiquitinases or UBP) [, ], All members of this subfamily are isopeptidase-T, which are known to cleave isopeptide bonds between ubiquitin moieties. Some of the proteins containing an UBP zinc finger include: Homo sapiens (Human) deubiquitinating enzyme 13 (UBPD) Human deubiquitinating enzyme 5 (UBP5) Dictyostelium discoideum (Slime mold) deubiquitinating enzyme A (UBPA) Saccharomyces cerevisiae (Baker's yeast) deubiquitinating enzyme 8 (UBP8) Yeast deubiquitinating enzyme 14 (UBP14) More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3GV4_A 3PHD_B 3C5K_A 2UZG_A 3IHP_B 2G43_B 2G45_D 2I50_A 3MHH_A 3MHS_A ....

>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional

Probab=81.23  E-value=0.84  Score=37.70  Aligned_cols=27  Identities=22%  Similarity=0.495  Sum_probs=18.3

Q ss_pred             ceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCC
Q 022703            4 VSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKP   51 (293)
Q Consensus         4 ~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~   51 (293)
                      ..++|+.||..+.-..                     ..|.||.||+.
T Consensus        69 ~~~~C~~Cg~~~~~~~---------------------~~~~CP~Cgs~   95 (113)
T PRK12380         69 AQAWCWDCSQVVEIHQ---------------------HDAQCPHCHGE   95 (113)
T ss_pred             cEEEcccCCCEEecCC---------------------cCccCcCCCCC
Confidence            4678999995543211                     33679999985

>PRK09377 tsf elongation factor Ts; Provisional

Probab=80.53  E-value=3  Score=40.06  Aligned_cols=41  Identities=24%  Similarity=0.494  Sum_probs=35.7

Q ss_pred             cCHHHHHHHHh-CCCCHHHHHHHHHHhCCCCHHHHHHHHHHhc
Q 022703          113 VDKELLKELEA-MGFPVARATRALHYSGNANVEAAVNWVVEHE  154 (293)
Q Consensus       113 ~~~~~l~~L~~-MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~  154 (293)
                      ++..++..|-+ -|.+.-.|.+||..++| |++.|++||-.+.
T Consensus         4 is~~~IK~LR~~Tgagm~dCKkAL~e~~g-D~ekAi~~Lrk~G   45 (290)
T PRK09377          4 ITAALVKELRERTGAGMMDCKKALTEADG-DIEKAIEWLRKKG   45 (290)
T ss_pred             cCHHHHHHHHHHHCCCHHHHHHHHHHcCC-CHHHHHHHHHHhc
Confidence            56778888874 58999999999999987 9999999998764

>TIGR00116 tsf translation elongation factor Ts

Probab=80.47  E-value=3  Score=40.03  Aligned_cols=41  Identities=24%  Similarity=0.353  Sum_probs=35.6

Q ss_pred             cCHHHHHHHHh-CCCCHHHHHHHHHHhCCCCHHHHHHHHHHhc
Q 022703          113 VDKELLKELEA-MGFPVARATRALHYSGNANVEAAVNWVVEHE  154 (293)
Q Consensus       113 ~~~~~l~~L~~-MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~  154 (293)
                      ++..++..|-+ -|.+.-.|++||..++| |++.|++||-.+.
T Consensus         3 isa~~IK~LRe~Tgagm~dCKkAL~e~~g-DiekAi~~LRkkG   44 (290)
T TIGR00116         3 ITAQLVKELRERTGAGMMDCKKALTEANG-DFEKAIKNLRESG   44 (290)
T ss_pred             CCHHHHHHHHHHHCCCHHHHHHHHHHcCC-CHHHHHHHHHHhc
Confidence            56778888875 58999999999999988 9999999998764

This protein is found in Bacteria, mitochondria, and chloroplasts.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	293
2dag_A	74	Ubiquitin carboxyl-terminal hydrolase 5; isopeptid	1e-22
1vek_A	84	UBP14, ubiquitin-specific protease 14, putative; U	9e-22
1whc_A	64	RSGI RUH-027, UBA/UBX 33.3 kDa protein; UBA domain	1e-21
2crn_A	64	Ubash3A protein; compact three-helix bundle, struc	4e-21
2dai_A	83	Ubadc1, ubiquitin associated domain containing 1;	5e-19
2dak_A	63	Ubiquitin carboxyl-terminal hydrolase 5; isopeptid	2e-15
2cpw_A	64	CBL-interacting protein STS-1 variant; ubiquitin a	7e-15
3ihp_A	854	Ubiquitin carboxyl-terminal hydrolase 5; hydrolase	2e-13
3ihp_A	854	Ubiquitin carboxyl-terminal hydrolase 5; hydrolase	2e-07
1wiv_A	73	UBP14, ubiquitin-specific protease 14; ubiquitin a	2e-11
2lbc_A	126	Ubiquitin carboxyl-terminal hydrolase 13; tandem U	2e-11
2lbc_A	126	Ubiquitin carboxyl-terminal hydrolase 13; tandem U	2e-07
3by4_A	212	OTU1, ubiquitin thioesterase OTU1; ubiquitin hydro	1e-08
3lvg_D	190	LCB, clathrin light chain B; SELF assembly, coated	4e-07
3lvg_D	190	LCB, clathrin light chain B; SELF assembly, coated	1e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-07
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	1e-05
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	2e-05
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	2e-04
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	2e-05
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	1e-04
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	2e-04
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	3e-04
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	3e-04
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	4e-04
2zuo_A	861	MVP, major vault protein; repeat domains, protein-	3e-05
2zuo_A	861	MVP, major vault protein; repeat domains, protein-	8e-04
4ae4_A	118	Ubiquitin-associated protein 1; protein transport,	6e-05
1g8x_A	1010	Myosin II heavy chain fused to alpha-actinin 3; mo	6e-05
1g8x_A	1010	Myosin II heavy chain fused to alpha-actinin 3; mo	1e-04
1w1w_A	430	Structural maintenance of chromosome 1; cohesin, c	1e-04
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	5e-04

>2dag_A Ubiquitin carboxyl-terminal hydrolase 5; isopeptidase T, ubiquitin specific protease 5 (USP 5), UBA domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 74

 Score = 88.1 bits (218), Expect = 1e-22
 Identities = 26/68 (38%), Positives = 43/68 (63%)

Query: 110 EPEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPVSG 169
              +D+ ++ +L  MGFP+    +A++Y+GN+  EAA+NWV+ H +DPD     ++P S 
Sbjct: 5   SSGLDESVIIQLVEMGFPMDACRKAVYYTGNSGAEAAMNWVMSHMDDPDFANPLILPGSS 64

Query: 170 GGGASKSS 177
           G G+S  S
Sbjct: 65  GPGSSGPS 72

>1vek_A UBP14, ubiquitin-specific protease 14, putative; UBA domain, three helix bundle, ubiquitin associated domain, structural genomics; NMR {Arabidopsis thaliana} SCOP: a.5.2.1 Length = 84

 Score = 86.1 bits (213), Expect = 9e-22
 Identities = 25/71 (35%), Positives = 39/71 (54%)

Query: 99  DMSGSQPEEMVEPEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPD 158
           D    +  E  +P  ++E++ +L +MGF      +A   + NA VE A+NW++ H +DPD
Sbjct: 14  DGVPEEVMESAQPVANEEIVAQLVSMGFSQLHCQKAAINTSNAGVEEAMNWLLSHMDDPD 73

Query: 159 IDEMPMVPVSG 169
           ID     P SG
Sbjct: 74  IDAPISGPSSG 84

>1whc_A RSGI RUH-027, UBA/UBX 33.3 kDa protein; UBA domain, structural genomics, riken structural genomics/proteomics initiative, unknown function; NMR {Mus musculus} SCOP: a.5.2.1 Length = 64

 Score = 84.8 bits (210), Expect = 1e-21
 Identities = 27/60 (45%), Positives = 38/60 (63%)

Query: 110 EPEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPVSG 169
               +   L+ L  MGFP  RA +AL  +GN  +EAA++W++EHE+DPD+DE    P SG
Sbjct: 5   SSGAELTALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPLSGPSSG 64

>2crn_A Ubash3A protein; compact three-helix bundle, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.5.2.1 Length = 64

 Score = 83.7 bits (207), Expect = 4e-21
 Identities = 24/60 (40%), Positives = 32/60 (53%)

Query: 110 EPEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPVSG 169
                  LL+ L AMGFPV  A +AL  +G    E A+ W+ +H NDP +D+    P SG
Sbjct: 5   SSGSSPSLLEPLLAMGFPVHTALKALAATGRKTAEEALAWLHDHCNDPSLDDPISGPSSG 64

>2dai_A Ubadc1, ubiquitin associated domain containing 1; UBA domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 83

 Score = 78.7 bits (194), Expect = 5e-19
 Identities = 28/83 (33%), Positives = 43/83 (51%), Gaps = 3/83 (3%)

Query: 87  KATADSEEAIDVDMSGSQPEEMVEPEVDKELLKELEAMGFPVARATRALHYSGNANVEAA 146
            ++ D+ E        +  +E  +  VD+  L++L  MGFP  RAT+AL  +   +V  A
Sbjct: 4   GSSGDAVELFKKA--NAMLDEDEDERVDEAALRQLTEMGFPENRATKALQLNHM-SVPQA 60

Query: 147 VNWVVEHENDPDIDEMPMVPVSG 169
           + W++EH  DP ID     P SG
Sbjct: 61  MEWLIEHAEDPTIDTPLSGPSSG 83

>2dak_A Ubiquitin carboxyl-terminal hydrolase 5; isopeptidase T, ubiquitin specific protease 5, USP 5, UBA domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 63

 Score = 68.2 bits (167), Expect = 2e-15
 Identities = 17/59 (28%), Positives = 31/59 (52%), Gaps = 1/59 (1%)

Query: 111 PEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPVSG 169
               ++ +  + +MGF   +A +AL  + N ++E AV+W+  H +D D +     P SG
Sbjct: 6   SGPPEDCVTTIVSMGFSRDQALKALRATNN-SLERAVDWIFSHIDDLDAEAAMSGPSSG 63

>2cpw_A CBL-interacting protein STS-1 variant; ubiquitin associated domain, UBA, compact three helix bundle, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.5.2.1 Length = 64

 Score = 67.3 bits (164), Expect = 7e-15
 Identities = 18/57 (31%), Positives = 27/57 (47%)

Query: 101 SGSQPEEMVEPEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDP 157
           SG   ++          L  L +MGFP ARA +AL  +G  +V+ A +W+  H    
Sbjct: 6   SGRNRQQRPGTIKHGSALDVLLSMGFPRARAQKALASTGGRSVQTACDWLFSHSGPS 62

>3ihp_A Ubiquitin carboxyl-terminal hydrolase 5; hydrolase, protease, thiol protease, UBL conjugation pathway, metal-binding, zinc-finger,structural genomics; 2.80A {Homo sapiens} Length = 854

 Score = 69.5 bits (169), Expect = 2e-13
 Identities = 31/111 (27%), Positives = 52/111 (46%), Gaps = 1/111 (0%)

Query: 82  SLEVPKATADSEEAIDVDMSGSQPEEMVEPEVDKELLKELEAMGFPVARATRALHYSGNA 141
            L         EE  D+      P+E   P +D+ ++ +L  MGFP+    +A++Y+GN+
Sbjct: 620 QLRGTGLQPGEEELPDIAPPLVTPDEPKAPMLDESVIIQLVEMGFPMDACRKAVYYTGNS 679

Query: 142 NVEAAVNWVVEHENDPDIDEMPMVPVSGGGGASKSSLTPEEIKLKAQELRE 192
             EAA+NWV+ H +DPD    P++     G  S S+      +     +  
Sbjct: 680 GAEAAMNWVMSHMDDPDFAN-PLILPGSSGPGSTSAAADPPPEDCVTTIVS 729

>3ihp_A Ubiquitin carboxyl-terminal hydrolase 5; hydrolase, protease, thiol protease, UBL conjugation pathway, metal-binding, zinc-finger,structural genomics; 2.80A {Homo sapiens} Length = 854

 Score = 51.1 bits (121), Expect = 2e-07
 Identities = 23/111 (20%), Positives = 42/111 (37%), Gaps = 1/111 (0%)

Query: 72  DKTSEAAKPISLEVPKATADSEEAIDVDMSGSQPEEMVEPEVDKELLKELEAMGFPVARA 131
           +  +EAA    +        +   I    SG            ++ +  + +MGF   +A
Sbjct: 678 NSGAEAAMNWVMSHMDDPDFANPLILPGSSGPGSTSAAADPPPEDCVTTIVSMGFSRDQA 737

Query: 132 TRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPVSGGGGASKSSLTPEE 182
            +AL  + N ++E AV+W+  H +D D +    +        S S   P  
Sbjct: 738 LKALRATNN-SLERAVDWIFSHIDDLDAEAAMDISEGRSAADSISESVPVG 787

>1wiv_A UBP14, ubiquitin-specific protease 14; ubiquitin associated domain, UBA domain, three helix bundle, structural genomics; NMR {Arabidopsis thaliana} SCOP: a.5.2.1 Length = 73

 Score = 57.9 bits (140), Expect = 2e-11
 Identities = 16/62 (25%), Positives = 27/62 (43%), Gaps = 5/62 (8%)

Query: 97  DVDMSGSQPEEMVEPEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHEND 156
           D+D   S        ++D+  +  L + GF    A +AL  SG  ++E A +WV  +   
Sbjct: 16  DIDAPISHQT----SDIDQSSVDTLLSFGFAEDVARKALKASGG-DIEKATDWVFNNSGP 70

Query: 157 PD 158
             
Sbjct: 71  SS 72

>2lbc_A Ubiquitin carboxyl-terminal hydrolase 13; tandem UBA of USP13; NMR {Homo sapiens} Length = 126

 Score = 59.5 bits (143), Expect = 2e-11
 Identities = 18/55 (32%), Positives = 33/55 (60%)

Query: 112 EVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVP 166
           ++D+  + +L  MGFP+    +A++++GN   E A NW++ H  +PD  E   +P
Sbjct: 1   DIDESSVMQLAEMGFPLEACRKAVYFTGNMGAEVAFNWIIVHMEEPDFAEPLTMP 55

>2lbc_A Ubiquitin carboxyl-terminal hydrolase 13; tandem UBA of USP13; NMR {Homo sapiens} Length = 126

 Score = 48.4 bits (114), Expect = 2e-07
 Identities = 13/60 (21%), Positives = 30/60 (50%), Gaps = 1/60 (1%)

Query: 103 SQPEEMVEPEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEM 162
                 ++ +  +E++  + +MGF   +A +AL  + N N+E A++W+  H    +  + 
Sbjct: 67  VFGASGLDNQPPEEIVAIITSMGFQRNQAIQALRATNN-NLERALDWIFSHPEFEEDSDF 125

>3by4_A OTU1, ubiquitin thioesterase OTU1; ubiquitin hydrolase, deubiquitinase, cell cycle, hydrolase; 1.55A {Saccharomyces cerevisiae} PDB: 3c0r_A Length = 212

 Score = 53.4 bits (128), Expect = 1e-08
 Identities = 10/36 (27%), Positives = 15/36 (41%)

Query: 1   MAGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSES 36
                +KC  C       +E   HAE T H +F ++
Sbjct: 176 THKAQIKCNTCQMTFVGEREVARHAESTGHVDFGQN 211

>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} Length = 190

 Score = 48.6 bits (115), Expect = 4e-07
 Identities = 18/74 (24%), Positives = 33/74 (44%), Gaps = 4/74 (5%)

Query: 180 PEEIKLKAQELRERARKKKEEEEKRMEREREKERIRIGKELLEAKRIEEENERKRILALR 239
           PE I+   +E R+R ++     +   +  REK +    K+L E  + + E   K  +  R
Sbjct: 84  PESIRKWREEQRKRLQELDAASKVMEQEWREKAK----KDLEEWNQRQSEQVEKNKINNR 139

Query: 240 KAEKEEEKRAREKI 253
            A+K   ++    I
Sbjct: 140 IADKAFYQQPDADI 153

>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} Length = 190

 Score = 40.9 bits (95), Expect = 1e-04
 Identities = 14/73 (19%), Positives = 34/73 (46%), Gaps = 10/73 (13%)

Query: 195 RKKKEEEEKRMEREREKERIRIGKELLEAKRIEEENERKRILALRKAEKEEEKRAREKIR 254
           R  +E E  R  RE +++R+         + ++  ++        KA+K+ E+  + +  
Sbjct: 79  RLTQEPESIRKWREEQRKRL---------QELDAASKVMEQEWREKAKKDLEEWNQ-RQS 128

Query: 255 QKLEEDKAERRRR 267
           +++E++K   R  
Sbjct: 129 EQVEKNKINNRIA 141

>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 = 7e-07
 Identities = 40/333 (12%), Positives = 81/333 (24%), Gaps = 123/333 (36%)

Query: 67  HTDFVDKTSEAAKPISLEVPKATADSEEAIDVDMSGSQPEEMVEPEVDKELLKELEAMGF 126
           H DF  +T E       +     +  E+A   +      ++M +  + KE +  +     
Sbjct: 6   HMDF--ETGE----HQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKD 59

Query: 127 PVARATR---ALHYSGNANVEAAV--------NWVVE-------------------HE-- 154
            V+   R    L       V+  V         +++                     +  
Sbjct: 60  AVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRL 119

Query: 155 -NDPDI----------------------DEMPMVPVSGGGGASKSSL------------- 178
            ND  +                           V + G  G+ K+ +             
Sbjct: 120 YNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCK 179

Query: 179 --------------TPEEIKLKAQELRERARKKKEEEEKRMERER-----EKERIRIGKE 219
                         +PE +    Q+L  +               +      +  +R    
Sbjct: 180 MDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELR---R 236

Query: 220 LLEAKR----------------IEEENERKRILAL-RKAE-------KEEEKRAREKIRQ 255
           LL++K                     N   +IL   R  +             + +    
Sbjct: 237 LLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSM 296

Query: 256 KLEEDKAER--RRRLGLPPED-PATTKSSAPVV 285
            L  D+ +    + L   P+D P    ++ P  
Sbjct: 297 TLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRR 329

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 45.6 bits (108), Expect = 1e-05
 Identities = 19/88 (21%), Positives = 33/88 (37%), Gaps = 1/88 (1%)

Query: 181 EEIKLKAQELRERARKKKEEEEKRMEREREKERIRIGKELLEAKRIEEENERKRILALRK 240
           ++     +E      K + E E   E E  + R+   K+ LE + + E   R      R 
Sbjct: 885 QKHTQLCEEKNLLQEKLQAETELYAEAEEMRVRLAAKKQELE-EILHEMEARIEEEEERS 943

Query: 241 AEKEEEKRAREKIRQKLEEDKAERRRRL 268
            + + EK+  ++    LEE   E     
Sbjct: 944 QQLQAEKKKMQQQMLDLEEQLEEEEAAR 971

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 44.8 bits (106), Expect = 2e-05
 Identities = 19/101 (18%), Positives = 39/101 (38%), Gaps = 5/101 (4%)

Query: 173 ASKSSLTPEEIKLKAQELRERARKKKEEEEKRMEREREKERIRIGKELLEAKRIEEENER 232
              + L  E+  L+ +   E     + EE +     +++E   I  E+      EEE  +
Sbjct: 885 QKHTQLCEEKNLLQEKLQAETELYAEAEEMRVRLAAKKQELEEILHEMEARIEEEEERSQ 944

Query: 233 KRILALRKAEKEEEK-----RAREKIRQKLEEDKAERRRRL 268
           +     +K +++           E  RQKL+ +K     ++
Sbjct: 945 QLQAEKKKMQQQMLDLEEQLEEEEAARQKLQLEKVTADGKI 985

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 41.7 bits (98), Expect = 2e-04
 Identities = 14/88 (15%), Positives = 37/88 (42%), Gaps = 1/88 (1%)

Query: 181 EEIKLKAQELRERARKKKEEEEKRMEREREKERIRIGKELLEAKRIEEENERKRILALRK 240
           E     A + +E      E E +  E E   ++++  K+ ++ +++ +  E+       +
Sbjct: 913 EMRVRLAAKKQELEEILHEMEARIEEEEERSQQLQAEKKKMQ-QQMLDLEEQLEEEEAAR 971

Query: 241 AEKEEEKRAREKIRQKLEEDKAERRRRL 268
            + + EK   +   +K+E+D      + 
Sbjct: 972 QKLQLEKVTADGKIKKMEDDILIMEDQN 999

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 44.7 bits (106), Expect = 2e-05
 Identities = 24/90 (26%), Positives = 42/90 (46%), Gaps = 3/90 (3%)

Query: 181  EEIKLKAQELRERARKKK--EEEEKRMEREREKERIRIGKELLEAKRIEEENERKRILAL 238
            EEI    +EL +   +KK  EE   + + E E+    + ++    K  +EE  R+     
Sbjct: 991  EEIAKLRKELHQTQTEKKTIEEWADKYKHETEQLVSELKEQNTLLKTEKEELNRRIHDQA 1050

Query: 239  RKAEKEEEKRAREKIRQKLEEDKAERRRRL 268
            ++  +  EK+  E+ +Q LE D  + R R 
Sbjct: 1051 KEITETMEKKLVEETKQ-LELDLNDERLRY 1079

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 42.4 bits (100), Expect = 1e-04
 Identities = 11/94 (11%), Positives = 33/94 (35%), Gaps = 2/94 (2%)

Query: 175 KSSLTPEEIKLKAQELRERARKKKEEEEKRMEREREKERIRIGKELLEAKRIEEENERKR 234
           ++ L    ++ K Q +    +    ++  R    R      +   +           ++ 
Sbjct: 846 QALLRGYLVRNKYQMMLREHKSIIIQKHVRGWLARVHYHRTLKAIVYLQCCYRRMMAKRE 905

Query: 235 ILALRKAEKEEEKRAREKIRQKLEEDKAERRRRL 268
           +  L+   +  E+   +K+   LE    + +R++
Sbjct: 906 LKKLKIEARSVERY--KKLHIGLENKIMQLQRKI 937

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 42.0 bits (99), Expect = 2e-04
 Identities = 17/99 (17%), Positives = 40/99 (40%), Gaps = 5/99 (5%)

Query: 175  KSSLTPEEIKLKAQE----LRERARKKKEEEEKRMEREREKERIRIGKELLEAKRIEEEN 230
            + + + E  KL++      + E   K        ++ E  K R  + +   E K IEE  
Sbjct: 955  EITYSTETEKLRSDVERLRMSEEEAKNATNRVLSLQEEIAKLRKELHQTQTEKKTIEEWA 1014

Query: 231  ER-KRILALRKAEKEEEKRAREKIRQKLEEDKAERRRRL 268
            ++ K       +E +E+    +  +++L     ++ + +
Sbjct: 1015 DKYKHETEQLVSELKEQNTLLKTEKEELNRRIHDQAKEI 1053

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 41.6 bits (98), Expect = 3e-04
 Identities = 14/84 (16%), Positives = 33/84 (39%), Gaps = 9/84 (10%)

Query: 185 LKAQELRERARKKKEEEEKRMEREREKERIRIGKELLEAKRIEEENERKRILALRKAEKE 244
           +  Q    R   K+E ++ ++E    +   ++    LE K ++        L  +  E+ 
Sbjct: 891 VYLQCCYRRMMAKRELKKLKIEARSVERYKKL-HIGLENKIMQ--------LQRKIDEQN 941

Query: 245 EEKRAREKIRQKLEEDKAERRRRL 268
           +E ++  +    LE   +    +L
Sbjct: 942 KEYKSLLEKMNNLEITYSTETEKL 965

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 41.2 bits (97), Expect = 3e-04
 Identities = 14/80 (17%), Positives = 31/80 (38%), Gaps = 1/80 (1%)

Query: 188 QELRERARKKKEEEEKRMEREREKERIRIGKELLEAKRIEEENERKRILALRKAEKEEEK 247
           Q +R+     +      + R + +  +R  K ++  K +     R       KA    + 
Sbjct: 836 QCMRDATIALQALLRGYLVRNKYQMMLREHKSIIIQKHVRGWLARVHYHRTLKAIVYLQC 895

Query: 248 RAREKI-RQKLEEDKAERRR 266
             R  + +++L++ K E R 
Sbjct: 896 CYRRMMAKRELKKLKIEARS 915

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 40.9 bits (96), Expect = 4e-04
 Identities = 16/89 (17%), Positives = 39/89 (43%), Gaps = 2/89 (2%)

Query: 181  EEIKLKAQELRERARKKKEEEEKRM-EREREKERIRIGKELLEAKRIEEENERKRILALR 239
                 + ++L      K  + ++++ E+ +E + +      LE     E  + +  +   
Sbjct: 913  ARSVERYKKLHIGLENKIMQLQRKIDEQNKEYKSLLEKMNNLEITYSTETEKLRSDVERL 972

Query: 240  KAEKEEEKRAREKIRQKLEEDKAERRRRL 268
            +  +EE K A  ++   L+E+ A+ R+ L
Sbjct: 973  RMSEEEAKNATNRVLS-LQEEIAKLRKEL 1000

>2zuo_A MVP, major vault protein; repeat domains, protein-protein complex, cytoplasm, ribonucleoprotein, structural protein; 3.50A {Rattus norvegicus} PDB: 2zv4_N 2zv5_a 2qzv_A Length = 861

 Score = 44.4 bits (104), Expect = 3e-05
 Identities = 18/87 (20%), Positives = 33/87 (37%)

Query: 181 EEIKLKAQELRERARKKKEEEEKRMEREREKERIRIGKELLEAKRIEEENERKRILALRK 240
            EI   +QE   +   ++ E+E R   ER+K   +   E    + +E E     + +   
Sbjct: 662 IEITTNSQEAAAKHEAQRLEQEARGRLERQKILDQSEAEKARKELLELEAMSMAVESTGN 721

Query: 241 AEKEEEKRAREKIRQKLEEDKAERRRR 267
           A+ E E RA     +        + + 
Sbjct: 722 AKAEAESRAEAARIEGEGSVLQAKLKA 748

>2zuo_A MVP, major vault protein; repeat domains, protein-protein complex, cytoplasm, ribonucleoprotein, structural protein; 3.50A {Rattus norvegicus} PDB: 2zv4_N 2zv5_a 2qzv_A Length = 861

 Score = 39.8 bits (92), Expect = 8e-04
 Identities = 15/87 (17%), Positives = 31/87 (35%), Gaps = 1/87 (1%)

Query: 181 EEIKLKAQELRERARKKKEEEEKRMERER-EKERIRIGKELLEAKRIEEENERKRILALR 239
            E + + +  R++   + E E+ R E    E   + +          E   E  RI    
Sbjct: 680 LEQEARGRLERQKILDQSEAEKARKELLELEAMSMAVESTGNAKAEAESRAEAARIEGEG 739

Query: 240 KAEKEEEKRAREKIRQKLEEDKAERRR 266
              + + K     I  + E ++ ++ R
Sbjct: 740 SVLQAKLKAQALAIETEAELERVKKVR 766

>4ae4_A Ubiquitin-associated protein 1; protein transport, endosomal sorting, tetherin, VPU, HIV-1, monoubiquitin; HET: NHE; 1.65A {Homo sapiens} PDB: 4ae4_B* Length = 118

 Score = 40.7 bits (95), Expect = 6e-05
 Identities = 8/47 (17%), Positives = 23/47 (48%), Gaps = 1/47 (2%)

Query: 114 DKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDID 160
           +++ ++ +  MG+      RA+  +G  N+E  ++++  H    +  
Sbjct: 8   ERQCVETVVNMGYSYECVLRAMKAAGA-NIEQILDYLFAHGQLCEKG 53

>1g8x_A Myosin II heavy chain fused to alpha-actinin 3; motor, lever ARM, protein engineering, structural protein; HET: ADP; 2.80A {Dictyostelium discoideum} SCOP: k.1.1.1 Length = 1010

 Score = 43.5 bits (103), Expect = 6e-05
 Identities = 10/96 (10%), Positives = 25/96 (26%)

Query: 173 ASKSSLTPEEIKLKAQELRERARKKKEEEEKRMEREREKERIRIGKELLEAKRIEEENER 232
           A+  S+     +        +A+ K  E      +  E +       +L        N  
Sbjct: 902 ATTKSVYLGSNETGDSITAVQAKLKNLEAFDGECQSLEGQSNSDLLSILAQLTELNYNGV 961

Query: 233 KRILALRKAEKEEEKRAREKIRQKLEEDKAERRRRL 268
             +   +     ++    +   +  +        RL
Sbjct: 962 PELTERKDTFFAQQWTGVKSSAETYKNTLLAELERL 997

>1g8x_A Myosin II heavy chain fused to alpha-actinin 3; motor, lever ARM, protein engineering, structural protein; HET: ADP; 2.80A {Dictyostelium discoideum} SCOP: k.1.1.1 Length = 1010

 Score = 42.3 bits (100), Expect = 1e-04
 Identities = 12/95 (12%), Positives = 31/95 (32%), Gaps = 2/95 (2%)

Query: 172  GASKSSLTPEEIKLKAQELR-ERARKKKEEEEKRMEREREKERIRIGKELLEAKRIEEEN 230
            G S +++  +   L+A +   +    +   +   +  +  +       EL E K      
Sbjct: 915  GDSITAVQAKLKNLEAFDGECQSLEGQSNSDLLSILAQLTELNYNGVPELTERKD-TFFA 973

Query: 231  ERKRILALRKAEKEEEKRAREKIRQKLEEDKAERR 265
            ++   +       +    A  +  QK+E+      
Sbjct: 974  QQWTGVKSSAETYKNTLLAELERLQKIEDLHHHHH 1008

>1w1w_A Structural maintenance of chromosome 1; cohesin, chromosome segregation, cell adhesion, kleisin, MIT cell cycle; HET: ATG; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.12 Length = 430

 Score = 42.4 bits (100), Expect = 1e-04
 Identities = 19/96 (19%), Positives = 42/96 (43%), Gaps = 1/96 (1%)

Query: 172 GASKSSLTPEEIKLKAQELRERARKKKEEEEKRMEREREKERIRIGKELLEAKRIEEENE 231
           G+ +     EE+K K ++L + A  +  +  +R+  E +  +    + L +  R    +E
Sbjct: 174 GSIQYKKEYEELKEKIEKLSKSA-TESIKNRRRIHGELKTYKSPGLEVLFQGPRGSRYDE 232

Query: 232 RKRILALRKAEKEEEKRAREKIRQKLEEDKAERRRR 267
            +    +   E E+ K   +KI  +  + K +R+  
Sbjct: 233 AEGRFEVINNETEQLKAEEKKILNQFLKIKKKRKEL 268

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens} Length = 427

 Score = 40.1 bits (93), Expect = 5e-04
 Identities = 18/88 (20%), Positives = 41/88 (46%), Gaps = 1/88 (1%)

Query: 180 PEEIKLKAQELRERARKKKEEEEKRMEREREKERIRIGKELLEAKRIEEENERKRILALR 239
           P+      QE  E  R +   E ++ E E  +  ++  KE     +  E+   ++   L+
Sbjct: 313 PDSKPFSLQETYEAKRNEFLGELQKKEEEMRQMFVQRVKEKEAELKEAEKELHEKFDRLK 372

Query: 240 KAEKEEEKRAREKIRQKLEEDKAERRRR 267
           K  ++E+K+  +K +  L+++    ++R
Sbjct: 373 KLHQDEKKKLEDKKKS-LDDEVNAFKQR 399

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	293
3ihp_A	854	Ubiquitin carboxyl-terminal hydrolase 5; hydrolase	99.86
2crn_A	64	Ubash3A protein; compact three-helix bundle, struc	99.76
1vek_A	84	UBP14, ubiquitin-specific protease 14, putative; U	99.7
2dag_A	74	Ubiquitin carboxyl-terminal hydrolase 5; isopeptid	99.69
1whc_A	64	RSGI RUH-027, UBA/UBX 33.3 kDa protein; UBA domain	99.65
2dai_A	83	Ubadc1, ubiquitin associated domain containing 1;	99.64
2dak_A	63	Ubiquitin carboxyl-terminal hydrolase 5; isopeptid	99.64
2lbc_A	126	Ubiquitin carboxyl-terminal hydrolase 13; tandem U	99.55
2cpw_A	64	CBL-interacting protein STS-1 variant; ubiquitin a	99.5
1wgn_A	63	UBAP1, ubiquitin associated protein; ubiquitin ass	99.44
1wji_A	63	Tudor domain containing protein 3; UBA domain, str	99.41
1wiv_A	73	UBP14, ubiquitin-specific protease 14; ubiquitin a	99.33
2ekk_A	47	UBA domain from E3 ubiquitin-protein ligase HUWE1;	99.32
1dv0_A	47	DNA repair protein HHR23A; helical bundle, DNA bin	99.3
2dkl_A	85	Trinucleotide repeat containing 6C protein; TNRC6C	99.27
2g3q_A	43	Protein YBL047C; endocytosis, solution structure,	99.26
4ae4_A	118	Ubiquitin-associated protein 1; protein transport,	99.25
1veg_A	83	NEDD8 ultimate buster-1; ubiquitin associated doma	99.24
2cos_A	54	Serine/threonine protein kinase LATS2; UBA domain,	99.21
2lbc_A	126	Ubiquitin carboxyl-terminal hydrolase 13; tandem U	99.18
1ify_A	49	HHR23A, UV excision repair protein RAD23 homolog A	99.13
2jy5_A	52	Ubiquilin-1; UBA, alternative splicing, cytoplasm,	99.04
1vg5_A	73	RSGI RUH-014, rhomboid family protein; UBA domain,	99.02
2knz_A	53	Ubiquilin-4; cytoplasm, endoplasmic reticulum, nuc	99.01
1z96_A	40	DNA-damage, UBA-domain protein MUD1; ubiquitin, th	98.92
2dah_A	54	Ubiquilin-3; UBA domain, structural genomics, NPPS	98.83
2bwb_A	46	Ubiquitin-like protein DSK2; UBA, signaling protei	98.81
2dna_A	67	Unnamed protein product; ubiquitin associated doma	98.81
1vej_A	74	Riken cDNA 4931431F19; UBA domain, three helix bun	98.77
1wr1_B	58	Ubiquitin-like protein DSK2; UBA domain, UBA-ubiqu	98.74
4ae4_A	118	Ubiquitin-associated protein 1; protein transport,	98.61
1oqy_A	368	HHR23A, UV excision repair protein RAD23 homolog A	98.49
2ooa_A	52	E3 ubiquitin-protein ligase CBL-B; alpha-helical d	98.37
2cwb_A	108	Chimera of immunoglobulin G binding protein G and	98.31
3i3t_A	355	Ubiquitin carboxyl-terminal hydrolase 21; hydrolas	98.27
2juj_A	56	E3 ubiquitin-protein ligase CBL; alpha helix, UBA	98.25
2d9s_A	53	CBL E3 ubiquitin protein ligase; UBA domain, dimer	98.22
1oqy_A	368	HHR23A, UV excision repair protein RAD23 homolog A	98.2
2ayn_A	404	Ubiquitin carboxyl-terminal hydrolase 14; deubiqui	98.16
2y6e_A	367	Ubiquitin carboxyl-terminal hydrolase 4; HET: CME;	98.12
1vjv_A	415	Ubiquitin carboxyl-terminal hydrolase 6; YFR010W,	98.11
2oo9_A	46	E3 ubiquitin-protein ligase CBL; alpha-helical dom	98.03
3mhs_A	476	Ubiquitin carboxyl-terminal hydrolase 8; multi-pro	97.98
3nhe_A	348	Ubiquitin carboxyl-terminal hydrolase 2; cysteine	97.97
2gfo_A	396	Ubiquitin carboxyl-terminal hydrolase 8; protease,	97.96
2cp8_A	54	NEXT to BRCA1 gene 1 protein; UBA domain, structur	97.79
1nb8_A	353	Ubiquitin carboxyl-terminal hydrolase 7; UBP, deub	97.78
3ihp_A	854	Ubiquitin carboxyl-terminal hydrolase 5; hydrolase	97.77
1wiv_A	73	UBP14, ubiquitin-specific protease 14; ubiquitin a	97.77
3k9o_A	201	Ubiquitin-conjugating enzyme E2 K; E2-25K, complex	97.68
2qsf_X	171	RAD23, UV excision repair protein RAD23; alpha-bet	97.62
2f1z_A	522	Ubiquitin carboxyl-terminal hydrolase 7; hausp, US	97.58
1wj7_A	104	Hypothetical protein (RSGI RUH-015); UBA domain, u	97.38
3e46_A	253	Ubiquitin-conjugating enzyme E2-25 kDa; huntington	96.11
1wgl_A	59	TOLL-interacting protein; CUE domain, structural g	95.06
2eps_A	54	POZ-, at HOOK-, and zinc finger-containing protein	94.2
2cp9_A	64	EF-TS, EF-TSMT, elongation factor TS, mitochondria	94.18
2dmi_A	115	Teashirt homolog 3; zinc finger protein 537, struc	93.25
6rxn_A	46	Rubredoxin; electron transfer(iron-sulfur protein)	93.12
2drp_A	66	Protein (tramtrack DNA-binding domain); protein-DN	92.85
2ct1_A	77	Transcriptional repressor CTCF; CCCTC-BINDING fact	92.51
2d9h_A	78	Zinc finger protein 692; ZF-C2H2 domain, structura	92.3
4gzn_C	60	ZFP-57, zinc finger protein 57; transcription-DNA	92.14
1bbo_A	57	Human enhancer-binding protein MBP-1; DNA-binding	92.02
1x6e_A	72	Zinc finger protein 24; ZNF24, KOX17, ZNF191, zsca	91.72
2ghf_A	102	ZHX1, zinc fingers and homeoboxes protein 1; C2H2	91.64
3uk3_C	57	Zinc finger protein 217; transcription factor, DNA	91.49
2epr_A	48	POZ-, at HOOK-, and zinc finger-containing protein	91.35
2lce_A	74	B-cell lymphoma 6 protein; structural genomics, no	91.27
2epq_A	45	POZ-, at HOOK-, and zinc finger-containing protein	91.18
2adr_A	60	ADR1; transcription regulation, zinc finger,; NMR	91.17
1x5w_A	70	Zinc finger protein 64, isoforms 1; ZNF338, nuclea	91.04
2dhy_A	67	CUE domain-containing protein 1; structural genomi	90.68
2ctd_A	96	Zinc finger protein 512; zinc binding, two ZF-C2H2	90.42
1q02_A	52	Sequestosome 1; helical bundle, protein binding; N	90.36
2yt9_A	95	Zinc finger-containing protein 1; C2H2, structural	89.96
1x6h_A	86	Transcriptional repressor CTCF; zinc finger protei	89.66
2gqj_A	98	Zinc finger protein KIAA1196; ZF-C2H2 like domain,	89.57
2kn9_A	81	Rubredoxin; metalloprotein, ssgcid, structural gen	89.38
2cot_A	77	Zinc finger protein 435; ADK_LID domain, zinc fing	89.08
1yk4_A	52	Rubredoxin, RD; electron transport; 0.69A {Pyrococ	89.06
4rxn_A	54	Rubredoxin; electron transfer(iron-sulfur protein)	89.04
2lv2_A	85	Insulinoma-associated protein 1; structural genomi	88.8
1e8j_A	52	Rubredoxin; iron-sulfur-protein, zinc-substitution	88.69
1vd4_A	62	Transcription initiation factor IIE, alpha subunit	88.01
3a43_A	139	HYPD, hydrogenase nickel incorporation protein HYP	87.86
2v3b_B	55	Rubredoxin 2, rubredoxin; alkane degradation, iron	87.54
1s24_A	87	Rubredoxin 2; electron transport; NMR {Pseudomonas	87.0
2yt9_A	95	Zinc finger-containing protein 1; C2H2, structural	86.94
2dmd_A	96	Zinc finger protein 64, isoforms 1 and 2; ZNF338,	86.89
2ee8_A	106	Protein ODD-skipped-related 2; zinc binding, ZF-C2	86.26
1dx8_A	70	Rubredoxin; electron transport, zinc-substitution;	86.14
1a1h_A	90	QGSR zinc finger peptide; complex (zinc finger/DNA	85.99
1wjp_A	107	Zinc finger protein 295; ZF-C2H2 domain, zinc bind	85.91
2dlq_A	124	GLI-kruppel family member HKR3; ZF-C2H2 domain, st	85.26
2kmk_A	82	Zinc finger protein GFI-1; tandem repeat zinc fing	85.25
2ee8_A	106	Protein ODD-skipped-related 2; zinc binding, ZF-C2	84.87
2dmd_A	96	Zinc finger protein 64, isoforms 1 and 2; ZNF338,	84.82
2eod_A	66	TNF receptor-associated factor 4; zinc binding, NF	84.8
1otr_A	49	Protein CUE2; protein-protein complex, cell cycle;	84.77
2csh_A	110	Zinc finger protein 297B; ZF-C2H2 domain, zinc fin	84.73
2ytk_A	46	Zinc finger protein 347; ZF-C2H2, structural genom	84.58
1llm_C	88	Chimera of ZIF23-GCN4; dimerization, DNA recogniti	84.53
2wbt_A	129	B-129; zinc finger; 2.70A {Sulfolobus virus 1}	84.53
2dlq_A	124	GLI-kruppel family member HKR3; ZF-C2H2 domain, st	84.43
2emy_A	46	Zinc finger protein 268; ZF-C2H2, structural genom	84.28
2pwq_A	216	Ubiquitin conjugating enzyme; structural genomics	84.1
2epx_A	47	Zinc finger protein 28 homolog; C2H2, zinc finger	83.99
2kmk_A	82	Zinc finger protein GFI-1; tandem repeat zinc fing	83.6
2ema_A	46	Zinc finger protein 347; ZF-C2H2, structural genom	83.34
2rpc_A	155	Zinc finger protein ZIC 3; ZF-C2H2, zinc finger pr	82.93
2eov_A	46	Zinc finger protein 484; ZF-C2H2, structural genom	82.75
2el6_A	46	Zinc finger protein 268; alternative splicing, DNA	82.74
2emm_A	46	ZFP-95, zinc finger protein 95 homolog; ZF-C2H2, s	82.59
2csh_A	110	Zinc finger protein 297B; ZF-C2H2 domain, zinc fin	82.55
2epw_A	46	Zinc finger protein 268; C2H2, zinc finger domain,	82.46
2dlk_A	79	Novel protein; ZF-C2H2 domain, zinc finger protein	82.46
2em5_A	46	ZFP-95, zinc finger protein 95 homolog; ZF-C2H2, s	82.41
2enc_A	46	Zinc finger protein 224; ZF-C2H2, structural genom	82.38
2ytd_A	46	Zinc finger protein 473; ZF-C2H2, structural genom	82.35
2emx_A	44	Zinc finger protein 268; ZF-C2H2, structural genom	82.3
2emh_A	46	Zinc finger protein 484; ZF-C2H2, structural genom	82.29
2eml_A	46	Zinc finger protein 28 homolog; ZF-C2H2, structura	82.24
2emf_A	46	Zinc finger protein 484; ZF-C2H2, structural genom	82.03
1f2i_G	73	Fusion of N-terminal 17-MER peptide extension to Z	82.03
2emk_A	46	Zinc finger protein 28 homolog; ZF-C2H2, structura	81.92
1wjp_A	107	Zinc finger protein 295; ZF-C2H2 domain, zinc bind	81.92
2yso_A	46	ZFP-95, zinc finger protein 95 homolog; ZF-C2H2, s	81.9
2eoo_A	46	ZFP-95, zinc finger protein 95 homolog; ZF-C2H2, s	81.89
2ytj_A	46	Zinc finger protein 484; ZF-C2H2, structural genom	81.85
2eme_A	46	Zinc finger protein 473; ZF-C2H2, structural genom	81.67
2ep2_A	46	Zinc finger protein 484; ZF-C2H2, structural genom	81.61
2en6_A	46	Zinc finger protein 268; ZF-C2H2, structural genom	81.55
2en8_A	46	Zinc finger protein 224; ZF-C2H2, structural genom	81.55
2eop_A	46	Zinc finger protein 268; ZF-C2H2, structural genom	81.44
2ej4_A	95	Zinc finger protein ZIC 3; ZF-C2H2 domain, zinc bi	81.44
2kdx_A	119	HYPA, hydrogenase/urease nickel incorporation prot	81.37
2em7_A	46	Zinc finger protein 224; ZF-C2H2, structural genom	81.36
2eoe_A	46	Zinc finger protein 347; ZF-C2H2, structural genom	81.32
2em0_A	46	Zinc finger protein 224; DNA-binding, metal-bindin	81.25
2ytn_A	46	Zinc finger protein 347; ZF-C2H2, structural genom	81.21
2el4_A	46	Zinc finger protein 268; alternative splicing, DNA	81.21
2eq4_A	46	Zinc finger protein 224; C2H2, zinc finger domain,	81.19
2eoq_A	46	Zinc finger protein 224; ZF-C2H2, structural genom	81.19
2lt7_A	133	Transcriptional regulator kaiso; zinc finger, doub	80.86
2ene_A	46	Zinc finger protein 347; ZF-C2H2, structural genom	80.63
2ep0_A	46	Zinc finger protein 28 homolog; ZF-C2H2, structura	80.56
2epz_A	46	Zinc finger protein 28 homolog; C2H2, zinc finger	80.53
2em8_A	46	Zinc finger protein 224; ZF-C2H2, structural genom	80.49
2emp_A	46	Zinc finger protein 347; ZF-C2H2, structural genom	80.34
2ytq_A	46	Zinc finger protein 268; ZF-C2H2, structural genom	80.11
2eq0_A	46	Zinc finger protein 347; C2H2, zinc finger domain,	80.07

>3ihp_A Ubiquitin carboxyl-terminal hydrolase 5; hydrolase, protease, thiol protease, UBL conjugation pathway, metal-binding, zinc-finger,structural genomics; 2.80A {Homo sapiens}

Probab=99.86  E-value=6.1e-23  Score=215.30  Aligned_cols=121  Identities=27%  Similarity=0.478  Sum_probs=102.7

Q ss_pred             hhc-cccCCCCCCCCCccccccccccccccccccchhhccccccccc---Cccc---cCCccccccCC--CCC--CCCcc
Q 022703           40 VLN-LVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEV---PKAT---ADSEEAIDVDM--SGS--QPEEM  108 (293)
Q Consensus        40 i~~-~~C~~Cg~~~~~~~e~~~a~K~t~f~tFP~~Lvv~~~Rf~l~~---p~K~---~~~~~~lDl~~--g~~--~~Ee~  108 (293)
                      .++ |+|+.|+.+       +.|+|++.|.+||++|+||++||.++.   +.|+   |.+|..|||+.  +.+  ++|+.
T Consensus       560 ~Le~y~C~~C~~k-------~~a~K~~~i~~lP~vLiihLkRF~~d~~~~~~Ki~~~V~FP~~LDl~~y~~~~~q~~E~~  632 (854)
T 3ihp_A          560 QVDDFWSTALQAK-------SVAVKTTRFASFPDYLVIQIKKFTFGLDWVPKKLDVSIEMPEELDISQLRGTGLQPGEEE  632 (854)
T ss_dssp             EEEEEEETTTTEE-------EEEEEEEEESSCCSEEEEEECCEEECGGGCEEECCEECCCCSEEECGGGBCCCSCTTCCB
T ss_pred             EeeeeeccccCCc-------ceeeEEEEeeeCCceEEEEeehheecCCCceEECCeEEecCCcEehHHhccCCCCCCcee
Confidence            344 999999987       789999999999999999999999963   8898   77899999987  333  66552


Q ss_pred             --------------cccccCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhcCCCCCCCCCCCCC
Q 022703          109 --------------VEPEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPV  167 (293)
Q Consensus       109 --------------~~~~~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~dD~didep~~~~~  167 (293)
                                    ..+.+|+++|++|++|||+.++|.+||+.|||.+++.||+|||+||+|+||++|+..+.
T Consensus       633 lp~~~~~~~~~~~~~~~~~d~~~l~~L~~mGf~~~~~~kal~~t~n~~~e~a~~wl~~hmdd~di~~p~~~~~  705 (854)
T 3ihp_A          633 LPDIAPPLVTPDEPKAPMLDESVIIQLVEMGFPMDACRKAVYYTGNSGAEAAMNWVMSHMDDPDFANPLILPG  705 (854)
T ss_dssp             CCCC----------------CHHHHHHHHHTCCHHHHHHHHHHTTSCCHHHHHHHHHHHTTSCGGGSCCCCC-
T ss_pred             cccccccccccccccccCcCHHHHHHHHhcCCCHHHHHHHHhhcCCCchHHHhHHHhhccCcccccccccccc
Confidence                          13457999999999999999999999999999999999999999999999999998764

>2crn_A Ubash3A protein; compact three-helix bundle, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=99.76  E-value=5.9e-19  Score=131.04  Aligned_cols=58  Identities=40%  Similarity=0.620  Sum_probs=53.7

Q ss_pred             cccCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhcCCCCCCCCCCCCCC
Q 022703          111 PEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPVS  168 (293)
Q Consensus       111 ~~~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~dD~didep~~~~~~  168 (293)
                      ..+|++.|.+|++|||++++|.+||++|||.+++.||+|||+|++|||||+|+..|.+
T Consensus         6 ~~~~e~~v~~L~~MGF~~~~a~~AL~~t~n~~~e~A~~wL~~h~~d~d~d~p~~~~~~   63 (64)
T 2crn_A            6 SGSSPSLLEPLLAMGFPVHTALKALAATGRKTAEEALAWLHDHCNDPSLDDPISGPSS   63 (64)
T ss_dssp             CCCSCSSHHHHHHTSCCHHHHHHHHHHHTSCCHHHHHHHHHHHSSSTTSCCSCCCCSC
T ss_pred             CCCCHHHHHHHHHcCCCHHHHHHHHHHhCCCCHHHHHHHHHhCCCCccccCCCCCCCC
Confidence            3467888999999999999999999999999999999999999999999999987754

>1vek_A UBP14, ubiquitin-specific protease 14, putative; UBA domain, three helix bundle, ubiquitin associated domain, structural genomics; NMR {Arabidopsis thaliana} SCOP: a.5.2.1

Probab=99.70  E-value=2.8e-17  Score=128.04  Aligned_cols=59  Identities=37%  Similarity=0.638  Sum_probs=54.7

Q ss_pred             ccccCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhcCCCCCCCCCCCCCC
Q 022703          110 EPEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPVS  168 (293)
Q Consensus       110 ~~~~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~dD~didep~~~~~~  168 (293)
                      .+.+|++.|.+|++|||++++|++||++|+|.|++.|++|||+|++|++||+|+..+++
T Consensus        25 ~~~~~e~~v~~L~~MGF~~~~a~~AL~~t~n~n~e~A~ewL~~h~~d~d~d~p~~~~~~   83 (84)
T 1vek_A           25 QPVANEEIVAQLVSMGFSQLHCQKAAINTSNAGVEEAMNWLLSHMDDPDIDAPISGPSS   83 (84)
T ss_dssp             CCCCCHHHHHHHHHHTCCHHHHHHHHHHTTTCCHHHHHHHHHHHTTCSTTTSCSSSCCC
T ss_pred             CCCCCHHHHHHHHHcCCCHHHHHHHHHHHcCCCHHHHHHHHHhCCCccccccCCCCCCC
Confidence            35679999999999999999999999999988999999999999999999999987653

>2dag_A Ubiquitin carboxyl-terminal hydrolase 5; isopeptidase T, ubiquitin specific protease 5 (USP 5), UBA domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.69  E-value=3.4e-17  Score=124.74  Aligned_cols=59  Identities=37%  Similarity=0.738  Sum_probs=55.1

Q ss_pred             ccccCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhcCCCCCCCCCCCCCC
Q 022703          110 EPEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPVS  168 (293)
Q Consensus       110 ~~~~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~dD~didep~~~~~~  168 (293)
                      .+.+|++.|.+|++|||++.+|++||++|+|.+++.|++|||+|++|+++|+|+.+|..
T Consensus         5 ~~~~~e~~v~~L~~MGF~~~~a~~AL~~t~n~~ve~A~ewL~~~~~d~d~d~p~~~~~~   63 (74)
T 2dag_A            5 SSGLDESVIIQLVEMGFPMDACRKAVYYTGNSGAEAAMNWVMSHMDDPDFANPLILPGS   63 (74)
T ss_dssp             CCSSCHHHHHHHHHHSCCHHHHHHHHHHHTSCCHHHHHHHHHHHTTSTTSSSCSCCSSC
T ss_pred             CCCCCHHHHHHHHHcCCCHHHHHHHHHHhCCCCHHHHHHHHHhCCCCcccccccCCCCC
Confidence            45689999999999999999999999999987899999999999999999999988754

>1whc_A RSGI RUH-027, UBA/UBX 33.3 kDa protein; UBA domain, structural genomics, riken structural genomics/proteomics initiative, unknown function; NMR {Mus musculus} SCOP: a.5.2.1

Probab=99.65  E-value=1.3e-16  Score=118.19  Aligned_cols=54  Identities=44%  Similarity=0.788  Sum_probs=50.9

Q ss_pred             cccCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhcCCCCCCCCCC
Q 022703          111 PEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPM  164 (293)
Q Consensus       111 ~~~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~dD~didep~~  164 (293)
                      ..+|++.|.+|++|||++.+|++||++|||.|++.|++|||+|++|+++|+|+.
T Consensus         6 ~~~~~~~v~~L~~MGF~~~~a~~AL~~t~~~nve~A~ewLl~~~~d~d~d~pl~   59 (64)
T 1whc_A            6 SGAELTALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPLS   59 (64)
T ss_dssp             CCCCCCHHHHHHTTTCCHHHHHHHHHHHTSCCHHHHHHHHHHHTTCSCTTCCSS
T ss_pred             CCCCHHHHHHHHHcCCCHHHHHHHHHHhcCCCHHHHHHHHHhCCCCcccccccC
Confidence            457889999999999999999999999987799999999999999999999986

>2dai_A Ubadc1, ubiquitin associated domain containing 1; UBA domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.64  E-value=3e-16  Score=122.04  Aligned_cols=57  Identities=42%  Similarity=0.697  Sum_probs=52.9

Q ss_pred             cccCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhcCCCCCCCCCCCCCC
Q 022703          111 PEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPVS  168 (293)
Q Consensus       111 ~~~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~dD~didep~~~~~~  168 (293)
                      +.+|++.|.+|++|||++.+|.+||++|+| |++.|++|||+|++|+++|+|+..|++
T Consensus        26 ~~~~e~~i~~L~~MGF~~~~a~~AL~~t~~-nve~A~ewL~~~~~d~d~d~pl~~~~~   82 (83)
T 2dai_A           26 ERVDEAALRQLTEMGFPENRATKALQLNHM-SVPQAMEWLIEHAEDPTIDTPLSGPSS   82 (83)
T ss_dssp             SSCCHHHHHHHHHHTCCHHHHHHHHHHTTS-CHHHHHHHHHHGGGCSTTCCCCCCSSC
T ss_pred             CCCCHHHHHHHHHcCCCHHHHHHHHHHhCC-CHHHHHHHHHHCCCCcccccCCCCCCC
Confidence            568999999999999999999999999965 999999999999999999999987753

>2dak_A Ubiquitin carboxyl-terminal hydrolase 5; isopeptidase T, ubiquitin specific protease 5, USP 5, UBA domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.64  E-value=2.2e-16  Score=116.46  Aligned_cols=56  Identities=27%  Similarity=0.475  Sum_probs=53.0

Q ss_pred             cccCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhcCCCCCCCCCCCCC
Q 022703          111 PEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPV  167 (293)
Q Consensus       111 ~~~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~dD~didep~~~~~  167 (293)
                      +.+++..|.+|++|||++.+|.+||++|+| +++.|++|||+|++|+|+|+|+..|.
T Consensus         6 ~~~~~~~v~~L~~MGF~~~~a~~AL~~t~~-nve~A~e~L~~~~~d~d~d~p~~~p~   61 (63)
T 2dak_A            6 SGPPEDCVTTIVSMGFSRDQALKALRATNN-SLERAVDWIFSHIDDLDAEAAMSGPS   61 (63)
T ss_dssp             CCCCHHHHHHHHHHTCCHHHHHHHHHHTTS-CSHHHHHHHHHHHHSCCSSSCCCCSC
T ss_pred             CCCCHHHHHHHHHcCCCHHHHHHHHHHcCC-CHHHHHHHHHhCCCCcccccCCCCCC
Confidence            468999999999999999999999999998 89999999999999999999998775

>2lbc_A Ubiquitin carboxyl-terminal hydrolase 13; tandem UBA of USP13; NMR {Homo sapiens}

Probab=99.55  E-value=1e-14  Score=120.62  Aligned_cols=56  Identities=32%  Similarity=0.701  Sum_probs=52.3

Q ss_pred             ccCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhcCCCCCCCCCCCCC
Q 022703          112 EVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPV  167 (293)
Q Consensus       112 ~~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~dD~didep~~~~~  167 (293)
                      +||+..|.+|++|||+..+|.+||++|||.+++.||+||+.|++|+++++|+..+.
T Consensus         1 ~~d~~~l~~L~~MGF~~~~a~~AL~~t~n~~~e~A~~wL~~~~~d~di~epl~~~~   56 (126)
T 2lbc_A            1 DIDESSVMQLAEMGFPLEACRKAVYFTGNMGAEVAFNWIIVHMEEPDFAEPLTMPG   56 (126)
T ss_dssp             CCCTHHHHHHHTTSSCCHHHHHHHHHHTSCCHHHHHHHHHHGGGCSSSSCTTCCSS
T ss_pred             CCCHHHHHHHHHcCCCHHHHHHHHHHcCCCCHHHHHHHHHHhcccccccccccccc
Confidence            47899999999999999999999999999999999999999999999999986653

>2cpw_A CBL-interacting protein STS-1 variant; ubiquitin associated domain, UBA, compact three helix bundle, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=99.50  E-value=1e-14  Score=108.14  Aligned_cols=46  Identities=35%  Similarity=0.603  Sum_probs=44.1

Q ss_pred             cCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhcCCCC
Q 022703          113 VDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPD  158 (293)
Q Consensus       113 ~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~dD~d  158 (293)
                      ++++.|.+|++|||++++|.+||++|+|.|++.|++|||+|++|||
T Consensus        18 ~~e~~i~~L~~MGF~~~~a~~AL~~t~~~nve~A~ewL~~~~~d~d   63 (64)
T 2cpw_A           18 KHGSALDVLLSMGFPRARAQKALASTGGRSVQTACDWLFSHSGPSS   63 (64)
T ss_dssp             SCCCHHHHHHHHTCCHHHHHHHHHHTTTSCHHHHHHHHHSCCSCCC
T ss_pred             CCHHHHHHHHHcCCCHHHHHHHHHHcCCCCHHHHHHHHHhCCCCCC
Confidence            7888999999999999999999999998899999999999999986

>1wgn_A UBAP1, ubiquitin associated protein; ubiquitin associated protein 1 (UBAP1), UBA domain, structural genomics; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=99.44  E-value=6.2e-14  Score=102.69  Aligned_cols=42  Identities=19%  Similarity=0.488  Sum_probs=39.5

Q ss_pred             CHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhcCC
Q 022703          114 DKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHEND  156 (293)
Q Consensus       114 ~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~dD  156 (293)
                      .++.|++|++|||+.++|.+||++||| |+|+|+||||+|+|-
T Consensus        19 e~e~V~~LvsMGFs~~qA~kALKat~~-NvErAaDWLFSH~D~   60 (63)
T 1wgn_A           19 ERQCVETVVNMGYSYECVLRAMKKKGE-NIEQILDYLFAHSGP   60 (63)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHHHHHCS-CHHHHHHHHHHHSCC
T ss_pred             hHHHHHHHHHcCCCHHHHHHHHHHcCC-CHHHHHHHHHhCCCC
Confidence            467899999999999999999999998 999999999999875

>1wji_A Tudor domain containing protein 3; UBA domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=99.41  E-value=5.3e-13  Score=98.61  Aligned_cols=55  Identities=33%  Similarity=0.479  Sum_probs=49.7

Q ss_pred             ccCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhcCCCCCCCCCCCCC
Q 022703          112 EVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPV  167 (293)
Q Consensus       112 ~~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~dD~didep~~~~~  167 (293)
                      .++++.|.+|++|||++.+|.+||..|+| |++.|++|||+|.++.....|+..++
T Consensus         7 ~~~~~~I~~L~~MGF~~~~a~~AL~~~~~-nve~A~e~L~~~~~~~~~~~p~~~~~   61 (63)
T 1wji_A            7 GVDEKALKHITEMGFSKEASRQALMDNGN-NLEAALNVLLTSNKQKPVMGPPSGPS   61 (63)
T ss_dssp             SSCHHHHHHHHTTTCCHHHHHHHHHHTTS-CHHHHHHHHHHHSSCCCCCSSCCCSS
T ss_pred             CCCHHHHHHHHHcCCCHHHHHHHHHHhCC-CHHHHHHHHHHCCCCcccCCCCCCCC
Confidence            47899999999999999999999999998 99999999999999988877765543

>1wiv_A UBP14, ubiquitin-specific protease 14; ubiquitin associated domain, UBA domain, three helix bundle, structural genomics; NMR {Arabidopsis thaliana} SCOP: a.5.2.1

Probab=99.33  E-value=1.5e-12  Score=98.73  Aligned_cols=48  Identities=27%  Similarity=0.548  Sum_probs=44.9

Q ss_pred             ccccCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhcCCCC
Q 022703          110 EPEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPD  158 (293)
Q Consensus       110 ~~~~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~dD~d  158 (293)
                      .+.+++..|.+|++|||++.+|++||+.|+| |++.|++|||+|++|+.
T Consensus        25 ~~~~~~~~v~~L~~MGF~~~~a~~AL~~t~~-nve~Ave~L~~~~~d~~   72 (73)
T 1wiv_A           25 TSDIDQSSVDTLLSFGFAEDVARKALKASGG-DIEKATDWVFNNSGPSS   72 (73)
T ss_dssp             SCSSCHHHHHHHHHHTCCHHHHHHHHHHTTS-CHHHHHHHHHHSCCSSC
T ss_pred             CCCCCHHHHHHHHHcCCCHHHHHHHHHHhCC-CHHHHHHHHHhCCCCCC
Confidence            4568999999999999999999999999998 99999999999999873

>2ekk_A UBA domain from E3 ubiquitin-protein ligase HUWE1; ubiquitin associated domain, compact three helix bundle, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.32  E-value=1.1e-12  Score=91.16  Aligned_cols=43  Identities=28%  Similarity=0.478  Sum_probs=40.1

Q ss_pred             ccccCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhc
Q 022703          110 EPEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHE  154 (293)
Q Consensus       110 ~~~~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~  154 (293)
                      .+.++++.|.+|++|||++.+|.+||+.||  |++.|++|||+|+
T Consensus         5 ~~~~~~~~v~~L~~MGF~~~~a~~AL~~~~--n~e~A~~~L~~h~   47 (47)
T 2ekk_A            5 SSGVNQQQLQQLMDMGFTREHAMEALLNTS--TMEQATEYLLTHP   47 (47)
T ss_dssp             CCSSCHHHHHHHHHHHCCHHHHHHHHHHSC--SHHHHHHHHHTCC
T ss_pred             CCCCCHHHHHHHHHcCCCHHHHHHHHHHcC--CHHHHHHHHHcCC
Confidence            367899999999999999999999999995  7999999999985

>1dv0_A DNA repair protein HHR23A; helical bundle, DNA binding protein; HET: DNA; NMR {Homo sapiens} SCOP: a.5.2.1 PDB: 1f4i_A

Probab=99.30  E-value=5.3e-13  Score=93.19  Aligned_cols=45  Identities=27%  Similarity=0.460  Sum_probs=41.6

Q ss_pred             cCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhcCCCC
Q 022703          113 VDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPD  158 (293)
Q Consensus       113 ~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~dD~d  158 (293)
                      -+++.|++|++|||++..|.+||.++|+ |++.|++|||+|++|++
T Consensus         3 ~e~eaI~rL~~mGF~~~~a~~Al~a~~~-n~e~A~~~Lf~~~~d~~   47 (47)
T 1dv0_A            3 QEKEAIERLKALGFPESLVIQAYFACEK-NENLAANFLLSQNFDDE   47 (47)
T ss_dssp             CCHHHHTTTTTTTCCHHHHHHHHTTTTS-CHHHHHHHTTSCCCCCC
T ss_pred             chHHHHHHHHHcCCCHHHHHHHHHHcCC-CHHHHHHHHHhCcCCCC
Confidence            3678899999999999999999999985 99999999999999973

>2dkl_A Trinucleotide repeat containing 6C protein; TNRC6C, KIAA1582 protein, UBA domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=99.27  E-value=8e-12  Score=97.45  Aligned_cols=50  Identities=32%  Similarity=0.447  Sum_probs=43.9

Q ss_pred             cccCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhcCCCCCCC
Q 022703          111 PEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDE  161 (293)
Q Consensus       111 ~~~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~dD~dide  161 (293)
                      ..+|+..|.+|++|||++.+|++||+.+ |.+++.|++|||+|++|+|...
T Consensus        18 ~~~n~~~I~qL~~MGF~~~~a~~AL~~~-n~n~e~A~ewL~~h~~D~D~~~   67 (85)
T 2dkl_A           18 AWIMSRLIKQLTDMGFPREPAEEALKSN-NMNLDQAMSALLEKKVDVDKRG   67 (85)
T ss_dssp             HHHHHHHHHHHHHHTCCHHHHHHHHHHT-TSCHHHHHHHHHTTSCCSSCCC
T ss_pred             cccCHHHHHHHHHcCCCHHHHHHHHHHc-CCCHHHHHHHHHHCcCCccccc
Confidence            4578999999999999999999999555 5599999999999999987544

>2g3q_A Protein YBL047C; endocytosis, solution structure, UBA domain, endocytosis/signaling protein complex; NMR {Saccharomyces cerevisiae} SCOP: a.5.2.1

Probab=99.26  E-value=3.5e-12  Score=86.84  Aligned_cols=40  Identities=30%  Similarity=0.439  Sum_probs=37.8

Q ss_pred             cCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHh
Q 022703          113 VDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEH  153 (293)
Q Consensus       113 ~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h  153 (293)
                      ++++.|.+|++|||+++.|.+||..++| |++.|++|||+|
T Consensus         3 p~e~~i~~L~~MGF~~~~a~~AL~~~~~-n~e~A~~~L~~~   42 (43)
T 2g3q_A            3 PKSLAVEELSGMGFTEEEAHNALEKCNW-DLEAATNFLLDS   42 (43)
T ss_dssp             HHHHHHHHHHTTTSCHHHHHHHHHHHTS-CHHHHHHHHHTC
T ss_pred             CCHHHHHHHHHcCCCHHHHHHHHHHhCc-CHHHHHHHHHcC
Confidence            5678999999999999999999999987 999999999987

>4ae4_A Ubiquitin-associated protein 1; protein transport, endosomal sorting, tetherin, VPU, HIV-1, monoubiquitin; HET: NHE; 1.65A {Homo sapiens} PDB: 4ae4_B*

Probab=99.25  E-value=2e-12  Score=106.51  Aligned_cols=50  Identities=18%  Similarity=0.450  Sum_probs=43.5

Q ss_pred             ccCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhc--CCCCCCCC
Q 022703          112 EVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHE--NDPDIDEM  162 (293)
Q Consensus       112 ~~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~--dD~didep  162 (293)
                      ..+.++|.+|++||||.++|.+||+.||| |++.||+|||.|+  +|+++|+|
T Consensus         6 ~~e~~~v~~l~~MGFp~~~~~kAl~~~g~-~~e~amewL~~h~~L~d~~~d~~   57 (118)
T 4ae4_A            6 PSERQCVETVVNMGYSYECVLRAMKAAGA-NIEQILDYLFAHGQLCEKGFDPL   57 (118)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHCS-CHHHHHHHHHHHHHHHHTTCCHH
T ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHCc-CHHHHHHHHHHhchhcccCCChh
Confidence            34678999999999999999999999999 9999999999998  35555443

>1veg_A NEDD8 ultimate buster-1; ubiquitin associated domain, UBA domain, three helix bundle, structural genomics; NMR {Mus musculus} SCOP: a.5.2.1

Probab=99.24  E-value=1.5e-11  Score=95.56  Aligned_cols=47  Identities=28%  Similarity=0.354  Sum_probs=43.5

Q ss_pred             ccccCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhcCCC
Q 022703          110 EPEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDP  157 (293)
Q Consensus       110 ~~~~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~dD~  157 (293)
                      ...++++.|.+|++|||++.+|++||..|+| +++.|++|||+|+++.
T Consensus        25 ~~~~~ee~I~~Lv~MGF~~~~A~~AL~~t~g-dve~A~e~L~sh~~~i   71 (83)
T 1veg_A           25 QASPSQESINQLVYMGFDTVVAEAALRVFGG-NVQLAAQTLAHHGGSL   71 (83)
T ss_dssp             SCCCCHHHHHHHHHHSCCHHHHHHHHHHTTT-CHHHHHHHHHHHTSSC
T ss_pred             cCCCCHHHHHHHHHcCCCHHHHHHHHHHcCC-CHHHHHHHHHhCCCCC
Confidence            4557899999999999999999999999998 8999999999999974

>2cos_A Serine/threonine protein kinase LATS2; UBA domain, structure genomics, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: a.5.2.1

Probab=99.21  E-value=1.1e-11  Score=88.38  Aligned_cols=42  Identities=31%  Similarity=0.530  Sum_probs=40.0

Q ss_pred             cccCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHH
Q 022703          111 PEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVE  152 (293)
Q Consensus       111 ~~~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~  152 (293)
                      +++|..++++|++|||++++|.+||..|||.+++.||+||..
T Consensus         6 ~~vn~qmlq~L~eMGFd~erae~Alk~Tg~~Gle~AmewL~k   47 (54)
T 2cos_A            6 SGVNRQMLQELVNAGCDQEMAGRALKQTGSRSIEAALEYISK   47 (54)
T ss_dssp             CSCCHHHHHHHHHHHCCHHHHHHHHHHHTSCCHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHcCCCHHHHHHHHHHhCcccHHHHHHHHHH
Confidence            478999999999999999999999999999999999999975

>2lbc_A Ubiquitin carboxyl-terminal hydrolase 13; tandem UBA of USP13; NMR {Homo sapiens}

Probab=99.18  E-value=2.1e-11  Score=100.67  Aligned_cols=48  Identities=31%  Similarity=0.617  Sum_probs=45.0

Q ss_pred             ccCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhcC-CCCCC
Q 022703          112 EVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHEN-DPDID  160 (293)
Q Consensus       112 ~~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~d-D~did  160 (293)
                      .+++..|.+|++|||++++|.+||..||| +++.|++|||+|++ |+|+|
T Consensus        76 ~~~e~~v~~L~~MGF~~~~a~~AL~~~~~-~~e~A~e~L~~~~~~d~~~d  124 (126)
T 2lbc_A           76 QPPEEIVAIITSMGFQRNQAIQALRATNN-NLERALDWIFSHPEFEEDSD  124 (126)
T ss_dssp             CCCHHHHHHHHHHTSCHHHHHHHHHHHTS-CHHHHHHHHHTCCSSCCCCC
T ss_pred             CcCHHHHHHHHHcCCCHHHHHHHHHHcCC-CHHHHHHHHHhCCCCccCCC
Confidence            47999999999999999999999999987 99999999999999 87765

>1ify_A HHR23A, UV excision repair protein RAD23 homolog A; ubiquitin associated domain, UBA domain, ubiquitin proteosome pathway, DNA binding protein; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=99.13  E-value=4.1e-11  Score=84.12  Aligned_cols=41  Identities=29%  Similarity=0.393  Sum_probs=38.2

Q ss_pred             ccCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHh
Q 022703          112 EVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEH  153 (293)
Q Consensus       112 ~~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h  153 (293)
                      ..+++.|.+|++|||+++.|.+||..|+| |++.|++|||+|
T Consensus         6 ~~~~~~i~~L~~MGF~~~~a~~AL~~~~~-n~e~A~e~L~~g   46 (49)
T 1ify_A            6 SEYETMLTEIMSMGYERERVVAALRASYN-NPHRAVEYLLTG   46 (49)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHTTTS-CSHHHHHHHHHC
T ss_pred             ccCHHHHHHHHHcCCCHHHHHHHHHHhCC-CHHHHHHHHHhC
Confidence            34678899999999999999999999998 999999999997

>2jy5_A Ubiquilin-1; UBA, alternative splicing, cytoplasm, nucleus, phosphoprotein, proteasome, signaling protein; NMR {Homo sapiens} PDB: 2jy6_B

Probab=99.04  E-value=1.8e-10  Score=81.81  Aligned_cols=40  Identities=28%  Similarity=0.431  Sum_probs=37.3

Q ss_pred             CHHHHHHHHhCCC-CHHHHHHHHHHhCCCCHHHHHHHHHHhc
Q 022703          114 DKELLKELEAMGF-PVARATRALHYSGNANVEAAVNWVVEHE  154 (293)
Q Consensus       114 ~~~~l~~L~~MGF-~~~~a~kAL~~tgn~~~E~A~~WL~~h~  154 (293)
                      -+..|.+|++||| ++.++.+||..|+| |++.|++|||+|+
T Consensus        12 ~~~~l~~L~~MGF~~~~~~~~AL~~t~g-n~e~A~e~L~~~~   52 (52)
T 2jy5_A           12 FQQQLEQLSAMGFLNREANLQALIATGG-DINAAIERLLGSS   52 (52)
T ss_dssp             THHHHHHHHHTTCCCHHHHHHHHHHHTT-CHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHhCC-CHHHHHHHHHhCc
Confidence            4678999999999 99999999999998 9999999999985

>1vg5_A RSGI RUH-014, rhomboid family protein; UBA domain, cDNA, structural genomics, riken structural genomics/proteomics initiative; NMR {Arabidopsis thaliana} SCOP: a.5.2.1

Probab=99.02  E-value=4e-10  Score=85.54  Aligned_cols=45  Identities=22%  Similarity=0.355  Sum_probs=41.2

Q ss_pred             cccCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhcCC
Q 022703          111 PEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHEND  156 (293)
Q Consensus       111 ~~~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~dD  156 (293)
                      ....++.|.+|++|||+++.|..||..++| |++.|++|||.|.+.
T Consensus        26 ~~~~ee~I~~L~eMGF~r~~a~~AL~~~~~-nve~Ave~Ll~~~~p   70 (73)
T 1vg5_A           26 VAASEEQIQKLVAMGFDRTQVEVALAAADD-DLTVAVEILMSQSGP   70 (73)
T ss_dssp             SCCCHHHHHHHHTTTCCHHHHHHHHHHHTS-CHHHHHHHHHTCSCS
T ss_pred             CcccHHHHHHHHHcCCCHHHHHHHHHHhCC-CHHHHHHHHHHCCCC
Confidence            456789999999999999999999999998 999999999998764

>2knz_A Ubiquilin-4; cytoplasm, endoplasmic reticulum, nucleus, phosphoprotein, protein binding; NMR {Mus musculus}

Probab=99.01  E-value=3.6e-10  Score=80.49  Aligned_cols=39  Identities=26%  Similarity=0.488  Sum_probs=36.4

Q ss_pred             HHHHHHHHhCCC-CHHHHHHHHHHhCCCCHHHHHHHHHHhc
Q 022703          115 KELLKELEAMGF-PVARATRALHYSGNANVEAAVNWVVEHE  154 (293)
Q Consensus       115 ~~~l~~L~~MGF-~~~~a~kAL~~tgn~~~E~A~~WL~~h~  154 (293)
                      +..|.+|++||| ++.++.+||..|+| |++.|++|||+|.
T Consensus        12 ~~~l~~L~~MGF~~~~~~~~AL~~t~g-nve~Ave~L~~~~   51 (53)
T 2knz_A           12 QQQLEQLNSMGFINREANLQALIATGG-DINAAIERLLGSQ   51 (53)
T ss_dssp             HHHHHHHHTTTCCCHHHHHHHHHHHTS-CHHHHHHHHHHCC
T ss_pred             HHHHHHHHHcCCCCHHHHHHHHHHhCC-CHHHHHHHHHHcC
Confidence            456999999999 99999999999998 9999999999986

>1z96_A DNA-damage, UBA-domain protein MUD1; ubiquitin, three-helix bundle, protein transport; 1.80A {Schizosaccharomyces pombe} SCOP: a.5.2.1

Probab=98.92  E-value=1.1e-09  Score=72.64  Aligned_cols=36  Identities=22%  Similarity=0.457  Sum_probs=33.7

Q ss_pred             HHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHH
Q 022703          115 KELLKELEAMGFPVARATRALHYSGNANVEAAVNWVV  151 (293)
Q Consensus       115 ~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~  151 (293)
                      ++.|.+|++|||+++.|.+||..|+| |++.|++|||
T Consensus         5 ~~~i~~L~~mGf~~~~a~~AL~~~~~-n~e~A~~~L~   40 (40)
T 1z96_A            5 NSKIAQLVSMGFDPLEAAQALDAANG-DLDVAASFLL   40 (40)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHTTT-CHHHHHHHHC
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHcCC-CHHHHHHHHC
Confidence            56899999999999999999999987 9999999995

>2dah_A Ubiquilin-3; UBA domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=98.83  E-value=4.9e-09  Score=75.08  Aligned_cols=43  Identities=28%  Similarity=0.343  Sum_probs=37.3

Q ss_pred             CHHHHHHHHhCCCCHH-HHHHHHHHhCCCCHHHHHHHHHHhcCCC
Q 022703          114 DKELLKELEAMGFPVA-RATRALHYSGNANVEAAVNWVVEHENDP  157 (293)
Q Consensus       114 ~~~~l~~L~~MGF~~~-~a~kAL~~tgn~~~E~A~~WL~~h~dD~  157 (293)
                      -+..|.+|++|||+.. .+.+||..|++ |++.|++|||+|++..
T Consensus         9 ~~~~l~~L~~MGF~d~~~n~~AL~~~~G-dv~~Ave~L~~~~~~~   52 (54)
T 2dah_A            9 FQVQLEQLRSMGFLNREANLQALIATGG-DVDAAVEKLRQSSGPS   52 (54)
T ss_dssp             SHHHHHHHHHHTCCCHHHHHHHHHHHTS-CHHHHHHHHHHHSCSS
T ss_pred             HHHHHHHHHHcCCCcHHHHHHHHHHcCC-CHHHHHHHHHhCCCcC
Confidence            3678999999999664 57999999987 9999999999998653

>2bwb_A Ubiquitin-like protein DSK2; UBA, signaling protein; 2.3A {Saccharomyces cerevisiae} SCOP: a.5.2.1 PDB: 2bwe_A

Probab=98.81  E-value=4.9e-09  Score=72.71  Aligned_cols=39  Identities=31%  Similarity=0.471  Sum_probs=34.7

Q ss_pred             CHHHHHHHHhCCCC-HHHHHHHHHHhCCCCHHHHHHHHHHh
Q 022703          114 DKELLKELEAMGFP-VARATRALHYSGNANVEAAVNWVVEH  153 (293)
Q Consensus       114 ~~~~l~~L~~MGF~-~~~a~kAL~~tgn~~~E~A~~WL~~h  153 (293)
                      -+..|.+|++|||+ +..+.+||..|+| |++.|++|||+|
T Consensus         7 ~~~~i~~L~~MGF~d~~~~~~AL~~~~g-nv~~Ave~L~~~   46 (46)
T 2bwb_A            7 YEHQLRQLNDMGFFDFDRNVAALRRSGG-SVQGALDSLLNG   46 (46)
T ss_dssp             THHHHHHHHHTTCCCHHHHHHHHHHHTT-CHHHHHHHHHCC
T ss_pred             HHHHHHHHHHcCCCcHHHHHHHHHHhCC-CHHHHHHHHHcc
Confidence            35679999999995 6778999999998 999999999986

>2dna_A Unnamed protein product; ubiquitin associated domain, DSK2 protein, proteasome, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: a.5.2.1

Probab=98.81  E-value=4.1e-09  Score=78.74  Aligned_cols=42  Identities=21%  Similarity=0.215  Sum_probs=37.1

Q ss_pred             HHHHHHHHhCCCCHH-HHHHHHHHhCCCCHHHHHHHHHHhcCCC
Q 022703          115 KELLKELEAMGFPVA-RATRALHYSGNANVEAAVNWVVEHENDP  157 (293)
Q Consensus       115 ~~~l~~L~~MGF~~~-~a~kAL~~tgn~~~E~A~~WL~~h~dD~  157 (293)
                      +..|.+|.+|||... ++.+||..|+| |++.|++|||+|.++.
T Consensus        20 ~~ql~qL~~MGF~d~~an~~AL~at~G-nve~Ave~L~~~~~~~   62 (67)
T 2dna_A           20 SKEMECLQAMGFVNYNANLQALIATDG-DTNAAIYKLKSSQGFS   62 (67)
T ss_dssp             HHHHHHHHHHTCCCHHHHHHHHHHTTS-CHHHHHHHHHHCCSSS
T ss_pred             HHHHHHHHHcCCCcHHHHHHHHHHcCC-CHHHHHHHHHhCCCcc
Confidence            557999999999655 55999999988 9999999999998875

>1vej_A Riken cDNA 4931431F19; UBA domain, three helix bundle, ubiquitin associated domain, structural genomics; NMR {Mus musculus} SCOP: a.5.2.1

Probab=98.77  E-value=7.3e-09  Score=78.78  Aligned_cols=43  Identities=23%  Similarity=0.362  Sum_probs=38.1

Q ss_pred             CHHHHHHHHhCCC-CHHHHHHHHHHhCCCCHHHHHHHHHHhcCCC
Q 022703          114 DKELLKELEAMGF-PVARATRALHYSGNANVEAAVNWVVEHENDP  157 (293)
Q Consensus       114 ~~~~l~~L~~MGF-~~~~a~kAL~~tgn~~~E~A~~WL~~h~dD~  157 (293)
                      -+..|.+|++||| ++..+.+||..++| |++.|++|||.|++.+
T Consensus        29 ye~qi~qL~eMGF~dr~~~~~AL~~t~G-nve~Ave~L~~~~~~~   72 (74)
T 1vej_A           29 YQQELEELKALGFANRDANLQALVATDG-DIHAAIEMLLGASGPS   72 (74)
T ss_dssp             SHHHHHHHHHHTCCCHHHHHHHHHHTTS-CHHHHHHHHHTCCCCC
T ss_pred             HHHHHHHHHHcCCCcHHHHHHHHHHhCC-CHHHHHHHHHhCCCCC
Confidence            3567999999999 57888999999988 9999999999997654

>1wr1_B Ubiquitin-like protein DSK2; UBA domain, UBA-ubiquitin complex, signaling protein; NMR {Saccharomyces cerevisiae} SCOP: a.5.2.1

Probab=98.74  E-value=1e-08  Score=74.46  Aligned_cols=40  Identities=30%  Similarity=0.482  Sum_probs=35.8

Q ss_pred             CHHHHHHHHhCCCC-HHHHHHHHHHhCCCCHHHHHHHHHHhc
Q 022703          114 DKELLKELEAMGFP-VARATRALHYSGNANVEAAVNWVVEHE  154 (293)
Q Consensus       114 ~~~~l~~L~~MGF~-~~~a~kAL~~tgn~~~E~A~~WL~~h~  154 (293)
                      -+..|.+|++|||+ +..+.+||..|+| |++.|++|||+|+
T Consensus        17 ~~~qi~~L~~MGF~d~~~~~~AL~~~~g-nve~Ave~L~~~~   57 (58)
T 1wr1_B           17 YEHQLRQLNDMGFFDFDRNVAALRRSGG-SVQGALDSLLNGD   57 (58)
T ss_dssp             THHHHHHHHHHTCCCHHHHHHHHHHHTS-CHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHcCCCcHHHHHHHHHHhCC-CHHHHHHHHHhCC
Confidence            35679999999995 7788999999988 9999999999985

>4ae4_A Ubiquitin-associated protein 1; protein transport, endosomal sorting, tetherin, VPU, HIV-1, monoubiquitin; HET: NHE; 1.65A {Homo sapiens} PDB: 4ae4_B*

Probab=98.61  E-value=3.2e-08  Score=81.31  Aligned_cols=43  Identities=16%  Similarity=0.246  Sum_probs=39.0

Q ss_pred             cccCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhc
Q 022703          111 PEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHE  154 (293)
Q Consensus       111 ~~~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~  154 (293)
                      ..+++..+.+|++|||+.+.|++||..|+| +++.|++|||...
T Consensus        73 ~~~~~~~v~~L~eMGF~~~~a~~AL~~~~n-d~erAlewL~~~~  115 (118)
T 4ae4_A           73 MMEFLQLMSKFKEMGFELKDIKEVLLLHNN-DQDNALEDLMARA  115 (118)
T ss_dssp             HHHHHHHHHHHHHTTCCHHHHHHHHHHTTT-CHHHHHHHHHHHC
T ss_pred             cccCHHHHHHHHHcCCCHHHHHHHHHHcCC-CHHHHHHHHHHhc
Confidence            345778999999999999999999999998 9999999999753

>1oqy_A HHR23A, UV excision repair protein RAD23 homolog A; DNA repair, proteasome-mediated degradation, protein- protein interaction, replication; NMR {Homo sapiens} SCOP: a.5.2.1 a.5.2.1 a.189.1.1 d.15.1.1 PDB: 1qze_A 1tp4_A

Probab=98.49  E-value=3.6e-08  Score=94.88  Aligned_cols=46  Identities=26%  Similarity=0.317  Sum_probs=42.7

Q ss_pred             cccCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhcCCC
Q 022703          111 PEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDP  157 (293)
Q Consensus       111 ~~~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~dD~  157 (293)
                      ...+++.|.+|++|||++++|.+||++++| |++.|++|||+|++|.
T Consensus       165 g~~~~~~i~~l~~MGf~~~~~~~AL~a~~n-n~~~A~e~L~~gip~~  210 (368)
T 1oqy_A          165 GSEYETMLTEIMSMGYERERVVAALRASYN-NPHRAVEYLLTGIPGS  210 (368)
T ss_dssp             TTTHHHHHHHHHTTTCCSHHHHHHHHHSCS-STTHHHHTTTTSSTTC
T ss_pred             CcchHHHHHHHHHcCCCHHHHHHHHHHcCC-CHHHHHHHHHhCCCcc
Confidence            345888999999999999999999999999 9999999999998875

>2ooa_A E3 ubiquitin-protein ligase CBL-B; alpha-helical domain; 1.56A {Homo sapiens} PDB: 2oob_A 2jnh_A 2do6_A

Probab=98.37  E-value=6.5e-07  Score=63.43  Aligned_cols=40  Identities=28%  Similarity=0.322  Sum_probs=35.9

Q ss_pred             cCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHh
Q 022703          113 VDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEH  153 (293)
Q Consensus       113 ~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h  153 (293)
                      .-++.+.+|++|||+++.+.+||..++| |++.|.+.|.+-
T Consensus        10 ~~~~~Ia~Lm~mGFsr~~ai~AL~~a~n-nve~AaniLlef   49 (52)
T 2ooa_A           10 NVDAKIAKLMGEGYAFEEVKRALEIAQN-NVEVARSILREF   49 (52)
T ss_dssp             -CHHHHHHHHHTTCCHHHHHHHHHHTTT-CHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHcCCCHHHHHHHHHHhCC-CHHHHHHHHHHh
Confidence            3448999999999999999999999988 999999999763

>2cwb_A Chimera of immunoglobulin G binding protein G and ubiquitin-like protein SB132; helical bundle, protein binding; NMR {Streptococcus SP} PDB: 2den_A

Probab=98.31  E-value=7.3e-07  Score=72.26  Aligned_cols=41  Identities=24%  Similarity=0.367  Sum_probs=36.6

Q ss_pred             CHHHHHHHHhCCCC-HHHHHHHHHHhCCCCHHHHHHHHHHhcC
Q 022703          114 DKELLKELEAMGFP-VARATRALHYSGNANVEAAVNWVVEHEN  155 (293)
Q Consensus       114 ~~~~l~~L~~MGF~-~~~a~kAL~~tgn~~~E~A~~WL~~h~d  155 (293)
                      -+..|.+|.+|||+ +.++.+||..+++ |++.||+|||++++
T Consensus        66 ~~~qL~qL~eMGF~d~~~ni~AL~~t~G-dve~AVe~L~~~~~  107 (108)
T 2cwb_A           66 WQPQLQQLRDMGIQDDELSLRALQATGG-DIQAALELIFAGGA  107 (108)
T ss_dssp             THHHHHHHHTTTCCCHHHHHHHHHHHTS-CHHHHHHHHHHTSC
T ss_pred             hHHHHHHHHHcCCCCHHHHHHHHHHhCC-CHHHHHHHHHhcCC
Confidence            36789999999995 5899999999987 99999999999864

>3i3t_A Ubiquitin carboxyl-terminal hydrolase 21; hydrolase, structural genomics consortium, SGC, activator, alternative splicing, chromatin regulator, nucleus, polymorphism, protease; 2.59A {Homo sapiens} SCOP: d.3.1.0 PDB: 2y5b_A 3mtn_A

Probab=98.27  E-value=1.1e-07  Score=87.25  Aligned_cols=52  Identities=15%  Similarity=0.156  Sum_probs=44.9

Q ss_pred             ccccCCCCCCCCCccccccccccccccccccchhhccccccccc--Cccc---cCCc-cccccCC
Q 022703           42 NLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEV--PKAT---ADSE-EAIDVDM  100 (293)
Q Consensus        42 ~~~C~~Cg~~~~~~~e~~~a~K~t~f~tFP~~Lvv~~~Rf~l~~--p~K~---~~~~-~~lDl~~  100 (293)
                      .|.|+.|+++       +.++|+..|.++|++|+|+++||....  +.|+   +.+| +.|||+.
T Consensus       226 ~~~C~~C~~~-------~~a~k~~~i~~lP~vL~i~lkRF~~~~~~~~K~~~~v~fp~~~l~l~~  283 (355)
T 3i3t_A          226 APVCDRCRQK-------TRSTKKLTVQRFPRILVLHLNRFSASRGSIKKSSVGVDFPLQRLSLGD  283 (355)
T ss_dssp             CCCCSSSCCC-------CCEEEEEEEEECCSEEEEEECCEECCSSCCEECCCCCBCCSSCEECGG
T ss_pred             CeeCCCCCCc-------cceEEEEEcccCChheEEEhhheecCCCCceECCcceeCCccccCchh
Confidence            3999999997       789999999999999999999999885  6777   5566 5688875

>2juj_A E3 ubiquitin-protein ligase CBL; alpha helix, UBA domain, calcium, cytoplasm, metal- binding, phosphorylation, proto-oncogene, SH2 domain; NMR {Homo sapiens}

Probab=98.25  E-value=9.5e-07  Score=63.17  Aligned_cols=44  Identities=23%  Similarity=0.257  Sum_probs=39.0

Q ss_pred             cccCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhcC
Q 022703          111 PEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHEN  155 (293)
Q Consensus       111 ~~~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~d  155 (293)
                      +.+.+..+.+|++|||+++.+.+||..+.| |++.|.|.|.+-.-
T Consensus         4 ~~p~e~~Ia~L~smGfsr~da~~AL~ia~N-dv~~AtNiLlEf~~   47 (56)
T 2juj_A            4 SPQLSSEIENLMSQGYSYQDIQKALVIAQN-NIEMAKNILREFVS   47 (56)
T ss_dssp             CHHHHHHHHHHHTTTCCHHHHHHHHHHTTT-CSHHHHHHHHHSCC
T ss_pred             CCCChHHHHHHHHcCCCHHHHHHHHHHhcc-cHHHHHHHHHHHHc
Confidence            345677899999999999999999999988 99999999988543

>2d9s_A CBL E3 ubiquitin protein ligase; UBA domain, dimer, protein binding, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=98.22  E-value=2.9e-06  Score=60.36  Aligned_cols=43  Identities=23%  Similarity=0.263  Sum_probs=37.9

Q ss_pred             ccCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhcC
Q 022703          112 EVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHEN  155 (293)
Q Consensus       112 ~~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~d  155 (293)
                      ++-+..+.+|++|||+++.+.+||..++| |++.|.+.|.+..-
T Consensus         7 ~~~e~~I~~L~~lGF~r~~ai~AL~~a~n-nve~Aa~iL~ef~~   49 (53)
T 2d9s_A            7 GQLSSEIERLMSQGYSYQDIQKALVIAHN-NIEMAKNILREFSG   49 (53)
T ss_dssp             SCSHHHHHHHHHHTCCHHHHHHHHHHTTT-CHHHHHHHHHHHTS
T ss_pred             cchHHHHHHHHHcCCCHHHHHHHHHHhcC-CHHHHHHHHHHhcc
Confidence            34557799999999999999999999988 99999999988643

>1oqy_A HHR23A, UV excision repair protein RAD23 homolog A; DNA repair, proteasome-mediated degradation, protein- protein interaction, replication; NMR {Homo sapiens} SCOP: a.5.2.1 a.5.2.1 a.189.1.1 d.15.1.1 PDB: 1qze_A 1tp4_A

Probab=98.20  E-value=4.1e-07  Score=87.57  Aligned_cols=45  Identities=27%  Similarity=0.437  Sum_probs=41.9

Q ss_pred             ccCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhcCCC
Q 022703          112 EVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDP  157 (293)
Q Consensus       112 ~~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~dD~  157 (293)
                      ..+.+.|..|++|||++..|.+||+.+++ |++.|++|||+|++|.
T Consensus       323 ~ee~eaI~rL~~mGF~~~~a~~al~a~~~-n~e~A~~~L~~~~~d~  367 (368)
T 1oqy_A          323 PQEKEAIERLKALGFPESLVIQAYFACEK-NENLAANFLLSQNFDD  367 (368)
T ss_dssp             TTTHHHHHHHHHHTCCSHHHHHHTSSSSS-CSSHHHHHHHHHHCCC
T ss_pred             CcCHHHHHHHHHcCCCHHHHHHHHHHcCC-CHHHHHHHHhhCcCcC
Confidence            45889999999999999999999999987 8999999999999985

>2ayn_A Ubiquitin carboxyl-terminal hydrolase 14; deubiquitinating enzymes, DUB, USP14, proteasome, enzyme mechanism; 3.20A {Homo sapiens} SCOP: d.3.1.9 PDB: 2ayo_A

Probab=98.16  E-value=5.9e-07  Score=84.51  Aligned_cols=58  Identities=9%  Similarity=-0.024  Sum_probs=48.9

Q ss_pred             CCCcchhhhhccccCCCCCCCCCccccccccccccccccccchhhccccccccc----Cccc---cCCccccccCC
Q 022703           32 NFSESTEAVLNLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEV----PKAT---ADSEEAIDVDM  100 (293)
Q Consensus        32 ~F~e~~d~i~~~~C~~Cg~~~~~~~e~~~a~K~t~f~tFP~~Lvv~~~Rf~l~~----p~K~---~~~~~~lDl~~  100 (293)
                      +|.|.    +.|.|+.||..       ..++|+..|.++|++|+||++||.++.    ..|+   |.+|..|||+.
T Consensus       203 ~~~e~----l~~~c~~c~~~-------~~~~k~~~i~~lP~vL~i~LkRF~~~~~~~~~~Ki~~~v~fP~~Ldl~~  267 (404)
T 2ayn_A          203 RLQEE----ITKQSPTLQRN-------ALYIKSSKISRLPAYLTIQMVRFFYKEKESVNAKVLKDVKFPLMLDMYE  267 (404)
T ss_dssp             TTEEC----CCCEETTTTEE-------CCEEEEEEEEECCSSEEEEEECBCCCCSSSSCCBCCCCCBCCSEEECGG
T ss_pred             hcccc----eeecchhhCCc-------cceeeeeeHhhCCCceEEEEEEEEEecccCceeccCceeccCceeEHhH
Confidence            45544    45899999986       678999999999999999999999984    5777   66788999984

>2y6e_A Ubiquitin carboxyl-terminal hydrolase 4; HET: CME; 2.40A {Homo sapiens}

Probab=98.12  E-value=4.2e-07  Score=84.92  Aligned_cols=53  Identities=11%  Similarity=0.080  Sum_probs=45.7

Q ss_pred             hccccCCCCCCCCCccccccccccccccccccchhhccccccccc--Cccc---cCCcc-ccccCC
Q 022703           41 LNLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEV--PKAT---ADSEE-AIDVDM  100 (293)
Q Consensus        41 ~~~~C~~Cg~~~~~~~e~~~a~K~t~f~tFP~~Lvv~~~Rf~l~~--p~K~---~~~~~-~lDl~~  100 (293)
                      ..|.|+.|+++       +.|+|++.|.++|++|+||++||.+..  +.|+   |.+|. .|||+.
T Consensus       230 ~~~~C~~C~~~-------~~a~K~~~i~~lP~vL~i~LkRF~~~~~~~~K~~~~v~fp~~~Ldl~~  288 (367)
T 2y6e_A          230 DPWYCPNCKKH-------QQATKKFDLWSLPKILVVHLKRFSYNRYWRDKLDTVVEFPIRGLNMSE  288 (367)
T ss_dssp             CCEEETTTTEE-------ECCEEEEEEEECCSEEEEEEECEEECSSCEEECCCCEECCSSCEECGG
T ss_pred             CCccCCCCCCC-------ceEEEEEEEecCCcEEEEEEeCeeecCccceecCceEEecCCcCChhh
Confidence            34999999986       789999999999999999999999985  6777   55775 699875

>1vjv_A Ubiquitin carboxyl-terminal hydrolase 6; YFR010W, structural genomics, JCSG, PSI, protein structure initiative; HET: MSE; 1.74A {Saccharomyces cerevisiae} SCOP: d.3.1.9

Probab=98.11  E-value=9.4e-08  Score=90.89  Aligned_cols=53  Identities=6%  Similarity=-0.099  Sum_probs=38.5

Q ss_pred             hccccCCCCCCCCCccccccccccccccccccchhhccccccccc----Cccc---cCCccccccCC
Q 022703           41 LNLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEV----PKAT---ADSEEAIDVDM  100 (293)
Q Consensus        41 ~~~~C~~Cg~~~~~~~e~~~a~K~t~f~tFP~~Lvv~~~Rf~l~~----p~K~---~~~~~~lDl~~  100 (293)
                      +.|.|+.||..       ..++|++.|.++|++|+|+++||.++.    +.|+   |.+|..|||+.
T Consensus       200 i~~~c~~c~~~-------~~a~k~~~i~~lP~vL~i~LkRF~~~~~~~~~~Ki~~~V~FP~~Ldl~~  259 (415)
T 1vjv_A          200 IEKRSDLTGAN-------SIYSVEKKISRLPKFLTVQYVRFFWKRSTNKKSKILRKVVFPFQLDVAD  259 (415)
T ss_dssp             ---------CC-------CCEEEEEEEEECBSEEEEEECCEEEETTTTEEEECCCCCBCCSEEECGG
T ss_pred             hhhcccccCCc-------ccEEEEEEcccCCCeeEEEEEEEEEeCCCCcchhhcCccCCCcEeEhHH
Confidence            45899999987       679999999999999999999999984    4777   66788999983

>2oo9_A E3 ubiquitin-protein ligase CBL; alpha-helical domain, homodimer; 2.10A {Homo sapiens}

Probab=98.03  E-value=1e-05  Score=55.83  Aligned_cols=39  Identities=26%  Similarity=0.346  Sum_probs=35.4

Q ss_pred             HHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhc
Q 022703          115 KELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHE  154 (293)
Q Consensus       115 ~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~  154 (293)
                      +..+.+|++|||+.+.+.+||-.+.| |++.|.|-|.+..
T Consensus         5 e~~I~~L~s~Gf~~~~~~rAL~ia~N-nie~A~nIL~ef~   43 (46)
T 2oo9_A            5 SSEIENLMSQGYSYQDIQKALVIAQN-NIEMAKNILREFA   43 (46)
T ss_dssp             HHHHHHHHHTTBCHHHHHHHHHHTTT-CHHHHHHHHHHHC
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHhhc-cHHHHHHHHHHhc
Confidence            46789999999999999999999988 9999999998754

>3mhs_A Ubiquitin carboxyl-terminal hydrolase 8; multi-protein complex, hydrolase-transcription regulator-Pro binding complex, acetylation, cytoplasm; 1.89A {Saccharomyces cerevisiae} PDB: 3mhh_A 4fjc_A 4fk5_A 4fip_A 3m99_A

Probab=97.98  E-value=3.7e-07  Score=88.38  Aligned_cols=51  Identities=10%  Similarity=0.120  Sum_probs=45.5

Q ss_pred             cccCCCCCCCCCccccccccccccccccccchhhccccccccc---Cccc---cCCccccccCC
Q 022703           43 LVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEV---PKAT---ADSEEAIDVDM  100 (293)
Q Consensus        43 ~~C~~Cg~~~~~~~e~~~a~K~t~f~tFP~~Lvv~~~Rf~l~~---p~K~---~~~~~~lDl~~  100 (293)
                      |.|+.|+..       ..++|+..|.++|++|+|+++||.+..   +.|+   +.+|..|||+.
T Consensus       339 ~~C~~C~~~-------~~a~k~~~i~~lP~vL~i~LkRF~~~~~~~~~K~~~~V~fP~~Ldl~~  395 (476)
T 3mhs_A          339 YHCGECNST-------QDAIKQLGIHKLPSVLVLQLKRFEHLLNGSNRKLDDFIEFPTYLNMKN  395 (476)
T ss_dssp             CEETTTTEE-------CCCEEEEEEEEBCSEEEEEECCEEECTTSCEEECCCCCBCCSEEECGG
T ss_pred             CcCCccCCc-------ccEEEEEEcccCCcceEEEeeeccccCCCCeEECCEEEcCCCeeechh
Confidence            999999986       789999999999999999999999763   7787   66888999986

>3nhe_A Ubiquitin carboxyl-terminal hydrolase 2; cysteine protease, substrate ENZY complex, hydrolase-protein binding complex; HET: CME; 1.26A {Homo sapiens} SCOP: d.3.1.9 PDB: 2hd5_A 3v6c_A 3v6e_A 2ibi_A

Probab=97.97  E-value=2e-06  Score=78.48  Aligned_cols=53  Identities=13%  Similarity=0.092  Sum_probs=44.9

Q ss_pred             hccccCCCCCCCCCccccccccccccccccccchhhccccccccc--Cccc---cCCc-cccccCC
Q 022703           41 LNLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEV--PKAT---ADSE-EAIDVDM  100 (293)
Q Consensus        41 ~~~~C~~Cg~~~~~~~e~~~a~K~t~f~tFP~~Lvv~~~Rf~l~~--p~K~---~~~~-~~lDl~~  100 (293)
                      ..|.|+.|+..       ..+.|+..|.++|++|+|+++||....  ..|+   +.+| ..|||+.
T Consensus       215 ~~~~C~~C~~~-------~~~~k~~~i~~lP~vL~i~lkRf~~~~~~~~K~~~~v~fp~~~ldl~~  273 (348)
T 3nhe_A          215 EKPTCCRCRGR-------KRCIKKFSIQRFPKILVLHLKRFSESRIRTSKLTTFVNFPLRDLDLRE  273 (348)
T ss_dssp             GCCEETTTTEE-------CCEEEEEEEEECCSEEEEEECCBCCCSSCCCBCCCCEECCSSCEECGG
T ss_pred             CceECCCCCCc-------ccEEEEEEeecCCceEEEEEEcccccCCceeecCcceeccCCcCCHhh
Confidence            34899999986       789999999999999999999999875  6676   5566 5688875

>2gfo_A Ubiquitin carboxyl-terminal hydrolase 8; protease, thiol protease, UBL conjugation pathway deubiquitinating enzyme, DUB, zinc ribbon; 2.00A {Homo sapiens} SCOP: d.3.1.9 PDB: 3n3k_A

Probab=97.96  E-value=1.4e-06  Score=83.07  Aligned_cols=53  Identities=15%  Similarity=0.131  Sum_probs=45.0

Q ss_pred             hccccCCCCCCCCCccccccccccccccccccchhhccccccccc--Cccc---cCCc-cccccCC
Q 022703           41 LNLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEV--PKAT---ADSE-EAIDVDM  100 (293)
Q Consensus        41 ~~~~C~~Cg~~~~~~~e~~~a~K~t~f~tFP~~Lvv~~~Rf~l~~--p~K~---~~~~-~~lDl~~  100 (293)
                      ..|.|+.|+..       ..|+|++.|.++|++|+|+++||.++.  ..|+   |.+| +.|||+.
T Consensus       267 n~~~C~~C~~~-------~~a~k~~~i~~lP~vLiihLkRF~~~~~~~~K~~~~v~fp~~~Ldl~~  325 (396)
T 2gfo_A          267 NRFYCSHCRAR-------RDSLKKIEIWKLPPVLLVHLKRFSYDGRWKQKLQTSVDFPLENLDLSQ  325 (396)
T ss_dssp             TCEEETTTTEE-------ECEEEEEEEEECCSEEEEEECCEEECSSSEEECCCEEECCSSCBCCGG
T ss_pred             cccccCCcccc-------cceEEEEEEecCCcEEEEEecceeccCccceecCceEecchhhccccc
Confidence            34999999986       789999999999999999999999985  5566   5567 5699875

>2cp8_A NEXT to BRCA1 gene 1 protein; UBA domain, structural genomics, human, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.5.2.1

Probab=97.79  E-value=2.6e-05  Score=55.81  Aligned_cols=44  Identities=20%  Similarity=0.216  Sum_probs=38.2

Q ss_pred             cCHHHHHHHHhCCC-CHHHHHHHHHHhCCCCHHHHHHHHHHhcCCC
Q 022703          113 VDKELLKELEAMGF-PVARATRALHYSGNANVEAAVNWVVEHENDP  157 (293)
Q Consensus       113 ~~~~~l~~L~~MGF-~~~~a~kAL~~tgn~~~E~A~~WL~~h~dD~  157 (293)
                      .+...|.+|.+||| ...+-.+||..+|+ |++.||++|+...+.+
T Consensus         8 ~~a~~L~~L~eMGF~D~~~N~~aL~~~~g-nv~~aI~~Ll~~~~~~   52 (54)
T 2cp8_A            8 QTAALMAHLFEMGFCDRQLNLRLLKKHNY-NILQVVTELLQLSGPS   52 (54)
T ss_dssp             THHHHHHHHHHHTCCCHHHHHHHHTTTTT-CHHHHHHHHHHHSSSC
T ss_pred             hhHHHHHHHHHcCCCcHHHHHHHHHHcCC-CHHHHHHHHHhccCCC
Confidence            45678999999999 88999999998877 8999999999876653

>1nb8_A Ubiquitin carboxyl-terminal hydrolase 7; UBP, deubiquitination, hausp, P53 binding; 2.30A {Homo sapiens} SCOP: d.3.1.9 PDB: 1nbf_A

Probab=97.78  E-value=7.6e-06  Score=76.53  Aligned_cols=51  Identities=8%  Similarity=-0.044  Sum_probs=41.3

Q ss_pred             ccccCCCCCCCCCccccccccccccccccccchhhccccccccc----Cccc---cCCccccccCC
Q 022703           42 NLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEV----PKAT---ADSEEAIDVDM  100 (293)
Q Consensus        42 ~~~C~~Cg~~~~~~~e~~~a~K~t~f~tFP~~Lvv~~~Rf~l~~----p~K~---~~~~~~lDl~~  100 (293)
                      .|.|+.|+.        ..|+|++.|.++|++|+||++||.++.    ..|+   +.+|..|||+.
T Consensus       171 ~~~C~~c~~--------~~a~k~~~i~~lP~vL~i~LkRF~~~~~~~~~~K~~~~v~fp~~Ldl~~  228 (353)
T 1nb8_A          171 KYDAGEHGL--------QEAEKGVKFLTLPPVLHLQLMRFMYDPQTDQNIKINDRFEFPEQLPLDE  228 (353)
T ss_dssp             CEECGGGCE--------ECEEEEEEESCCCSEEEEEECCCC--------CCCCCCCBCCSEEECGG
T ss_pred             cccCCcCcc--------EeeEEEEEhhcCCCceEEEEecEEEecccCceEecCcEEECCCeeehhh
Confidence            489999976        578999999999999999999999874    6777   66788999975

>3ihp_A Ubiquitin carboxyl-terminal hydrolase 5; hydrolase, protease, thiol protease, UBL conjugation pathway, metal-binding, zinc-finger,structural genomics; 2.80A {Homo sapiens}

Probab=97.77  E-value=1.4e-05  Score=84.18  Aligned_cols=46  Identities=28%  Similarity=0.533  Sum_probs=42.3

Q ss_pred             cccCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhcCCC
Q 022703          111 PEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDP  157 (293)
Q Consensus       111 ~~~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~dD~  157 (293)
                      ..++++.+++|.+|||+..+|.+||..|+| +++.|++|||+|++|.
T Consensus       717 ~~~~~e~i~~l~~mGf~~~~a~~aL~~t~~-~~eraidwlfs~~d~~  762 (854)
T 3ihp_A          717 DPPPEDCVTTIVSMGFSRDQALKALRATNN-SLERAVDWIFSHIDDL  762 (854)
T ss_dssp             --CCHHHHHHHHTTTCCHHHHHHHHHHTTT-CHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHcCCCHHHHHHHHHhhcC-cHHHHHHhhhcCcccc
Confidence            467999999999999999999999999988 9999999999999875

>1wiv_A UBP14, ubiquitin-specific protease 14; ubiquitin associated domain, UBA domain, three helix bundle, structural genomics; NMR {Arabidopsis thaliana} SCOP: a.5.2.1

Probab=97.77  E-value=1.6e-06  Score=65.55  Aligned_cols=38  Identities=18%  Similarity=0.139  Sum_probs=27.3

Q ss_pred             HHHHHHHHHhcCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHH
Q 022703          144 EAAVNWVVEHENDPDIDEMPMVPVSGGGGASKSSLTPEEIKLKAQEL  190 (293)
Q Consensus       144 E~A~~WL~~h~dD~didep~~~~~~~~~~~~kk~lT~EEk~~k~~el  190 (293)
                      ++||+|||+|++|||||+|+....         +--.+++..+|.+|
T Consensus         2 ~~am~wl~~h~dDpd~d~pl~~~~---------~~~~~~~v~~L~~M   39 (73)
T 1wiv_A            2 SSGSSGLLSHMDDPDIDAPISHQT---------SDIDQSSVDTLLSF   39 (73)
T ss_dssp             CCCCCCCSSCCSCSCSSCCSCCSS---------CSSCHHHHHHHHHH
T ss_pred             hHHHHHHHHcCCCCCccCCCCCCC---------CCCCHHHHHHHHHc
Confidence            468999999999999999986521         11235666666555

>3k9o_A Ubiquitin-conjugating enzyme E2 K; E2-25K, complex structure, ATP-binding, isopeptide BO ligase, nucleotide-binding, UBL conjugation pathway; 1.80A {Homo sapiens} PDB: 3k9p_A 1yla_A 2o25_A

Probab=97.68  E-value=4.2e-05  Score=67.33  Aligned_cols=38  Identities=26%  Similarity=0.334  Sum_probs=35.8

Q ss_pred             HHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHh
Q 022703          115 KELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEH  153 (293)
Q Consensus       115 ~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h  153 (293)
                      ++.|.+|++|||+++.|..||...++ +++.|++|||+|
T Consensus       164 eekV~~l~~MGf~~~~a~~AL~~~~w-d~~~A~e~L~~~  201 (201)
T 3k9o_A          164 TKKIENLCAMGFDRNAVIVALSSKSW-DVETATELLLSN  201 (201)
T ss_dssp             HHHHHHHHTTTCCHHHHHHHHHHTTT-CHHHHHHHHHHC
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHcCC-CHHHHHHHHhcC
Confidence            67899999999999999999999987 999999999986

>2f1z_A Ubiquitin carboxyl-terminal hydrolase 7; hausp, USP7, UBP, deubiquitinating enzyme, substrate recognition; 3.20A {Homo sapiens}

Probab=97.58  E-value=2.1e-05  Score=77.42  Aligned_cols=51  Identities=8%  Similarity=-0.044  Sum_probs=44.0

Q ss_pred             ccccCCCCCCCCCccccccccccccccccccchhhccccccccc----Cccc---cCCccccccCC
Q 022703           42 NLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEV----PKAT---ADSEEAIDVDM  100 (293)
Q Consensus        42 ~~~C~~Cg~~~~~~~e~~~a~K~t~f~tFP~~Lvv~~~Rf~l~~----p~K~---~~~~~~lDl~~  100 (293)
                      .|.|+.|+.        ..|.|+..|.++|++|+||++||.++.    ..|+   +.+|..|||+.
T Consensus       340 ~~~C~~c~~--------~~a~k~~~i~~lP~vL~i~LkRF~~~~~~~~~~Ki~~~v~fp~~Ldl~~  397 (522)
T 2f1z_A          340 KYDAGEHGL--------QEAEKGVKFLTLPPVLHLQLMRFMYDPQTDQNIKINDRFEFPEQLPLDE  397 (522)
T ss_dssp             CBCCGGGCS--------BCEEEEEEESCCCSEEEEEECCEEECSSSSCEEECCCCCBCCSEEECGG
T ss_pred             eeecCcCCc--------cceEEEEEeecCCceEEEEEEeEEEcccCCcceEcCcEEeCCCeecchh
Confidence            489999986        478999999999999999999999874    5677   66788999975

>1wj7_A Hypothetical protein (RSGI RUH-015); UBA domain, ubiquitin associated domain, structural genomics, riken structural genomics/proteomics initiative; NMR {Mus musculus} SCOP: a.5.2.1

Probab=97.38  E-value=0.00021  Score=57.44  Aligned_cols=41  Identities=29%  Similarity=0.372  Sum_probs=37.0

Q ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHhCCCCHHHHHHHHHHhcCC
Q 022703          115 KELLKELEAM-GFPVARATRALHYSGNANVEAAVNWVVEHEND  156 (293)
Q Consensus       115 ~~~l~~L~~M-GF~~~~a~kAL~~tgn~~~E~A~~WL~~h~dD  156 (293)
                      ++.|..|++| ||+++.|+.||..+++ +++.|++.||+...|
T Consensus        40 eekVk~L~EmtG~seeeAr~AL~~~ng-Dl~~AI~~Lleg~~~   81 (104)
T 1wj7_A           40 EEKVKQLIDITGKNQDECVIALHDCNG-DVNRAINVLLEGNPD   81 (104)
T ss_dssp             HHHHHHHHHHTCCCHHHHHHHHHHHTS-CHHHHHHHHHTCSSS
T ss_pred             HHHHHHHHHhhCCCHHHHHHHHHHcCC-CHHHHHHHHHhCCCc
Confidence            3568999999 9999999999999987 999999999987654

>3e46_A Ubiquitin-conjugating enzyme E2-25 kDa; huntington interacting, ligase, alternative splicing, cytoplasm, UBL conjugation, UBL conjugation pathway; 1.86A {Homo sapiens} SCOP: a.5.2.1 d.20.1.1 PDB: 3f92_A*

Probab=96.11  E-value=0.0067  Score=55.46  Aligned_cols=38  Identities=24%  Similarity=0.290  Sum_probs=34.9

Q ss_pred             HHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHh
Q 022703          115 KELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEH  153 (293)
Q Consensus       115 ~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h  153 (293)
                      .+.|..|++|||+++.|..||...++ +++.|++.||++
T Consensus       216 ~~~v~~l~~mgf~~~~~~~al~~~nW-d~~~A~e~L~~~  253 (253)
T 3e46_A          216 TKKIENLCAAGFDRNAVIVALSSKSW-DVETATELLLSN  253 (253)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHTTT-CHHHHHHHHHHC
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHcCC-CHHHHHHHHhcC
Confidence            46799999999999999999999877 999999999973

>1wgl_A TOLL-interacting protein; CUE domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, immune system; NMR {Homo sapiens} SCOP: a.5.2.4

Probab=95.06  E-value=0.041  Score=39.66  Aligned_cols=46  Identities=26%  Similarity=0.408  Sum_probs=38.3

Q ss_pred             ccccCHHHHHHHHhCCCC---HHHHHHHHHHhCCCCHHHHHHHHHHhcCCC
Q 022703          110 EPEVDKELLKELEAMGFP---VARATRALHYSGNANVEAAVNWVVEHENDP  157 (293)
Q Consensus       110 ~~~~~~~~l~~L~~MGF~---~~~a~kAL~~tgn~~~E~A~~WL~~h~dD~  157 (293)
                      .+.+.++.+.+|.+| ||   ...++.+|..++| +++.||+-|++..++.
T Consensus         5 ~~~~~ee~l~~L~em-FP~ld~~~I~~vL~a~~g-dvd~aI~~LL~m~~~~   53 (59)
T 1wgl_A            5 SSGCSEEDLKAIQDM-FPNMDQEVIRSVLEAQRG-NKDAAINSLLQMGEEP   53 (59)
T ss_dssp             SSSSCHHHHHHHHHH-CSSSCHHHHHHHHTTTTT-CHHHHHHHHHHSSCCC
T ss_pred             CCCCCHHHHHHHHHH-CCCCCHHHHHHHHHHcCC-CHHHHHHHHHcCcCCC
Confidence            466799999999999 76   4778888888877 9999999999966654

>2eps_A POZ-, at HOOK-, and zinc finger-containing protein 1; C2H2, zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.37.1.1

Probab=94.20  E-value=0.077  Score=35.36  Aligned_cols=42  Identities=17%  Similarity=0.266  Sum_probs=33.8

Q ss_pred             cceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCCC
Q 022703            3 GVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPC   52 (293)
Q Consensus         3 ~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~~   52 (293)
                      ...++|..||+.+.....-+.|... .|..       ...|.|+.||+.|
T Consensus        10 ~k~~~C~~C~k~f~~~~~L~~H~~~-~H~~-------~k~~~C~~C~k~F   51 (54)
T 2eps_A           10 GKPYICQSCGKGFSRPDHLNGHIKQ-VHTS-------ERPHKCQVWVSGP   51 (54)
T ss_dssp             SCCEECSSSCCEESSHHHHHHHHHH-TSCC-------CCCCCSSSSCCSS
T ss_pred             CCCeECCCCCcccCCHHHHHHHHHH-hcCC-------CCCccCCCCCCCC
Confidence            4568999999999999999999875 5653       2449999999964

>2cp9_A EF-TS, EF-TSMT, elongation factor TS, mitochondrial; UBA, structural genomics, human, NPPSFA; NMR {Homo sapiens} SCOP: a.5.2.2

Probab=94.18  E-value=0.076  Score=39.00  Aligned_cols=42  Identities=26%  Similarity=0.502  Sum_probs=36.4

Q ss_pred             cccCHHHHHHHHh-CCCCHHHHHHHHHHhCCCCHHHHHHHHHHh
Q 022703          111 PEVDKELLKELEA-MGFPVARATRALHYSGNANVEAAVNWVVEH  153 (293)
Q Consensus       111 ~~~~~~~l~~L~~-MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h  153 (293)
                      ..++.+.|..|.+ -|.+...|.+||..+++ |++.|+.||-..
T Consensus         6 ~~it~~~Vk~LRe~TGag~~dcKkAL~e~~G-Di~~Ai~~Lr~k   48 (64)
T 2cp9_A            6 SGSSKELLMKLRRKTGYSFVNCKKALETCGG-DLKQAEIWLHKE   48 (64)
T ss_dssp             SCCCCHHHHHHHHHHCCCHHHHHHHHHHHTS-CHHHHHHHHHHH
T ss_pred             ccCCHHHHHHHHHHhCCCHHHHHHHHHHcCC-CHHHHHHHHHHH
Confidence            4567788888876 59999999999999987 999999999765

>2dmi_A Teashirt homolog 3; zinc finger protein 537, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=93.25  E-value=0.15  Score=38.52  Aligned_cols=44  Identities=20%  Similarity=0.291  Sum_probs=34.1

Q ss_pred             cceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCCC
Q 022703            3 GVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPC   52 (293)
Q Consensus         3 ~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~~   52 (293)
                      ....+|..||+.+.....-+.|...+||.  .+.    .-+.|+.||+.+
T Consensus        17 ~~~~~C~~C~k~f~~~~~L~~H~~~~~h~--~~~----~~~~C~~C~~~f   60 (115)
T 2dmi_A           17 ASKFRCKDCSAAYDTLVELTVHMNETGHY--RDD----NHETDNNNPKRW   60 (115)
T ss_dssp             CCSEEBSSSSCEESSHHHHHHHHHHTCCC--BCS----CCCCCCCCCSCC
T ss_pred             CCCEECCccCchhcCHHHHHHHHHHhCcc--ccC----CCccCCCCCccc
Confidence            45689999999999999999999877773  222    335699999863

>6rxn_A Rubredoxin; electron transfer(iron-sulfur protein); 1.50A {Desulfovibrio desulfuricans} SCOP: g.41.5.1

Probab=93.12  E-value=0.024  Score=39.02  Aligned_cols=36  Identities=19%  Similarity=0.489  Sum_probs=26.0

Q ss_pred             eeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCC
Q 022703            5 SLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKP   51 (293)
Q Consensus         5 ~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~   51 (293)
                      ..+|.+||+|.....+--        +-|.+.   -.+|+||.||.+
T Consensus         4 ~y~C~vCGyvyd~~~Gd~--------t~f~~l---P~dw~CP~Cg~~   39 (46)
T 6rxn_A            4 KYVCNVCGYEYDPAEHDN--------VPFDQL---PDDWCCPVCGVS   39 (46)
T ss_dssp             CEEETTTCCEECGGGGTT--------CCGGGS---CTTCBCTTTCCB
T ss_pred             EEECCCCCeEEeCCcCCC--------cchhhC---CCCCcCcCCCCc
Confidence            469999999986432111        667766   456999999975

>2drp_A Protein (tramtrack DNA-binding domain); protein-DNA complex, double helix, transcription/DNA complex; HET: DNA; 2.80A {Drosophila melanogaster} SCOP: g.37.1.1 g.37.1.1

Probab=92.85  E-value=0.038  Score=37.85  Aligned_cols=43  Identities=21%  Similarity=0.359  Sum_probs=33.2

Q ss_pred             cceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCCC
Q 022703            3 GVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPC   52 (293)
Q Consensus         3 ~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~~   52 (293)
                      ...++|..||..+.....-+.|... -|.  .+    ...|.|+.||+.+
T Consensus         8 ~k~~~C~~C~k~f~~~~~l~~H~~~-~H~--~~----~~~~~C~~C~k~f   50 (66)
T 2drp_A            8 EHTYRCKVCSRVYTHISNFCRHYVT-SHK--RN----VKVYPCPFCFKEF   50 (66)
T ss_dssp             TTEEECTTTCCEESSHHHHHHHHHH-HSS--SS----CCCEECTTTCCEE
T ss_pred             CcceECCCCcchhCCHHHHHHHHHH-HcC--CC----CcCeECCCCCCcc
Confidence            4568999999999999999999876 342  11    2459999999963

>2ct1_A Transcriptional repressor CTCF; CCCTC-BINDING factor, zinc finger, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.37.1.1 g.37.1.1

Probab=92.51  E-value=0.085  Score=37.35  Aligned_cols=44  Identities=18%  Similarity=0.348  Sum_probs=33.9

Q ss_pred             CcceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCCC
Q 022703            2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPC   52 (293)
Q Consensus         2 ~~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~~   52 (293)
                      +...++|..||+.+.....-+.|... .|..  +    ...|.|+.|++.|
T Consensus        12 ~~k~~~C~~C~k~f~~~~~L~~H~~~-~h~~--~----~~~~~C~~C~~~f   55 (77)
T 2ct1_A           12 GEKPYECYICHARFTQSGTMKMHILQ-KHTE--N----VAKFHCPHCDTVI   55 (77)
T ss_dssp             CCCSEECTTTCCEESCHHHHHHHHHH-HSSS--S----CSSEECSSSSCEE
T ss_pred             CCCCeECCCcCchhCCHHHHHHHHHH-hcCC--C----CCccCCCCCCCcc
Confidence            34568999999999999999999875 3432  1    2459999999963

>2d9h_A Zinc finger protein 692; ZF-C2H2 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=92.30  E-value=0.049  Score=38.66  Aligned_cols=44  Identities=30%  Similarity=0.529  Sum_probs=33.3

Q ss_pred             CcceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCC
Q 022703            2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKP   51 (293)
Q Consensus         2 ~~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~   51 (293)
                      +...++|..||+.+.....-..|...  |..-.    ....|.|+.||+.
T Consensus         4 ~~k~~~C~~C~k~f~~~~~L~~H~~~--h~~~~----~~~~~~C~~C~k~   47 (78)
T 2d9h_A            4 GSSGLQCEICGFTCRQKASLNWHQRK--HAETV----AALRFPCEFCGKR   47 (78)
T ss_dssp             SCCCEECSSSCCEESSHHHHHHHHHH--HHHHT----TTCCEECTTTCCE
T ss_pred             CCcCeECCCCCCeeCCHHHHHHHHHH--hhccC----CCcccCCCCCCch
Confidence            45678999999999999999999754  43211    1245999999996

>4gzn_C ZFP-57, zinc finger protein 57; transcription-DNA complex; HET: DNA 5CM; 0.99A {Mus musculus}

Probab=92.14  E-value=0.066  Score=37.83  Aligned_cols=40  Identities=25%  Similarity=0.458  Sum_probs=32.5

Q ss_pred             ceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCCC
Q 022703            4 VSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPC   52 (293)
Q Consensus         4 ~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~~   52 (293)
                      ...+|..||+.+.....-..|...  |++   .    .-|.|+.||+.|
T Consensus         3 Kpy~C~~C~k~F~~~~~L~~H~~~--Ht~---e----kp~~C~~C~k~F   42 (60)
T 4gzn_C            3 RPFFCNFCGKTYRDASGLSRHRRA--HLG---Y----RPRSCPECGKCF   42 (60)
T ss_dssp             CCEECTTTCCEESSHHHHHHHHHH--HHT---C----CCEECTTTCCEE
T ss_pred             CCccCCCCCCEeCCHHHHHHHHHH--hCC---C----cCeECCCCCCCc
Confidence            457999999999999999999754  742   2    459999999964

>1bbo_A Human enhancer-binding protein MBP-1; DNA-binding protein; HET: ABA; NMR {Homo sapiens} SCOP: g.37.1.1 g.37.1.1 PDB: 3znf_A 4znf_A

Probab=92.02  E-value=0.068  Score=35.32  Aligned_cols=38  Identities=21%  Similarity=0.504  Sum_probs=30.9

Q ss_pred             eecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCCC
Q 022703            6 LKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPC   52 (293)
Q Consensus         6 LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~~   52 (293)
                      .+|..||..+.....-..|...  |..       ...|.|+.||+.+
T Consensus         2 ~~C~~C~~~f~~~~~l~~H~~~--h~~-------~~~~~C~~C~~~f   39 (57)
T 1bbo_A            2 YICEECGIRXKKPSMLKKHIRT--HTD-------VRPYHCTYCNFSF   39 (57)
T ss_dssp             CBCTTTCCBCSSHHHHHHHHHH--TSS-------CCCEECSSSSCEE
T ss_pred             CcCCCCcCcCCCHHHHHHHHHh--cCC-------CCCccCCCCCchh
Confidence            5799999999999999999865  543       1349999999964

>1x6e_A Zinc finger protein 24; ZNF24, KOX17, ZNF191, zscan3, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.37.1.1 g.37.1.1

Probab=91.72  E-value=0.087  Score=36.90  Aligned_cols=42  Identities=21%  Similarity=0.494  Sum_probs=33.3

Q ss_pred             CcceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCCC
Q 022703            2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPC   52 (293)
Q Consensus         2 ~~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~~   52 (293)
                      ....++|..|++.+.....-+.|...  |..       ...|.|+.|++.|
T Consensus        11 ~~k~~~C~~C~k~f~~~~~L~~H~~~--h~~-------~~~~~C~~C~~~f   52 (72)
T 1x6e_A           11 GEKPYGCVECGKAFSRSSILVQHQRV--HTG-------EKPYKCLECGKAF   52 (72)
T ss_dssp             TCCCEECSSSCCEESSHHHHHHHHHG--GGC-------SCCEECSSSCCEE
T ss_pred             CCCCccCCCCCCccCCHHHHHHHHHh--cCC-------CCCeECCCCCccc
Confidence            34568999999999999999999764  542       2349999999963

>2ghf_A ZHX1, zinc fingers and homeoboxes protein 1; C2H2 zinc fingers, 4-stranded parallel/anti-parallel beta- sheet, structural genomics; NMR {Homo sapiens} SCOP: g.37.1.1 g.37.1.1

Probab=91.64  E-value=0.13  Score=40.08  Aligned_cols=46  Identities=17%  Similarity=0.278  Sum_probs=36.0

Q ss_pred             CcceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCCC
Q 022703            2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPC   52 (293)
Q Consensus         2 ~~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~~   52 (293)
                      +...++|..||+.+.....-..|... .|.++.+.    ..|.|+.||+.|
T Consensus        15 gekpy~C~~Cgk~F~~~~~L~~H~r~-~H~~~~~e----kpf~C~~Cgk~F   60 (102)
T 2ghf_A           15 VEGGYECKYCTFQTPDLNMFTFHVDS-EHPNVVLN----SSYVCVECNFLT   60 (102)
T ss_dssp             CCSSEECSSCSCEESCHHHHHHHHHH-HCSSCCCS----CCEEETTTTEEE
T ss_pred             CCcCcCCCCCCCccCCHHHHHHHHHh-hCCCCCCC----CCcCCCCCCccc
Confidence            44568999999999999999999865 57664333    349999999964

>3uk3_C Zinc finger protein 217; transcription factor, DNA binding, DNA-metal BI protein complex; 2.10A {Homo sapiens}

Probab=91.49  E-value=0.055  Score=35.80  Aligned_cols=40  Identities=25%  Similarity=0.434  Sum_probs=30.9

Q ss_pred             ceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCCC
Q 022703            4 VSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPC   52 (293)
Q Consensus         4 ~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~~   52 (293)
                      ...+|..||..+.....-..|...  |..       ...|.|+.||+.+
T Consensus         3 ~~~~C~~C~~~f~~~~~l~~H~~~--h~~-------~~~~~C~~C~~~f   42 (57)
T 3uk3_C            3 SSRECSYCGKFFRSNYYLNIHLRT--HTG-------EKPYKCEFCEYAA   42 (57)
T ss_dssp             --CBCTTTCCBCSCHHHHHHHHHH--HHC-------CCCEECSSSSCEE
T ss_pred             CCccCCCCcchhCChHHHHHHHHH--cCC-------CCCcCCCCCcchh
Confidence            467899999999999999999774  532       1349999999863

>2epr_A POZ-, at HOOK-, and zinc finger-containing protein 1; C2H2, zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.37.1.1

Probab=91.35  E-value=0.18  Score=32.47  Aligned_cols=39  Identities=23%  Similarity=0.389  Sum_probs=31.1

Q ss_pred             cceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCC
Q 022703            3 GVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGK   50 (293)
Q Consensus         3 ~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~   50 (293)
                      ...++|..||+.+.....-+.|..  .|..   .    ..|.|+.||+
T Consensus        10 ~k~~~C~~C~k~f~~~~~L~~H~~--~H~~---~----k~~~C~~C~k   48 (48)
T 2epr_A           10 RKQVACEICGKIFRDVYHLNRHKL--SHSG---E----KPYSSGPSSG   48 (48)
T ss_dssp             CCSEEETTTTEEESSHHHHHHHGG--GSCS---C----CCCCSCCCCC
T ss_pred             CcCeeCCCCCcccCCHHHHHHHHH--hcCC---C----CCccCCCCCC
Confidence            456899999999999999999964  3642   2    3499999986

>2lce_A B-cell lymphoma 6 protein; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative; NMR {Homo sapiens}

Probab=91.27  E-value=0.085  Score=37.06  Aligned_cols=41  Identities=24%  Similarity=0.501  Sum_probs=32.7

Q ss_pred             cceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCCC
Q 022703            3 GVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPC   52 (293)
Q Consensus         3 ~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~~   52 (293)
                      ....+|..||+.+.....-+.|...  |..       ...|.|+.||+.+
T Consensus        15 ~~~~~C~~C~k~f~~~~~l~~H~~~--H~~-------~~~~~C~~C~k~f   55 (74)
T 2lce_A           15 DKPYKCDRCQASFRYKGNLASHKTV--HTG-------EKPYRCNICGAQF   55 (74)
T ss_dssp             CCSBCCTTSSCCBSCHHHHHHHHHH--HCC-------CCSEECTTTCCEE
T ss_pred             CCCeECCCCCceeCCHHHHHHHHHH--cCC-------CCCEECCCCCchh
Confidence            4568999999999999999999764  542       1349999999964

>2epq_A POZ-, at HOOK-, and zinc finger-containing protein 1; C2H2, zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.37.1.1

Probab=91.18  E-value=0.17  Score=31.98  Aligned_cols=39  Identities=15%  Similarity=0.318  Sum_probs=31.1

Q ss_pred             CcceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCC
Q 022703            2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCG   49 (293)
Q Consensus         2 ~~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg   49 (293)
                      +....+|..||+.+.....-..|...  |..       ...|.|+.||
T Consensus         7 ~~k~~~C~~C~k~f~~~~~l~~H~~~--H~~-------~~~~~C~~cg   45 (45)
T 2epq_A            7 GEKPYSCPVCGLRFKRKDRMSYHVRS--HDG-------SVGKSGPSSG   45 (45)
T ss_dssp             SCCSSEETTTTEECSCHHHHHHHHHH--HSC-------CCCCCCCCCC
T ss_pred             CCCCCcCCCCCcccCCHHHHHHHHHH--ccC-------CCCCCCcCCC
Confidence            34568999999999999999999754  653       2458999997

>2adr_A ADR1; transcription regulation, zinc finger,; NMR {Saccharomyces cerevisiae} SCOP: g.37.1.1 g.37.1.1

Probab=91.17  E-value=0.12  Score=34.51  Aligned_cols=39  Identities=21%  Similarity=0.453  Sum_probs=31.4

Q ss_pred             eeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCCC
Q 022703            5 SLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPC   52 (293)
Q Consensus         5 ~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~~   52 (293)
                      ..+|..||..+.....-+.|...  |..       ...|.|+.||+.+
T Consensus         2 ~~~C~~C~~~f~~~~~l~~H~~~--h~~-------~~~~~C~~C~~~f   40 (60)
T 2adr_A            2 SFVCEVCTRAFARQEHLKRHYRS--HTN-------EKPYPCGLCNRAF   40 (60)
T ss_dssp             CBCCTTTCCCBSCHHHHHHHHHT--TTS-------SCSEECTTTCCEE
T ss_pred             cCcCCCCccccCCHHHHHHHHHH--hCC-------CCCccCCCCCCcc
Confidence            46899999999999999999764  642       1349999999963

>1x5w_A Zinc finger protein 64, isoforms 1; ZNF338, nuclear protein, DNA binding, transcription, C2H2 type zinc finger, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.37.1.1 g.37.1.1

Probab=91.04  E-value=0.13  Score=35.65  Aligned_cols=42  Identities=21%  Similarity=0.411  Sum_probs=33.4

Q ss_pred             CcceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCCC
Q 022703            2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPC   52 (293)
Q Consensus         2 ~~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~~   52 (293)
                      ....++|..||+.+.....-+.|...  |..       ...|.|+.|++.+
T Consensus         6 ~~~~~~C~~C~k~f~~~~~L~~H~~~--H~~-------~~~~~C~~C~~~f   47 (70)
T 1x5w_A            6 SGHPEKCSECSYSCSSKAALRIHERI--HCT-------DRPFKCNYCSFDT   47 (70)
T ss_dssp             CCCSEECSSSSCEESSHHHHHHHHGG--GCC-------SCSEECSSSSCEE
T ss_pred             CCCCeECCCCCcccCCHHHHHHHHHH--cCC-------CCCEeCCCCCCcc
Confidence            35678999999999999999999854  642       1349999999963

>2dhy_A CUE domain-containing protein 1; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=90.68  E-value=0.25  Score=36.48  Aligned_cols=42  Identities=14%  Similarity=0.286  Sum_probs=35.1

Q ss_pred             cCHHHHHHHHhCCCCH---HHHHHHHHHhCCCCHHHHHHHHHHhcCC
Q 022703          113 VDKELLKELEAMGFPV---ARATRALHYSGNANVEAAVNWVVEHEND  156 (293)
Q Consensus       113 ~~~~~l~~L~~MGF~~---~~a~kAL~~tgn~~~E~A~~WL~~h~dD  156 (293)
                      .-+..+.+|.+| ||.   ..+++.|..+|| +++.||+-|+...++
T Consensus        17 ~~~~~v~~L~~M-FP~lD~~vI~~vL~a~~G-~vd~aId~LL~ms~~   61 (67)
T 2dhy_A           17 EFNQAMDDFKTM-FPNMDYDIIECVLRANSG-AVDATIDQLLQMNLE   61 (67)
T ss_dssp             CSHHHHHHHHHH-CSSSCHHHHHHHHHHHTS-CHHHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHH-CCCCCHHHHHHHHHHcCC-CHHHHHHHHHhcCCC
Confidence            456789999999 865   778899999887 899999999886554

>2ctd_A Zinc finger protein 512; zinc binding, two ZF-C2H2 domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.37.1.1 g.37.1.1

Probab=90.42  E-value=0.21  Score=37.88  Aligned_cols=40  Identities=28%  Similarity=0.574  Sum_probs=32.3

Q ss_pred             ceeecccCCccc-cCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCCCC
Q 022703            4 VSLKCGDCGALL-RSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPCR   53 (293)
Q Consensus         4 ~~LkC~~Cg~v~-~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~~~   53 (293)
                      ..++|..||+.+ .....-..|...  |   ++     ..|.|+.||+.|.
T Consensus        33 ~~~~C~~C~k~F~~~~~~L~~H~~~--h---~~-----k~~~C~~Cgk~F~   73 (96)
T 2ctd_A           33 GSVSCPTCQAVGRKTIEGLKKHMEN--C---KQ-----EMFTCHHCGKQLR   73 (96)
T ss_dssp             SCEECTTTCSCEESSHHHHHHHHHH--H---CC-----CCCCCSSSCCCCS
T ss_pred             CCcCCCCCCCCcccCHHHHHHHHHH--H---CC-----CCeECCCCCCeeC
Confidence            357999999999 899999999865  5   22     3499999999753

>1q02_A Sequestosome 1; helical bundle, protein binding; NMR {Homo sapiens} SCOP: a.5.2.1 PDB: 2jy7_A 2jy8_A 2k0b_X 2knv_A 2rru_A 3b0f_A

Probab=90.36  E-value=0.21  Score=35.22  Aligned_cols=34  Identities=29%  Similarity=0.427  Sum_probs=25.7

Q ss_pred             HHHHHHHhCCCCHHHHH--HHHHHhCCCCHHHHHHHH
Q 022703          116 ELLKELEAMGFPVARAT--RALHYSGNANVEAAVNWV  150 (293)
Q Consensus       116 ~~l~~L~~MGF~~~~a~--kAL~~tgn~~~E~A~~WL  150 (293)
                      ++|.||++|||+-.-.-  +.|. +.|.++..|+|-|
T Consensus        12 ~al~qMl~MGF~negGWLt~LL~-~k~gDI~~aLD~l   47 (52)
T 1q02_A           12 ESLSQMLSMGFSDEGGWLTRLLQ-TKNYDIGAALDTI   47 (52)
T ss_dssp             HHHHHHHTTTCCCTTSHHHHHHH-HTTTCHHHHHHHH
T ss_pred             HHHHHHHHcCCCccccHHHHHHH-HccCCHHHHHHHh
Confidence            56899999999986664  5454 4445899999876

>2yt9_A Zinc finger-containing protein 1; C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.37.1.1 g.37.1.1 g.37.1.1

Probab=89.96  E-value=0.28  Score=35.52  Aligned_cols=23  Identities=26%  Similarity=0.583  Sum_probs=13.1

Q ss_pred             ceeecccCCccccCHHHHHHHHH
Q 022703            4 VSLKCGDCGALLRSVQEAQEHAE   26 (293)
Q Consensus         4 ~~LkC~~Cg~v~~~~~~aq~ha~   26 (293)
                      ..++|..|+..+.....-..|..
T Consensus         6 ~~~~C~~C~~~f~~~~~l~~H~~   28 (95)
T 2yt9_A            6 SGVACEICGKIFRDVYHLNRHKL   28 (95)
T ss_dssp             SCEECSSSCCEESSSHHHHHHHH
T ss_pred             CCeECCCCCCccCChHHHHHHHH
Confidence            34556666666655555555554

>1x6h_A Transcriptional repressor CTCF; zinc finger protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.37.1.1 g.37.1.1

Probab=89.66  E-value=0.23  Score=35.26  Aligned_cols=44  Identities=27%  Similarity=0.553  Sum_probs=33.0

Q ss_pred             CcceeecccCCccccCHHHHHHHHHHhccCC-CCcchhhhhccccCCCCCC
Q 022703            2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSN-FSESTEAVLNLVCATCGKP   51 (293)
Q Consensus         2 ~~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~-F~e~~d~i~~~~C~~Cg~~   51 (293)
                      +...++|..|++.+.....-..|... -|.. +.+     ..|.|+.|++.
T Consensus        12 ~~k~~~C~~C~~~f~~~~~l~~H~~~-~~~~~~~~-----~~~~C~~C~~~   56 (86)
T 1x6h_A           12 GEKPYACSHCDKTFRQKQLLDMHFKR-YHDPNFVP-----AAFVCSKCGKT   56 (86)
T ss_dssp             CCCCEECSSSSCEESSHHHHHHHHHH-TTCSSCCC-----CCEECSSSCCE
T ss_pred             CCCCCcCCCCCCccCCHHHHHHHHHH-hcCCcCCC-----cceECCCCCCh
Confidence            34568999999999999999999876 3321 111     24899999996

>2gqj_A Zinc finger protein KIAA1196; ZF-C2H2 like domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=89.57  E-value=0.18  Score=37.77  Aligned_cols=42  Identities=21%  Similarity=0.414  Sum_probs=32.4

Q ss_pred             cceeecccCCcccc-CHHHHHHHHHHhccCCCCcchhhhhccccCCCCCCC
Q 022703            3 GVSLKCGDCGALLR-SVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPC   52 (293)
Q Consensus         3 ~~~LkC~~Cg~v~~-~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~~   52 (293)
                      ...++|..||+.+. ....-+.|...  |..      ....|.|+.||+.|
T Consensus        22 ~~~~~C~~C~k~f~~~~~~L~~H~~~--h~~------~~~~~~C~~C~k~F   64 (98)
T 2gqj_A           22 RGEAVCPTCNVVTRKTLVGLKKHMEV--CQK------LQDALKCQHCRKQF   64 (98)
T ss_dssp             TSCCCCTTTCCCCSSCSHHHHHHHHH--HHH------HHHHHSCSSSCCCC
T ss_pred             CCCcCCCCCCCChhhhHHHHHHHHHH--HcC------CCCCEECCCCCCcc
Confidence            35679999999999 88888899854  432      12459999999974

>2kn9_A Rubredoxin; metalloprotein, ssgcid, structural genomics, seattle structural genomics center for infectious electron transport, iron; NMR {Mycobacterium tuberculosis}

Probab=89.38  E-value=0.043  Score=42.11  Aligned_cols=43  Identities=16%  Similarity=0.390  Sum_probs=27.1

Q ss_pred             eeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCC
Q 022703            5 SLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKP   51 (293)
Q Consensus         5 ~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~   51 (293)
                      ..+|.+||+|..+..+--...-.-| +-|.+.   -.+|+||.||-+
T Consensus        27 ~y~C~vCGyvYD~~~Gdp~~gI~pG-T~fedl---PddW~CPvCga~   69 (81)
T 2kn9_A           27 LFRCIQCGFEYDEALGWPEDGIAAG-TRWDDI---PDDWSCPDCGAA   69 (81)
T ss_dssp             EEEETTTCCEEETTTCBTTTTBCTT-CCTTTS---CTTCCCTTTCCC
T ss_pred             eEEeCCCCEEEcCCcCCcccCcCCC-CChhHC---CCCCcCCCCCCC
Confidence            6899999999865432211111112 236655   456999999975

>2cot_A Zinc finger protein 435; ADK_LID domain, zinc finger and SCAN domain containing protein 16, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.37.1.1 g.37.1.1

Probab=89.08  E-value=0.19  Score=35.41  Aligned_cols=41  Identities=24%  Similarity=0.580  Sum_probs=32.6

Q ss_pred             cceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCCC
Q 022703            3 GVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPC   52 (293)
Q Consensus         3 ~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~~   52 (293)
                      ...++|..||+.+.....-..|...  |..       ...|.|+.|++.+
T Consensus        16 ~~~~~C~~C~~~f~~~~~l~~H~~~--h~~-------~~~~~C~~C~~~f   56 (77)
T 2cot_A           16 RRRYKCDECGKSFSHSSDLSKHRRT--HTG-------EKPYKCDECGKAF   56 (77)
T ss_dssp             SCSSBCSSSCCBCSCHHHHHHHHTT--TCC-------SCSEECSSSCCEE
T ss_pred             CCCEECCCCCcccCCHHHHHHHHHH--cCC-------CcCeeCCCCCCcc
Confidence            3567999999999999999999753  543       1349999999964

>1yk4_A Rubredoxin, RD; electron transport; 0.69A {Pyrococcus abyssi} PDB: 2pya_A 1yk5_A 1bq8_A 1bq9_A* 3kyu_A 3kyv_A 3kyw_A 3kyx_A 3kyy_A 3ryg_A 3rz6_A 3rzt_A 3ss2_A 1brf_A 1caa_A 1cad_A 1vcx_A 1zrp_A 1iu5_A 1iu6_A ...

Probab=89.06  E-value=0.047  Score=38.40  Aligned_cols=43  Identities=23%  Similarity=0.559  Sum_probs=27.2

Q ss_pred             eeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCC
Q 022703            5 SLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKP   51 (293)
Q Consensus         5 ~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~   51 (293)
                      +.+|.+||+|-.+..+--.+.-.-| +-|.+.   -.+|+||.||-.
T Consensus         2 ~~~C~~CGyvYd~~~Gdp~~gi~pG-t~f~~l---P~dw~CP~Cg~~   44 (52)
T 1yk4_A            2 KLSCKICGYIYDEDEGDPDNGISPG-TKFEDL---PDDWVCPLCGAP   44 (52)
T ss_dssp             EEEESSSSCEEETTTCBGGGTBCTT-CCGGGS---CTTCBCTTTCCB
T ss_pred             cEEeCCCCeEECCCcCCcccCcCCC-CCHhHC---CCCCcCCCCCCC
Confidence            5789999999866443222222212 236555   456999999975

>4rxn_A Rubredoxin; electron transfer(iron-sulfur protein); 1.20A {Clostridium pasteurianum} SCOP: g.41.5.1 PDB: 5rxn_A 1bfy_A 1fhh_A 1fhm_A 1irn_A 1iro_A 1r0f_A 1r0g_A 1r0h_A 1r0i_A 1r0j_A 1t9q_A 1c09_A 1b2j_A 1b13_A 1smm_A 1smu_A 1smw_A 1be7_A 1t9o_A ...

Probab=89.04  E-value=0.044  Score=38.92  Aligned_cols=43  Identities=19%  Similarity=0.451  Sum_probs=27.3

Q ss_pred             eeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCC
Q 022703            5 SLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKP   51 (293)
Q Consensus         5 ~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~   51 (293)
                      ..+|..||+|-....+--.+.-. --+.|.+.   -.+|+||.||-.
T Consensus         3 ~y~C~vCGyvYd~~~Gdp~~gi~-pGt~fe~l---P~dw~CP~Cg~~   45 (54)
T 4rxn_A            3 KYTCTVCGYIYDPEDGDPDDGVN-PGTDFKDI---PDDWVCPLCGVG   45 (54)
T ss_dssp             CEEETTTCCEECTTTCBGGGTBC-TTCCGGGS---CTTCBCTTTCCB
T ss_pred             ceECCCCCeEECCCcCCcccCcC-CCCChhHC---CCCCcCcCCCCc
Confidence            46899999998654332222111 12456665   456999999974

>2lv2_A Insulinoma-associated protein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative; NMR {Homo sapiens}

Probab=88.80  E-value=0.21  Score=37.63  Aligned_cols=40  Identities=20%  Similarity=0.354  Sum_probs=32.1

Q ss_pred             ceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCCC
Q 022703            4 VSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPC   52 (293)
Q Consensus         4 ~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~~   52 (293)
                      -...|..||+.|.....-..|...  |..   .    ..|.|+.||+.|
T Consensus        27 ~~h~C~~Cgk~F~~~~~L~~H~~~--H~~---~----k~~~C~~C~k~F   66 (85)
T 2lv2_A           27 ECHLCPVCGESFASKGAQERHLRL--LHA---A----QVFPCKYCPATF   66 (85)
T ss_dssp             TTEECTTSCCEESSHHHHHHHHHT--TSC---S----SSEECTTSSCEE
T ss_pred             CCEECCCCCCCcCcHHHHhhhhhh--ccC---C----CccCCCCCCCEe
Confidence            346899999999999999999754  642   2    349999999964

>1e8j_A Rubredoxin; iron-sulfur-protein, zinc-substitution, thermostability; NMR {Desulfovibrio gigas} SCOP: g.41.5.1 PDB: 1rdg_A 2dsx_A 1spw_A

Probab=88.69  E-value=0.063  Score=37.73  Aligned_cols=43  Identities=16%  Similarity=0.404  Sum_probs=26.8

Q ss_pred             eeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCC
Q 022703            5 SLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKP   51 (293)
Q Consensus         5 ~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~   51 (293)
                      +.+|.+||+|-....+--.+.-.-| +-|.+.   -.+|+||.||-.
T Consensus         3 ~y~C~~CGyvYd~~~Gdp~~gi~pG-t~f~~l---P~dw~CP~Cg~~   45 (52)
T 1e8j_A            3 IYVCTVCGYEYDPAKGDPDSGIKPG-TKFEDL---PDDWACPVCGAS   45 (52)
T ss_dssp             CEECSSSCCCCCTTTCCTTTTCCSS-CCTTSS---CTTCCCSSSCCC
T ss_pred             cEEeCCCCeEEcCCcCCcccCcCCC-CchHHC---CCCCcCCCCCCc
Confidence            5789999999865432211211212 236665   456999999975

>1vd4_A Transcription initiation factor IIE, alpha subunit; zinc finger; NMR {Homo sapiens} SCOP: g.41.3.1

Probab=88.01  E-value=0.37  Score=33.05  Aligned_cols=39  Identities=21%  Similarity=0.416  Sum_probs=26.8

Q ss_pred             CcceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCCC
Q 022703            2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPC   52 (293)
Q Consensus         2 ~~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~~   52 (293)
                      +....+|..||+.+.....-+    . .|..       ...|.|+.||+.+
T Consensus        11 ~~k~~~C~~C~k~F~~~~~l~----~-~H~~-------~k~~~C~~C~k~f   49 (62)
T 1vd4_A           11 NRASFKCPVCSSTFTDLEANQ----L-FDPM-------TGTFRCTFCHTEV   49 (62)
T ss_dssp             SSSEEECSSSCCEEEHHHHHH----H-EETT-------TTEEBCSSSCCBC
T ss_pred             CCCCccCCCCCchhccHHHhH----h-hcCC-------CCCEECCCCCCcc
Confidence            345689999999997543222    3 5642       1359999999964

>3a43_A HYPD, hydrogenase nickel incorporation protein HYPA; [NIFE] hydrogenase maturation, zinc-finger, nickel binding, metal-binding; HET: FME; 2.30A {Pyrococcus kodakaraensis} PDB: 3a44_A*

Probab=87.86  E-value=0.34  Score=40.17  Aligned_cols=39  Identities=23%  Similarity=0.532  Sum_probs=24.4

Q ss_pred             ceeecccCCccccCHHHHHHHHHHhccCCCCcchhhh---------hccccCCCCCC
Q 022703            4 VSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAV---------LNLVCATCGKP   51 (293)
Q Consensus         4 ~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i---------~~~~C~~Cg~~   51 (293)
                      -.++|.+||+.+....         -+..+.+..++.         ..+.||.||++
T Consensus        69 ~~~~C~~CG~~~~~~~---------~~~~~~~~~~~~~h~~p~~~~~~~~CP~Cgs~  116 (139)
T 3a43_A           69 AVFKCRNCNYEWKLKE---------VKDKFDERIKEDIHFIPEVVHAFLACPKCGSH  116 (139)
T ss_dssp             CEEEETTTCCEEEGGG---------CTTCCSCCCGGGCCCCGGGCGGGCSCSSSSCC
T ss_pred             CcEECCCCCCEEeccc---------ccccccccccccccccccccccCCcCccccCC
Confidence            3689999999987622         112333332222         14789999997

>2v3b_B Rubredoxin 2, rubredoxin; alkane degradation, iron-sulfur protein, oxidoreductase, ELE transfer, electron transport, FAD, NAD, iron; HET: FAD; 2.45A {Pseudomonas aeruginosa}

Probab=87.54  E-value=0.056  Score=38.41  Aligned_cols=43  Identities=19%  Similarity=0.439  Sum_probs=27.0

Q ss_pred             eeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCC
Q 022703            5 SLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKP   51 (293)
Q Consensus         5 ~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~   51 (293)
                      +.+|.+||+|..+..+--.+.-.-| +-|.+.   -.+|+||.||-.
T Consensus         3 ~y~C~~CGyvYd~~~Gdp~~gi~pG-t~f~~l---P~dw~CP~Cga~   45 (55)
T 2v3b_B            3 KWQCVVCGFIYDEALGLPEEGIPAG-TRWEDI---PADWVCPDCGVG   45 (55)
T ss_dssp             EEEETTTCCEEETTTCBTTTTBCTT-CCGGGS---CTTCCCTTTCCC
T ss_pred             cEEeCCCCeEECCCcCCcccCcCCC-CChhHC---CCCCcCCCCCCC
Confidence            5789999999866443222222212 235555   456999999975

>1s24_A Rubredoxin 2; electron transport; NMR {Pseudomonas oleovorans} SCOP: g.41.5.1

Probab=87.00  E-value=0.063  Score=41.72  Aligned_cols=44  Identities=16%  Similarity=0.430  Sum_probs=26.9

Q ss_pred             ceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCC
Q 022703            4 VSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKP   51 (293)
Q Consensus         4 ~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~   51 (293)
                      -..+|.+||+|..+..+--.+.-.-| +-|.+.   -.+|.||.||-.
T Consensus        34 ~~y~C~vCGyvYD~~~Gdp~~gI~pG-T~fedl---PddW~CPvCga~   77 (87)
T 1s24_A           34 LKWICITCGHIYDEALGDEAEGFTPG-TRFEDI---PDDWCCPDCGAT   77 (87)
T ss_dssp             CEEEETTTTEEEETTSCCTTTTCCSC-CCGGGC---CTTCCCSSSCCC
T ss_pred             ceEECCCCCeEecCCcCCcccCcCCC-CChhHC---CCCCCCCCCCCC
Confidence            36899999999865432211111111 235555   456999999975

>2yt9_A Zinc finger-containing protein 1; C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.37.1.1 g.37.1.1 g.37.1.1

Probab=86.94  E-value=0.29  Score=35.43  Aligned_cols=43  Identities=21%  Similarity=0.440  Sum_probs=33.2

Q ss_pred             cceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCCC
Q 022703            3 GVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPC   52 (293)
Q Consensus         3 ~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~~   52 (293)
                      ...++|..|+..+.....-+.|...  |..-.     ...|.|+.|++.+
T Consensus        33 ~~~~~C~~C~~~f~~~~~l~~H~~~--h~~~~-----~~~~~C~~C~~~f   75 (95)
T 2yt9_A           33 EKPYSCPVCGLRFKRKDRMSYHVRS--HDGSV-----GKPYICQSCGKGF   75 (95)
T ss_dssp             SCSEECSSSCCEESCHHHHHHHHHH--HCCCC-----CSSBCCSSSCCCB
T ss_pred             CCCCcCCCCCCccCCHHHHHHHHHH--hcCCC-----CCceECCCccchh
Confidence            3468999999999999999999865  43211     1349999999974

>2dmd_A Zinc finger protein 64, isoforms 1 and 2; ZNF338, nuclear protein, DNA- binding, transcription, C2H2-type zinc finger, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.37.1.1 g.37.1.1 g.37.1.1

Probab=86.89  E-value=0.39  Score=34.83  Aligned_cols=23  Identities=22%  Similarity=0.440  Sum_probs=13.2

Q ss_pred             ceeecccCCccccCHHHHHHHHH
Q 022703            4 VSLKCGDCGALLRSVQEAQEHAE   26 (293)
Q Consensus         4 ~~LkC~~Cg~v~~~~~~aq~ha~   26 (293)
                      ..++|..|+..+.....-+.|..
T Consensus         7 ~~~~C~~C~~~f~~~~~l~~H~~   29 (96)
T 2dmd_A            7 GPHKCEVCGKCFSRKDKLKTHMR   29 (96)
T ss_dssp             CCCCBTTTTBCCCCHHHHHHHGG
T ss_pred             cCeECCCCCCccCCHHHHHHHHH
Confidence            34556666666666555555544

>2ee8_A Protein ODD-skipped-related 2; zinc binding, ZF-C2H2 domain, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: k.12.1.1

Probab=86.26  E-value=0.58  Score=34.58  Aligned_cols=41  Identities=22%  Similarity=0.427  Sum_probs=29.5

Q ss_pred             ceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCCCC
Q 022703            4 VSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPCR   53 (293)
Q Consensus         4 ~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~~~   53 (293)
                      ..++|..||..+.....-..|...  |..       ...|.|+.|++.+.
T Consensus        16 ~~~~C~~C~~~f~~~~~l~~H~~~--h~~-------~~~~~C~~C~~~f~   56 (106)
T 2ee8_A           16 KEFICKFCGRHFTKSYNLLIHERT--HTD-------ERPYTCDICHKAFR   56 (106)
T ss_dssp             CCCBCSSSCCBCSSHHHHHHHHHH--HCC-------SCCCBCSSSCCBCS
T ss_pred             cCeECCCCCCccCCHHHHHHHHHH--cCC-------CCCcCCCCccchhC
Confidence            357899999999888888888764  432       13478888887643

>1dx8_A Rubredoxin; electron transport, zinc-substitution; NMR {Guillardia theta} SCOP: g.41.5.1 PDB: 1h7v_A

Probab=86.14  E-value=0.077  Score=39.49  Aligned_cols=44  Identities=16%  Similarity=0.429  Sum_probs=27.4

Q ss_pred             ceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCC
Q 022703            4 VSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKP   51 (293)
Q Consensus         4 ~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~   51 (293)
                      -..+|.+||+|-.+..+--.+.-.-| +-|.+.   -.+|+||.||-+
T Consensus         6 ~~y~C~vCGyiYd~~~Gdp~~gi~pG-T~f~~l---Pddw~CP~Cga~   49 (70)
T 1dx8_A            6 GKYECEACGYIYEPEKGDKFAGIPPG-TPFVDL---SDSFMCPACRSP   49 (70)
T ss_dssp             SCEEETTTCCEECTTTCCTTTTCCSS-CCGGGS---CTTCBCTTTCCB
T ss_pred             ceEEeCCCCEEEcCCCCCcccCcCCC-CchhhC---CCCCcCCCCCCC
Confidence            36899999999865443222222212 235555   456999999975

>1a1h_A QGSR zinc finger peptide; complex (zinc finger/DNA), DNA-binding protein, transcription/DNA complex; HET: DNA; 1.60A {Mus musculus} SCOP: g.37.1.1 g.37.1.1 g.37.1.1 PDB: 1jk2_A 1jk1_A 1a1g_A* 1a1f_A* 1a1i_A* 1a1j_A* 1a1k_A* 1aay_A* 1a1l_A* 1p47_A 1zaa_C* 1g2f_C 1g2d_C

Probab=85.99  E-value=0.4  Score=34.25  Aligned_cols=20  Identities=15%  Similarity=0.341  Sum_probs=9.8

Q ss_pred             eecccCCccccCHHHHHHHH
Q 022703            6 LKCGDCGALLRSVQEAQEHA   25 (293)
Q Consensus         6 LkC~~Cg~v~~~~~~aq~ha   25 (293)
                      +.|..||..+.....-+.|.
T Consensus        35 ~~C~~C~~~f~~~~~l~~H~   54 (90)
T 1a1h_A           35 FQCRICMRNFSRSDHLTTHI   54 (90)
T ss_dssp             EECTTTCCEESCHHHHHHHH
T ss_pred             ccCCCCCcccCCHHHHHHHH
Confidence            44555555554444444444

>1wjp_A Zinc finger protein 295; ZF-C2H2 domain, zinc binding, nucleic acid binding, KIAA1227 protein, structural genomics; NMR {Homo sapiens} SCOP: g.37.1.1 g.37.1.1 g.37.1.1

Probab=85.91  E-value=0.54  Score=35.10  Aligned_cols=40  Identities=28%  Similarity=0.398  Sum_probs=30.6

Q ss_pred             cceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCCCC
Q 022703            3 GVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPCR   53 (293)
Q Consensus         3 ~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~~~   53 (293)
                      ....+|..|++.+.....-+.|...  |.         ..|.|+.|++.+.
T Consensus        14 ~~~~~C~~C~~~f~~~~~l~~H~~~--H~---------~~~~C~~C~~~f~   53 (107)
T 1wjp_A           14 KEVYQCRLCNAKLSSLLEQGSHERL--CR---------NAAVCPYCSLRFF   53 (107)
T ss_dssp             CCCCBCTTTCCBCSSHHHHHHHHHH--HH---------HSBCCTTTCCCBS
T ss_pred             CcCeECCCCCCccCCHHHHHHHHHH--CC---------CCccCCCCCCccC
Confidence            3457899999999988888888765  51         2488999988753

>2dlq_A GLI-kruppel family member HKR3; ZF-C2H2 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: g.37.1.1 g.37.1.1 g.37.1.1 g.37.1.1

Probab=85.26  E-value=0.49  Score=35.67  Aligned_cols=45  Identities=22%  Similarity=0.383  Sum_probs=32.0

Q ss_pred             CcceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCCCCCc
Q 022703            2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPCRSK   55 (293)
Q Consensus         2 ~~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~~~~~   55 (293)
                      +...++|..||..+.....-+.|...  |..       ...|.|+.|++.+.+.
T Consensus         4 ~~~~~~C~~C~~~f~~~~~l~~H~~~--h~~-------~~~~~C~~C~~~f~~~   48 (124)
T 2dlq_A            4 GSSGVECPTCHKKFLSKYYLKVHNRK--HTG-------EKPFECPKCGKCYFRK   48 (124)
T ss_dssp             CCSSCCCTTTCCCCSSHHHHHHHHHH--HSS-------CCSCBCTTTCCBCSSH
T ss_pred             CCCCCCCCCCCCcCCCHHHHHHHHHh--CCC-------CCCeECCCCCchhcCH
Confidence            34567899999999888888888764  432       1347888888864333

>2kmk_A Zinc finger protein GFI-1; tandem repeat zinc finger domain, protein-DNA complex, DNA-B metal-binding, nucleus; HET: DNA; NMR {Rattus norvegicus}

Probab=85.25  E-value=0.4  Score=33.48  Aligned_cols=20  Identities=20%  Similarity=0.454  Sum_probs=9.7

Q ss_pred             ecccCCccccCHHHHHHHHH
Q 022703            7 KCGDCGALLRSVQEAQEHAE   26 (293)
Q Consensus         7 kC~~Cg~v~~~~~~aq~ha~   26 (293)
                      +|..||..+.....-..|..
T Consensus         3 ~C~~C~~~f~~~~~l~~H~~   22 (82)
T 2kmk_A            3 DCKICGKSFKRSSTLSTHLL   22 (82)
T ss_dssp             ECSSSCCEESSHHHHHHHHH
T ss_pred             cCCCCcccccCchhHHHHHH
Confidence            45555555544444444443

>2ee8_A Protein ODD-skipped-related 2; zinc binding, ZF-C2H2 domain, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: k.12.1.1

Probab=84.87  E-value=0.53  Score=34.81  Aligned_cols=42  Identities=24%  Similarity=0.494  Sum_probs=32.6

Q ss_pred             ceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCCCCC
Q 022703            4 VSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPCRS   54 (293)
Q Consensus         4 ~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~~~~   54 (293)
                      ..++|..|+..+.....-+.|...  |..       ...|.|+.|++.+.+
T Consensus        44 ~~~~C~~C~~~f~~~~~l~~H~~~--h~~-------~~~~~C~~C~~~f~~   85 (106)
T 2ee8_A           44 RPYTCDICHKAFRRQDHLRDHRYI--HSK-------EKPFKCQECGKGFCQ   85 (106)
T ss_dssp             CCCBCSSSCCBCSCHHHHHHHGGG--SCC-------CCTTSCSSSCCCCSS
T ss_pred             CCcCCCCccchhCCHHHHHHHHHH--hCC-------CCCeECCCcCCcccC
Confidence            457999999999999999999643  532       134999999997533

>2dmd_A Zinc finger protein 64, isoforms 1 and 2; ZNF338, nuclear protein, DNA- binding, transcription, C2H2-type zinc finger, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.37.1.1 g.37.1.1 g.37.1.1

Probab=84.82  E-value=0.32  Score=35.26  Aligned_cols=40  Identities=20%  Similarity=0.434  Sum_probs=32.2

Q ss_pred             ceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCCC
Q 022703            4 VSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPC   52 (293)
Q Consensus         4 ~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~~   52 (293)
                      ..++|..|+..+.....-+.|...  |..       ...|.|+.|++.+
T Consensus        35 ~~~~C~~C~~~f~~~~~l~~H~~~--h~~-------~~~~~C~~C~~~f   74 (96)
T 2dmd_A           35 KPYKCKTCDYAAADSSSLNKHLRI--HSD-------ERPFKCQICPYAS   74 (96)
T ss_dssp             CSEECSSSCCEESSHHHHHHHHHH--SCC-------CCCEECSSSSCEE
T ss_pred             CCEeCCCCCCccCCHHHHHHHHHH--hCC-------CCCccCCCCCCcc
Confidence            457999999999999999999865  532       1349999999964

>2eod_A TNF receptor-associated factor 4; zinc binding, NF-KB, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=84.80  E-value=0.67  Score=31.76  Aligned_cols=39  Identities=21%  Similarity=0.389  Sum_probs=30.2

Q ss_pred             cceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccC-CCCCCC
Q 022703            3 GVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCA-TCGKPC   52 (293)
Q Consensus         3 ~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~-~Cg~~~   52 (293)
                      ...++|..||+.+. ...-+.|...|      +.    ..|.|+ .||+.+
T Consensus         8 ~~~~~C~~C~k~f~-~~~L~~H~~~~------~~----~p~~C~~~C~k~f   47 (66)
T 2eod_A            8 KRTQPCTYCTKEFV-FDTIQSHQYQC------PR----LPVACPNQCGVGT   47 (66)
T ss_dssp             CCEEECSSSCCEEE-HHHHHHHHHHC------SS----SEEECTTCCSCCE
T ss_pred             CCCeeccccCCccC-HHHHHHHHHHc------CC----cCccCCcccCccc
Confidence            34689999999999 88888897542      22    348999 999963

>1otr_A Protein CUE2; protein-protein complex, cell cycle; NMR {Saccharomyces cerevisiae} SCOP: a.5.2.4

Probab=84.77  E-value=1.8  Score=29.92  Aligned_cols=41  Identities=15%  Similarity=0.271  Sum_probs=33.0

Q ss_pred             HHHHHHHHhC--CCCHHHHHHHHHHhCCCCHHHHHHHHHHhcCC
Q 022703          115 KELLKELEAM--GFPVARATRALHYSGNANVEAAVNWVVEHEND  156 (293)
Q Consensus       115 ~~~l~~L~~M--GF~~~~a~kAL~~tgn~~~E~A~~WL~~h~dD  156 (293)
                      ++-+..|.+|  ..+...++.+|...+| +++.||+-|++-.++
T Consensus         5 e~~v~~L~EMFP~~~~~~ik~~L~~~~G-d~d~Ai~~LL~~~~~   47 (49)
T 1otr_A            5 ESKLSILMDMFPAISKSKLQVHLLENNN-DLDLTIGLLLKENDD   47 (49)
T ss_dssp             HHHHHHHHHHCSSSCHHHHHHHHHHTTT-CSHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHCCCCCHHHHHHHHHHcCC-CHHHHHHHHHhcccc
Confidence            4568899999  3446888999999887 999999999886444

>2csh_A Zinc finger protein 297B; ZF-C2H2 domain, zinc finger and BTB domain containing protein 22B, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.37.1.1 g.37.1.1

Probab=84.73  E-value=0.55  Score=35.05  Aligned_cols=40  Identities=23%  Similarity=0.551  Sum_probs=28.6

Q ss_pred             cceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCCC
Q 022703            3 GVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPC   52 (293)
Q Consensus         3 ~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~~   52 (293)
                      ...++| .|++.+.....-..|...  |..       ...|.|+.|++.+
T Consensus         8 ~k~~~C-~C~~~f~~~~~l~~H~~~--h~~-------~~~~~C~~C~~~f   47 (110)
T 2csh_A            8 DKLYPC-QCGKSFTHKSQRDRHMSM--HLG-------LRPYGCGVCGKKF   47 (110)
T ss_dssp             CCCEEC-TTSCEESSHHHHHHHHHH--HSC-------CCSEECTTTSCEE
T ss_pred             CCCEec-cCCCccCCHHHHHHHHHH--cCC-------CcCccCCCCCccc
Confidence            456788 888888888888888764  432       1337888888764

>2ytk_A Zinc finger protein 347; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=84.58  E-value=1.1  Score=28.03  Aligned_cols=38  Identities=16%  Similarity=0.340  Sum_probs=29.5

Q ss_pred             CcceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCC
Q 022703            2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATC   48 (293)
Q Consensus         2 ~~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~C   48 (293)
                      +....+|..||+.+.....-+.|...  |.+   .    ..|.|+.|
T Consensus         9 ~~~~~~C~~C~k~f~~~~~L~~H~~~--H~~---~----~~~~C~~c   46 (46)
T 2ytk_A            9 GEKPYKCNECGKVFTQNSHLTNHWRI--HTG---E----KPSGPSSG   46 (46)
T ss_dssp             SSCSEECSSSCCEESSHHHHHHHHHH--HSS---S----SCSSCCCC
T ss_pred             CCCCEeCCcCCCccCCHHHHHHHHHH--HCC---C----CCCCCCCC
Confidence            34568999999999999999999764  642   2    34899887

>1llm_C Chimera of ZIF23-GCN4; dimerization, DNA recognition, leucine zipper, X-RAY crystallography, structure-based design, zinc fingers; 1.50A {Mus musculus} SCOP: g.37.1.1 g.37.1.1 PDB: 1xf7_A

Probab=84.53  E-value=0.31  Score=35.26  Aligned_cols=40  Identities=18%  Similarity=0.454  Sum_probs=31.7

Q ss_pred             eeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCCCC
Q 022703            5 SLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPCR   53 (293)
Q Consensus         5 ~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~~~   53 (293)
                      ..+|..||..+.....-..|...  |..       ...|.|+.||+.+.
T Consensus         3 ~~~C~~C~k~f~~~~~L~~H~~~--H~~-------~~~~~C~~C~k~f~   42 (88)
T 1llm_C            3 PFQCRICMRNFSRSDHLTTHIRT--HTG-------EKPFACDICGRKFA   42 (88)
T ss_dssp             CEECTTTCCEESCHHHHHHHHHH--HHC-------CCCEECTTTCCEES
T ss_pred             CCcCCCCCCccCCHHHHHHHHHH--cCC-------CCCccCCCCCCccC
Confidence            47899999999999999999764  532       13499999999643

>2wbt_A B-129; zinc finger; 2.70A {Sulfolobus virus 1}

Probab=84.53  E-value=0.52  Score=36.35  Aligned_cols=38  Identities=24%  Similarity=0.405  Sum_probs=31.1

Q ss_pred             ceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCCC
Q 022703            4 VSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPC   52 (293)
Q Consensus         4 ~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~~   52 (293)
                      ...+|..||+.+.....-..|...  |    +     ..|.|+.||+.|
T Consensus        73 ~~~~C~~C~k~f~~~~~l~~H~~~--H----~-----~~~~C~~C~k~f  110 (129)
T 2wbt_A           73 SQFVCPLCLMPFSSSVSLKQHIRY--T----E-----HTKVCPVCKKEF  110 (129)
T ss_dssp             CSEECTTTCCEESSHHHHHHHHHH--T----C-----CCCBCTTTCCBC
T ss_pred             CCeECCCCCcccCCHhHHHHHHHH--C----C-----CCCCCCCCCccc
Confidence            457899999999999999999854  6    1     238999999974

>2dlq_A GLI-kruppel family member HKR3; ZF-C2H2 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: g.37.1.1 g.37.1.1 g.37.1.1 g.37.1.1

Probab=84.43  E-value=0.47  Score=35.76  Aligned_cols=23  Identities=22%  Similarity=0.469  Sum_probs=12.6

Q ss_pred             eeecccCCccccCHHHHHHHHHH
Q 022703            5 SLKCGDCGALLRSVQEAQEHAEL   27 (293)
Q Consensus         5 ~LkC~~Cg~v~~~~~~aq~ha~~   27 (293)
                      .++|..|++.+.....-..|...
T Consensus        35 ~~~C~~C~~~f~~~~~l~~H~~~   57 (124)
T 2dlq_A           35 PFECPKCGKCYFRKENLLEHEAR   57 (124)
T ss_dssp             SCBCTTTCCBCSSHHHHHHHHHH
T ss_pred             CeECCCCCchhcCHHHHHHHHhh
Confidence            34555566555555555555543

>2emy_A Zinc finger protein 268; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=84.28  E-value=1.2  Score=27.88  Aligned_cols=38  Identities=13%  Similarity=0.221  Sum_probs=29.5

Q ss_pred             CcceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCC
Q 022703            2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATC   48 (293)
Q Consensus         2 ~~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~C   48 (293)
                      +....+|..||+.+.....-..|...  |.+       ...|.|+.|
T Consensus         9 ~~k~~~C~~C~k~F~~~~~L~~H~~~--H~~-------~k~~~C~~C   46 (46)
T 2emy_A            9 GENPYECHECGKAFSRKYQLISHQRT--HAG-------EKPSGPSSG   46 (46)
T ss_dssp             SSCCEECSSSCCEESSHHHHHHHHHH--HTT-------SCCSCSSCC
T ss_pred             CCcCcCCCCCCcccCcHHHHHHHHHH--cCC-------CCCCCCCCC
Confidence            34568999999999999999999654  653       134889887

>2pwq_A Ubiquitin conjugating enzyme; structural genomics consortium, SGC, ligase; 1.90A {Plasmodium yoelii}

Probab=84.10  E-value=0.2  Score=44.52  Aligned_cols=37  Identities=30%  Similarity=0.404  Sum_probs=0.0

Q ss_pred             HHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHH
Q 022703          115 KELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVE  152 (293)
Q Consensus       115 ~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~  152 (293)
                      .+.+..|++|||+++.+..||...|. +++.|++-|+.
T Consensus       178 ~~~v~~~~~mgf~~~~~~~al~~~~~-~~~~~~~~l~~  214 (216)
T 2pwq_A          178 EVIIKKITEMGFSEDQAKNALIKANW-NETLALNTLLE  214 (216)
T ss_dssp             --------------------------------------
T ss_pred             hhHHHHHHHcCCCHHHHHHHHHHcCC-chHHHHHHHhc
Confidence            57899999999999999999988876 89999998875

>2epx_A Zinc finger protein 28 homolog; C2H2, zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=83.99  E-value=0.99  Score=28.24  Aligned_cols=38  Identities=13%  Similarity=0.162  Sum_probs=28.6

Q ss_pred             cceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCC
Q 022703            3 GVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATC   48 (293)
Q Consensus         3 ~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~C   48 (293)
                      ....+|..||+.+.....-..|... .|.+   .    ..|.|+.|
T Consensus        10 ~k~~~C~~C~k~F~~~~~L~~H~~~-~H~~---~----k~~~C~~C   47 (47)
T 2epx_A           10 KKPYECIECGKAFIQNTSLIRHWRY-YHTG---E----KPSGPSSG   47 (47)
T ss_dssp             CCSBCCSSSCCCBSSHHHHHHHHTT-TTTT---S----CSSSCCCC
T ss_pred             CCCEECCccCchhCChHHHHHHhHh-hcCC---C----CCCCCCCC
Confidence            4567899999999999999999763 3532   2    34888887

>2kmk_A Zinc finger protein GFI-1; tandem repeat zinc finger domain, protein-DNA complex, DNA-B metal-binding, nucleus; HET: DNA; NMR {Rattus norvegicus}

Probab=83.60  E-value=0.5  Score=32.97  Aligned_cols=40  Identities=23%  Similarity=0.534  Sum_probs=31.8

Q ss_pred             ceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCCC
Q 022703            4 VSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPC   52 (293)
Q Consensus         4 ~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~~   52 (293)
                      ..++|..||..+.....-+.|...  |..       ...|.|+.||+.+
T Consensus        28 ~~~~C~~C~~~f~~~~~l~~H~~~--h~~-------~~~~~C~~C~~~f   67 (82)
T 2kmk_A           28 RPYPCQYCGKRFHQKSDMKKHTFI--HTG-------EKPHKCQVCGKAF   67 (82)
T ss_dssp             CCEECSSSCCEESSHHHHHHHHHH--HHT-------CCCEECTTTSCEE
T ss_pred             CCeeCCcCChhhCCHHHHHHHHHH--hcC-------CCCCcCCCcchhh
Confidence            457999999999999999999764  421       2349999999964

>2ema_A Zinc finger protein 347; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1 PDB: 2emc_A

Probab=83.34  E-value=1.1  Score=28.03  Aligned_cols=38  Identities=16%  Similarity=0.388  Sum_probs=29.2

Q ss_pred             CcceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCC
Q 022703            2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATC   48 (293)
Q Consensus         2 ~~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~C   48 (293)
                      +....+|..||+.+.....-..|...  |..   .    ..|.|+.|
T Consensus         9 ~~k~~~C~~C~k~f~~~~~L~~H~~~--H~~---~----k~~~C~~c   46 (46)
T 2ema_A            9 GEKRYKCNECGKVFSRNSQLSQHQKI--HTG---E----KPSGPSSG   46 (46)
T ss_dssp             TSCCEECSSSCCEESSHHHHHHHHTG--GGC---C----CCCSSSCC
T ss_pred             CCcCcCCCCCcchhCCHHHHHHHHHh--cCC---C----CCCCCCCC
Confidence            34568999999999999999999643  642   1    34899887

>2rpc_A Zinc finger protein ZIC 3; ZF-C2H2, zinc finger protein of the cerebellum 3, disease mutation, DNA-binding, metal-binding, nucleus, polymorphism; NMR {Homo sapiens}

Probab=82.93  E-value=0.78  Score=36.32  Aligned_cols=51  Identities=18%  Similarity=0.272  Sum_probs=34.1

Q ss_pred             cceeecccCCccccCHHHHHHHHHHhccCCCCcch-hhhhccccCCCCCCCCC
Q 022703            3 GVSLKCGDCGALLRSVQEAQEHAELTSHSNFSEST-EAVLNLVCATCGKPCRS   54 (293)
Q Consensus         3 ~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~-d~i~~~~C~~Cg~~~~~   54 (293)
                      .+.+.|..||..+.....-+.|... -|..=.... ....-|.|+.|++.+.+
T Consensus        23 ~~~~~C~~C~~~f~~~~~L~~H~~~-~H~~~~~~~~~~~~~~~C~~C~~~f~~   74 (155)
T 2rpc_A           23 QLSRPKKSCDRTFSTMHELVTHVTM-EHVGGPEQNNHVCYWEECPREGKSFKA   74 (155)
T ss_dssp             CCSSSCCCCCCCBSSHHHHHHHHHT-TTSCCTTCSSCCCCBTTCTTSSCCCSS
T ss_pred             hcccccccCCcccCCHHHHHHHHHh-hcCCCcccCCccccccCCCCcccccCC
Confidence            4678899999999999999999875 454311110 00112789999987543

>2eov_A Zinc finger protein 484; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=82.75  E-value=1.3  Score=27.64  Aligned_cols=38  Identities=18%  Similarity=0.309  Sum_probs=28.8

Q ss_pred             CcceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCC
Q 022703            2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATC   48 (293)
Q Consensus         2 ~~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~C   48 (293)
                      +....+|..||+.+.....-+.|..  .|.+   .    ..|.|+.|
T Consensus         9 ~~~~~~C~~C~k~f~~~~~L~~H~~--~H~~---~----~~~~C~~C   46 (46)
T 2eov_A            9 GEKPYKCSDCGKSFTWKSRLRIHQK--CHTG---E----RHSGPSSG   46 (46)
T ss_dssp             SCCSCBCSSSCCBCSSHHHHHHHHH--HHSC---C----SSCCSCCC
T ss_pred             CCCCccCCccChhhCCHHHHHHHHH--hcCC---C----CCCCCCCC
Confidence            3456789999999999999999964  3642   1    34889887

>2el6_A Zinc finger protein 268; alternative splicing, DNA-binding, metal-binding, nuclear protein, repeat, transcription, transcription regulation; NMR {Homo sapiens}

Probab=82.74  E-value=1.5  Score=27.49  Aligned_cols=38  Identities=13%  Similarity=0.143  Sum_probs=29.1

Q ss_pred             CcceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCC
Q 022703            2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATC   48 (293)
Q Consensus         2 ~~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~C   48 (293)
                      +....+|..||+.+.....-..|..  .|..   .    ..|.|+.|
T Consensus         9 ~~k~~~C~~C~k~f~~~~~L~~H~~--~H~~---~----~~~~C~~C   46 (46)
T 2el6_A            9 GVNPYKCSQCEKSFSGKLRLLVHQR--MHTR---E----KPSGPSSG   46 (46)
T ss_dssp             CCCSEECSSSSCEESSHHHHHHHHG--GGCC---S----SCCSCCCC
T ss_pred             CCCCeECCCCCcccCCHHHHHHHHH--HcCC---C----CCCCCCCC
Confidence            3456899999999999999999954  3653   1    34889887

>2emm_A ZFP-95, zinc finger protein 95 homolog; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=82.59  E-value=1.5  Score=27.30  Aligned_cols=38  Identities=16%  Similarity=0.295  Sum_probs=29.3

Q ss_pred             CcceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCC
Q 022703            2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATC   48 (293)
Q Consensus         2 ~~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~C   48 (293)
                      +....+|..||+.+.....-..|...  |.+   .    ..|.|+.|
T Consensus         9 ~~k~~~C~~C~k~f~~~~~L~~H~~~--H~~---~----k~~~C~~C   46 (46)
T 2emm_A            9 GERPHKCNECGKSFIQSAHLIQHQRI--HTG---E----KPSGPSSG   46 (46)
T ss_dssp             CCCSEECSSSCCEESSHHHHHHHHHH--HSC---C----CTTSSSCC
T ss_pred             CCCCeeCCCCChhhCCHHHHHHHHHH--hCC---C----CCCCCCCC
Confidence            34568999999999999999999654  643   2    34889887

>2csh_A Zinc finger protein 297B; ZF-C2H2 domain, zinc finger and BTB domain containing protein 22B, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.37.1.1 g.37.1.1

Probab=82.55  E-value=0.44  Score=35.59  Aligned_cols=40  Identities=23%  Similarity=0.561  Sum_probs=31.8

Q ss_pred             ceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCCC
Q 022703            4 VSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPC   52 (293)
Q Consensus         4 ~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~~   52 (293)
                      ..++|..|+..+.....-+.|...  |..       ...|.|+.|++.+
T Consensus        36 ~~~~C~~C~~~f~~~~~l~~H~~~--h~~-------~~~~~C~~C~~~f   75 (110)
T 2csh_A           36 RPYGCGVCGKKFKMKHHLVGHMKI--HTG-------IKPYECNICAKRF   75 (110)
T ss_dssp             CSEECTTTSCEESSSHHHHHHHTT--TCC-------CCCEECSSSCCEE
T ss_pred             cCccCCCCCcccCCHHHHHHHHHH--cCC-------CCCeeCCCCcchh
Confidence            458999999999999999999753  532       1349999999963

>2epw_A Zinc finger protein 268; C2H2, zinc finger domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=82.46  E-value=1.5  Score=27.36  Aligned_cols=38  Identities=16%  Similarity=0.222  Sum_probs=29.3

Q ss_pred             CcceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCC
Q 022703            2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATC   48 (293)
Q Consensus         2 ~~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~C   48 (293)
                      +....+|..||+.+.....-+.|...  |.+   .    ..|.|+.|
T Consensus         9 ~~k~~~C~~C~k~F~~~~~L~~H~~~--H~~---~----k~~~C~~C   46 (46)
T 2epw_A            9 GEKPCKCTECGKAFCWKSQLIMHQRT--HVD---D----KHSGPSSG   46 (46)
T ss_dssp             CCCSEECSSSCCEESSSHHHHHHHHH--CCS---C----CCSCCCCC
T ss_pred             CCCCeeCCCCCCccCCHHHHHHHHHH--hCC---C----CCCCCCCC
Confidence            34568999999999999999999754  643   1    34889887

>2dlk_A Novel protein; ZF-C2H2 domain, zinc finger protein 692, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.37.1.1 g.37.1.1

Probab=82.46  E-value=1.6  Score=30.32  Aligned_cols=52  Identities=25%  Similarity=0.501  Sum_probs=30.6

Q ss_pred             ceeeccc--CCccccCHHHHHHHHHHhccCCCCcchhhhhccccCC--CCCCCCCccccccccc
Q 022703            4 VSLKCGD--CGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCAT--CGKPCRSKTETDLHRK   63 (293)
Q Consensus         4 ~~LkC~~--Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~--Cg~~~~~~~e~~~a~K   63 (293)
                      ..+.|..  |+..+.....-+.|... .|..       ...|.|+.  ||+.+.+......+.+
T Consensus         6 ~~~~C~~~~C~~~f~~~~~L~~H~~~-~H~~-------~~~~~C~~~~C~k~f~~~~~L~~H~~   61 (79)
T 2dlk_A            6 SGMPCDFPGCGRIFSNRQYLNHHKKY-QHIH-------QKSFSCPEPACGKSFNFKKHLKEHMK   61 (79)
T ss_dssp             SSEECSSTTTCCEESSHHHHHHHHHH-GGGS-------CCCEECSCTTTCCEESSHHHHHHHHH
T ss_pred             CCccCCCCCCcCccCCHHHHHHHHHH-HhCC-------CCCeECCCCCCcCccCCHHHHHHHHH
Confidence            3455654  77777777777777764 3432       12367776  7776655544444443

>2em5_A ZFP-95, zinc finger protein 95 homolog; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=82.41  E-value=1.4  Score=27.66  Aligned_cols=38  Identities=16%  Similarity=0.242  Sum_probs=29.1

Q ss_pred             CcceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCC
Q 022703            2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATC   48 (293)
Q Consensus         2 ~~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~C   48 (293)
                      +....+|..||+.+.....-..|..  .|.+   .    ..|.|+.|
T Consensus         9 ~~~~~~C~~C~k~f~~~~~L~~H~~--~H~~---~----~~~~C~~C   46 (46)
T 2em5_A            9 STKSHQCHECGRGFTLKSHLNQHQR--IHTG---E----KPSGPSSG   46 (46)
T ss_dssp             CSCSEECSSSCCEESSHHHHHHHHT--TTSC---S----CCSSCCCC
T ss_pred             CCCCeECCcCCCccCCHHHHHHHHH--HhCC---C----CCCCCCCC
Confidence            3456899999999999999999964  3642   2    34889887

>2enc_A Zinc finger protein 224; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=82.38  E-value=1.7  Score=27.09  Aligned_cols=37  Identities=19%  Similarity=0.292  Sum_probs=28.9

Q ss_pred             cceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCC
Q 022703            3 GVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATC   48 (293)
Q Consensus         3 ~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~C   48 (293)
                      ...++|..||+.+.....-+.|...  |.+   .    ..|.|+.|
T Consensus        10 ~k~~~C~~C~k~f~~~~~L~~H~~~--H~~---~----~~~~C~~C   46 (46)
T 2enc_A           10 EKPFKCEECGKGFYTNSQCYSHQRS--HSG---E----KPSGPSSG   46 (46)
T ss_dssp             CCSEECSSSCCEESSHHHHHHHHHH--SCC---S----SCCSSCCC
T ss_pred             CCCcCCCCCCCcCCChHHHHHHHHH--hCC---C----CCCCCCCC
Confidence            4568999999999999999999654  643   2    34889887

>2ytd_A Zinc finger protein 473; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=82.35  E-value=1.5  Score=27.39  Aligned_cols=38  Identities=18%  Similarity=0.354  Sum_probs=29.2

Q ss_pred             CcceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCC
Q 022703            2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATC   48 (293)
Q Consensus         2 ~~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~C   48 (293)
                      +....+|..||+.+.....-..|...  |.+   .    ..|.|+.|
T Consensus         9 ~~k~~~C~~C~k~f~~~~~L~~H~~~--H~~---~----~~~~C~~C   46 (46)
T 2ytd_A            9 GEKPYKCSECGKAFHRHTHLNEHRRI--HTG---Y----RPSGPSSG   46 (46)
T ss_dssp             CCCSEECSSSCCEESSHHHHHHHHHH--HTC---C----CSSCSSCC
T ss_pred             CCcCeECCCCCCeeCChHHHHHHHHH--cCC---C----CCCCCCCC
Confidence            34568999999999999999999643  653   1    34899887

>2emx_A Zinc finger protein 268; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=82.30  E-value=1.6  Score=27.01  Aligned_cols=38  Identities=13%  Similarity=0.140  Sum_probs=29.3

Q ss_pred             CcceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCC
Q 022703            2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATC   48 (293)
Q Consensus         2 ~~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~C   48 (293)
                      +...++|..||+.+.....-..|...  |.+   .    ..|.|+.|
T Consensus         7 ~~k~~~C~~C~k~f~~~~~L~~H~~~--H~~---~----~~~~C~~C   44 (44)
T 2emx_A            7 GEKPFGCSCCEKAFSSKSYLLVHQQT--HAE---E----KPSGPSSG   44 (44)
T ss_dssp             SCCCEECSSSSCEESSHHHHHHHHHH--HTS---S----CSCSCCCC
T ss_pred             CCcCccCCCCCcccCCHHHHHHHHHH--hCC---C----CCCCCCCC
Confidence            34568999999999999999999754  642   1    34889887

>2emh_A Zinc finger protein 484; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=82.29  E-value=1.5  Score=27.45  Aligned_cols=38  Identities=13%  Similarity=0.216  Sum_probs=29.1

Q ss_pred             CcceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCC
Q 022703            2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATC   48 (293)
Q Consensus         2 ~~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~C   48 (293)
                      +....+|..||+.+.....-..|...  |.+       ...|.|+.|
T Consensus         9 ~~k~~~C~~C~k~F~~~~~L~~H~~~--H~~-------~k~~~C~~c   46 (46)
T 2emh_A            9 GERPYICTVCGKAFTDRSNLIKHQKI--HTG-------EKPSGPSSG   46 (46)
T ss_dssp             CCCSEECTTTCCEESSHHHHHHHHHH--HHC-------SSCSSSCCC
T ss_pred             CCCCcCCCCCCchhCCHHHHHHHHHh--cCC-------CCCCCCCCC
Confidence            34568999999999999999999753  542       134889887

>2eml_A Zinc finger protein 28 homolog; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=82.24  E-value=1.5  Score=27.37  Aligned_cols=38  Identities=18%  Similarity=0.238  Sum_probs=29.2

Q ss_pred             CcceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCC
Q 022703            2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATC   48 (293)
Q Consensus         2 ~~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~C   48 (293)
                      +....+|..||+.+.....-..|..  .|..   .    ..|.|+.|
T Consensus         9 ~~k~~~C~~C~k~f~~~~~L~~H~~--~H~~---~----~~~~C~~C   46 (46)
T 2eml_A            9 GEKPYECSVCGKAFSHRQSLSVHQR--IHSG---K----KPSGPSSG   46 (46)
T ss_dssp             SCCSEECSSSCCEESSHHHHHHHHG--GGSS---C----CCSCSSCC
T ss_pred             CCCCeeCCCcCCccCCHHHHHHHHH--HhcC---C----CCCCCCCC
Confidence            3456899999999999999999965  3643   2    34889887

>2emf_A Zinc finger protein 484; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=82.03  E-value=1.4  Score=27.63  Aligned_cols=38  Identities=16%  Similarity=0.370  Sum_probs=28.9

Q ss_pred             CcceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCC
Q 022703            2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATC   48 (293)
Q Consensus         2 ~~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~C   48 (293)
                      +....+|..||+.+.....-+.|...  |..   .    ..|.|+.|
T Consensus         9 ~~k~~~C~~C~k~F~~~~~L~~H~~~--H~~---~----k~~~C~~c   46 (46)
T 2emf_A            9 GGKHFECTECGKAFTRKSTLSMHQKI--HTG---E----KPSGPSSG   46 (46)
T ss_dssp             SSCCEECSSSCCEESCHHHHHHHGGG--TSC---S----SCSCCCCC
T ss_pred             CCCCeECCCCCchhCCHHHHHHHHHH--hCC---C----CCCCCCCC
Confidence            34568999999999999999999753  642   2    34889887

>1f2i_G Fusion of N-terminal 17-MER peptide extension to ZIF12; zinc finger, dimer, protein-DNA complex, cooperativity, transcription/DNA complex; 2.35A {Mus musculus} SCOP: g.37.1.1 g.37.1.1

Probab=82.03  E-value=0.78  Score=31.64  Aligned_cols=41  Identities=17%  Similarity=0.404  Sum_probs=31.6

Q ss_pred             cceeecc--cCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCCC
Q 022703            3 GVSLKCG--DCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPC   52 (293)
Q Consensus         3 ~~~LkC~--~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~~   52 (293)
                      ...++|.  .||..+.....-..|...  |..       ...|.|+.||+.+
T Consensus        17 ~~~~~C~~~~C~k~f~~~~~l~~H~~~--h~~-------~~~~~C~~C~~~f   59 (73)
T 1f2i_G           17 MRPYACPVESCDRRFSRSDELTRHIRI--HTG-------QKPFQCRICMRNF   59 (73)
T ss_dssp             CCCEECSSTTBCCEESSHHHHHHHHHH--HHC-------CCCEECTTTCCEE
T ss_pred             CCccCCcCCCCCCccCCHHHHHHHHHh--hCC-------CCCeECCCCCchh
Confidence            4568997  699999999999999753  532       2349999999964

>2emk_A Zinc finger protein 28 homolog; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1 PDB: 2ysv_A

Probab=81.92  E-value=1.5  Score=27.52  Aligned_cols=38  Identities=13%  Similarity=0.312  Sum_probs=29.2

Q ss_pred             CcceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCC
Q 022703            2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATC   48 (293)
Q Consensus         2 ~~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~C   48 (293)
                      +....+|..||+.+.....-..|...  |.+   .    ..|.|+.|
T Consensus         9 ~~k~~~C~~C~k~F~~~~~L~~H~~~--H~~---~----k~~~C~~C   46 (46)
T 2emk_A            9 GEKPYECKECGKAFSQTTHLIQHQRV--HTG---E----KPSGPSSG   46 (46)
T ss_dssp             SSCSCBCSSSCCBCSCHHHHHHHHHH--HSS---C----CCSSCCCC
T ss_pred             CCCceECCCCCchhCCHHHHHHHHHH--cCC---C----CCCCCCCC
Confidence            34567899999999999999999754  643   1    34889887

>1wjp_A Zinc finger protein 295; ZF-C2H2 domain, zinc binding, nucleic acid binding, KIAA1227 protein, structural genomics; NMR {Homo sapiens} SCOP: g.37.1.1 g.37.1.1 g.37.1.1

Probab=81.92  E-value=0.42  Score=35.75  Aligned_cols=38  Identities=24%  Similarity=0.428  Sum_probs=30.8

Q ss_pred             eeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCCC
Q 022703            5 SLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPC   52 (293)
Q Consensus         5 ~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~~   52 (293)
                      .++|..||..+.....-+.|.  + |..       ...|.|+.|++.|
T Consensus        42 ~~~C~~C~~~f~~~~~l~~H~--~-H~~-------~~~~~C~~C~~~f   79 (107)
T 1wjp_A           42 AAVCPYCSLRFFSPELKQEHE--S-KCE-------YKKLTCLECMRTF   79 (107)
T ss_dssp             SBCCTTTCCCBSSHHHHHHHH--H-HCS-------TGGGEEGGGTEEC
T ss_pred             CccCCCCCCccCCHHHHHHHH--H-cCC-------CCCccCccccchh
Confidence            368999999999999999997  3 652       2349999999964

>2yso_A ZFP-95, zinc finger protein 95 homolog; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=81.90  E-value=1.6  Score=27.25  Aligned_cols=37  Identities=24%  Similarity=0.338  Sum_probs=28.5

Q ss_pred             cceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCC
Q 022703            3 GVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATC   48 (293)
Q Consensus         3 ~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~C   48 (293)
                      ....+|..||+.+.....-..|...  |..   .    ..|.|+.|
T Consensus        10 ~~~~~C~~C~k~f~~~~~L~~H~~~--H~~---~----k~~~C~~C   46 (46)
T 2yso_A           10 EKSHQCRECGEIFFQYVSLIEHQVL--HMG---Q----KNSGPSSG   46 (46)
T ss_dssp             CCCEECTTTCCEESSHHHHHHHHHH--HSC---C----SCCCTTCC
T ss_pred             CCCEEccccChhhCCHHHHHHHHHH--hCC---C----CCCCCCCC
Confidence            4568999999999999999999654  642   2    34889887

>2eoo_A ZFP-95, zinc finger protein 95 homolog; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=81.89  E-value=1.8  Score=27.10  Aligned_cols=38  Identities=16%  Similarity=0.218  Sum_probs=29.0

Q ss_pred             CcceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCC
Q 022703            2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATC   48 (293)
Q Consensus         2 ~~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~C   48 (293)
                      +....+|..||+.+.....-..|...  |..   .    ..|.|+.|
T Consensus         9 ~~k~~~C~~C~k~F~~~~~L~~H~~~--H~~---~----k~~~C~~C   46 (46)
T 2eoo_A            9 GERPYGCNECGKNFGRHSHLIEHLKR--HFR---E----KSSGPSSG   46 (46)
T ss_dssp             CCCCEECSSSCCEESSHHHHHHHHHH--HHS---T----TSSCCSCC
T ss_pred             CCCCEEccccCcccCCHHHHHHHHHH--HcC---C----CCCCCCCC
Confidence            34568999999999999999999654  642   1    34889887

>2ytj_A Zinc finger protein 484; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=81.85  E-value=1.9  Score=26.88  Aligned_cols=38  Identities=13%  Similarity=0.283  Sum_probs=29.3

Q ss_pred             CcceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCC
Q 022703            2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATC   48 (293)
Q Consensus         2 ~~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~C   48 (293)
                      +...++|..||+.+.....-..|...  |.+   .    ..|.|+.|
T Consensus         9 ~~k~~~C~~C~k~f~~~~~L~~H~~~--H~~---~----k~~~C~~c   46 (46)
T 2ytj_A            9 GEKPYICAECGKAFTIRSNLIKHQKI--HTK---Q----KPSGPSSG   46 (46)
T ss_dssp             SCCSEECSSSCCEESSHHHHHHHHHH--TSC---C----CCSSCSCC
T ss_pred             CCcCeECCCCChhhCCHHHHHHHHHH--cCC---C----CCCCCCCC
Confidence            34568999999999999999999754  642   2    34889877

>2eme_A Zinc finger protein 473; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=81.67  E-value=1.7  Score=26.98  Aligned_cols=38  Identities=16%  Similarity=0.200  Sum_probs=29.3

Q ss_pred             CcceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCC
Q 022703            2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATC   48 (293)
Q Consensus         2 ~~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~C   48 (293)
                      +...++|..||+.+.....-..|..  .|.+   .    ..|.|+.|
T Consensus         9 ~~k~~~C~~C~k~f~~~~~L~~H~~--~H~~---~----~~~~C~~C   46 (46)
T 2eme_A            9 GEKPYVCDYCGKAFGLSAELVRHQR--IHTG---E----KPSGPSSG   46 (46)
T ss_dssp             CCCSEECSSSCCEESSHHHHHHHHG--GGCC---C----SCCSSCCC
T ss_pred             CCCCeECCCCChhhCCHHHHHHHHH--hcCC---C----CCCCCCCC
Confidence            3456899999999999999999974  4642   1    34899887

>2ep2_A Zinc finger protein 484; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=81.61  E-value=1.7  Score=27.06  Aligned_cols=38  Identities=13%  Similarity=0.233  Sum_probs=29.4

Q ss_pred             CcceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCC
Q 022703            2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATC   48 (293)
Q Consensus         2 ~~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~C   48 (293)
                      +....+|..||+.+.....-..|..  .|..   .    ..|.|+.|
T Consensus         9 ~~k~~~C~~C~k~f~~~~~L~~H~~--~H~~---~----k~~~C~~c   46 (46)
T 2ep2_A            9 GEKPYECSICGKSFTKKSQLHVHQQ--IHTG---E----KPSGPSSG   46 (46)
T ss_dssp             CCCSEECSSSCCEESSHHHHHHHHH--TTSS---C----CSCCSCCC
T ss_pred             CCcCcCCCCCCcccCCHHHHHHHHH--HhCC---C----CCCCCCCC
Confidence            3456899999999999999999975  4643   1    34889887

>2en6_A Zinc finger protein 268; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=81.55  E-value=1.5  Score=27.39  Aligned_cols=38  Identities=13%  Similarity=0.240  Sum_probs=29.5

Q ss_pred             CcceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCC
Q 022703            2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATC   48 (293)
Q Consensus         2 ~~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~C   48 (293)
                      +....+|..||+.+.....-..|...  |.+   .    ..|.|+.|
T Consensus         9 ~~~~~~C~~C~k~f~~~~~L~~H~~~--H~~---~----k~~~C~~C   46 (46)
T 2en6_A            9 GEKPYGCNECGKTFSQKSILSAHQRT--HTG---E----KPSGPSSG   46 (46)
T ss_dssp             SSCCEEETTTTEEESSHHHHHHHHHH--HSS---C----CCSSSCCC
T ss_pred             CCcCeECCCCCcccCchHHHHHHHHH--cCC---C----CCCCCCCC
Confidence            34568999999999999999999764  642   1    34889887

>2en8_A Zinc finger protein 224; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=81.55  E-value=1.4  Score=27.42  Aligned_cols=38  Identities=16%  Similarity=0.219  Sum_probs=29.1

Q ss_pred             CcceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCC
Q 022703            2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATC   48 (293)
Q Consensus         2 ~~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~C   48 (293)
                      +....+|..||+.+.....-..|..  .|.+   .    ..|.|+.|
T Consensus         9 ~~~~~~C~~C~k~f~~~~~L~~H~~--~H~~---~----k~~~C~~C   46 (46)
T 2en8_A            9 GEKSHTCDECGKNFCYISALRIHQR--VHMG---E----KCSGPSSG   46 (46)
T ss_dssp             CCSSEECTTTCCEESSHHHHHHHHT--TTCC---S----CSSCCSCC
T ss_pred             CCCCeECCCcCcccCCHHHHHHHHH--HhCC---C----CCCCCCCC
Confidence            3456899999999999999999964  4653   1    34899887

>2eop_A Zinc finger protein 268; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=81.44  E-value=1.3  Score=27.53  Aligned_cols=38  Identities=13%  Similarity=0.185  Sum_probs=28.7

Q ss_pred             CcceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCC
Q 022703            2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATC   48 (293)
Q Consensus         2 ~~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~C   48 (293)
                      +...++|..||+.+.....-..|..  .|.+   .    ..|.|+.|
T Consensus         9 ~~~~~~C~~C~k~f~~~~~L~~H~~--~H~~---~----k~~~C~~C   46 (46)
T 2eop_A            9 GEKPHECRECGKSFSFNSQLIVHQR--IHTG---E----NPSGPSSG   46 (46)
T ss_dssp             CCCSCBCTTTCCBCSSHHHHHHHHT--TTTT---S----CCSCCCCC
T ss_pred             CCCCeeCCCCCchhCCHHHHHHHHH--HcCC---C----CCCCCCCC
Confidence            3456889999999999999999964  3642   2    34889887

>2ej4_A Zinc finger protein ZIC 3; ZF-C2H2 domain, zinc binding, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=81.44  E-value=1.1  Score=32.28  Aligned_cols=47  Identities=19%  Similarity=0.262  Sum_probs=31.5

Q ss_pred             eeecccCCccccCHHHHHHHHHHhccCCCCcch-hhhhccccCCCCCCC
Q 022703            5 SLKCGDCGALLRSVQEAQEHAELTSHSNFSEST-EAVLNLVCATCGKPC   52 (293)
Q Consensus         5 ~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~-d~i~~~~C~~Cg~~~   52 (293)
                      ...|..||..+.....-..|... -|..-.... -.-.-|.|+.||+.+
T Consensus        25 ~~~C~~C~k~f~~~~~L~~H~~~-~H~~~~~~~~~~c~~~~C~~C~k~f   72 (95)
T 2ej4_A           25 SRPKKSCDRTFSTMHELVTHVTM-EHVGGPEQNNHVCYWEECPREGKSF   72 (95)
T ss_dssp             SSSCCCCCCCCSSHHHHHHHHHH-TTTCCTTCSCCCCCCTTCSSTTCCC
T ss_pred             CCcccccccccCCHHHHHHHHHH-hccCCCCCCccceeccCCCCCCccc
Confidence            45699999999999999999765 465311100 000017999999974

>2kdx_A HYPA, hydrogenase/urease nickel incorporation protein HYPA; metallochaperone, metal-binding, metal- binding protein; NMR {Helicobacter pylori}

Probab=81.37  E-value=0.69  Score=36.93  Aligned_cols=27  Identities=33%  Similarity=0.871  Sum_probs=20.5

Q ss_pred             ceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhcc-ccCCCCCC
Q 022703            4 VSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNL-VCATCGKP   51 (293)
Q Consensus         4 ~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~-~C~~Cg~~   51 (293)
                      -..+|.+||..+...                     ...+ .||.||.+
T Consensus        72 ~~~~C~~CG~~~e~~---------------------~~~~~~CP~Cgs~   99 (119)
T 2kdx_A           72 VELECKDCSHVFKPN---------------------ALDYGVCEKCHSK   99 (119)
T ss_dssp             CEEECSSSSCEECSC---------------------CSTTCCCSSSSSC
T ss_pred             ceEEcCCCCCEEeCC---------------------CCCCCcCccccCC
Confidence            367999999988761                     1236 89999986

>2em7_A Zinc finger protein 224; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=81.36  E-value=1.4  Score=27.53  Aligned_cols=38  Identities=16%  Similarity=0.235  Sum_probs=28.9

Q ss_pred             CcceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCC
Q 022703            2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATC   48 (293)
Q Consensus         2 ~~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~C   48 (293)
                      +...++|..||+.+.....-+.|..  .|.+   .    ..|.|+.|
T Consensus         9 ~~k~~~C~~C~k~f~~~~~L~~H~~--~H~~---~----k~~~C~~C   46 (46)
T 2em7_A            9 GEKPYKCEECGKGFICRRDLYTHHM--VHTG---E----KPSGPSSG   46 (46)
T ss_dssp             CCCSEECSSSCCEESCHHHHHHHGG--GGTT---C----CCSSTTCC
T ss_pred             CCcCccCCCccchhCCHHHHHHHHH--HhCC---C----CCCCCCCC
Confidence            3456899999999999999999954  4642   2    34889887

>2eoe_A Zinc finger protein 347; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=81.32  E-value=1.3  Score=27.61  Aligned_cols=38  Identities=16%  Similarity=0.317  Sum_probs=29.3

Q ss_pred             CcceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCC
Q 022703            2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATC   48 (293)
Q Consensus         2 ~~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~C   48 (293)
                      +....+|..||+.+.....-..|..  .|.+   .    ..|.|+.|
T Consensus         9 ~~~~~~C~~C~k~F~~~~~L~~H~~--~H~~---~----~~~~C~~C   46 (46)
T 2eoe_A            9 GEKPYKCNECGKVFTQNSHLANHQR--IHTG---V----KPSGPSSG   46 (46)
T ss_dssp             CCCSSEETTTTEECSSHHHHHHHHG--GGSC---C----CSCSSCCC
T ss_pred             CCCCeECCCcChhhCCHHHHHHHHH--HcCC---C----CCCCCCCC
Confidence            3456899999999999999999974  4642   1    34899887

>2em0_A Zinc finger protein 224; DNA-binding, metal-binding, nuclear protein, phosphorylation, polymorphism, repeat, repressor, transcription; NMR {Homo sapiens}

Probab=81.25  E-value=1.3  Score=27.63  Aligned_cols=38  Identities=13%  Similarity=0.246  Sum_probs=28.2

Q ss_pred             CcceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCC
Q 022703            2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATC   48 (293)
Q Consensus         2 ~~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~C   48 (293)
                      +....+|..||+.+.....-..|...  |.+   .    ..|.|+.|
T Consensus         9 ~~k~~~C~~C~k~F~~~~~L~~H~~~--H~~---~----~~~~C~~C   46 (46)
T 2em0_A            9 GEKTWKCRECDMCFSQASSLRLHQNV--HVG---E----KPSGPSSG   46 (46)
T ss_dssp             CCCCCCCSSSCCCCSSHHHHHHHGGG--GSS---S----SCSCSSCC
T ss_pred             CCcCeECCCCCcccCCHHHHHHHHHH--cCC---C----CCcCCCCC
Confidence            34567899999999999888888643  642   1    34888887

>2ytn_A Zinc finger protein 347; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=81.21  E-value=1.3  Score=27.66  Aligned_cols=38  Identities=16%  Similarity=0.307  Sum_probs=28.5

Q ss_pred             CcceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCC
Q 022703            2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATC   48 (293)
Q Consensus         2 ~~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~C   48 (293)
                      +....+|..||+.+.....-..|..  .|.+   .    ..|.|+.|
T Consensus         9 ~~k~~~C~~C~k~F~~~~~L~~H~~--~H~~---~----k~~~C~~C   46 (46)
T 2ytn_A            9 GKKPYKCNECGKVFTQNSHLARHRG--IHTG---E----KPSGPSSG   46 (46)
T ss_dssp             CCSSCBCTTTCCBCSSHHHHHHHGG--GTSC---C----CCCSCCCC
T ss_pred             CCcCeECCCCCCeeCCHHHHHHHhh--hcCC---C----CCCCCCCC
Confidence            3456789999999999999889954  4642   2    34889887

>2el4_A Zinc finger protein 268; alternative splicing, DNA-binding, metal-binding, nuclear protein, repeat, transcription, transcription regulation; NMR {Homo sapiens} SCOP: k.12.1.1 PDB: 2eog_A 2em1_A 2emw_A 2eok_A

Probab=81.21  E-value=1.6  Score=27.21  Aligned_cols=38  Identities=13%  Similarity=0.153  Sum_probs=29.0

Q ss_pred             CcceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCC
Q 022703            2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATC   48 (293)
Q Consensus         2 ~~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~C   48 (293)
                      +....+|..||+.+.....-..|..  .|.+   .    ..|.|+.|
T Consensus         9 ~~k~~~C~~C~k~f~~~~~L~~H~~--~H~~---~----k~~~C~~C   46 (46)
T 2el4_A            9 GVKPYGCSQCAKTFSLKSQLIVHQR--SHTG---V----KPSGPSSG   46 (46)
T ss_dssp             CCCSEECSSSSCEESSHHHHHHHGG--GSSS---C----CCSCCTTC
T ss_pred             CCCceECCCCCchhCCHHHHHHHHH--HhCC---C----CCCCCCCC
Confidence            3456899999999999999999964  4642   2    34889887

>2eq4_A Zinc finger protein 224; C2H2, zinc finger domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=81.19  E-value=1.7  Score=27.03  Aligned_cols=38  Identities=18%  Similarity=0.270  Sum_probs=29.1

Q ss_pred             CcceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCC
Q 022703            2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATC   48 (293)
Q Consensus         2 ~~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~C   48 (293)
                      +...++|..||+.+.....-..|...  |.+   .    ..|.|+.|
T Consensus         9 ~~k~~~C~~C~k~f~~~~~L~~H~~~--H~~---~----~~~~C~~C   46 (46)
T 2eq4_A            9 GEKLYNCKECGKSFSRAPCLLKHERL--HSG---E----KPSGPSSG   46 (46)
T ss_dssp             CCCCCCBTTTTBCCSCHHHHHHHHHH--CCS---S----SCCCCCCC
T ss_pred             CCCCeECCCCCCccCchHHHHHHHHh--cCC---C----CCCCCCCC
Confidence            34567899999999999999999753  643   1    34889887

>2eoq_A Zinc finger protein 224; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=81.19  E-value=1.7  Score=27.15  Aligned_cols=37  Identities=16%  Similarity=0.259  Sum_probs=28.2

Q ss_pred             cceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCC
Q 022703            3 GVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATC   48 (293)
Q Consensus         3 ~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~C   48 (293)
                      ....+|..||+.+.....-..|...  |..   .    ..|.|+.|
T Consensus        10 ~~~~~C~~C~k~f~~~~~L~~H~~~--H~~---~----k~~~C~~C   46 (46)
T 2eoq_A           10 EKPFKCDICGKSFCGRSRLNRHSMV--HTA---E----KPSGPSSG   46 (46)
T ss_dssp             SCSCCCSSSCCCCSSHHHHHHHHHH--TTC---C----CSSSCCCC
T ss_pred             CCCcCCCcCCchhCCHHHHHHHHHH--cCC---C----CCCCCCCC
Confidence            4567899999999999999999653  642   1    34888887

>2lt7_A Transcriptional regulator kaiso; zinc finger, double helix, metal binding protein-DNA complex; HET: DNA; NMR {Homo sapiens} PDB: 4f6m_A* 4f6n_A*

Probab=80.86  E-value=0.53  Score=37.83  Aligned_cols=40  Identities=23%  Similarity=0.291  Sum_probs=28.3

Q ss_pred             ceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCCC
Q 022703            4 VSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPC   52 (293)
Q Consensus         4 ~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~~   52 (293)
                      ...+|..||+.+.....-..|..  .|.+       ...|.|+.||+.|
T Consensus        21 k~y~C~~C~k~F~~~~~L~~H~~--~H~~-------~k~~~C~~C~k~F   60 (133)
T 2lt7_A           21 VYYICIVCKRSYVCLTSLRRHFN--IHSW-------EKKYPCRYCEKVF   60 (133)
T ss_dssp             EEEEETTTCCEESCHHHHHHHHH--HHHC-------CSCEECSSSSCEE
T ss_pred             cCeECCCCCCCcCCHHHHHHHHH--HcCC-------CCCeeCCccCeec
Confidence            45688888888888888888865  3642       1347788887753

>2ene_A Zinc finger protein 347; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=80.63  E-value=1.7  Score=27.10  Aligned_cols=38  Identities=18%  Similarity=0.379  Sum_probs=29.1

Q ss_pred             CcceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCC
Q 022703            2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATC   48 (293)
Q Consensus         2 ~~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~C   48 (293)
                      +....+|..||+.+.....-..|...  |.+   .    ..|.|+.|
T Consensus         9 ~~k~~~C~~C~k~f~~~~~L~~H~~~--H~~---~----k~~~C~~C   46 (46)
T 2ene_A            9 GEKPYKCNECGKVFRHNSYLSRHQRI--HTG---E----KPSGPSSG   46 (46)
T ss_dssp             CSSSEECSSSCCEESSHHHHHHHHTT--TCC---C----CCCSCCCC
T ss_pred             CCCCeECCCCCchhCChHHHHHHHhh--cCC---C----CCCCCCCC
Confidence            34568999999999999999999653  642   2    34889887

>2ep0_A Zinc finger protein 28 homolog; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=80.56  E-value=1.7  Score=27.16  Aligned_cols=38  Identities=16%  Similarity=0.163  Sum_probs=29.3

Q ss_pred             CcceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCC
Q 022703            2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATC   48 (293)
Q Consensus         2 ~~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~C   48 (293)
                      +...++|..||+.+.....-+.|..  .|..   .    ..|.|+.|
T Consensus         9 ~~~~~~C~~C~k~f~~~~~L~~H~~--~H~~---~----k~~~C~~C   46 (46)
T 2ep0_A            9 GEKPYKCDVCHKSFRYGSSLTVHQR--IHTG---E----KPSGPSSG   46 (46)
T ss_dssp             TCCSEECSSSCCEESSHHHHHHHHT--TTSS---S----CCCSCCCC
T ss_pred             CCCCeeCcccCcccCChHHHHHHHH--HhCC---C----CCCCCCCC
Confidence            3456899999999999999999964  4653   1    34889887

>2epz_A Zinc finger protein 28 homolog; C2H2, zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=80.53  E-value=1.6  Score=27.30  Aligned_cols=37  Identities=16%  Similarity=0.259  Sum_probs=28.1

Q ss_pred             cceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCC
Q 022703            3 GVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATC   48 (293)
Q Consensus         3 ~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~C   48 (293)
                      ....+|..||+.+.....-..|..  .|..   .    ..|.|+.|
T Consensus        10 ~k~~~C~~C~k~f~~~~~L~~H~~--~H~~---~----k~~~C~~C   46 (46)
T 2epz_A           10 EKPFDCIDCGKAFSDHIGLNQHRR--IHTG---E----KPSGPSSG   46 (46)
T ss_dssp             CCSBCCTTTCCCBSSHHHHHHHHT--TTTT---C----CCCSSCCC
T ss_pred             CCCeECCCCCceeCCHHHHHHHHH--HhCC---C----CCCCCCCC
Confidence            456789999999999999899964  3542   2    34889887

>2em8_A Zinc finger protein 224; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=80.49  E-value=1.9  Score=26.93  Aligned_cols=37  Identities=16%  Similarity=0.215  Sum_probs=28.7

Q ss_pred             cceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCC
Q 022703            3 GVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATC   48 (293)
Q Consensus         3 ~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~C   48 (293)
                      ....+|..||+.+.....-+.|...  |.+       ...|.|+.|
T Consensus        10 ~k~~~C~~C~k~f~~~~~L~~H~~~--H~~-------~~~~~C~~C   46 (46)
T 2em8_A           10 EKPYKCVECGKGYKRRLDLDFHQRV--HTG-------EKLSGPSSG   46 (46)
T ss_dssp             CCSEECSSSCCEESSHHHHHHHHHH--HHC-------CCCCCSCCC
T ss_pred             CCCeECcccCchhCCHHHHHHHHHH--HcC-------CCCCCCCCC
Confidence            4568999999999999999999754  643       134889887

>2emp_A Zinc finger protein 347; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=80.34  E-value=1.9  Score=26.90  Aligned_cols=38  Identities=13%  Similarity=0.250  Sum_probs=29.1

Q ss_pred             CcceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCC
Q 022703            2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATC   48 (293)
Q Consensus         2 ~~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~C   48 (293)
                      +....+|..||+.+.....-..|...  |.+   .    ..|.|+.|
T Consensus         9 ~~k~~~C~~C~k~f~~~~~L~~H~~~--H~~---~----k~~~C~~C   46 (46)
T 2emp_A            9 GVKPYMCNECGKAFSVYSSLTTHQVI--HTG---E----KPSGPSSG   46 (46)
T ss_dssp             CCCSEECSSSCCEESCHHHHHHHHHH--HHC---C----SCCSCCCC
T ss_pred             CCcCeECCCCCchhCCHHHHHHHHHH--cCC---C----CCCCCCCC
Confidence            34568999999999999999999754  542   1    34889887

>2ytq_A Zinc finger protein 268; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=80.11  E-value=1.6  Score=27.36  Aligned_cols=38  Identities=18%  Similarity=0.243  Sum_probs=28.7

Q ss_pred             CcceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCC
Q 022703            2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATC   48 (293)
Q Consensus         2 ~~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~C   48 (293)
                      +....+|..||+.+.....-..|..  .|.+   .    ..|.|+.|
T Consensus         9 ~~k~~~C~~C~k~f~~~~~L~~H~~--~H~~---~----k~~~C~~C   46 (46)
T 2ytq_A            9 GEKPYGCSECGKAFSSKSYLIIHMR--THSG---E----KPSGPSSG   46 (46)
T ss_dssp             CCCSCBCSSSCCBCSCHHHHHHHHT--TTCC---S----CSSCCCCC
T ss_pred             CCCCcCCCccChhhCChHHHHHHHH--HhCC---C----CCCCCCCC
Confidence            3456789999999999999999964  3653   2    34889887

>2eq0_A Zinc finger protein 347; C2H2, zinc finger domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=80.07  E-value=1.8  Score=26.98  Aligned_cols=38  Identities=18%  Similarity=0.319  Sum_probs=29.1

Q ss_pred             CcceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCC
Q 022703            2 AGVSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATC   48 (293)
Q Consensus         2 ~~~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~C   48 (293)
                      +....+|..||+.+.....-..|..  .|.+   .    ..|.|+.|
T Consensus         9 ~~k~~~C~~C~k~F~~~~~L~~H~~--~H~~---~----k~~~C~~c   46 (46)
T 2eq0_A            9 GEKPYKCHECGKVFRRNSHLARHQL--IHTG---E----KPSGPSSG   46 (46)
T ss_dssp             CCCCEECTTTCCEESSHHHHHHHHT--TTCC---C----CCSCCSCC
T ss_pred             CCCCeECCCCCchhCCHHHHHHHHH--HcCC---C----CCCCCCCC
Confidence            3456899999999999999999964  3642   2    34889887

---

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	293
d1whca_	64	a.5.2.1 (A:) UBA/UBX 33.3 kDa protein {Mouse (Mus	2e-20
d1veka_	84	a.5.2.1 (A:) Ubiquitin isopeptidase T {Thale cress	1e-19
d2crna1	51	a.5.2.1 (A:8-58) Suppressor of T-cell receptor sig	4e-17
d1wjia_	63	a.5.2.1 (A:) Tudor domain containing protein 3, TD	2e-16
d2cpwa1	51	a.5.2.1 (A:8-58) Cbl-interacting protein p70, STS1	3e-12
d1wgna_	63	a.5.2.1 (A:) Ubiquitin-associated protein 1, UBAP1	4e-10
d1wiva_	73	a.5.2.1 (A:) Ubiquitin isopeptidase T {Thale cress	7e-10
d1vg5a_	73	a.5.2.1 (A:) Rhomboid family protein At3g58460 {Th	9e-07
d1oqya1	41	a.5.2.1 (A:160-200) DNA repair protein Hhr23a {Hum	4e-05

>d1whca_ a.5.2.1 (A:) UBA/UBX 33.3 kDa protein {Mouse (Mus musculus) [TaxId: 10090]} Length = 64

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: UBA/UBX 33.3 kDa protein
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 81.0 bits (200), Expect = 2e-20
 Identities = 27/59 (45%), Positives = 38/59 (64%)

Query: 111 PEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPVSG 169
              +   L+ L  MGFP  RA +AL  +GN  +EAA++W++EHE+DPD+DE    P SG
Sbjct: 6   SGAELTALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPLSGPSSG 64

>d1veka_ a.5.2.1 (A:) Ubiquitin isopeptidase T {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 84

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquitin isopeptidase T
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 79.5 bits (196), Expect = 1e-19
 Identities = 25/72 (34%), Positives = 40/72 (55%), Gaps = 1/72 (1%)

Query: 99  DMSGSQPEEMVEPEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPD 158
           D    +  E  +P  ++E++ +L +MGF      +A   + NA VE A+NW++ H +DPD
Sbjct: 14  DGVPEEVMESAQPVANEEIVAQLVSMGFSQLHCQKAAINTSNAGVEEAMNWLLSHMDDPD 73

Query: 159 IDEMPMVPVSGG 170
           ID  P+   S G
Sbjct: 74  IDA-PISGPSSG 84

>d2crna1 a.5.2.1 (A:8-58) Suppressor of T-cell receptor signaling 2 (STS-2) {Human (Homo sapiens) [TaxId: 9606]} Length = 51

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Suppressor of T-cell receptor signaling 2 (STS-2)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 71.6 bits (176), Expect = 4e-17
 Identities = 21/48 (43%), Positives = 29/48 (60%)

Query: 114 DKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDE 161
              LL+ L AMGFPV  A +AL  +G    E A+ W+ +H NDP +D+
Sbjct: 2   SPSLLEPLLAMGFPVHTALKALAATGRKTAEEALAWLHDHCNDPSLDD 49

>d1wjia_ a.5.2.1 (A:) Tudor domain containing protein 3, TDRD3 {Human (Homo sapiens) [TaxId: 9606]} Length = 63

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Tudor domain containing protein 3, TDRD3
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 69.8 bits (171), Expect = 2e-16
 Identities = 20/59 (33%), Positives = 31/59 (52%), Gaps = 1/59 (1%)

Query: 111 PEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPVSG 169
             VD++ LK +  MGF    + +AL  +GN N+EAA+N ++       +   P  P SG
Sbjct: 6   SGVDEKALKHITEMGFSKEASRQALMDNGN-NLEAALNVLLTSNKQKPVMGPPSGPSSG 63

>d2cpwa1 a.5.2.1 (A:8-58) Cbl-interacting protein p70, STS1 {Human (Homo sapiens) [TaxId: 9606]} Length = 51

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Cbl-interacting protein p70, STS1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 58.2 bits (141), Expect = 3e-12
 Identities = 16/44 (36%), Positives = 23/44 (52%)

Query: 110 EPEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEH 153
                   L  L +MGFP ARA +AL  +G  +V+ A +W+  H
Sbjct: 8   GTIKHGSALDVLLSMGFPRARAQKALASTGGRSVQTACDWLFSH 51

>d1wgna_ a.5.2.1 (A:) Ubiquitin-associated protein 1, UBAP1 {Human (Homo sapiens) [TaxId: 9606]} Length = 63

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquitin-associated protein 1, UBAP1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 52.5 bits (126), Expect = 4e-10
 Identities = 11/53 (20%), Positives = 26/53 (49%), Gaps = 1/53 (1%)

Query: 101 SGSQPEEMVEPEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEH 153
           SG+  E  +    +++ ++ +  MG+      RA+   G  N+E  ++++  H
Sbjct: 6   SGAYSELQMLSPSERQCVETVVNMGYSYECVLRAMKKKGE-NIEQILDYLFAH 57

>d1wiva_ a.5.2.1 (A:) Ubiquitin isopeptidase T {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 73

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquitin isopeptidase T
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 52.1 bits (125), Expect = 7e-10
 Identities = 14/55 (25%), Positives = 24/55 (43%), Gaps = 1/55 (1%)

Query: 104 QPEEMVEPEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPD 158
            P      ++D+  +  L + GF    A +AL  SG  ++E A +WV  +     
Sbjct: 19  APISHQTSDIDQSSVDTLLSFGFAEDVARKALKASGG-DIEKATDWVFNNSGPSS 72

>d1vg5a_ a.5.2.1 (A:) Rhomboid family protein At3g58460 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 73

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Rhomboid family protein At3g58460
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 43.8 bits (103), Expect = 9e-07
 Identities = 11/53 (20%), Positives = 23/53 (43%), Gaps = 1/53 (1%)

Query: 102 GSQPEEMVEPEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHE 154
              P+        +E +++L AMGF   +   AL  + + ++  AV  ++   
Sbjct: 17  AVLPQSQGRVAASEEQIQKLVAMGFDRTQVEVALAAADD-DLTVAVEILMSQS 68

>d1oqya1 a.5.2.1 (A:160-200) DNA repair protein Hhr23a {Human (Homo sapiens) [TaxId: 9606]} Length = 41

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: DNA repair protein Hhr23a
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.0 bits (89), Expect = 4e-05
 Identities = 12/34 (35%), Positives = 17/34 (50%), Gaps = 1/34 (2%)

Query: 116 ELLKELEAMGFPVARATRALHYSGNANVEAAVNW 149
            +L E+ +MG+   R   AL  S N N   AV +
Sbjct: 6   TMLTEIMSMGYERERVVAALRASYN-NPHRAVEY 38

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	293
d2crna1	51	Suppressor of T-cell receptor signaling 2 (STS-2)	99.8
d1veka_	84	Ubiquitin isopeptidase T {Thale cress (Arabidopsis	99.8
d1whca_	64	UBA/UBX 33.3 kDa protein {Mouse (Mus musculus) [Ta	99.78
d1wjia_	63	Tudor domain containing protein 3, TDRD3 {Human (H	99.67
d2cpwa1	51	Cbl-interacting protein p70, STS1 {Human (Homo sap	99.58
d1wiva_	73	Ubiquitin isopeptidase T {Thale cress (Arabidopsis	99.35
d1wgna_	63	Ubiquitin-associated protein 1, UBAP1 {Human (Homo	99.32
d1vg5a_	73	Rhomboid family protein At3g58460 {Thale cress (Ar	99.17
d1oqya1	41	DNA repair protein Hhr23a {Human (Homo sapiens) [T	99.13
d2g3qa1	43	Endocytic protein Ede1, YBL047C {Saccharomyces cer	98.52
d2cosa1	41	Serine/threonine protein kinase LATS2 {Mouse (Mus	97.91
d1veja1	61	4931431F19Rik {Mouse (Mus musculus) [TaxId: 10090]	97.89
d2bwba1	44	DSK2 {Baker's yeast (Saccharomyces cerevisiae) [Ta	97.86
d2dnaa1	50	Ubiquilin-like protein Ubqlnl {Mouse (Mus musculus	97.84
d1vega_	83	NEDD8 ultimate buster-1 (Nub1) {Mouse (Mus musculu	97.62
d2daha1	41	Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]}	97.42
d2ayna1	383	Ubiquitin carboxyl-terminal hydrolase 14 {Human (H	97.24
d1oqya2	44	DNA repair protein Hhr23a {Human (Homo sapiens) [T	97.03
d1nbfa_	347	Ubiquitin carboxyl-terminal hydrolase 7 (USP7, HAU	97.01
d1wiva_	73	Ubiquitin isopeptidase T {Thale cress (Arabidopsis	96.66
d1z96a1	38	UBA-domain protein mud1 {Schizosaccharomyces pombe	96.59
d1efub3	54	Elongation factor Ts (EF-Ts), N-terminal domain {E	95.26
d3e46a1	42	Ubiquitin-conjugating enzyme E2-25 kDa, C-terminal	94.18
d1aipc1	52	Elongation factor Ts (EF-Ts), N-terminal domain {T	94.09
d6rxna_	45	Rubredoxin {Desulfovibrio desulfuricans, strain 27	93.81
d1xb2b1	56	Elongation factor Ts (EF-Ts), N-terminal domain {C	93.44
d1ttea1	55	Ubiquitin-protein ligase ubc1 {Baker's yeast (Sacc	92.87
d2dkla1	72	Trinucleotide repeat containing 6c protein, TNRC6C	92.63
d1wj7a1	91	Ubiquitin-associated protein 2-like Ubap2l {Mouse	90.78
d1s24a_	56	Two-iron rubredoxin {Pseudomonas oleovorans [TaxId	89.63
d2dsxa1	52	Rubredoxin {Desulfovibrio gigas [TaxId: 879]}	89.03
d1iroa_	53	Rubredoxin {Clostridium pasteurianum [TaxId: 1501]	88.81
d1brfa_	53	Rubredoxin {Archaeon Pyrococcus furiosus [TaxId: 2	88.58
d2csha1	53	Zinc finger protein 297b {Human (Homo sapiens) [Ta	87.6
d1vjva_	397	Ubiquitin carboxyl-terminal hydrolase 6 {Baker's y	87.59
d1dx8a_	70	Rubredoxin {Guillardia theta [TaxId: 55529]}	87.37
d2cp8a1	41	Migration-inducing protein 19 NBR1 {Human (Homo sa	86.53
d2hd5a1	336	Ubiquitin carboxyl-terminal hydrolase 2, USP2 {Hum	81.21
d1wgla_	59	Toll-interacting protein {Human (Homo sapiens) [Ta	81.01

>d2crna1 a.5.2.1 (A:8-58) Suppressor of T-cell receptor signaling 2 (STS-2) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Suppressor of T-cell receptor signaling 2 (STS-2)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.80  E-value=1.8e-20  Score=131.79  Aligned_cols=50  Identities=42%  Similarity=0.701  Sum_probs=47.8

Q ss_pred             CHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhcCCCCCCCCC
Q 022703          114 DKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMP  163 (293)
Q Consensus       114 ~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~dD~didep~  163 (293)
                      |+++|.+|++|||++++|++||+.|||.|+|.||+|||+|++|||+|+||
T Consensus         2 ~p~~v~~L~~MGF~~~~a~~Al~~t~n~~ve~A~~Wl~~h~~d~d~d~Pl   51 (51)
T d2crna1           2 SPSLLEPLLAMGFPVHTALKALAATGRKTAEEALAWLHDHCNDPSLDDPI   51 (51)
T ss_dssp             SCSSHHHHHHTSCCHHHHHHHHHHHTSCCHHHHHHHHHHHSSSTTSCCSC
T ss_pred             CHHHHHHHHHcCCCHHHHHHHHHHHCCCCHHHHHHHHHHcCCCcCcCCCC
Confidence            56789999999999999999999999999999999999999999999986

>d1veka_ a.5.2.1 (A:) Ubiquitin isopeptidase T {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquitin isopeptidase T
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.80  E-value=6.7e-20  Score=141.08  Aligned_cols=60  Identities=37%  Similarity=0.628  Sum_probs=56.0

Q ss_pred             cccccCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhcCCCCCCCCCCCCCC
Q 022703          109 VEPEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPVS  168 (293)
Q Consensus       109 ~~~~~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~dD~didep~~~~~~  168 (293)
                      ..+.+|+++|.+|++|||++++|++||++|+|.+++.|++|||+|++|+|+|+|+..|.+
T Consensus        24 ~~p~~d~~~v~~L~~MGF~~~~a~~AL~~t~n~~~e~A~~Wl~~h~~d~d~d~pl~~p~s   83 (84)
T d1veka_          24 AQPVANEEIVAQLVSMGFSQLHCQKAAINTSNAGVEEAMNWLLSHMDDPDIDAPISGPSS   83 (84)
T ss_dssp             CCCCCCHHHHHHHHHHTCCHHHHHHHHHHTTTCCHHHHHHHHHHHTTCSTTTSCSSSCCC
T ss_pred             CCCCCCHHHHHHHHHcCCCHHHHHHHHHHHcCCCHHHHHHHHHHcCCCCCccCCCCCCCC
Confidence            456789999999999999999999999999999999999999999999999999987754

>d1whca_ a.5.2.1 (A:) UBA/UBX 33.3 kDa protein {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: UBA/UBX 33.3 kDa protein
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.78  E-value=1.3e-19  Score=132.80  Aligned_cols=59  Identities=44%  Similarity=0.754  Sum_probs=54.8

Q ss_pred             ccccCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhcCCCCCCCCCCCCCC
Q 022703          110 EPEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPVS  168 (293)
Q Consensus       110 ~~~~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~dD~didep~~~~~~  168 (293)
                      .+.+|+.+|.+|++|||++++|++||++|||.++|+||+|||+|++|+++++|+..|++
T Consensus         5 ~s~~d~~~l~~L~~MGF~~~~a~~AL~~t~n~~~e~A~~Wl~~h~~d~d~~~p~~~~~s   63 (64)
T d1whca_           5 SSGAELTALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPLSGPSS   63 (64)
T ss_dssp             CCCCCCCHHHHHHTTTCCHHHHHHHHHHHTSCCHHHHHHHHHHHTTCSCTTCCSSCCCC
T ss_pred             CCccCHHHHHHHHHcCCCHHHHHHHHHHhCCCCHHHHHHHHHHCCCCCCCCCCCCCCCC
Confidence            46689999999999999999999999999999999999999999999999999877653

>d1wjia_ a.5.2.1 (A:) Tudor domain containing protein 3, TDRD3 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Tudor domain containing protein 3, TDRD3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.67  E-value=5.6e-17  Score=118.19  Aligned_cols=58  Identities=33%  Similarity=0.470  Sum_probs=53.6

Q ss_pred             ccccCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhcCCCCCCCCCCCCCC
Q 022703          110 EPEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPDIDEMPMVPVS  168 (293)
Q Consensus       110 ~~~~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~dD~didep~~~~~~  168 (293)
                      ...+|+++|.+|++|||++++|++||+.|+| +++.|++|||+|++|+++++|+..|++
T Consensus         5 ~~~~d~~~v~~L~~MGF~~~~a~~AL~~~~~-~~e~A~~wL~~~~~~~~~~~p~~~pss   62 (63)
T d1wjia_           5 SSGVDEKALKHITEMGFSKEASRQALMDNGN-NLEAALNVLLTSNKQKPVMGPPSGPSS   62 (63)
T ss_dssp             CCSSCHHHHHHHHTTTCCHHHHHHHHHHTTS-CHHHHHHHHHHHSSCCCCCSSCCCSSC
T ss_pred             CCccCHHHHHHHHHcCCCHHHHHHHHHHhCC-CHHHHHHHHHHCCCCCCccCCCCCCCC
Confidence            3568999999999999999999999999998 999999999999999999999876654

>d2cpwa1 a.5.2.1 (A:8-58) Cbl-interacting protein p70, STS1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Cbl-interacting protein p70, STS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.58  E-value=3.6e-16  Score=109.53  Aligned_cols=45  Identities=36%  Similarity=0.572  Sum_probs=42.1

Q ss_pred             cccccCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHh
Q 022703          109 VEPEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEH  153 (293)
Q Consensus       109 ~~~~~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h  153 (293)
                      +.+.+|+++|++|++|||+.++|++||+.|||.|+|.||+|||+|
T Consensus         7 p~~~~~~~~l~~L~~MGF~~~~a~~AL~~t~n~~ve~A~~WLl~H   51 (51)
T d2cpwa1           7 PGTIKHGSALDVLLSMGFPRARAQKALASTGGRSVQTACDWLFSH   51 (51)
T ss_dssp             SCSSSCCCHHHHHHHHTCCHHHHHHHHHHTTTSCHHHHHHHHHSC
T ss_pred             CCCCCCHHHHHHHHHcCCCHHHHHHHHHHHCCCCHHHHHHHHHcC
Confidence            346679999999999999999999999999999999999999998

>d1wiva_ a.5.2.1 (A:) Ubiquitin isopeptidase T {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquitin isopeptidase T
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.35  E-value=4.6e-13  Score=99.90  Aligned_cols=47  Identities=28%  Similarity=0.556  Sum_probs=43.4

Q ss_pred             ccccCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhcCCC
Q 022703          110 EPEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDP  157 (293)
Q Consensus       110 ~~~~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~dD~  157 (293)
                      ...+++..|.+|++|||++.+|++||+.||| +++.|++|||+|+...
T Consensus        25 ~~~~d~~~i~~L~~MGF~~~~a~~AL~~~~~-n~e~Av~~Lls~~~~~   71 (73)
T d1wiva_          25 TSDIDQSSVDTLLSFGFAEDVARKALKASGG-DIEKATDWVFNNSGPS   71 (73)
T ss_dssp             SCSSCHHHHHHHHHHTCCHHHHHHHHHHTTS-CHHHHHHHHHHSCCSS
T ss_pred             CCCCCHHHHHHHHhcCCCHHHHHHHHHHcCC-CHHHHHHHHHcCCCCC
Confidence            3558999999999999999999999999998 9999999999998764

>d1wgna_ a.5.2.1 (A:) Ubiquitin-associated protein 1, UBAP1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquitin-associated protein 1, UBAP1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.32  E-value=4e-13  Score=97.62  Aligned_cols=45  Identities=18%  Similarity=0.432  Sum_probs=41.3

Q ss_pred             ccccCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhcC
Q 022703          110 EPEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHEN  155 (293)
Q Consensus       110 ~~~~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~d  155 (293)
                      .+.+|++.|.+|++|||++++|++||+.+|| |+|.|++|||+|.+
T Consensus        15 ~~~~de~~v~~L~~MGF~~~~a~~AL~~~~~-n~e~A~~~Lls~~~   59 (63)
T d1wgna_          15 LSPSERQCVETVVNMGYSYECVLRAMKKKGE-NIEQILDYLFAHSG   59 (63)
T ss_dssp             CCHHHHHHHHHHHHHHCCHHHHHHHHHHHCS-CHHHHHHHHHHHSC
T ss_pred             CCchhHHHHHHHHHcCCCHHHHHHHHHHcCC-CHHHHHHHHHhCCC
Confidence            3447899999999999999999999999998 89999999999963

>d1vg5a_ a.5.2.1 (A:) Rhomboid family protein At3g58460 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Rhomboid family protein At3g58460
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.17  E-value=1.4e-11  Score=91.69  Aligned_cols=44  Identities=23%  Similarity=0.368  Sum_probs=41.0

Q ss_pred             cccCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhcC
Q 022703          111 PEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHEN  155 (293)
Q Consensus       111 ~~~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~d  155 (293)
                      ..++++.|.+|++|||+++.|++||..++| |+|.|++|||+|..
T Consensus        26 ~~~~ee~i~~L~~MGF~~~~a~~AL~~~~~-n~e~A~~~Ll~~~~   69 (73)
T d1vg5a_          26 VAASEEQIQKLVAMGFDRTQVEVALAAADD-DLTVAVEILMSQSG   69 (73)
T ss_dssp             SCCCHHHHHHHHTTTCCHHHHHHHHHHHTS-CHHHHHHHHHTCSC
T ss_pred             cCcCHHHHHHHHHhCCCHHHHHHHHHHhCC-CHHHHHHHHHhCCC
Confidence            457999999999999999999999999998 89999999999864

>d1oqya1 a.5.2.1 (A:160-200) DNA repair protein Hhr23a {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: DNA repair protein Hhr23a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.13  E-value=7.6e-12  Score=83.49  Aligned_cols=37  Identities=32%  Similarity=0.488  Sum_probs=34.8

Q ss_pred             HHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHH
Q 022703          115 KELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVE  152 (293)
Q Consensus       115 ~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~  152 (293)
                      +..|.+|++|||+++.|++||..++| |++.|++|||+
T Consensus         5 e~~i~~L~~MGF~~~~a~~AL~~~~~-N~e~A~~~LlS   41 (41)
T d1oqya1           5 ETMLTEIMSMGYERERVVAALRASYN-NPHRAVEYLLT   41 (41)
T ss_dssp             HHHHHHHHTTTCCSHHHHHHHHHSCS-STTHHHHTTTT
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHhCC-CHHHHHHHHhC
Confidence            57899999999999999999999998 99999999985

>d2g3qa1 a.5.2.1 (A:1339-1381) Endocytic protein Ede1, YBL047C {Saccharomyces cerevisiae [TaxId: 4932]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Endocytic protein Ede1, YBL047C
species: Saccharomyces cerevisiae [TaxId: 4932]

Probab=98.52  E-value=4.4e-08  Score=64.88  Aligned_cols=40  Identities=30%  Similarity=0.439  Sum_probs=36.3

Q ss_pred             cCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHh
Q 022703          113 VDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEH  153 (293)
Q Consensus       113 ~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h  153 (293)
                      +.+.+|+.|++|||+++.|.+||...+. |+++|+|+|++|
T Consensus         3 pk~~ai~eL~~MGF~e~~A~~AL~k~~w-nleaAtN~LLd~   42 (43)
T d2g3qa1           3 PKSLAVEELSGMGFTEEEAHNALEKCNW-DLEAATNFLLDS   42 (43)
T ss_dssp             HHHHHHHHHHTTTSCHHHHHHHHHHHTS-CHHHHHHHHHTC
T ss_pred             cHHHHHHHHHhcCCCHHHHHHHHHHcCC-CHHHHHHHHHhc
Confidence            4567899999999999999999998876 899999999876

>d2cosa1 a.5.2.1 (A:8-48) Serine/threonine protein kinase LATS2 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Serine/threonine protein kinase LATS2
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.91  E-value=5.8e-06  Score=53.11  Aligned_cols=39  Identities=33%  Similarity=0.564  Sum_probs=36.3

Q ss_pred             cCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHH
Q 022703          113 VDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVV  151 (293)
Q Consensus       113 ~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~  151 (293)
                      ||-.++..|+..||+.+-+.+||..|||.++|+|++||-
T Consensus         1 vnRQMlqdl~~aG~D~~m~iral~qt~~rsieaaie~is   39 (41)
T d2cosa1           1 VNRQMLQELVNAGCDQEMAGRALKQTGSRSIEAALEYIS   39 (41)
T ss_dssp             CCHHHHHHHHHHHCCHHHHHHHHHHHTSCCHHHHHHHHH
T ss_pred             CcHHHHHHHHHcCCCHHHHHHHHHHhCcccHHHHHHHHh
Confidence            467789999999999999999999999999999999984

>d1veja1 a.5.2.1 (A:8-68) 4931431F19Rik {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: 4931431F19Rik
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.89  E-value=5.8e-06  Score=58.83  Aligned_cols=37  Identities=27%  Similarity=0.460  Sum_probs=32.9

Q ss_pred             HHHHHHHHhCCCC-HHHHHHHHHHhCCCCHHHHHHHHHH
Q 022703          115 KELLKELEAMGFP-VARATRALHYSGNANVEAAVNWVVE  152 (293)
Q Consensus       115 ~~~l~~L~~MGF~-~~~a~kAL~~tgn~~~E~A~~WL~~  152 (293)
                      ..-|.+|.+|||. .+....||..||| ||+.|+++|+.
T Consensus        23 ~~QL~qL~eMGF~d~~~Nl~AL~~t~G-dv~~Aie~Ll~   60 (61)
T d1veja1          23 QQELEELKALGFANRDANLQALVATDG-DIHAAIEMLLG   60 (61)
T ss_dssp             HHHHHHHHHHTCCCHHHHHHHHHHTTS-CHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCCCHHHHHHHHHHcCC-CHHHHHHHHhc
Confidence            4579999999995 6777999999998 99999999984

>d2bwba1 a.5.2.1 (A:328-371) DSK2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: DSK2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.86  E-value=1.1e-05  Score=53.86  Aligned_cols=36  Identities=33%  Similarity=0.566  Sum_probs=32.1

Q ss_pred             HHHHHHHhCCC-CHHHHHHHHHHhCCCCHHHHHHHHHH
Q 022703          116 ELLKELEAMGF-PVARATRALHYSGNANVEAAVNWVVE  152 (293)
Q Consensus       116 ~~l~~L~~MGF-~~~~a~kAL~~tgn~~~E~A~~WL~~  152 (293)
                      .-|.+|.+||| +......||..||+ ||++|++.|++
T Consensus         7 ~QL~qL~~MGF~d~~~Ni~AL~~t~G-dV~~Aie~Ll~   43 (44)
T d2bwba1           7 HQLRQLNDMGFFDFDRNVAALRRSGG-SVQGALDSLLN   43 (44)
T ss_dssp             HHHHHHHHTTCCCHHHHHHHHHHHTT-CHHHHHHHHHC
T ss_pred             HHHHHHHHcCCCcHHHHHHHHHHcCC-CHHHHHHHHhC
Confidence            45899999999 66788899999998 99999999985

>d2dnaa1 a.5.2.1 (A:12-61) Ubiquilin-like protein Ubqlnl {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquilin-like protein Ubqlnl
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.84  E-value=1.1e-05  Score=55.24  Aligned_cols=39  Identities=23%  Similarity=0.296  Sum_probs=34.4

Q ss_pred             HHHHHHHHhCCC-CHHHHHHHHHHhCCCCHHHHHHHHHHhc
Q 022703          115 KELLKELEAMGF-PVARATRALHYSGNANVEAAVNWVVEHE  154 (293)
Q Consensus       115 ~~~l~~L~~MGF-~~~~a~kAL~~tgn~~~E~A~~WL~~h~  154 (293)
                      ..-|.+|.+||| +......||..||+ ||++|++.|+++.
T Consensus         9 ~~QL~qL~~MGF~d~~~Ni~AL~~t~G-dV~~Aie~Ll~~~   48 (50)
T d2dnaa1           9 SKEMECLQAMGFVNYNANLQALIATDG-DTNAAIYKLKSSQ   48 (50)
T ss_dssp             HHHHHHHHHHTCCCHHHHHHHHHHTTS-CHHHHHHHHHHCC
T ss_pred             HHHHHHHHHcCCCCHHHHHHHHHHcCC-CHHHHHHHHHhcC
Confidence            345899999998 67888899999998 9999999999874

>d1vega_ a.5.2.1 (A:) NEDD8 ultimate buster-1 (Nub1) {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: NEDD8 ultimate buster-1 (Nub1)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.62  E-value=8.4e-05  Score=54.83  Aligned_cols=46  Identities=28%  Similarity=0.378  Sum_probs=42.1

Q ss_pred             ccccCHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhcCC
Q 022703          110 EPEVDKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHEND  156 (293)
Q Consensus       110 ~~~~~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~dD  156 (293)
                      ...|+++.|++|+-|||+...|+-||+.+++ ||+.|.+-|..|..-
T Consensus        25 q~~~sQesidqLvYMGF~~~~Ae~ALRvfrG-nVQlAaQtLahngG~   70 (83)
T d1vega_          25 QASPSQESINQLVYMGFDTVVAEAALRVFGG-NVQLAAQTLAHHGGS   70 (83)
T ss_dssp             SCCCCHHHHHHHHHHSCCHHHHHHHHHHTTT-CHHHHHHHHHHHTSS
T ss_pred             cCCCCHHHHHHHHHhcccHHHHHHHHHHhcc-cHHHHHHHHHHcCCc
Confidence            4558999999999999999999999999998 899999999888766

>d2daha1 a.5.2.1 (A:8-48) Ubiquilin-3 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquilin-3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.42  E-value=8.8e-05  Score=48.59  Aligned_cols=37  Identities=32%  Similarity=0.427  Sum_probs=31.7

Q ss_pred             HHHHHHHhCCCCH-HHHHHHHHHhCCCCHHHHHHHHHHh
Q 022703          116 ELLKELEAMGFPV-ARATRALHYSGNANVEAAVNWVVEH  153 (293)
Q Consensus       116 ~~l~~L~~MGF~~-~~a~kAL~~tgn~~~E~A~~WL~~h  153 (293)
                      .-|++|.+|||+- .+...||..||+ ||+.|++.|.++
T Consensus         4 ~QL~~L~~MGF~d~~~Ni~AL~~t~G-dv~~Aie~Ll~~   41 (41)
T d2daha1           4 VQLEQLRSMGFLNREANLQALIATGG-DVDAAVEKLRQS   41 (41)
T ss_dssp             HHHHHHHHHTCCCHHHHHHHHHHHTS-CHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCCHHHHHHHHHHcCC-CHHHHHHHHHhC
Confidence            4589999999865 677799999988 999999999763

>d2ayna1 d.3.1.9 (A:100-482) Ubiquitin carboxyl-terminal hydrolase 14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Ubiquitin carboxyl-terminal hydrolase, UCH
domain: Ubiquitin carboxyl-terminal hydrolase 14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.24  E-value=8.6e-06  Score=72.11  Aligned_cols=53  Identities=8%  Similarity=-0.066  Sum_probs=45.2

Q ss_pred             hccccCCCCCCCCCccccccccccccccccccchhhccccccccc----Cccc---cCCccccccCC
Q 022703           41 LNLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEV----PKAT---ADSEEAIDVDM  100 (293)
Q Consensus        41 ~~~~C~~Cg~~~~~~~e~~~a~K~t~f~tFP~~Lvv~~~Rf~l~~----p~K~---~~~~~~lDl~~  100 (293)
                      +.+.|+.|+..       ..+.++..|.++|++|+|+.+||.+..    +.|+   +.+|..||+..
T Consensus       198 ~~~~~~~~~~~-------~~~~~~~~i~~lP~~L~i~l~R~~~~~~~~~~~K~~~~v~fp~~ldl~~  257 (383)
T d2ayna1         198 ITKQSPTLQRN-------ALYIKSSKISRLPAYLTIQMVRFFYKEKESVNAKVLKDVKFPLMLDMYE  257 (383)
T ss_dssp             CCCEETTTTEE-------CCEEEEEEEEECCSSEEEEEECBCCCCSSSSCCBCCCCCBCCSEEECGG
T ss_pred             ccccccccCcc-------eeeeeeeeeecccceeeeeccceeecccCcceeecCcEEccCCeeechh
Confidence            45789999986       678999999999999999999999874    6676   66788899874

>d1oqya2 a.5.2.1 (A:317-360) DNA repair protein Hhr23a {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: DNA repair protein Hhr23a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.03  E-value=0.00011  Score=48.62  Aligned_cols=40  Identities=28%  Similarity=0.490  Sum_probs=35.7

Q ss_pred             CHHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhc
Q 022703          114 DKELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHE  154 (293)
Q Consensus       114 ~~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~  154 (293)
                      +.+++..|.+|||+++.+.-|-++.. .|.+.|.||||+|.
T Consensus         4 e~~aIeRL~~LGF~r~~viqay~ACd-KNEelAaN~L~~~~   43 (44)
T d1oqya2           4 EKEAIERLKALGFPESLVIQAYFACE-KNENLAANFLLSQN   43 (44)
T ss_dssp             THHHHHHHHHHTCCSHHHHHHTSSSS-SCSSHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHhC-cCHHHHHHHHHHcc
Confidence            56889999999999999999987765 58999999999984

>d1nbfa_ d.3.1.9 (A:) Ubiquitin carboxyl-terminal hydrolase 7 (USP7, HAUSP) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Ubiquitin carboxyl-terminal hydrolase, UCH
domain: Ubiquitin carboxyl-terminal hydrolase 7 (USP7, HAUSP)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.01  E-value=0.00011  Score=65.38  Aligned_cols=42  Identities=7%  Similarity=-0.070  Sum_probs=36.2

Q ss_pred             ccccccccccccccchhhccccccccc----Cccc---cCCccccccCC
Q 022703           59 DLHRKRTGHTDFVDKTSEAAKPISLEV----PKAT---ADSEEAIDVDM  100 (293)
Q Consensus        59 ~~a~K~t~f~tFP~~Lvv~~~Rf~l~~----p~K~---~~~~~~lDl~~  100 (293)
                      ..+.|+..|.++|++|+|+++||.+..    ..|+   +.+|..|||+.
T Consensus       180 ~~~~k~~~i~~lP~vL~i~l~Rf~~~~~~~~~~K~~~~v~fp~~Ldl~~  228 (347)
T d1nbfa_         180 QEAEKGVKFLTLPPVLHLQLMRFMYDPQTDQNIKINDRFEFPEQLPLDE  228 (347)
T ss_dssp             ECEEEEEEEEECCSEEEEEEECEEEETTTTEEEECCCCCBCCSEEECGG
T ss_pred             eeccEEEEEEecCChheEeeeeeeeccccCcccccCceEeeeeeecccc
Confidence            578999999999999999999999763    5676   66788999985

>d1wiva_ a.5.2.1 (A:) Ubiquitin isopeptidase T {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquitin isopeptidase T
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=96.66  E-value=0.0001  Score=53.81  Aligned_cols=23  Identities=26%  Similarity=0.358  Sum_probs=19.2

Q ss_pred             HHHHHHHHhcCCCCCCCCCCCCC
Q 022703          145 AAVNWVVEHENDPDIDEMPMVPV  167 (293)
Q Consensus       145 ~A~~WL~~h~dD~didep~~~~~  167 (293)
                      .|++|||+|++||||+.|+..+.
T Consensus         3 ~~~~~l~~h~dDpdid~P~~~~~   25 (73)
T d1wiva_           3 SGSSGLLSHMDDPDIDAPISHQT   25 (73)
T ss_dssp             CCCCCCSSCCSCSCSSCCSCCSS
T ss_pred             hHHHHHHhcCCCCCCCCCccccC
Confidence            36799999999999999876543

>d1z96a1 a.5.2.1 (A:295-332) UBA-domain protein mud1 {Schizosaccharomyces pombe [TaxId: 4896]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: UBA-domain protein mud1
species: Schizosaccharomyces pombe [TaxId: 4896]

Probab=96.59  E-value=0.0014  Score=40.68  Aligned_cols=33  Identities=24%  Similarity=0.470  Sum_probs=29.3

Q ss_pred             HHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHH
Q 022703          117 LLKELEAMGFPVARATRALHYSGNANVEAAVNWV  150 (293)
Q Consensus       117 ~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL  150 (293)
                      -+.||++|||.+-.|..||.+.++ +++.|..||
T Consensus         5 kiaqlvsmgfdpleaaqaldaang-dldvaasfl   37 (38)
T d1z96a1           5 KIAQLVSMGFDPLEAAQALDAANG-DLDVAASFL   37 (38)
T ss_dssp             HHHHHHHTTCCHHHHHHHHHHTTT-CHHHHHHHH
T ss_pred             HHHHHHHcCCCHHHHHHHHhhhcC-cHHHHHHhh
Confidence            478999999999999999988755 899998887

>d1efub3 a.5.2.2 (B:1-54) Elongation factor Ts (EF-Ts), N-terminal domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: TS-N domain
domain: Elongation factor Ts (EF-Ts), N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=95.26  E-value=0.015  Score=39.72  Aligned_cols=41  Identities=24%  Similarity=0.374  Sum_probs=35.3

Q ss_pred             ccCHHHHHHHHh-CCCCHHHHHHHHHHhCCCCHHHHHHHHHHh
Q 022703          112 EVDKELLKELEA-MGFPVARATRALHYSGNANVEAAVNWVVEH  153 (293)
Q Consensus       112 ~~~~~~l~~L~~-MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h  153 (293)
                      .++.++|.+|-+ -|.+.-.|.+||..++| |++.|++||-..
T Consensus         2 ~is~~~iK~LR~~Tgag~~dCKkAL~e~~g-D~ekA~e~Lr~k   43 (54)
T d1efub3           2 EITASLVKELRERTGAGMMDCKKALTEANG-DIELAIENMRKS   43 (54)
T ss_dssp             CCCHHHHHHHHHHHCCCHHHHHHHHHHTTT-CHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHhCCCHHHHHHHHHHcCC-CHHHHHHHHHHH
Confidence            467788888875 49999999999999988 999999999653

>d3e46a1 a.5.2.1 (A:157-198) Ubiquitin-conjugating enzyme E2-25 kDa, C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquitin-conjugating enzyme E2-25 kDa, C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.18  E-value=0.048  Score=34.43  Aligned_cols=33  Identities=27%  Similarity=0.328  Sum_probs=28.6

Q ss_pred             HHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHH
Q 022703          118 LKELEAMGFPVARATRALHYSGNANVEAAVNWVV  151 (293)
Q Consensus       118 l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~  151 (293)
                      ++.|..|||..|...-||..... ++|.|.+-|+
T Consensus        10 idklca~gf~knavi~alssksw-dvetatelll   42 (42)
T d3e46a1          10 IENLCAAGFDRNAVIVALSSKSW-DVETATELLL   42 (42)
T ss_dssp             HHHHHHTTCCHHHHHHHHHHTTT-CHHHHHHHHH
T ss_pred             HHHHHHccccccceeeeeccCcc-chhhHHHhhC
Confidence            68899999999999999977655 9999988764

>d1aipc1 a.5.2.2 (C:2-53) Elongation factor Ts (EF-Ts), N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: TS-N domain
domain: Elongation factor Ts (EF-Ts), N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=94.09  E-value=0.024  Score=38.35  Aligned_cols=37  Identities=38%  Similarity=0.457  Sum_probs=30.8

Q ss_pred             HHHHHHH-hCCCCHHHHHHHHHHhCCCCHHHHHHHHHHh
Q 022703          116 ELLKELE-AMGFPVARATRALHYSGNANVEAAVNWVVEH  153 (293)
Q Consensus       116 ~~l~~L~-~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h  153 (293)
                      ++|.+|- .-|++...|.+||..+|| |++.|++||-.+
T Consensus         4 elvK~LR~~Tga~~~dcKkAL~e~~g-D~ekA~e~Lr~~   41 (52)
T d1aipc1           4 ELIKKLREATGAGMMDVKRALEDAGW-DEEKAVQLLRER   41 (52)
T ss_dssp             HHHHHHHHHHCCCHHHHHHHHHHTTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHcCC-CHHHHHHHHHHH
Confidence            4566665 359999999999999987 999999999653

>d6rxna_ g.41.5.1 (A:) Rubredoxin {Desulfovibrio desulfuricans, strain 27774 [TaxId: 876]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Rubredoxin
species: Desulfovibrio desulfuricans, strain 27774 [TaxId: 876]

Probab=93.81  E-value=0.0098  Score=39.24  Aligned_cols=36  Identities=19%  Similarity=0.493  Sum_probs=27.1

Q ss_pred             eeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCC
Q 022703            5 SLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKP   51 (293)
Q Consensus         5 ~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~   51 (293)
                      +.+|..||+|-....+.        -+-|.+.   -.+|+||.||.+
T Consensus         3 ~y~C~~CgyiYd~~~Gd--------gt~Fe~L---P~dw~CP~C~a~   38 (45)
T d6rxna_           3 KYVCNVCGYEYDPAEHD--------NVPFDQL---PDDWCCPVCGVS   38 (45)
T ss_dssp             CEEETTTCCEECGGGGT--------TCCGGGS---CTTCBCTTTCCB
T ss_pred             CeEeCCCCeEECcccCC--------CCCHHHC---CCCCCCcCCCCc
Confidence            57899999998665442        2557776   467999999975

>d1xb2b1 a.5.2.2 (B:56-111) Elongation factor Ts (EF-Ts), N-terminal domain {Cow (Bos taurus), mitochondrial [TaxId: 9913]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: TS-N domain
domain: Elongation factor Ts (EF-Ts), N-terminal domain
species: Cow (Bos taurus), mitochondrial [TaxId: 9913]

Probab=93.44  E-value=0.041  Score=37.76  Aligned_cols=40  Identities=28%  Similarity=0.560  Sum_probs=33.4

Q ss_pred             cCHHHHHHHHh-CCCCHHHHHHHHHHhCCCCHHHHHHHHHHh
Q 022703          113 VDKELLKELEA-MGFPVARATRALHYSGNANVEAAVNWVVEH  153 (293)
Q Consensus       113 ~~~~~l~~L~~-MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h  153 (293)
                      ++.++|.+|-+ -|.+.-.|.+||..+|| |++.|++||-..
T Consensus         3 ~s~~lvk~LRe~Tga~~~dcKkAL~e~~g-D~ekA~e~Lrkk   43 (56)
T d1xb2b1           3 SSKELLMKLRRKTGYSFINCKKALETCGG-DLKQAESWLHKQ   43 (56)
T ss_dssp             HHHHHHHHHHHHHCCCHHHHHHHHHHTTT-CHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHhCCCHHHHHHHHHHcCC-CHHHHHHHHHHH
Confidence            35567777764 49999999999999988 999999999653

>d1ttea1 a.5.2.1 (A:161-215) Ubiquitin-protein ligase ubc1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquitin-protein ligase ubc1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.87  E-value=0.042  Score=37.50  Aligned_cols=31  Identities=26%  Similarity=0.453  Sum_probs=27.3

Q ss_pred             cccCHHHHHHHHhCCCCHHHHHHHHHHhCCC
Q 022703          111 PEVDKELLKELEAMGFPVARATRALHYSGNA  141 (293)
Q Consensus       111 ~~~~~~~l~~L~~MGF~~~~a~kAL~~tgn~  141 (293)
                      .-++.++|.+..+||||++...-+|+.-|-.
T Consensus         6 ~Gid~~~V~~f~~mGF~rdKvI~VLrrlgik   36 (55)
T d1ttea1           6 YGIDHDLIDEFESQGFEKDKIVEVLRRLGVK   36 (55)
T ss_dssp             CCCSHHHHHHHHHHTCCHHHHHHHHHHSCCS
T ss_pred             hCCCHHHHHHHHHcCCCchhHHHHHHHhCcC
Confidence            4478999999999999999999999987643

>d2dkla1 a.5.2.1 (A:8-79) Trinucleotide repeat containing 6c protein, TNRC6C {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Trinucleotide repeat containing 6c protein, TNRC6C
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.63  E-value=0.096  Score=37.32  Aligned_cols=42  Identities=38%  Similarity=0.587  Sum_probs=35.1

Q ss_pred             HHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHHhcCCCC
Q 022703          116 ELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVEHENDPD  158 (293)
Q Consensus       116 ~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~h~dD~d  158 (293)
                      -++.||..|||+..-+..||... +++++.||-=|.+.--|.|
T Consensus        16 p~~KQfsnMGf~re~~e~~l~sN-~m~L~~a~~~l~dKk~e~d   57 (72)
T d2dkla1          16 RLIKQLTDMGFPREPAEEALKSN-NMNLDQAMSALLEKKVDVD   57 (72)
T ss_dssp             HHHHHHHHHTCCHHHHHHHHHHT-TSCHHHHHHHHHTTSCCSS
T ss_pred             HHHHHHhhcCCcCCChHHhhhcc-Ccchhhcccchhhhhhccc
Confidence            36899999999999999999765 5799999998877655543

>d1wj7a1 a.5.2.1 (A:8-98) Ubiquitin-associated protein 2-like Ubap2l {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Ubiquitin-associated protein 2-like Ubap2l
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=90.78  E-value=0.19  Score=37.38  Aligned_cols=40  Identities=30%  Similarity=0.371  Sum_probs=33.9

Q ss_pred             HHHHHHHhC-CCCHHHHHHHHHHhCCCCHHHHHHHHHHhcCC
Q 022703          116 ELLKELEAM-GFPVARATRALHYSGNANVEAAVNWVVEHEND  156 (293)
Q Consensus       116 ~~l~~L~~M-GF~~~~a~kAL~~tgn~~~E~A~~WL~~h~dD  156 (293)
                      +.|.+|++| |-+.+.|.-||+-+.+ ++..|+|+|++-..|
T Consensus        34 ~kVkql~e~T~rsede~~~ALhDcn~-D~~~AIn~lLEg~~~   74 (91)
T d1wj7a1          34 EKVKQLIDITGKNQDECVIALHDCNG-DVNRAINVLLEGNPD   74 (91)
T ss_dssp             HHHHHHHHHTCCCHHHHHHHHHHHTS-CHHHHHHHHHTCSSS
T ss_pred             HHHHHHHHHhCCCHHHHHHHHhcCCc-cHHHHHHHHHhcCCC
Confidence            457788876 7999999999999876 999999999986443

>d1s24a_ g.41.5.1 (A:) Two-iron rubredoxin {Pseudomonas oleovorans [TaxId: 301]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Two-iron rubredoxin
species: Pseudomonas oleovorans [TaxId: 301]

Probab=89.63  E-value=0.02  Score=39.32  Aligned_cols=44  Identities=16%  Similarity=0.419  Sum_probs=28.4

Q ss_pred             ceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCC
Q 022703            4 VSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKP   51 (293)
Q Consensus         4 ~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~   51 (293)
                      .+.+|.+||+|-....+=..|.-. -.+.|.+.   -.+|.||.||.+
T Consensus         3 kky~C~~CgyiYdp~~Gd~~~gi~-pGT~F~~L---P~dw~CP~C~a~   46 (56)
T d1s24a_           3 LKWICITCGHIYDEALGDEAEGFT-PGTRFEDI---PDDWCCPDCGAT   46 (56)
T ss_dssp             CEEEETTTTEEEETTSCCTTTTCC-SCCCGGGC---CTTCCCSSSCCC
T ss_pred             ccEECCCCCcEECcccCCcccCcC-CCCChhhC---CCCCCCcCCCCc
Confidence            578999999998554332222111 22457666   466999999875

>d2dsxa1 g.41.5.1 (A:1-52) Rubredoxin {Desulfovibrio gigas [TaxId: 879]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Rubredoxin
species: Desulfovibrio gigas [TaxId: 879]

Probab=89.03  E-value=0.025  Score=38.28  Aligned_cols=43  Identities=16%  Similarity=0.393  Sum_probs=27.0

Q ss_pred             eeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCC
Q 022703            5 SLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKP   51 (293)
Q Consensus         5 ~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~   51 (293)
                      ..+|..||++-....+-..|.-. --+.|...   -.+|.||.||..
T Consensus         3 ~y~C~~CgyiYdp~~Gd~~~gi~-pGT~F~~L---P~~w~CP~C~a~   45 (52)
T d2dsxa1           3 IYVCTVCGYEYDPAKGDPDSGIK-PGTKFEDL---PDDWACPVCGAS   45 (52)
T ss_dssp             CEEETTTCCEECTTTCBGGGTBC-TTCCGGGS---CTTCBCTTTCCB
T ss_pred             eEEeCCCCeEECcccCCcccCCC-CCCCHHHC---CCCCCCcCCCCc
Confidence            46899999998554432222222 11346655   466999999975

>d1iroa_ g.41.5.1 (A:) Rubredoxin {Clostridium pasteurianum [TaxId: 1501]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Rubredoxin
species: Clostridium pasteurianum [TaxId: 1501]

Probab=88.81  E-value=0.022  Score=38.70  Aligned_cols=43  Identities=19%  Similarity=0.461  Sum_probs=27.3

Q ss_pred             eeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCC
Q 022703            5 SLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKP   51 (293)
Q Consensus         5 ~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~   51 (293)
                      +.+|.+||+|-....+-..+.-. --+-|.+.   -.+|+||.||.+
T Consensus         3 ky~C~~CgyiYd~~~Gd~~~gi~-pGT~F~~L---P~dw~CP~C~a~   45 (53)
T d1iroa_           3 KYTCTVCGYIYNPEDGDPDNGVN-PGTDFKDI---PDDWVCPLCGVG   45 (53)
T ss_dssp             CEEETTTCCEECTTTCBGGGTBC-TTCCGGGS---CTTCBCTTTCCB
T ss_pred             CeEcCCCCcEECcccCCcccCCC-CCCCHHHC---CCCCCCcCCCCc
Confidence            57999999998654432222211 11346665   466999999975

>d1brfa_ g.41.5.1 (A:) Rubredoxin {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Rubredoxin
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=88.58  E-value=0.028  Score=38.14  Aligned_cols=43  Identities=23%  Similarity=0.495  Sum_probs=26.6

Q ss_pred             eeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCC
Q 022703            5 SLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKP   51 (293)
Q Consensus         5 ~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~   51 (293)
                      +.+|..||+|-....+=..+.-. --+.|...   -.+|.||.||..
T Consensus         2 ky~C~~CgyiYd~~~Gd~~~gi~-pGT~f~dL---P~dw~CP~C~a~   44 (53)
T d1brfa_           2 KWVCKICGYIYDEDAGDPDNGIS-PGTKFEEL---PDDWVCPICGAP   44 (53)
T ss_dssp             EEEETTTCCEEETTTCBGGGTBC-TTCCGGGS---CTTCBCTTTCCB
T ss_pred             ceECCCCCcEECcccCCcccCCC-CCCCHHHC---CCCCCCcCCCCc
Confidence            57899999998554322211111 11346655   456999999874

>d2csha1 g.37.1.1 (A:8-60) Zinc finger protein 297b {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: Zinc finger protein 297b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.60  E-value=0.14  Score=33.42  Aligned_cols=38  Identities=24%  Similarity=0.524  Sum_probs=30.8

Q ss_pred             eeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCCC
Q 022703            5 SLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKPC   52 (293)
Q Consensus         5 ~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~~   52 (293)
                      ..+| +||+.+.....-+.|..  .|+.   +    ..|.|+.||+.+
T Consensus         3 ~y~C-~Cgk~F~~~~~l~~H~~--~Ht~---e----kpy~C~~C~k~F   40 (53)
T d2csha1           3 LYPC-QCGKSFTHKSQRDRHMS--MHLG---L----RPYGCGVCGKKF   40 (53)
T ss_dssp             CEEC-TTSCEESSHHHHHHHHH--HHSC---C----CSEECTTTSCEE
T ss_pred             CCCC-CCCCeECCHHHhHHHhh--cccc---c----cCCcCCCcCCEe
Confidence            5789 59999999999999964  5753   2    459999999963

>d1vjva_ d.3.1.9 (A:) Ubiquitin carboxyl-terminal hydrolase 6 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Ubiquitin carboxyl-terminal hydrolase, UCH
domain: Ubiquitin carboxyl-terminal hydrolase 6
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=87.59  E-value=0.082  Score=45.20  Aligned_cols=53  Identities=6%  Similarity=-0.099  Sum_probs=33.3

Q ss_pred             hccccCCCCCCCCCccccccccccccccccccchhhccccccccc----Cccc---cCCccccccCC
Q 022703           41 LNLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEV----PKAT---ADSEEAIDVDM  100 (293)
Q Consensus        41 ~~~~C~~Cg~~~~~~~e~~~a~K~t~f~tFP~~Lvv~~~Rf~l~~----p~K~---~~~~~~lDl~~  100 (293)
                      +...|+.|+..       ..+.++..+.++|++|+|+.+||.++.    ..|+   +.+|..+|+..
T Consensus       182 ~~~~~~~~~~~-------~~~~~~~~i~~~p~~l~i~l~R~~~~~~~~~~~k~~~~~~~~~~ld~~~  241 (397)
T d1vjva_         182 IEKRSDLTGAN-------SIYSVEKKISRLPKFLTVQYVRFFWKRSTNKKSKILRKVVFPFQLDVAD  241 (397)
T ss_dssp             ---------CC-------CCEEEEEEEEECBSEEEEEECCEEEETTTTEEEECCCCCBCCSEEECGG
T ss_pred             hcccccccCCC-------ceeeeeceeecCCceeEEEeeeeeeccccccccccCceeecCcEEeccc
Confidence            44578888765       567788889999999999999999874    4444   44566677663

>d1dx8a_ g.41.5.1 (A:) Rubredoxin {Guillardia theta [TaxId: 55529]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Rubredoxin
species: Guillardia theta [TaxId: 55529]

Probab=87.37  E-value=0.034  Score=39.78  Aligned_cols=44  Identities=16%  Similarity=0.418  Sum_probs=28.0

Q ss_pred             ceeecccCCccccCHHHHHHHHHHhccCCCCcchhhhhccccCCCCCC
Q 022703            4 VSLKCGDCGALLRSVQEAQEHAELTSHSNFSESTEAVLNLVCATCGKP   51 (293)
Q Consensus         4 ~~LkC~~Cg~v~~~~~~aq~ha~~TgH~~F~e~~d~i~~~~C~~Cg~~   51 (293)
                      -+.+|..||+|-....+--.+.-. -.+.|.+.   -.+|.||.||.+
T Consensus         6 ~ky~C~~CgyiYDp~~GD~~~gI~-pGT~F~dL---P~dW~CP~Cga~   49 (70)
T d1dx8a_           6 GKYECEACGYIYEPEKGDKFAGIP-PGTPFVDL---SDSFMCPACRSP   49 (70)
T ss_dssp             SCEEETTTCCEECTTTCCTTTTCC-SSCCGGGS---CTTCBCTTTCCB
T ss_pred             CeEEcCCCCeEECcccCCcccCCC-CCCChHHC---CCCCCCcCCCCc
Confidence            467999999998544322111111 23457666   466999999975

>d2cp8a1 a.5.2.1 (A:8-48) Migration-inducing protein 19 NBR1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: UBA domain
domain: Migration-inducing protein 19 NBR1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.53  E-value=0.4  Score=30.45  Aligned_cols=38  Identities=24%  Similarity=0.221  Sum_probs=27.3

Q ss_pred             HHHHHHHHhCCCCHHHHHHHHHHhCCCCHHHHHHHHHH
Q 022703          115 KELLKELEAMGFPVARATRALHYSGNANVEAAVNWVVE  152 (293)
Q Consensus       115 ~~~l~~L~~MGF~~~~a~kAL~~tgn~~~E~A~~WL~~  152 (293)
                      ..++++|.+|||...+----|...-|.++-.+++=|++
T Consensus         3 ~~lM~~L~EMGF~DR~lNq~LL~KH~~nl~~vV~eLlq   40 (41)
T d2cp8a1           3 AALMAHLFEMGFCDRQLNLRLLKKHNYNILQVVTELLQ   40 (41)
T ss_dssp             HHHHHHHHHHTCCCHHHHHHHHTTTTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhCcchhHHHHHHHHHccCcHHHHHHHHHc
Confidence            56899999999987666544444444488888876653

>d2hd5a1 d.3.1.9 (A:211-521) Ubiquitin carboxyl-terminal hydrolase 2, USP2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: Ubiquitin carboxyl-terminal hydrolase, UCH
domain: Ubiquitin carboxyl-terminal hydrolase 2, USP2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.21  E-value=0.16  Score=42.26  Aligned_cols=62  Identities=15%  Similarity=0.088  Sum_probs=42.8

Q ss_pred             CCCcc-hhhhhccccCCCCCCCCCccccccccccccccccccchhhccccccccc--Cc-cc--cC-CccccccCC
Q 022703           32 NFSES-TEAVLNLVCATCGKPCRSKTETDLHRKRTGHTDFVDKTSEAAKPISLEV--PK-AT--AD-SEEAIDVDM  100 (293)
Q Consensus        32 ~F~e~-~d~i~~~~C~~Cg~~~~~~~e~~~a~K~t~f~tFP~~Lvv~~~Rf~l~~--p~-K~--~~-~~~~lDl~~  100 (293)
                      +|... .+....+.|..|...       ..+.|...+..+|++|+|+.+||...+  .. +.  +. +...+|++.
T Consensus       199 ~~~~e~l~~~~~~~~~~~~~~-------~~~~k~~~~~~~P~~l~i~~~r~~~~~~~~~~~~~~v~~~~~~~dl~~  267 (336)
T d2hd5a1         199 FTKEDVLDGDEKPTCCRCRGR-------KRCIKKFSIQRFPKILVLHLKRFSESRIRTSKLTTFVNFPLRDLDLRE  267 (336)
T ss_dssp             HTSCEEECGGGCCEETTTTEE-------CCEEEEEEEEECCSEEEEEEECEECCSSCCEECCCCCBCCSSCEECGG
T ss_pred             cCCceEecCcccccccccccc-------eeeEEEEEEeecccchhhhhhhhhhccccccccceeEeeccccccccc
Confidence            44433 344455777777764       678899999999999999999999875  11 11  22 345677775

>d1wgla_ a.5.2.4 (A:) Toll-interacting protein {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: UBA-like
family: CUE domain
domain: Toll-interacting protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.01  E-value=1.7  Score=29.54  Aligned_cols=44  Identities=25%  Similarity=0.368  Sum_probs=33.0

Q ss_pred             cccCHHHHHHHHhCCCC---HHHHHHHHHHhCCCCHHHHHHHHHHhcCC
Q 022703          111 PEVDKELLKELEAMGFP---VARATRALHYSGNANVEAAVNWVVEHEND  156 (293)
Q Consensus       111 ~~~~~~~l~~L~~MGF~---~~~a~kAL~~tgn~~~E~A~~WL~~h~dD  156 (293)
                      +...++.+.+|.+| ||   ....+..|..+++ +++.|||-|+.-.++
T Consensus         6 s~~~Ee~i~~LkeM-FP~~D~~vI~~VL~a~~G-~vd~aid~LL~Msd~   52 (59)
T d1wgla_           6 SGCSEEDLKAIQDM-FPNMDQEVIRSVLEAQRG-NKDAAINSLLQMGEE   52 (59)
T ss_dssp             SSSCHHHHHHHHHH-CSSSCHHHHHHHHTTTTT-CHHHHHHHHHHSSCC
T ss_pred             CcCcHHHHHHHHHH-CCCCCHHHHHHHHHHcCC-CHHHHHHHHHhcCCC
Confidence            34577889999999 65   4666666666655 899999999985444