Citrus Sinensis ID: 042263

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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-------16
Protein Sequence
LRSCKNGSITSTISDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPACRSCVMLRSRVMDIALEKTMSFGENKDHERNCQCAPCACPLLDCNFLGSASQLYLYFSWKNGKTFVSFTYKKRVKVTLNVNDSVFLFRQQKNGHLFSLKNVVAG
Secondary Structure (PSIPRED)
ccccccccEEEEcccccccccccccccccccccccccccEEccccccccccccccccccccHHHHHHccccccEEcccccccccccccccccccccccccEEEcHHHHHHHHHHccccccEEEEEccEEEEEEEccccEEEEEEccccEEEEEEcEEcc
Secondary Structure Prediction (SSPRO)
cccccccccccccccHHHcccccccccccccEEEcccccEEEcccHHHHcccccccccccccccHHHHcccccEEcccccHHHHHHccccccccccccccccccHHHHHHHHHHHccccEEEEEEcEEEEEEEEccccEEEEEEccccEEEEEEEcccc
Coil and Loop (DISEMBL)
lrsckngsitstisdqdlfdcpiwyqalkvpvsqsinghiICSSCLakvnnkcpacrscVMLRSRVMDIALEKTmsfgenkdherncqcapcacplldcnflgsaSQLYLYFSwkngktfvsfTYKKRVKVTLNVNDSVFLFRqqknghlfslknvvag
Flexible Loop (DISEMBL)
lrsckngsitstisdqdlfDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPACRSCVMLRSRVMDIALEKTMSFGENKDHERNCQCAPCACPLLDCNFLGSASQLYLYFSWKNGKTFVSFTYKKRVKVTLNVNDSVFLfrqqknghlfslknvvag
Low Complexity Region (SEG)
LRSCKNGSITSTISDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPACRSCVMLRSRVMDIALEKTMSFGENKDHERNCQCAPCACPLLDCNFLGSASQLYLYFSWKNGKTFVSFTYKKRVKVTLNVNDSVFLFRQQKNGHLFSLKNVVAG
Disordered region (IsUnstruct)
************ISDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPACRSCVMLRSRVMDIALEKTMSFGENKDHERNCQCAPCACPLLDCNFLGSASQLYLYFSWKNGKTFVSFTYKKRVKVTLNVNDSVFLFRQQKNGHLFSLK*****
Disordered Region (DISOPRED)
****************DLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPACRSCVMLRSRVMDIALEKTMSFGENKDHERNCQCAPCACPLLDCNFLGSASQLYLYFSWKNGKTFVSFTYKKRVKVTLNVNDSVFLFRQQKNGHLFSLKNVVA*
Disordered Region (DISEMBL)
********ITSTISDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPACRSCVMLRSRVMDIALEKTMSFGENKDHERNCQCAPCACPLLDCNFLGSASQLYLYFSWKNGKTFVSFTYKKRVKVTLNVNDSVFLFRQQKNGHLFSLKNVVAG
Disordered Region (DISPRO)
************ISDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPACRSCVMLRSRVMDIALEKTMSFGENKDHERNCQCAPCACPLLDCNFLGSASQLYLYFSWKNGKTFVSFTYKKRVKVTLNVNDSVFLFRQQKNGHLFSLKNVVA*
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
LRSCKNGSITSTISDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPACRSCVMLRSRVMDIALEKTMSFGENKDHERNCQCAPCACPLLDCNFLGSASQLYLYFSWKNGKTFVSFTYKKRVKVTLNVNDSVFLFRQQKNGHLFSLKNVVAG
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	159	2.2.26 [Sep-21-2011]
Q9FKD9	281	Putative E3 ubiquitin-pro	yes	no	0.911	0.516	0.358	3e-23
Q9FKD7	286	E3 ubiquitin-protein liga	no	no	0.911	0.506	0.333	2e-21
Q84K34	349	E3 ubiquitin-protein liga	no	no	0.899	0.409	0.297	8e-21
Q9C6H3	313	E3 ubiquitin-protein liga	no	no	0.905	0.460	0.318	2e-16
Q9FM14	314	E3 ubiquitin-protein liga	no	no	0.937	0.474	0.286	3e-15
Q9FKD5	276	Putative E3 ubiquitin-pro	no	no	0.867	0.5	0.304	2e-14
Q9FKD6	263	E3 ubiquitin-protein liga	no	no	0.911	0.551	0.298	2e-14
Q9C9M0	329	E3 ubiquitin-protein liga	no	no	0.993	0.480	0.256	4e-13
Q9C6H2	303	E3 ubiquitin-protein liga	no	no	0.647	0.339	0.341	9e-13
Q7XA77	328	E3 ubiquitin-protein liga	no	no	0.893	0.432	0.263	1e-11

>sp|Q9FKD9|SINL6_ARATH Putative E3 ubiquitin-protein ligase SINA-like 6 OS=Arabidopsis thaliana GN=At5g37870 PE=3 SV=1

 Score =  107 bits (267), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 58/162 (35%), Positives = 87/162 (53%), Gaps = 17/162 (10%)

Query: 10  TSTISDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPACRSCV-MLRSRVMD 68
           ++ ++D D+ DCPI YQALK+PV Q  NGH+ CSSC  K+ NKCPAC   V  +R R M+
Sbjct: 34  SAMLTDLDILDCPICYQALKIPVFQCGNGHLACSSCCPKLRNKCPACALPVGHIRCRAME 93

Query: 69  IALE--------------KTMSFGENKDHERNCQCAPCACPLLDCNFLGSASQLYLYF-- 112
             LE              KT+ +G    HE+ C  +PC+CP+  CN+ GS   LY ++  
Sbjct: 94  RVLESVLVPCRYADLGCTKTIYYGRESTHEKICNFSPCSCPVQGCNYTGSYKDLYEHYDL 153

Query: 113 SWKNGKTFVSFTYKKRVKVTLNVNDSVFLFRQQKNGHLFSLK 154
           +   G T  SF     +   + ++D + + R  +   LF ++
Sbjct: 154 THSTGSTAYSFNGVSYIAAMMFISDKILIERVYEKKLLFVVQ 195

E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins. E3 ubiquitin ligases accept ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates. It probably triggers the ubiquitin-mediated degradation of different substrates.
Arabidopsis thaliana (taxid: 3702)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|Q9FKD7|SINL7_ARATH E3 ubiquitin-protein ligase SINA-like 7 OS=Arabidopsis thaliana GN=At5g37890 PE=2 SV=1

 Score =  101 bits (252), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 54/162 (33%), Positives = 86/162 (53%), Gaps = 17/162 (10%)

Query: 10  TSTISDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPACRSCVML-RSRVMD 68
           ++ + D ++ DCPI Y+A  +P+ Q  NGH+ CSSC  K+NNKCPAC S V   R R M+
Sbjct: 40  STMLMDLEILDCPICYEAFTIPIFQCDNGHLACSSCCPKLNNKCPACTSPVGHNRCRAME 99

Query: 69  IALE--------------KTMSFGENKDHERNCQCAPCACPLLDCNFLGSASQLYLYFSW 114
             LE              K +S+G+   HE+ C  + CACP LDCN+  S   LY ++  
Sbjct: 100 SVLESILIPCPNAKLGCKKNVSYGKELTHEKECMFSHCACPALDCNYTSSYKDLYTHYRI 159

Query: 115 KNGKT--FVSFTYKKRVKVTLNVNDSVFLFRQQKNGHLFSLK 154
            + +     +F     + V +N++  + +  +    HLF+++
Sbjct: 160 THMEINQINTFICDIPLSVRMNISKKILIRTEHLTNHLFAVQ 201

E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins. E3 ubiquitin ligases accept ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates. It probably triggers the ubiquitin-mediated degradation of different substrates.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q84K34|SIL10_ARATH E3 ubiquitin-protein ligase SINA-like 10 OS=Arabidopsis thaliana GN=At5g37930 PE=2 SV=1

 Score = 99.4 bits (246), Expect = 8e-21,   Method: Compositional matrix adjust.
 Identities = 47/158 (29%), Positives = 86/158 (54%), Gaps = 15/158 (9%)

Query: 12  TISDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPACRSCV-MLRSRVMDIA 70
           T+ D D+ DCPI  + LK+P+ Q  NGH+ C+ C  KV N+CP+C   +  +R R M+  
Sbjct: 104 TLLDPDVLDCPICCEPLKIPIFQCDNGHLACTLCCTKVRNRCPSCTLPIGYVRCRAMEKV 163

Query: 71  LE--------------KTMSFGENKDHERNCQCAPCACPLLDCNFLGSASQLYLYFSWKN 116
           +E              ++ S+G    HE+ C   PC+CP+LDC++ G    L  +   ++
Sbjct: 164 IEASRVSCLNAKYGCKESTSYGNRFSHEQVCVFTPCSCPILDCHYTGYYKDLNNHVRAEH 223

Query: 117 GKTFVSFTYKKRVKVTLNVNDSVFLFRQQKNGHLFSLK 154
               +SF +  R+ ++L++N    + +++ +GH+  ++
Sbjct: 224 KDDLISFVWNTRLTISLDLNKKTTILQEENDGHVIVVQ 261

E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins. E3 ubiquitin ligases accept ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates. It probably triggers the ubiquitin-mediated degradation of different substrates.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9C6H3|SINL2_ARATH E3 ubiquitin-protein ligase SINA-like 2 OS=Arabidopsis thaliana GN=At1g66620 PE=2 SV=1

 Score = 84.7 bits (208), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 51/160 (31%), Positives = 79/160 (49%), Gaps = 16/160 (10%)

Query: 10  TSTISDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPACRSCVM-LRSRVMD 68
           + T+ + DL DCPI   AL  P+ Q  NGHI CSSC  K+ NKCP+C   +   RSR+M+
Sbjct: 33  SGTLFELDLLDCPICCHALTSPIFQCDNGHIACSSCCTKLRNKCPSCALPIGNFRSRIME 92

Query: 69  IALEKTM--------------SFGENKDHERNCQCAPCACPLLDCNFLGSASQLYLYFSW 114
             +E  M              S+G+   HE++C+ A C CP  +CN+ G    LY +F  
Sbjct: 93  RVVEAVMVTCPNVKHGCTEKFSYGKELIHEKDCRFALCYCPAPNCNYSGVYKDLYSHFYV 152

Query: 115 KNGKTFVSFTYKKRVKVTLNVNDSVFLFRQQKNGHLFSLK 154
            +  T+            L +++ + +  Q   G L +++
Sbjct: 153 NHYDTWNQIGCGNFAGAWLRISEKILVL-QYGQGPLIAVQ 191

E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins. E3 ubiquitin ligases accept ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates. It probably triggers the ubiquitin-mediated degradation of different substrates.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9FM14|SIL11_ARATH E3 ubiquitin-protein ligase SINA-like 11 OS=Arabidopsis thaliana GN=At5g62800 PE=2 SV=2

 Score = 81.3 bits (199), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 49/171 (28%), Positives = 90/171 (52%), Gaps = 22/171 (12%)

Query: 5   KNGSITSTISDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPAC-------- 56
           +N + ++ + D D+ DCP+ ++ L +P  Q  +GHI+C+ C AKV+NKCP          
Sbjct: 27  ENETRSAKLLDLDVLDCPVCFEPLTIPTFQCDDGHIVCNFCFAKVSNKCPGPGCDLPIGN 86

Query: 57  RSCVMLRSRVMDIAL----------EKTMSFGENKDHERNCQCAPCACPLLDCNFLGSAS 106
           + C  +  RV++ A            K++S+ +   HE+ C  + C+CP L+CN+ GS +
Sbjct: 87  KRCFAME-RVLESAFVPCQNTEFGCTKSVSYEKVSSHEKECNYSQCSCPNLECNYTGSYN 145

Query: 107 QLYLYFSWKN--GKTFVSFTYK-KRVKVTLNVNDSVFLFRQQKNGHLFSLK 154
            +Y +F  ++    T VS  +    V V +N+ + V +  + +   LF ++
Sbjct: 146 IIYGHFMRRHLYNSTIVSSKWGYSTVDVLINIKEKVSVLWESRQKLLFVVQ 196

E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins. E3 ubiquitin ligases accept ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates. It probably triggers the ubiquitin-mediated degradation of different substrates.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9FKD5|SINL9_ARATH Putative E3 ubiquitin-protein ligase SINA-like 9 OS=Arabidopsis thaliana GN=At5g37910 PE=3 SV=1

 Score = 78.2 bits (191), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 49/161 (30%), Positives = 78/161 (48%), Gaps = 23/161 (14%)

Query: 15  DQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPACRSCV-MLRSRVMDIALE- 72
           D D+ DCPI  +AL  P+ Q  NGH+ C SC  K++NKCPAC   V   RSR M+  LE 
Sbjct: 32  DLDILDCPICCEALTSPIFQCDNGHLACGSCCPKLSNKCPACTLPVGHSRSRAMESVLES 91

Query: 73  -------------KTMSFGENKDHERNCQCAPCACPLLDCNFLGSASQLYLYFSWKNGKT 119
                        K+  +G+   HE+ C  + C+CP   C++ GS   LY ++   +   
Sbjct: 92  ILIPCPNVRFGCTKSFFYGKESAHEKECIFSQCSCPSSVCDYTGSYKDLYAHYKLTHSTN 151

Query: 120 FVSFTYKKRVK------VTLNVNDSVFLFRQQKNGHLFSLK 154
              F   KR +       ++ ++D + + R  +   L +++
Sbjct: 152 I--FWNIKRFRCANFFTTSMLISDKILIKRVHEKKLLLAVQ 190

E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins. E3 ubiquitin ligases accept ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates. It probably triggers the ubiquitin-mediated degradation of different substrates.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9FKD6|SINL8_ARATH E3 ubiquitin-protein ligase SINA-like 8 OS=Arabidopsis thaliana GN=At5g37900 PE=1 SV=2

 Score = 77.8 bits (190), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 46/154 (29%), Positives = 76/154 (49%), Gaps = 9/154 (5%)

Query: 10  TSTISDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPACRSCVMLRSRVMD- 68
           ++T+ D D+ DCPI  + L  P+ Q  NGH+ CSSC  K+ NKCPAC    +L S ++  
Sbjct: 24  SATLLDLDILDCPICCEGLTCPIFQCENGHLACSSCCPKLRNKCPACPMENILESILVTC 83

Query: 69  ----IALEKTMSFGENKDHERNCQCAPCACPLLDCNFLGSASQLYLYFSWKNGK----TF 120
                   ++  +G+   HE  C  + C+CP LDC + G    LY ++   +      T 
Sbjct: 84  PNDMFGCTESFLYGKKSTHEEECIFSLCSCPSLDCEYSGRYEDLYDHYKLTHISNSYWTT 143

Query: 121 VSFTYKKRVKVTLNVNDSVFLFRQQKNGHLFSLK 154
             F      K  + ++D + + R  +   LF+++
Sbjct: 144 NCFRSSIPYKAPMLISDKIQITRVYEKKILFAVQ 177

E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins. E3 ubiquitin ligases accept ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates. It probably triggers the ubiquitin-mediated degradation of different substrates.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9C9M0|SINL4_ARATH E3 ubiquitin-protein ligase SINA-like 4 OS=Arabidopsis thaliana GN=At1g66650 PE=2 SV=1

 Score = 73.9 bits (180), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 47/183 (25%), Positives = 93/183 (50%), Gaps = 25/183 (13%)

Query: 1   LRSCKNGSITS----TISDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPAC 56
           LR+C+   ++S    T+ + ++ +CP  +  LK P+ Q  NGH+ C  C  K+  +C  C
Sbjct: 62  LRTCRKRRVSSPKSVTLPNSNVLECPNCFDPLKKPIFQCNNGHLACFLCCIKLKKRCSFC 121

Query: 57  RSCVM-LRSRVMDIAL--------------EKTMSFGEN-KDHERNCQCAPCACPLLDCN 100
           +  +  +R R M+  +              +++ ++G   + HE+ C  APC+CP+ DCN
Sbjct: 122 KLPIGDVRCRAMEKVIKAGLVSCSNAIYGCKQSTTYGNQLQSHEKVCVFAPCSCPIKDCN 181

Query: 101 FLGSASQLYLYFSWKNGKT---FVSFTYKKRVKVTLNVN--DSVFLFRQQKNGHLFSLKN 155
           ++G    L  +F   +  +     SF + + V   L+++  D + +F ++K G+LF ++ 
Sbjct: 182 YIGFYKDLINHFRATHKVSPGDINSFVFDRPVIFGLDLDSSDKMVIFVEEKQGNLFVVQG 241

Query: 156 VVA 158
            + 
Sbjct: 242 FIG 244

E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins. E3 ubiquitin ligases accept ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates. It probably triggers the ubiquitin-mediated degradation of different substrates.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9C6H2|SINL3_ARATH E3 ubiquitin-protein ligase SINA-like 3 OS=Arabidopsis thaliana GN=At1g66630 PE=2 SV=1

 Score = 72.8 bits (177), Expect = 9e-13,   Method: Compositional matrix adjust.
 Identities = 41/120 (34%), Positives = 59/120 (49%), Gaps = 17/120 (14%)

Query: 10  TSTISDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPACRSCV-MLRSRVMD 68
           ++T+ + DL DCPI Y  L  P+ Q  NGHI CSSC  KV  KCP C   +   RSR+++
Sbjct: 38  SATLLELDLLDCPICYHKLGAPIYQCDNGHIACSSCCKKVKYKCPYCSLRIGFFRSRILE 97

Query: 69  IALEKTM------SFG----------ENKDHERNCQCAPCACPLLDCNFLGSASQLYLYF 112
             +E  +       +G              HER C+   C CP  +C + G  + LY ++
Sbjct: 98  KIVEAVVVSCPNAKYGCTEKIPYDNESESAHERVCEFTLCYCPEPECKYTGVYTDLYRHY 157

E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins. E3 ubiquitin ligases accept ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates. It probably triggers the ubiquitin-mediated degradation of different substrates.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q7XA77|SINL5_ARATH E3 ubiquitin-protein ligase SINA-like 5 OS=Arabidopsis thaliana GN=At1g66660 PE=2 SV=2

 Score = 68.9 bits (167), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 43/163 (26%), Positives = 73/163 (44%), Gaps = 21/163 (12%)

Query: 13  ISDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPACRSCVM-LRSRVMDIAL 71
           +   D+ DCP   + LK P+ Q  NGH+ CSSC  K+N KC  CR  +  +R R M+  +
Sbjct: 78  LQSSDVLDCPTCCEPLKRPIYQCSNGHLACSSCCQKLNKKCSFCRCNIGDIRCRAMEKVI 137

Query: 72  E--------------KTMSFGENKDHERNCQCAPCACPLLDCNFLGSASQLYLY-----F 112
           E              +T ++     HE+ C+   C+CP+ +CN++ S S L  +      
Sbjct: 138 EASIVPCPNAKHGCKETTTYCNQSSHEKVCKFVRCSCPVSNCNYVSSYSNLKSHACSTAH 197

Query: 113 SWKNGKTFVSFTYKKRVKVTLNVN-DSVFLFRQQKNGHLFSLK 154
            W            +     +N+      +F+++K G L  ++
Sbjct: 198 VWGEDDIHFQLVIDRPRIFNMNLGRKKTVVFKEEKEGDLIVVQ 240

E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins. E3 ubiquitin ligases accept ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates. It probably triggers the ubiquitin-mediated degradation of different substrates.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

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	159
255583779	374	ubiquitin-protein ligase, putative [Rici	0.974	0.414	0.352	1e-23
255647862	320	unknown [Glycine max]	0.962	0.478	0.333	6e-22
356524904	320	PREDICTED: E3 ubiquitin-protein ligase S	0.962	0.478	0.333	6e-22
388496832	281	unknown [Lotus japonicus]	0.949	0.537	0.349	2e-21
15240373	281	putative E3 ubiquitin-protein ligase SIN	0.911	0.516	0.358	2e-21
356512131	320	PREDICTED: E3 ubiquitin-protein ligase S	0.962	0.478	0.333	2e-21
357491727	405	Ubiquitin [Medicago truncatula] gi|35551	0.974	0.382	0.358	4e-21
357449681	343	Ubiquitin [Medicago truncatula] gi|35548	0.949	0.440	0.343	6e-21
297801882	408	hypothetical protein ARALYDRAFT_356210 [	0.867	0.338	0.371	8e-21
449526479	269	PREDICTED: E3 ubiquitin-protein ligase S	0.955	0.565	0.347	3e-20

>gi|255583779|ref|XP_002532642.1| ubiquitin-protein ligase, putative [Ricinus communis] gi|223527633|gb|EEF29745.1| ubiquitin-protein ligase, putative [Ricinus communis]

 Score =  114 bits (286), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 60/170 (35%), Positives = 94/170 (55%), Gaps = 15/170 (8%)

Query: 3   SCKNGSITSTISDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPACRSCVML 62
           + +N +I  T++D ++ DCPI Y+ L +PV Q  NGH  CSSC  K+ +KCP+C   +  
Sbjct: 104 TARNAAICVTLTDPEVLDCPICYECLSIPVFQCENGHTACSSCCRKLAHKCPSCSLPIGY 163

Query: 63  -RSRVMDIALE--------------KTMSFGENKDHERNCQCAPCACPLLDCNFLGSASQ 107
            R R ++  LE              + +S+ +  DH++ C  APC+CPL  C+F+GS+ Q
Sbjct: 164 NRCRAIEKVLESVKLPCHNLKYGCKEMVSYSKKLDHDKICNNAPCSCPLSGCSFVGSSRQ 223

Query: 108 LYLYFSWKNGKTFVSFTYKKRVKVTLNVNDSVFLFRQQKNGHLFSLKNVV 157
           LY +FS K+  +   F Y     V   +ND   + +++K G +F LKN  
Sbjct: 224 LYQHFSIKHKGSAAPFRYNITFPVFFTLNDKSLILQEEKEGVVFFLKNTA 273

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255647862|gb|ACU24390.1| unknown [Glycine max]

 Score =  108 bits (271), Expect = 6e-22,   Method: Compositional matrix adjust.
 Identities = 56/168 (33%), Positives = 93/168 (55%), Gaps = 15/168 (8%)

Query: 3   SCKNGSITSTISDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPACRSCVML 62
           S ++ S+   +SD D+ DC I Y+ L  PV Q  NGHI CS C  +++NKCP C   +  
Sbjct: 74  STRDRSVPIFVSDPDVLDCCICYEPLTSPVFQCENGHIACSICCVRLSNKCPMCSMPIGY 133

Query: 63  -RSRVMDIALE--------------KTMSFGENKDHERNCQCAPCACPLLDCNFLGSASQ 107
            R R ++  LE              +T+S+ +  +HE+ C   PC+CP   C+F+ S+ +
Sbjct: 134 NRCRAIEKVLECIKMSCPNANYGCKETLSYSKKNEHEKECIYLPCSCPFTGCDFIASSKE 193

Query: 108 LYLYFSWKNGKTFVSFTYKKRVKVTLNVNDSVFLFRQQKNGHLFSLKN 155
           L+L+FS ++  +   FTY K   V L++N    + +++ +G+LF + N
Sbjct: 194 LFLHFSHRHVGSGTQFTYDKFFTVFLSINQRTVVLKEKSDGNLFVVHN 241

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356524904|ref|XP_003531068.1| PREDICTED: E3 ubiquitin-protein ligase SINA-like 10-like [Glycine max]

 Score =  108 bits (271), Expect = 6e-22,   Method: Compositional matrix adjust.
 Identities = 56/168 (33%), Positives = 93/168 (55%), Gaps = 15/168 (8%)

Query: 3   SCKNGSITSTISDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPACRSCVML 62
           S ++ S+   +SD D+ DC I Y+ L  PV Q  NGHI CS C  +++NKCP C   +  
Sbjct: 74  STRDRSVPIFVSDPDVLDCCICYEPLTSPVFQCENGHIACSICCVRLSNKCPMCSMPIGY 133

Query: 63  -RSRVMDIALE--------------KTMSFGENKDHERNCQCAPCACPLLDCNFLGSASQ 107
            R R ++  LE              +T+S+ +  +HE+ C   PC+CP   C+F+ S+ +
Sbjct: 134 NRCRAIEKVLECIKMSCPNANYGCKETLSYSKKNEHEKECIYLPCSCPFTGCDFIASSKE 193

Query: 108 LYLYFSWKNGKTFVSFTYKKRVKVTLNVNDSVFLFRQQKNGHLFSLKN 155
           L+L+FS ++  +   FTY K   V L++N    + +++ +G+LF + N
Sbjct: 194 LFLHFSHRHVGSGTQFTYDKFFTVFLSINQRTVVLKEKSDGNLFVVHN 241

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388496832|gb|AFK36482.1| unknown [Lotus japonicus]

 Score =  107 bits (267), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 58/166 (34%), Positives = 86/166 (51%), Gaps = 15/166 (9%)

Query: 5   KNGSITSTISDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPACRSCVML-R 63
           +  S+   I+D D+ DC I Y+ L VPV Q  NGH+ CSSC A++ NKCP C   +   R
Sbjct: 38  RERSVPVIITDPDVLDCCICYEPLSVPVFQCENGHVACSSCCARLRNKCPMCLMPIGYNR 97

Query: 64  SRVMDIALE--------------KTMSFGENKDHERNCQCAPCACPLLDCNFLGSASQLY 109
            R M+  LE              +  S+    DH + C   P  CP  DC+F+ S+ +L 
Sbjct: 98  CRAMEKLLESIKISCLNAKYGCKEVFSYSMKSDHAKECVYIPILCPHTDCDFVASSKELS 157

Query: 110 LYFSWKNGKTFVSFTYKKRVKVTLNVNDSVFLFRQQKNGHLFSLKN 155
           L+ S ++  + V FTY K + V LN +    + ++Q + HLF + N
Sbjct: 158 LHVSHRHVGSGVQFTYDKFITVFLNTDQKEIVLQEQNDAHLFIVHN 203

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15240373|ref|NP_198603.1| putative E3 ubiquitin-protein ligase SINA-like 6 [Arabidopsis thaliana] gi|75171231|sp|Q9FKD9.1|SINL6_ARATH RecName: Full=Putative E3 ubiquitin-protein ligase SINA-like 6; AltName: Full=Seven in absentia-like protein 6 gi|9758487|dbj|BAB09033.1| unnamed protein product [Arabidopsis thaliana] gi|332006860|gb|AED94243.1| putative E3 ubiquitin-protein ligase SINA-like 6 [Arabidopsis thaliana]

 Score =  107 bits (267), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 58/162 (35%), Positives = 87/162 (53%), Gaps = 17/162 (10%)

Query: 10  TSTISDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPACRSCV-MLRSRVMD 68
           ++ ++D D+ DCPI YQALK+PV Q  NGH+ CSSC  K+ NKCPAC   V  +R R M+
Sbjct: 34  SAMLTDLDILDCPICYQALKIPVFQCGNGHLACSSCCPKLRNKCPACALPVGHIRCRAME 93

Query: 69  IALE--------------KTMSFGENKDHERNCQCAPCACPLLDCNFLGSASQLYLYF-- 112
             LE              KT+ +G    HE+ C  +PC+CP+  CN+ GS   LY ++  
Sbjct: 94  RVLESVLVPCRYADLGCTKTIYYGRESTHEKICNFSPCSCPVQGCNYTGSYKDLYEHYDL 153

Query: 113 SWKNGKTFVSFTYKKRVKVTLNVNDSVFLFRQQKNGHLFSLK 154
           +   G T  SF     +   + ++D + + R  +   LF ++
Sbjct: 154 THSTGSTAYSFNGVSYIAAMMFISDKILIERVYEKKLLFVVQ 195

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356512131|ref|XP_003524774.1| PREDICTED: E3 ubiquitin-protein ligase SINA-like 10-like [Glycine max]

 Score =  107 bits (266), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 56/168 (33%), Positives = 91/168 (54%), Gaps = 15/168 (8%)

Query: 3   SCKNGSITSTISDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPACRSCVML 62
           S ++ S+   +SD D+ DC I Y+ L  PV Q  NGHI CS+C  +++NKCP C   +  
Sbjct: 74  SSRDRSVPIFVSDPDVLDCCICYEPLAAPVFQCENGHIACSTCCVRLSNKCPMCLMPIGY 133

Query: 63  -RSRVMDIALE--------------KTMSFGENKDHERNCQCAPCACPLLDCNFLGSASQ 107
            R R ++  LE              +T S+    +HE+ C   PC+CPL  C+F+ S+ +
Sbjct: 134 NRCRAIEKVLECIKMSCPNANYGCKETFSYSRKNNHEKECIYLPCSCPLTGCDFVASSKE 193

Query: 108 LYLYFSWKNGKTFVSFTYKKRVKVTLNVNDSVFLFRQQKNGHLFSLKN 155
           L+L+FS ++      F Y K   V L++N    + +++ +G+LF + N
Sbjct: 194 LFLHFSHRHVGMGTRFAYDKFFTVFLSINQRTIVLQEKNDGNLFIVHN 241

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357491727|ref|XP_003616151.1| Ubiquitin [Medicago truncatula] gi|355517486|gb|AES99109.1| Ubiquitin [Medicago truncatula]

 Score =  106 bits (264), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 61/170 (35%), Positives = 87/170 (51%), Gaps = 15/170 (8%)

Query: 5   KNGSITSTISDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPACRSCV---- 60
           +  S++  ISD + FDC I +Q L +PV Q +NGHI+CS+C  K  NKCP C   +    
Sbjct: 20  EKNSVSVMISDPNSFDCCICFQPLSIPVFQCVNGHIVCSTCCDKHRNKCPKCSKRIRLKR 79

Query: 61  ------MLRSRVMDIALEK-----TMSFGENKDHERNCQCAPCACPLLDCNFLGSASQLY 109
                 +L+S  M    EK     TM + E K HE  C   PC CPL  C+F+ S+  L 
Sbjct: 80  CKAIENLLQSFEMSCPNEKHGCKETMGYNEKKKHEEECMYVPCYCPLSGCDFVASSEVLS 139

Query: 110 LYFSWKNGKTFVSFTYKKRVKVTLNVNDSVFLFRQQKNGHLFSLKNVVAG 159
            +FS K+     +F+Y     V+L  ND   + +++  G LF L N +  
Sbjct: 140 NHFSHKHKDFQSTFSYGHSFIVSLKFNDEAIVLQEECVGKLFILNNSIVS 189

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357449681|ref|XP_003595117.1| Ubiquitin [Medicago truncatula] gi|355484165|gb|AES65368.1| Ubiquitin [Medicago truncatula]

 Score =  105 bits (262), Expect = 6e-21,   Method: Compositional matrix adjust.
 Identities = 57/166 (34%), Positives = 90/166 (54%), Gaps = 15/166 (9%)

Query: 5   KNGSITSTISDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPACRSCVML-R 63
           KN SI+  IS+  +FDC I +Q L  P+ Q  NGHI+CS+C +K  NKC  C  C+ L R
Sbjct: 12  KNSSISVMISNPKVFDCSICFQLLSFPIFQCDNGHIVCSTCCSKFGNKCDKCSKCISLKR 71

Query: 64  SRVMDIALE--------------KTMSFGENKDHERNCQCAPCACPLLDCNFLGSASQLY 109
            R  +  L+              +T+ + + + HE  C   PC CPL  C+F+ S+  L 
Sbjct: 72  CRAFENLLQYIKMPCLNEKYGCKETIDYIQKRKHEEECIYVPCYCPLSGCDFVASSEVLS 131

Query: 110 LYFSWKNGKTFVSFTYKKRVKVTLNVNDSVFLFRQQKNGHLFSLKN 155
            +FS K+  + ++F Y     V+L  +D V + +++++G +F L N
Sbjct: 132 DHFSHKHEDSQINFYYGFSFLVSLKSDDEVIVLQEKRSGKVFILNN 177

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297801882|ref|XP_002868825.1| hypothetical protein ARALYDRAFT_356210 [Arabidopsis lyrata subsp. lyrata] gi|297314661|gb|EFH45084.1| hypothetical protein ARALYDRAFT_356210 [Arabidopsis lyrata subsp. lyrata]

 Score =  105 bits (261), Expect = 8e-21,   Method: Compositional matrix adjust.
 Identities = 58/156 (37%), Positives = 90/156 (57%), Gaps = 18/156 (11%)

Query: 17  DLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPACRSCVML-RSRVMDIALE--- 72
           D+ DCPI ++AL +P+ Q  NGH+ CSSC  K++NKCP C S V   R R M+  LE   
Sbjct: 166 DVLDCPICFEALTIPIFQCDNGHLACSSCCHKLSNKCPTCASPVGHNRCRAMESVLESVF 225

Query: 73  -----------KTMSFGENKDHERNCQCAPCACPLLDCNFLGSASQLYLYF--SWKNGKT 119
                      K +S+G+   HE+ C  + C+CP LDCN+ GS + +Y +F  + +N  T
Sbjct: 226 VTCRNAKFGCAKNVSYGKVSIHEKECTFSQCSCPALDCNYTGSYNNIYSHFVDNHRNKST 285

Query: 120 FVSFTYKKRVKVTLNVN-DSVFLFRQQKNGHLFSLK 154
            +SF     V V +N++  ++ + ++ K G LF+L+
Sbjct: 286 SISFVCGGSVDVQMNISTGNILVLQESKKGLLFALQ 321

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449526479|ref|XP_004170241.1| PREDICTED: E3 ubiquitin-protein ligase SINA-like 10-like [Cucumis sativus]

 Score =  103 bits (256), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 58/167 (34%), Positives = 84/167 (50%), Gaps = 15/167 (8%)

Query: 2   RSCKNGSITSTISDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPACRSCV- 60
           R   NG++    +D  + DC I  + L +PV Q  NGHI CSSC  K  NKCP+C   + 
Sbjct: 20  RRGTNGTLNVIFTDPQILDCYICCEPLSIPVFQCENGHIACSSCCTKAQNKCPSCTLAIG 79

Query: 61  MLRSRVMDIALEK--------------TMSFGENKDHERNCQCAPCACPLLDCNFLGSAS 106
            +R R ++  LE                M      DHE  C+  PC+CPL +C F+GS  
Sbjct: 80  YIRCRAIEKVLESIKLPCQNAIYGCKTVMGLNLINDHESLCRYEPCSCPLDNCTFVGSTE 139

Query: 107 QLYLYFSWKNGKTFVSFTYKKRVKVTLNVNDSVFLFRQQKNGHLFSL 153
           QL L+F+ K+  +   F+Y  R  + LN  D+  + + + +G LF L
Sbjct: 140 QLGLHFTKKHKNSAKIFSYNTRFTICLNNGDTHRILKAENDGVLFFL 186

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

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	159
TAIR|locus:2153784	349	AT5G37930 [Arabidopsis thalian	0.930	0.424	0.300	3.4e-22
TAIR|locus:2153804	281	AT5G37870 [Arabidopsis thalian	0.729	0.412	0.381	1.9e-21
TAIR|locus:2153754	286	AT5G37890 [Arabidopsis thalian	0.647	0.360	0.406	1.3e-20
TAIR|locus:2195175	313	AT1G66620 [Arabidopsis thalian	0.647	0.329	0.389	1.6e-17
TAIR|locus:2153774	276	AT5G37910 [Arabidopsis thalian	0.698	0.402	0.373	2.9e-16
TAIR|locus:2033354	348	AT1G66660 [Arabidopsis thalian	0.603	0.275	0.333	3.2e-13
TAIR|locus:2033369	329	AT1G66650 [Arabidopsis thalian	0.704	0.340	0.280	2.1e-12
TAIR|locus:2195180	303	AT1G66630 [Arabidopsis thalian	0.396	0.207	0.453	2.2e-12
UNIPROTKB|G3X7V0	281	G3X7V0 "Uncharacterized protei	0.811	0.459	0.265	1.7e-10
TAIR|locus:2195170	366	AT1G66610 [Arabidopsis thalian	0.396	0.172	0.453	2.1e-10

TAIR|locus:2153784 AT5G37930 [Arabidopsis thaliana (taxid:3702)]

 Score = 258 (95.9 bits), Expect = 3.4e-22, P = 3.4e-22
 Identities = 49/163 (30%), Positives = 89/163 (54%)

Query:     3 SCKNGSITSTISDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPACRSCV-M 61
             S K+  ++ T+ D D+ DCPI  + LK+P+ Q  NGH+ C+ C  KV N+CP+C   +  
Sbjct:    95 SSKDSPLSVTLLDPDVLDCPICCEPLKIPIFQCDNGHLACTLCCTKVRNRCPSCTLPIGY 154

Query:    62 LRSRVMDIALE--------------KTMSFGENKDHERNCQCAPCACPLLDCNFLGSASQ 107
             +R R M+  +E              ++ S+G    HE+ C   PC+CP+LDC++ G    
Sbjct:   155 VRCRAMEKVIEASRVSCLNAKYGCKESTSYGNRFSHEQVCVFTPCSCPILDCHYTGYYKD 214

Query:   108 LYLYFSWKNGKTFVSFTYKKRVKVTLNVNDSVFLFRQQKNGHL 150
             L  +   ++    +SF +  R+ ++L++N    + +++ +GH+
Sbjct:   215 LNNHVRAEHKDDLISFVWNTRLTISLDLNKKTTILQEENDGHV 257

GO:0004842 "ubiquitin-protein ligase activity" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=IEA;ISS

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007275 "multicellular organismal development" evidence=IEA;ISS

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

TAIR|locus:2153804 AT5G37870 [Arabidopsis thaliana (taxid:3702)]

 Score = 251 (93.4 bits), Expect = 1.9e-21, P = 1.9e-21
 Identities = 50/131 (38%), Positives = 74/131 (56%)

Query:    10 TSTISDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPACRSCV-MLRSRVMD 68
             ++ ++D D+ DCPI YQALK+PV Q  NGH+ CSSC  K+ NKCPAC   V  +R R M+
Sbjct:    34 SAMLTDLDILDCPICYQALKIPVFQCGNGHLACSSCCPKLRNKCPACALPVGHIRCRAME 93

Query:    69 IALE--------------KTMSFGENKDHERNCQCAPCACPLLDCNFLGSASQLYLYFSW 114
               LE              KT+ +G    HE+ C  +PC+CP+  CN+ GS   LY ++  
Sbjct:    94 RVLESVLVPCRYADLGCTKTIYYGRESTHEKICNFSPCSCPVQGCNYTGSYKDLYEHYDL 153

Query:   115 KNGKTFVSFTY 125
              +     ++++
Sbjct:   154 THSTGSTAYSF 164

GO:0004842 "ubiquitin-protein ligase activity" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IEA;ISS

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

GO:0007275 "multicellular organismal development" evidence=IEA;ISS

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

TAIR|locus:2153754 AT5G37890 [Arabidopsis thaliana (taxid:3702)]

 Score = 243 (90.6 bits), Expect = 1.3e-20, P = 1.3e-20
 Identities = 48/118 (40%), Positives = 67/118 (56%)

Query:    10 TSTISDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPACRSCV-MLRSRVMD 68
             ++ + D ++ DCPI Y+A  +P+ Q  NGH+ CSSC  K+NNKCPAC S V   R R M+
Sbjct:    40 STMLMDLEILDCPICYEAFTIPIFQCDNGHLACSSCCPKLNNKCPACTSPVGHNRCRAME 99

Query:    69 IALE--------------KTMSFGENKDHERNCQCAPCACPLLDCNFLGSASQLYLYF 112
               LE              K +S+G+   HE+ C  + CACP LDCN+  S   LY ++
Sbjct:   100 SVLESILIPCPNAKLGCKKNVSYGKELTHEKECMFSHCACPALDCNYTSSYKDLYTHY 157

GO:0004842 "ubiquitin-protein ligase activity" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IEA;ISS

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

GO:0007275 "multicellular organismal development" evidence=IEA;ISS

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

TAIR|locus:2195175 AT1G66620 [Arabidopsis thaliana (taxid:3702)]

 Score = 214 (80.4 bits), Expect = 1.6e-17, P = 1.6e-17
 Identities = 46/118 (38%), Positives = 64/118 (54%)

Query:    10 TSTISDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPACRSCV-MLRSRVMD 68
             + T+ + DL DCPI   AL  P+ Q  NGHI CSSC  K+ NKCP+C   +   RSR+M+
Sbjct:    33 SGTLFELDLLDCPICCHALTSPIFQCDNGHIACSSCCTKLRNKCPSCALPIGNFRSRIME 92

Query:    69 IALEKTM--------------SFGENKDHERNCQCAPCACPLLDCNFLGSASQLYLYF 112
               +E  M              S+G+   HE++C+ A C CP  +CN+ G    LY +F
Sbjct:    93 RVVEAVMVTCPNVKHGCTEKFSYGKELIHEKDCRFALCYCPAPNCNYSGVYKDLYSHF 150

GO:0004842 "ubiquitin-protein ligase activity" evidence=IEA

GO:0005634 "nucleus" evidence=IEA;ISS

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

GO:0007275 "multicellular organismal development" evidence=IEA;ISS

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

TAIR|locus:2153774 AT5G37910 [Arabidopsis thaliana (taxid:3702)]

 Score = 202 (76.2 bits), Expect = 2.9e-16, P = 2.9e-16
 Identities = 47/126 (37%), Positives = 63/126 (50%)

Query:     2 RSCKNGSITSTISDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPACRSCV- 60
             R  K       + D D+ DCPI  +AL  P+ Q  NGH+ C SC  K++NKCPAC   V 
Sbjct:    19 RVAKRQRSAIVLLDLDILDCPICCEALTSPIFQCDNGHLACGSCCPKLSNKCPACTLPVG 78

Query:    61 MLRSRVMDIALEK------------TMSF--GENKDHERNCQCAPCACPLLDCNFLGSAS 106
               RSR M+  LE             T SF  G+   HE+ C  + C+CP   C++ GS  
Sbjct:    79 HSRSRAMESVLESILIPCPNVRFGCTKSFFYGKESAHEKECIFSQCSCPSSVCDYTGSYK 138

Query:   107 QLYLYF 112
              LY ++
Sbjct:   139 DLYAHY 144

GO:0004842 "ubiquitin-protein ligase activity" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IEA;ISS

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

GO:0007275 "multicellular organismal development" evidence=IEA;ISS

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

TAIR|locus:2033354 AT1G66660 [Arabidopsis thaliana (taxid:3702)]

 Score = 178 (67.7 bits), Expect = 3.2e-13, P = 3.2e-13
 Identities = 37/111 (33%), Positives = 57/111 (51%)

Query:    13 ISDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPACRSCVM-LRSRVMDIAL 71
             +   D+ DCP   + LK P+ Q  NGH+ CSSC  K+N KC  CR  +  +R R M+  +
Sbjct:    98 LQSSDVLDCPTCCEPLKRPIYQCSNGHLACSSCCQKLNKKCSFCRCNIGDIRCRAMEKVI 157

Query:    72 E--------------KTMSFGENKDHERNCQCAPCACPLLDCNFLGSASQL 108
             E              +T ++     HE+ C+   C+CP+ +CN++ S S L
Sbjct:   158 EASIVPCPNAKHGCKETTTYCNQSSHEKVCKFVRCSCPVSNCNYVSSYSNL 208

GO:0004842 "ubiquitin-protein ligase activity" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IEA;ISS

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007275 "multicellular organismal development" evidence=IEA;ISS

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

TAIR|locus:2033369 AT1G66650 [Arabidopsis thaliana (taxid:3702)]

 Score = 170 (64.9 bits), Expect = 2.1e-12, P = 2.1e-12
 Identities = 37/132 (28%), Positives = 68/132 (51%)

Query:     1 LRSCKNGSITS----TISDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPAC 56
             LR+C+   ++S    T+ + ++ +CP  +  LK P+ Q  NGH+ C  C  K+  +C  C
Sbjct:    62 LRTCRKRRVSSPKSVTLPNSNVLECPNCFDPLKKPIFQCNNGHLACFLCCIKLKKRCSFC 121

Query:    57 RSCVM-LRSRVMDIALE--------------KTMSFGEN-KDHERNCQCAPCACPLLDCN 100
             +  +  +R R M+  ++              ++ ++G   + HE+ C  APC+CP+ DCN
Sbjct:   122 KLPIGDVRCRAMEKVIKAGLVSCSNAIYGCKQSTTYGNQLQSHEKVCVFAPCSCPIKDCN 181

Query:   101 FLGSASQLYLYF 112
             ++G    L  +F
Sbjct:   182 YIGFYKDLINHF 193

GO:0004842 "ubiquitin-protein ligase activity" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IEA;ISS

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

GO:0007275 "multicellular organismal development" evidence=IEA;ISS

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

TAIR|locus:2195180 AT1G66630 [Arabidopsis thaliana (taxid:3702)]

 Score = 151 (58.2 bits), Expect = 2.2e-12, Sum P(2) = 2.2e-12
 Identities = 29/64 (45%), Positives = 39/64 (60%)

Query:    10 TSTISDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPACRSCV-MLRSRVMD 68
             ++T+ + DL DCPI Y  L  P+ Q  NGHI CSSC  KV  KCP C   +   RSR+++
Sbjct:    38 SATLLELDLLDCPICYHKLGAPIYQCDNGHIACSSCCKKVKYKCPYCSLRIGFFRSRILE 97

Query:    69 IALE 72
               +E
Sbjct:    98 KIVE 101

GO:0004842 "ubiquitin-protein ligase activity" evidence=IEA

GO:0005634 "nucleus" evidence=IEA;ISS

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007275 "multicellular organismal development" evidence=IEA;ISS

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

UNIPROTKB|G3X7V0 G3X7V0 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 151 (58.2 bits), Expect = 1.7e-10, P = 1.7e-10
 Identities = 39/147 (26%), Positives = 67/147 (45%)

Query:     7 GSITSTISDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPACRS-CVMLRSR 65
             G+  S      LF+CP+ +  +  P+ Q  +GH++C SC  K+ + CP CR     +R+ 
Sbjct:    25 GTTASNNELASLFECPVCFDYVLPPIIQCQSGHLVCGSCRPKLTS-CPTCRGPLTSIRNL 83

Query:    66 VMD-IA-------------LEKTMSFGENKDHERNCQCAPCACPL--LDCNFLGSASQLY 109
              M+ +A              E TM   E  DHE +C+  PC CP     C + GS   + 
Sbjct:    84 AMEKLANSVLFPCKYASSGCEVTMPPTEKADHEEHCEFRPCRCPCPGTSCGWQGSMDAVV 143

Query:   110 LYFSWKNGKTFVSFTYKKRVKVTLNVN 136
              +      ++ ++   +  V + +N+N
Sbjct:   144 PHLMQHYNESIITLQGEVVVFLAVNIN 170

GO:0008270 "zinc ion binding" evidence=IEA

GO:0007275 "multicellular organismal development" evidence=IEA

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

GO:0005634 "nucleus" evidence=IEA

GO:0004842 "ubiquitin-protein ligase activity" evidence=IEA

TAIR|locus:2195170 AT1G66610 [Arabidopsis thaliana (taxid:3702)]

 Score = 153 (58.9 bits), Expect = 2.1e-10, P = 2.1e-10
 Identities = 29/64 (45%), Positives = 39/64 (60%)

Query:    10 TSTISDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPACRSCV-MLRSRVMD 68
             + T+ + DL DCPI   AL +P+ Q   GHI CSSC   V+NKCP C   +   RSR+M+
Sbjct:    45 SGTLFELDLLDCPICCNALTIPIFQCDKGHIACSSCCTNVSNKCPYCSLAIGNYRSRIME 104

Query:    69 IALE 72
               +E
Sbjct:   105 RVVE 108

GO:0004842 "ubiquitin-protein ligase activity" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IEA;ISS

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007275 "multicellular organismal development" evidence=IEA;ISS

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	6.3.2	LOW CONFIDENCE prediction!

---

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	159
KOG3002	299	consensus Zn finger protein [General function pred	99.96
PF03145	198	Sina: Seven in absentia protein family; InterPro:	99.62
KOG0297	391	consensus TNF receptor-associated factor [Signal t	98.85
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	98.82
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.78
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	98.64
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.61
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	98.6
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.57
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	98.53
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.52
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	98.34
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.33
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	98.25
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.25
PF14634	44	zf-RING_5: zinc-RING finger domain	98.23
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.23
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.17
PHA02929	238	N1R/p28-like protein; Provisional	98.16
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	98.14
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	97.86
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	97.81
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	97.77
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	97.73
PHA02926	242	zinc finger-like protein; Provisional	97.71
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	97.65
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	97.65
PF02176	60	zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A	97.62
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	97.58
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	97.5
PF02176	60	zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A	97.46
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.34
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.09
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	97.01
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	96.95
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	96.82
COG5152	259	Uncharacterized conserved protein, contains RING a	96.56
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	96.51
PLN03086	567	PRLI-interacting factor K; Provisional	96.05
KOG4739	233	consensus Uncharacterized protein involved in syna	95.96
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	95.75
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	95.74
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	95.64
KOG2660	331	consensus Locus-specific chromosome binding protei	95.63
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	95.58
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	95.55
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	95.42
COG5222	427	Uncharacterized conserved protein, contains RING Z	95.32
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	95.26
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	95.1
COG5175	480	MOT2 Transcriptional repressor [Transcription]	94.77
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	94.25
PLN03086	567	PRLI-interacting factor K; Provisional	93.99
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	93.85
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	93.66
PF07191	70	zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807	93.19
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	93.18
KOG4367	699	consensus Predicted Zn-finger protein [Function un	93.12
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	92.81
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	92.13
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	91.88
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	91.82
COG5236	493	Uncharacterized conserved protein, contains RING Z	91.07
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	90.72
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	90.04
PF13909	24	zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W	89.99
KOG1002	791	consensus Nucleotide excision repair protein RAD16	89.14
PF07975	51	C1_4: TFIIH C1-like domain; InterPro: IPR004595 Al	89.03
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	88.41
KOG0825	1134	consensus PHD Zn-finger protein [General function	88.33
PRK11088	272	rrmA 23S rRNA methyltransferase A; Provisional	88.05
PF04641	260	Rtf2: Rtf2 RING-finger	88.03
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	87.84
PF10571	26	UPF0547: Uncharacterised protein family UPF0547; I	87.29
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	87.06
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	86.96
COG5219	1525	Uncharacterized conserved protein, contains RING Z	85.72
KOG1001	674	consensus Helicase-like transcription factor HLTF/	83.01
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	82.68
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	82.66
PF10083	158	DUF2321: Uncharacterized protein conserved in bact	82.53
PF01363	69	FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc f	81.89
PRK04023	1121	DNA polymerase II large subunit; Validated	81.88
PF05605	54	zf-Di19: Drought induced 19 protein (Di19), zinc-b	81.03
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	80.15
PRK14714	1337	DNA polymerase II large subunit; Provisional	80.14

>KOG3002 consensus Zn finger protein [General function prediction only]

Probab=99.96  E-value=2e-30  Score=216.26  Aligned_cols=148  Identities=33%  Similarity=0.682  Sum_probs=134.8

Q ss_pred             EEeeCCCeeecccccccCCCceeeccCCceeccccccccCCCCCCCccCc-chhhHHHHHHHH--------------hhc
Q 042263           11 STISDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPACRSCV-MLRSRVMDIALE--------------KTM   75 (159)
Q Consensus        11 ~~~~~~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~~~CP~Cr~~~-~~rn~~le~~~~--------------~~~   75 (159)
                      ++..+.+.|+||||.+++.+||+||.+||..|++|..++.++||.||.++ ++|++++|++++              +++
T Consensus        41 ~~~~~~~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~~~~~~CP~Cr~~~g~~R~~amEkV~e~~~vpC~~~~~GC~~~~  120 (299)
T KOG3002|consen   41 VTLLDLDLLDCPVCFNPLSPPIFQCDNGHLACSSCRTKVSNKCPTCRLPIGNIRCRAMEKVAEAVLVPCKNAKLGCTKSF  120 (299)
T ss_pred             ccccchhhccCchhhccCcccceecCCCcEehhhhhhhhcccCCccccccccHHHHHHHHHHHhceecccccccCCceee
Confidence            67889999999999999999999999999999999988888999999999 999999999999              688


Q ss_pred             cCCCchhhhccCCCCCCCCCCC--CCcceeChhHHHhHhhhhcCCceE-----EEEeCcEEEEEEeCC---CcEEEEEEc
Q 042263           76 SFGENKDHERNCQCAPCACPLL--DCNFLGSASQLYLYFSWKNGKTFV-----SFTYKKRVKVTLNVN---DSVFLFRQQ  145 (159)
Q Consensus        76 ~~~~~~~He~~C~~~p~~Cp~~--gC~~~g~~~~l~~H~~~~H~~~~~-----~~~~~~~~~~~~~~~---~~~~~l~~~  145 (159)
                      +|++..+||+.|.|+|+.||.+  .|+|+|.+++|+.|+...|+..++     .|.|..+.+..+...   ..+.++.+.
T Consensus       121 ~Y~~~~~HE~~C~f~~~~CP~p~~~C~~~G~~~~l~~H~~~~hk~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  200 (299)
T KOG3002|consen  121 PYGEKSKHEKVCEFRPCSCPVPGAECKYTGSYKDLYAHLNDTHKSDIITLTGFDFVFVATDENLLGAATWTLKTSVCFGR  200 (299)
T ss_pred             ccccccccccccccCCcCCCCCcccCCccCcHHHHHHHHHhhChhhhhhccccceecccCCccccccchhheeeeecCcE
Confidence            8999999999999999999998  999999999999999999999876     667766666666655   478888888


Q ss_pred             CCCcEEEEEceec
Q 042263          146 KNGHLFSLKNVVA  158 (159)
Q Consensus       146 ~d~~lF~l~~~~~  158 (159)
                      +++.+|+++++.+
T Consensus       201 ~~~~~~~~q~~~~  213 (299)
T KOG3002|consen  201 EFGLLFEVQCFRE  213 (299)
T ss_pred             EEeeeeeehhhcC
Confidence            9999999998765

>PF03145 Sina: Seven in absentia protein family; InterPro: IPR018121 The seven in absentia (sina) gene was first identified in Drosophila

Probab=99.62  E-value=3.9e-16  Score=123.17  Aligned_cols=95  Identities=23%  Similarity=0.407  Sum_probs=58.0

Q ss_pred             hhhHHHHHHHH--------------hhccCCCchhhhccCCCCCCCCCC--CCCcceeChhHHHhHhhhhcCCceEEEEe
Q 042263           62 LRSRVMDIALE--------------KTMSFGENKDHERNCQCAPCACPL--LDCNFLGSASQLYLYFSWKNGKTFVSFTY  125 (159)
Q Consensus        62 ~rn~~le~~~~--------------~~~~~~~~~~He~~C~~~p~~Cp~--~gC~~~g~~~~l~~H~~~~H~~~~~~~~~  125 (159)
                      +||++||++++              ++++|.++.+||++|+|+|+.||.  .+|+|+|+.++|..|+.+.|+|.++...+
T Consensus         1 iR~~alE~v~~~~~~pC~~~~~GC~~~~~~~~~~~HE~~C~~~p~~CP~~~~~C~~~G~~~~l~~Hl~~~H~~~~~~~~~   80 (198)
T PF03145_consen    1 IRNRALEKVAESIKFPCKNAKYGCTETFPYSEKREHEEECPFRPCSCPFPGSGCDWQGSYKELLDHLRDKHSWNVTDNGT   80 (198)
T ss_dssp             --------------EE-CCGGGT---EE-GGGHHHHHHT-TTSEEE-SSSSTT---EEECCCHHHHHHHHTTTSEEEESS
T ss_pred             CCcHHHHHHHhhceecCCCCCCCCcccccccChhhHhccCCCcCCcCCCCCCCccccCCHHHHHHHHHHHCCCccccCcc
Confidence            48999999998              578999999999999999999999  79999999999999999999998865443


Q ss_pred             Cc-EEEEEEeCC--CcEEEEEE-cCCCcEEEEEce
Q 042263          126 KK-RVKVTLNVN--DSVFLFRQ-QKNGHLFSLKNV  156 (159)
Q Consensus       126 ~~-~~~~~~~~~--~~~~~l~~-~~d~~lF~l~~~  156 (159)
                      .+ .+.......  ....++.+ +.+|++|+|.+.
T Consensus        81 ~~~~f~~~~~~~~~~~~~~~~~~~~~~~~F~l~~~  115 (198)
T PF03145_consen   81 FSISFLHSDINSVESPDWVLVQFSCFGKLFLLYVQ  115 (198)
T ss_dssp             -EEEEEECTTT-SSSEEEEEEE-EETTEEEEEEEE
T ss_pred             ceEEEeeecccccCCceEEEeecccCCccEEEEEE
Confidence            22 222222221  23455554 689999999853

The Drosophila Sina protein is essential for the determination of the R7 pathway in photoreceptor cell development: the loss of functional Sina results in the transformation of the R7 precursor cell to a non-neuronal cell type. The Sina protein contains an N-terminal RING finger domain C3HC4-type. Through this domain, Sina binds E2 ubiquitin-conjugating enzymes (UbcD1) Sina also interacts with Tramtrack (TTK88) via PHYL. Tramtrack is a transcriptional repressor that blocks photoreceptor determination, while PHYL down-regulates the activity of TTK88. In turn, the activity of PHYL requires the activation of the Sevenless receptor tyrosine kinase, a process essential for R7 determination. It is thought that Sina targets TTK88 for degradation, therefore promoting the R7 pathway. Murine and human homologues of Sina have also been identified. The human homologue Siah-1 [] also binds E2 enzymes (UbcH5) and through a series of physical interactions, targets beta-catenin for ubiquitin degradation. Siah-1 expression is enhanced by p53, itself promoted by DNA damage. Thus this pathway links DNA damage to beta-catenin degradation [, ]. Sina proteins, therefore, physically interact with a variety of proteins. The N-terminal RING finger domain that binds ubiquitin conjugating enzymes is a C3HC4-type, and does not form part of the alignment for this family. The remainder C-terminal part is involved in interactions with other proteins, and is included in this alignment. In addition to the Drosophila protein and mammalian homologues, whose similarity was noted previously, this family also includes putative homologues from Caenorhabditis elegans, Arabidopsis thaliana.; GO: 0006511 ubiquitin-dependent protein catabolic process, 0007275 multicellular organismal development, 0005634 nucleus; PDB: 2A25_A 1K2F_B 2AN6_C.

>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]

Probab=98.85  E-value=1.8e-09  Score=93.62  Aligned_cols=103  Identities=23%  Similarity=0.471  Sum_probs=80.5

Q ss_pred             CCeeecccccccCCCceeeccCCceeccccccccC---CCCCCCccCc-chhhH-----HHHHHHH-------------h
Q 042263           16 QDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN---NKCPACRSCV-MLRSR-----VMDIALE-------------K   73 (159)
Q Consensus        16 ~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~-~~rn~-----~le~~~~-------------~   73 (159)
                      .+.+.|++|..++.+|+..-.|||.||..|+.++.   ..||.|+..+ .+..+     ....+++             .
T Consensus        19 ~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~~~~~~~~~~~~~l~i~c~~~~~GC~~   98 (391)
T KOG0297|consen   19 DENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAEELPVPRALRRELLKLPIRCIFASRGCRA   98 (391)
T ss_pred             cccccCccccccccCCCCCCCCCCcccccccchhhccCcCCcccccccchhhccCchHHHHHHHHhcccccccCCCCccc
Confidence            45689999999999997634779999999999874   5799998887 33222     1222222             3


Q ss_pred             hccCCCchhhhccCCCCCCCCCCCCCcceeChhHHHhHhhhhcCCceE
Q 042263           74 TMSFGENKDHERNCQCAPCACPLLDCNFLGSASQLYLYFSWKNGKTFV  121 (159)
Q Consensus        74 ~~~~~~~~~He~~C~~~p~~Cp~~gC~~~g~~~~l~~H~~~~H~~~~~  121 (159)
                      .+....+..|+..|  .+..||.. |+..+...++..|++........
T Consensus        99 ~~~l~~~~~Hl~~c--~~~~C~~~-C~~~~~~~d~~~hl~~~C~~~~~  143 (391)
T KOG0297|consen   99 DLELEALQGHLSTC--DPLKCPHR-CGVQVPRDDLEDHLEAECPRRSL  143 (391)
T ss_pred             cccHHHHHhHhccC--CcccCccc-cccccchHHHHHHHhcccccccc
Confidence            56677899999999  99999975 99999999999999887766543

>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B

Probab=98.82  E-value=2.3e-09  Score=70.40  Aligned_cols=55  Identities=33%  Similarity=0.730  Sum_probs=29.9

Q ss_pred             CeeecccccccCCCceeeccCCceecccccccc-CCCCCCCccCc----chhhHHHHHHH
Q 042263           17 DLFDCPIWYQALKVPVSQSINGHIICSSCLAKV-NNKCPACRSCV----MLRSRVMDIAL   71 (159)
Q Consensus        17 ~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~-~~~CP~Cr~~~----~~rn~~le~~~   71 (159)
                      +.+.|++|.++|+.||..-.|.|.||+.|+.+. ...||.|.++.    ...|+.++.++
T Consensus         6 ~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~~~CPvC~~Paw~qD~~~NrqLd~~i   65 (65)
T PF14835_consen    6 ELLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIGSECPVCHTPAWIQDIQINRQLDSMI   65 (65)
T ss_dssp             HTTS-SSS-S--SS-B---SSS--B-TTTGGGGTTTB-SSS--B-S-SS----HHHHHHH
T ss_pred             HhcCCcHHHHHhcCCceeccCccHHHHHHhHHhcCCCCCCcCChHHHHHHHhhhhhhccC
Confidence            367899999999999865578999999999875 36799999998    34588888764

>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A

Probab=98.78  E-value=1.3e-09  Score=66.06  Aligned_cols=35  Identities=46%  Similarity=0.957  Sum_probs=27.3

Q ss_pred             cccccccCCCceeeccCCceeccccccccC-------CCCCCC
Q 042263           21 CPIWYQALKVPVSQSINGHIICSSCLAKVN-------NKCPAC   56 (159)
Q Consensus        21 C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~-------~~CP~C   56 (159)
                      ||||+++|++||.. .|||+||.+|+.+++       ..||.|
T Consensus         1 CpiC~~~~~~Pv~l-~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDPVSL-PCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSEEE--SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCCcccc-CCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            89999999999875 889999999999864       258887

>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A

Probab=98.64  E-value=7.9e-09  Score=61.33  Aligned_cols=36  Identities=42%  Similarity=0.947  Sum_probs=29.9

Q ss_pred             cccccccCCCceeeccCCceeccccccccC---CCCCCC
Q 042263           21 CPIWYQALKVPVSQSINGHIICSSCLAKVN---NKCPAC   56 (159)
Q Consensus        21 C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~---~~CP~C   56 (159)
                      |+||++.+.+|+....+||+||..|+.++.   .+||.|
T Consensus         1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCCCCCcccCcCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence            899999999997777899999999998863   679987

>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]

Probab=98.61  E-value=4e-09  Score=89.19  Aligned_cols=65  Identities=29%  Similarity=0.614  Sum_probs=53.5

Q ss_pred             CceEEEeeCCCeeecccccccCCCceeeccCCceeccccccccC---CCCCCCccCc----chhhHHHHHHHH
Q 042263            7 GSITSTISDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN---NKCPACRSCV----MLRSRVMDIALE   72 (159)
Q Consensus         7 ~~~~~~~~~~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~----~~rn~~le~~~~   72 (159)
                      ++|-+...-.+.|.|.||+++|+.|+.. +|||.||+.|+.+..   ..||.|+.++    ...|+.++.+++
T Consensus        12 tsipslk~lD~lLRC~IC~eyf~ip~it-pCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr~n~il~Eiv~   83 (442)
T KOG0287|consen   12 TSIPSLKTLDDLLRCGICFEYFNIPMIT-PCSHTFCSLCIRKFLSYKPQCPTCCVTVTESDLRNNRILDEIVK   83 (442)
T ss_pred             ccCchhhhhHHHHHHhHHHHHhcCceec-cccchHHHHHHHHHhccCCCCCceecccchhhhhhhhHHHHHHH
Confidence            3455555566789999999999999764 799999999999864   6899999998    445788888887

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=98.60  E-value=1.7e-08  Score=79.74  Aligned_cols=54  Identities=33%  Similarity=0.727  Sum_probs=43.2

Q ss_pred             CCceEEEeeCCCeeecccccccCCCceeeccCCceeccccccccC-------------------CCCCCCccCc
Q 042263            6 NGSITSTISDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN-------------------NKCPACRSCV   60 (159)
Q Consensus         6 ~~~~~~~~~~~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~-------------------~~CP~Cr~~~   60 (159)
                      +.+=...+...+.++|+||++.+++|+. ..|||.||..|+.++.                   .+||.|+.++
T Consensus         6 ~~~~~~~~~~~~~~~CpICld~~~dPVv-T~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~I   78 (193)
T PLN03208          6 DEDDTTLVDSGGDFDCNICLDQVRDPVV-TLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDV   78 (193)
T ss_pred             ccccceeccCCCccCCccCCCcCCCcEE-cCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcC
Confidence            3334445556678999999999999977 4789999999997641                   3699999987

>smart00504 Ubox Modified RING finger domain

Probab=98.57  E-value=3.5e-08  Score=63.62  Aligned_cols=53  Identities=21%  Similarity=0.300  Sum_probs=43.1

Q ss_pred             eeecccccccCCCceeeccCCceeccccccccC---CCCCCCccCc----chhhHHHHHHH
Q 042263           18 LFDCPIWYQALKVPVSQSINGHIICSSCLAKVN---NKCPACRSCV----MLRSRVMDIAL   71 (159)
Q Consensus        18 ~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~----~~rn~~le~~~   71 (159)
                      .+.||||+++|.+|+.. .+||+||..|+.++.   ..||.|+.++    ...|..+.+.+
T Consensus         1 ~~~Cpi~~~~~~~Pv~~-~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~l~~~~~l~~~i   60 (63)
T smart00504        1 EFLCPISLEVMKDPVIL-PSGQTYERRAIEKWLLSHGTDPVTGQPLTHEDLIPNLALKSAI   60 (63)
T ss_pred             CcCCcCCCCcCCCCEEC-CCCCEEeHHHHHHHHHHCCCCCCCcCCCChhhceeCHHHHHHH
Confidence            36799999999999864 789999999999863   5799999988    34566666554

Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.

>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A

Probab=98.53  E-value=2.1e-08  Score=62.50  Aligned_cols=42  Identities=31%  Similarity=0.740  Sum_probs=35.4

Q ss_pred             eeecccccccCCCceeeccCCce-eccccccccC---CCCCCCccCc
Q 042263           18 LFDCPIWYQALKVPVSQSINGHI-ICSSCLAKVN---NKCPACRSCV   60 (159)
Q Consensus        18 ~l~C~iC~~~l~~Pv~qC~~GH~-~C~~C~~~~~---~~CP~Cr~~~   60 (159)
                      ...|+||++...++++. +|||. ||..|+.++.   .+||.||+++
T Consensus         2 ~~~C~iC~~~~~~~~~~-pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i   47 (50)
T PF13920_consen    2 DEECPICFENPRDVVLL-PCGHLCFCEECAERLLKRKKKCPICRQPI   47 (50)
T ss_dssp             HSB-TTTSSSBSSEEEE-TTCEEEEEHHHHHHHHHTTSBBTTTTBB-
T ss_pred             cCCCccCCccCCceEEe-CCCChHHHHHHhHHhcccCCCCCcCChhh
Confidence            46799999999998776 88999 9999999873   6899999986

...

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.52  E-value=3.3e-08  Score=85.82  Aligned_cols=56  Identities=27%  Similarity=0.548  Sum_probs=47.3

Q ss_pred             CCeeecccccccCCCceeeccCCceeccccccccC---CCCCCCccCc----chhhHHHHHHHH
Q 042263           16 QDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN---NKCPACRSCV----MLRSRVMDIALE   72 (159)
Q Consensus        16 ~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~----~~rn~~le~~~~   72 (159)
                      .+.+.|+||.+++..|+. -.|||.||..|+..+.   ..||.|+.++    ..+|..|+++++
T Consensus        24 e~~l~C~IC~d~~~~Pvi-tpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~Lr~N~~L~~iVe   86 (397)
T TIGR00599        24 DTSLRCHICKDFFDVPVL-TSCSHTFCSLCIRRCLSNQPKCPLCRAEDQESKLRSNWLVSEIVE   86 (397)
T ss_pred             ccccCCCcCchhhhCccC-CCCCCchhHHHHHHHHhCCCCCCCCCCccccccCccchHHHHHHH
Confidence            357899999999999986 4899999999998753   4799999988    356888888887

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A

Probab=98.34  E-value=1e-07  Score=57.80  Aligned_cols=38  Identities=34%  Similarity=0.796  Sum_probs=31.2

Q ss_pred             ecccccccCC--CceeeccCCceeccccccccC---CCCCCCc
Q 042263           20 DCPIWYQALK--VPVSQSINGHIICSSCLAKVN---NKCPACR   57 (159)
Q Consensus        20 ~C~iC~~~l~--~Pv~qC~~GH~~C~~C~~~~~---~~CP~Cr   57 (159)
                      +|+||++.+.  ..+....|||.||.+|+.++.   .+||.||
T Consensus         2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR   44 (44)
T PF13639_consen    2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR   44 (44)
T ss_dssp             CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred             CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence            5999999994  456667899999999999873   6899997

...

>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]

Probab=98.33  E-value=1.5e-07  Score=78.37  Aligned_cols=45  Identities=27%  Similarity=0.630  Sum_probs=38.9

Q ss_pred             CCCeeecccccccCCCceeeccCCceeccccccccC---CCCCCCccCc
Q 042263           15 DQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN---NKCPACRSCV   60 (159)
Q Consensus        15 ~~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~   60 (159)
                      -...+.|-||..+++.|+. .+|||.||+.|+....   ..||.||.+.
T Consensus        22 LDs~lrC~IC~~~i~ip~~-TtCgHtFCslCIR~hL~~qp~CP~Cr~~~   69 (391)
T COG5432          22 LDSMLRCRICDCRISIPCE-TTCGHTFCSLCIRRHLGTQPFCPVCREDP   69 (391)
T ss_pred             chhHHHhhhhhheeeccee-cccccchhHHHHHHHhcCCCCCccccccH
Confidence            3457899999999999975 4889999999999864   5799999987

>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.25  E-value=3.4e-07  Score=73.80  Aligned_cols=46  Identities=37%  Similarity=0.810  Sum_probs=40.2

Q ss_pred             eCCCeeecccccccCCCceeeccCCceeccccccccC------CCCCCCccCc
Q 042263           14 SDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN------NKCPACRSCV   60 (159)
Q Consensus        14 ~~~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~------~~CP~Cr~~~   60 (159)
                      .|...|+|.||++..++||.. -|||.||=.|+.+|.      +.||+|+..+
T Consensus        43 ~~~~~FdCNICLd~akdPVvT-lCGHLFCWpClyqWl~~~~~~~~cPVCK~~V   94 (230)
T KOG0823|consen   43 RDGGFFDCNICLDLAKDPVVT-LCGHLFCWPCLYQWLQTRPNSKECPVCKAEV   94 (230)
T ss_pred             CCCCceeeeeeccccCCCEEe-ecccceehHHHHHHHhhcCCCeeCCcccccc
Confidence            367799999999999999875 579999999999984      4689999876

>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.25  E-value=1.6e-07  Score=73.10  Aligned_cols=44  Identities=34%  Similarity=0.859  Sum_probs=35.7

Q ss_pred             CeeecccccccCCCce-eeccCCceeccccccccC---CCCCCCccCc
Q 042263           17 DLFDCPIWYQALKVPV-SQSINGHIICSSCLAKVN---NKCPACRSCV   60 (159)
Q Consensus        17 ~~l~C~iC~~~l~~Pv-~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~   60 (159)
                      ..+.||||++.+..-+ .-..|||+||+.|+....   .+||+|+..+
T Consensus       130 ~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkI  177 (187)
T KOG0320|consen  130 GTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKI  177 (187)
T ss_pred             cccCCCceecchhhccccccccchhHHHHHHHHHHHhCCCCCCccccc
Confidence            3699999999986543 335789999999998763   6899999876

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.23  E-value=3.8e-07  Score=55.47  Aligned_cols=39  Identities=36%  Similarity=0.845  Sum_probs=31.7

Q ss_pred             ecccccccC--CCceeeccCCceeccccccccC---CCCCCCcc
Q 042263           20 DCPIWYQAL--KVPVSQSINGHIICSSCLAKVN---NKCPACRS   58 (159)
Q Consensus        20 ~C~iC~~~l--~~Pv~qC~~GH~~C~~C~~~~~---~~CP~Cr~   58 (159)
                      +|++|++.+  ..+.+.-.|||+||..|+.++.   ..||.|++
T Consensus         1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence            599999999  3344556789999999999875   57999984

>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=98.23  E-value=3.8e-07  Score=54.18  Aligned_cols=36  Identities=42%  Similarity=0.851  Sum_probs=31.1

Q ss_pred             cccccccCCCceeeccCCceeccccccccC-----CCCCCC
Q 042263           21 CPIWYQALKVPVSQSINGHIICSSCLAKVN-----NKCPAC   56 (159)
Q Consensus        21 C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~-----~~CP~C   56 (159)
                      |+||.+.+..|+..-++||.||..|+.++.     .+||.|
T Consensus         1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            899999999998566889999999998863     469887

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. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....

>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis

Probab=98.17  E-value=8.6e-07  Score=59.56  Aligned_cols=56  Identities=27%  Similarity=0.396  Sum_probs=41.5

Q ss_pred             CCeeecccccccCCCceeeccCCceeccccccccC----CCCCCCccCc----chhhHHHHHHHH
Q 042263           16 QDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN----NKCPACRSCV----MLRSRVMDIALE   72 (159)
Q Consensus        16 ~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~----~~CP~Cr~~~----~~rn~~le~~~~   72 (159)
                      ++.|.|||++++|.+||.. ..||+|+.+++.++.    ..||.++.++    ...|..|.+.++
T Consensus         2 P~~f~CpIt~~lM~dPVi~-~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~pn~~Lk~~I~   65 (73)
T PF04564_consen    2 PDEFLCPITGELMRDPVIL-PSGHTYERSAIERWLEQNGGTDPFTRQPLSESDLIPNRALKSAIE   65 (73)
T ss_dssp             SGGGB-TTTSSB-SSEEEE-TTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSEE-HHHHHHHH
T ss_pred             CcccCCcCcCcHhhCceeC-CcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccceECHHHHHHHH
Confidence            5789999999999999875 789999999998874    4699999988    456777776665

Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....

>PHA02929 N1R/p28-like protein; Provisional

Probab=98.16  E-value=6e-07  Score=73.22  Aligned_cols=45  Identities=24%  Similarity=0.547  Sum_probs=35.9

Q ss_pred             CCeeecccccccCCCc-e------eeccCCceeccccccccC---CCCCCCccCc
Q 042263           16 QDLFDCPIWYQALKVP-V------SQSINGHIICSSCLAKVN---NKCPACRSCV   60 (159)
Q Consensus        16 ~~~l~C~iC~~~l~~P-v------~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~   60 (159)
                      .+..+|+||++.+.++ +      ....|||.||..|+.++.   ..||.||.++
T Consensus       172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~  226 (238)
T PHA02929        172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPF  226 (238)
T ss_pred             CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEe
Confidence            4468999999987653 1      234689999999998874   6899999988

>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)

Probab=98.14  E-value=6.4e-07  Score=52.82  Aligned_cols=41  Identities=39%  Similarity=0.914  Sum_probs=33.4

Q ss_pred             ecccccccCCCceeeccCCceeccccccccC----CCCCCCccCc
Q 042263           20 DCPIWYQALKVPVSQSINGHIICSSCLAKVN----NKCPACRSCV   60 (159)
Q Consensus        20 ~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~----~~CP~Cr~~~   60 (159)
                      +|+||.+.+..++..-.+||.||..|+..+.    ..||.|+..+
T Consensus         1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhhhCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            4999999997776665589999999998653    4699998753

>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.86  E-value=4.3e-06  Score=66.25  Aligned_cols=58  Identities=28%  Similarity=0.557  Sum_probs=46.1

Q ss_pred             eCCCeeecccccccCCCceeeccCCceeccccccccC---CCCCCCccCc--chhhHHHHHHHH
Q 042263           14 SDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN---NKCPACRSCV--MLRSRVMDIALE   72 (159)
Q Consensus        14 ~~~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~--~~rn~~le~~~~   72 (159)
                      ...+.+.||||++.|+.|.. =+|||+||..|+..++   ..||.||...  ..+|..+++++.
T Consensus         9 ~~~~~~~C~iC~~~~~~p~~-l~C~H~~c~~C~~~~~~~~~~Cp~cr~~~~~~~~n~~l~~~~~   71 (386)
T KOG2177|consen    9 VLQEELTCPICLEYFREPVL-LPCGHNFCRACLTRSWEGPLSCPVCRPPSRNLRPNVLLANLVE   71 (386)
T ss_pred             hccccccChhhHHHhhcCcc-ccccchHhHHHHHHhcCCCcCCcccCCchhccCccHHHHHHHH
Confidence            45678999999999999943 3679999999999876   5899999622  346777777776

>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]

Probab=97.81  E-value=4.1e-06  Score=69.57  Aligned_cols=46  Identities=26%  Similarity=0.587  Sum_probs=38.7

Q ss_pred             eCCCeeecccccccCCCceeeccCCceeccccccccC---CCCCCCccCc
Q 042263           14 SDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN---NKCPACRSCV   60 (159)
Q Consensus        14 ~~~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~   60 (159)
                      ++....+|.+|++....|.- .+|||.||-+|+..+-   ..||.||..+
T Consensus       235 i~~a~~kC~LCLe~~~~pSa-TpCGHiFCWsCI~~w~~ek~eCPlCR~~~  283 (293)
T KOG0317|consen  235 IPEATRKCSLCLENRSNPSA-TPCGHIFCWSCILEWCSEKAECPLCREKF  283 (293)
T ss_pred             CCCCCCceEEEecCCCCCCc-CcCcchHHHHHHHHHHccccCCCcccccC
Confidence            34557899999999999954 4789999999998873   5799999987

>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function

Probab=97.77  E-value=5.5e-05  Score=58.05  Aligned_cols=28  Identities=21%  Similarity=0.316  Sum_probs=25.6

Q ss_pred             CCCCCCCCCcceeChhHHHhHhhhhcCC
Q 042263           91 PCACPLLDCNFLGSASQLYLYFSWKNGK  118 (159)
Q Consensus        91 p~~Cp~~gC~~~g~~~~l~~H~~~~H~~  118 (159)
                      +-.|+..+|.|.|.+.+|.+|...+|+.
T Consensus       107 ~RsC~~e~C~F~GtY~eLrKHar~~HP~  134 (162)
T PF07800_consen  107 KRSCSQESCSFSGTYSELRKHARSEHPS  134 (162)
T ss_pred             CccCcccccccccCHHHHHHHHHhhCCC
Confidence            4488989999999999999999999986

The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=97.73  E-value=1.6e-05  Score=66.96  Aligned_cols=44  Identities=25%  Similarity=0.585  Sum_probs=33.7

Q ss_pred             Ceeecccccc--cCCCce--eeccCCceeccccccccC----CCCCCCccCc
Q 042263           17 DLFDCPIWYQ--ALKVPV--SQSINGHIICSSCLAKVN----NKCPACRSCV   60 (159)
Q Consensus        17 ~~l~C~iC~~--~l~~Pv--~qC~~GH~~C~~C~~~~~----~~CP~Cr~~~   60 (159)
                      +...||+|..  ++.+-+  +.-.|||.||.+|+..++    ..||.|+.++
T Consensus         2 d~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~l   53 (309)
T TIGR00570         2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPL   53 (309)
T ss_pred             CCCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCcc
Confidence            4567999998  555431  222689999999999864    4799999987

All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>PHA02926 zinc finger-like protein; Provisional

Probab=97.71  E-value=6.4e-06  Score=66.47  Aligned_cols=44  Identities=25%  Similarity=0.633  Sum_probs=34.0

Q ss_pred             CCeeecccccccCCC---------ceeeccCCceeccccccccC---------CCCCCCccCc
Q 042263           16 QDLFDCPIWYQALKV---------PVSQSINGHIICSSCLAKVN---------NKCPACRSCV   60 (159)
Q Consensus        16 ~~~l~C~iC~~~l~~---------Pv~qC~~GH~~C~~C~~~~~---------~~CP~Cr~~~   60 (159)
                      ++..+|+||++....         ++. -.|+|.||-.|+.+|.         ..||.||..+
T Consensus       168 SkE~eCgICmE~I~eK~~~~eRrFGIL-~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f  229 (242)
T PHA02926        168 SKEKECGICYEVVYSKRLENDRYFGLL-DSCNHIFCITCINIWHRTRRETGASDNCPICRTRF  229 (242)
T ss_pred             cCCCCCccCcccccccccccccccccc-CCCCchHHHHHHHHHHHhccccCcCCcCCCCccee
Confidence            446889999988633         222 3789999999999874         2399999987

>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.65  E-value=1.1e-05  Score=71.48  Aligned_cols=42  Identities=38%  Similarity=0.852  Sum_probs=35.6

Q ss_pred             eeecccccccCCCceeeccCCceeccccccccC--------CCCCCCccCc
Q 042263           18 LFDCPIWYQALKVPVSQSINGHIICSSCLAKVN--------NKCPACRSCV   60 (159)
Q Consensus        18 ~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~--------~~CP~Cr~~~   60 (159)
                      ...||||++...-|+.. .|||+||.+|+-..+        ..||.|+..|
T Consensus       186 ~~~CPICL~~~~~p~~t-~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I  235 (513)
T KOG2164|consen  186 DMQCPICLEPPSVPVRT-NCGHIFCGPCILQYWNYSAIKGPCSCPICRSTI  235 (513)
T ss_pred             CCcCCcccCCCCccccc-ccCceeeHHHHHHHHhhhcccCCccCCchhhhc
Confidence            67899999999888664 589999999987643        5799999988

>smart00184 RING Ring finger

Probab=97.65  E-value=1.3e-05  Score=45.39  Aligned_cols=35  Identities=49%  Similarity=0.986  Sum_probs=28.6

Q ss_pred             cccccccCCCceeeccCCceeccccccccC----CCCCCC
Q 042263           21 CPIWYQALKVPVSQSINGHIICSSCLAKVN----NKCPAC   56 (159)
Q Consensus        21 C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~----~~CP~C   56 (159)
                      |+||.+....++.. .+||.||..|+.++.    .+||.|
T Consensus         1 C~iC~~~~~~~~~~-~C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEELKDPVVL-PCGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCCCCcEEe-cCCChHHHHHHHHHHHhCcCCCCCC
Confidence            78999998877664 789999999998652    469887

E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)

>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A

Probab=97.62  E-value=1.9e-05  Score=50.48  Aligned_cols=37  Identities=24%  Similarity=0.398  Sum_probs=25.3

Q ss_pred             ccCCCchhhhc-cCCCCCCCCCC--CCCcceeChhHHHhH
Q 042263           75 MSFGENKDHER-NCQCAPCACPL--LDCNFLGSASQLYLY  111 (159)
Q Consensus        75 ~~~~~~~~He~-~C~~~p~~Cp~--~gC~~~g~~~~l~~H  111 (159)
                      +.-.++.+|.+ .|+++++.||+  .||++.+.+.+|.+|
T Consensus        21 i~r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~~~~~l~~H   60 (60)
T PF02176_consen   21 IPRKELDDHLENECPKRPVPCPYSPYGCKERVPREDLEEH   60 (60)
T ss_dssp             EECCCHHHHHHTTSTTSEEE-SS----S--EEEHHHHHHC
T ss_pred             eeHHHHHHHHHccCCCCcEECCCCCCCCCCccchhHHhCC
Confidence            55567778887 88888888887  388888888888776

>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A

Probab=97.58  E-value=1.6e-05  Score=48.44  Aligned_cols=28  Identities=36%  Similarity=0.904  Sum_probs=18.1

Q ss_pred             cccccccCCC----ceeeccCCceeccccccccC
Q 042263           21 CPIWYQALKV----PVSQSINGHIICSSCLAKVN   50 (159)
Q Consensus        21 C~iC~~~l~~----Pv~qC~~GH~~C~~C~~~~~   50 (159)
                      ||||.+ +..    |+.. .|||+||..|++++.
T Consensus         1 CpIc~e-~~~~~n~P~~L-~CGH~~c~~cl~~l~   32 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVL-PCGHVFCKDCLQKLS   32 (43)
T ss_dssp             -TTT-----TTSS-EEE--SSS-EEEHHHHHHHH
T ss_pred             CCcccc-ccCCCCCCEEE-eCccHHHHHHHHHHH
Confidence            899999 766    8765 589999999999874

>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.50  E-value=2.3e-05  Score=64.45  Aligned_cols=44  Identities=32%  Similarity=0.659  Sum_probs=37.0

Q ss_pred             CCeeecccccccCCCceeeccCCceeccccccc-cC----CCCCCCccCc
Q 042263           16 QDLFDCPIWYQALKVPVSQSINGHIICSSCLAK-VN----NKCPACRSCV   60 (159)
Q Consensus        16 ~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~-~~----~~CP~Cr~~~   60 (159)
                      ...++|++|.+....|++. +|||+||-+|+-. +.    ..||.||...
T Consensus       213 ~~d~kC~lC~e~~~~ps~t-~CgHlFC~~Cl~~~~t~~k~~~CplCRak~  261 (271)
T COG5574         213 LADYKCFLCLEEPEVPSCT-PCGHLFCLSCLLISWTKKKYEFCPLCRAKV  261 (271)
T ss_pred             ccccceeeeecccCCcccc-cccchhhHHHHHHHHHhhccccCchhhhhc
Confidence            3478899999999999864 7899999999877 42    3599999976

>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A

Probab=97.46  E-value=7e-05  Score=47.78  Aligned_cols=43  Identities=28%  Similarity=0.389  Sum_probs=33.1

Q ss_pred             hhccCCCCCCCCCCCCCcceeChhHHHhHhhhhcCCceEEEEe
Q 042263           83 HERNCQCAPCACPLLDCNFLGSASQLYLYFSWKNGKTFVSFTY  125 (159)
Q Consensus        83 He~~C~~~p~~Cp~~gC~~~g~~~~l~~H~~~~H~~~~~~~~~  125 (159)
                      |+++|+++++.||+.+|.-...+.+|..|+....++..+.=.|
T Consensus         1 H~~~C~~~~v~C~~~cc~~~i~r~~l~~H~~~~C~~~~v~C~~   43 (60)
T PF02176_consen    1 HEEECPFRPVPCPNGCCNEMIPRKELDDHLENECPKRPVPCPY   43 (60)
T ss_dssp             HHTTSTTSEEE-TT--S-BEEECCCHHHHHHTTSTTSEEE-SS
T ss_pred             CcccCCCCEeeCCCCCcccceeHHHHHHHHHccCCCCcEECCC
Confidence            8889999999999988877788999999999988887654444

>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=97.34  E-value=1e-05  Score=68.99  Aligned_cols=43  Identities=33%  Similarity=0.624  Sum_probs=37.0

Q ss_pred             eeecccccccCCCceeeccCCceeccccccccC----CCCCCCccCc
Q 042263           18 LFDCPIWYQALKVPVSQSINGHIICSSCLAKVN----NKCPACRSCV   60 (159)
Q Consensus        18 ~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~----~~CP~Cr~~~   60 (159)
                      .+.||||+++++..+..=.|+|+||..|+-+..    +.||+||+..
T Consensus        43 ~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l   89 (381)
T KOG0311|consen   43 QVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKL   89 (381)
T ss_pred             hhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhc
Confidence            678999999999876655689999999988753    6899999988

>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]

Probab=97.09  E-value=7.4e-05  Score=68.87  Aligned_cols=44  Identities=27%  Similarity=0.742  Sum_probs=37.1

Q ss_pred             CCeeecccccccCCCceeeccCCceecccccccc----CCCCCCCccCc
Q 042263           16 QDLFDCPIWYQALKVPVSQSINGHIICSSCLAKV----NNKCPACRSCV   60 (159)
Q Consensus        16 ~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~----~~~CP~Cr~~~   60 (159)
                      ...|.||+|..=.++.|. -.|||.||..|+.+.    ..+||.|..+|
T Consensus       641 K~~LkCs~Cn~R~Kd~vI-~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aF  688 (698)
T KOG0978|consen  641 KELLKCSVCNTRWKDAVI-TKCGHVFCEECVQTRYETRQRKCPKCNAAF  688 (698)
T ss_pred             HhceeCCCccCchhhHHH-HhcchHHHHHHHHHHHHHhcCCCCCCCCCC
Confidence            358999999987888765 378999999999886    36899999988

>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=97.01  E-value=0.00051  Score=46.12  Aligned_cols=44  Identities=32%  Similarity=0.575  Sum_probs=31.6

Q ss_pred             eCCCeeecccccccCCCc------------eeeccCCceeccccccccC---CCCCCCc
Q 042263           14 SDQDLFDCPIWYQALKVP------------VSQSINGHIICSSCLAKVN---NKCPACR   57 (159)
Q Consensus        14 ~~~~~l~C~iC~~~l~~P------------v~qC~~GH~~C~~C~~~~~---~~CP~Cr   57 (159)
                      .|...-.|.||++.|.+|            +..=.|||.|-..|+.++.   ..||+||
T Consensus        15 ~~~~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   15 WDIADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             ESSCCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             ecCcCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence            344444599999999443            3333589999999999863   6899997

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 domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....

>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B

Probab=96.95  E-value=0.00025  Score=44.16  Aligned_cols=39  Identities=28%  Similarity=0.673  Sum_probs=21.0

Q ss_pred             cccccccCC--C-ceeeccCCceeccccccccC----CCCCCCccC
Q 042263           21 CPIWYQALK--V-PVSQSINGHIICSSCLAKVN----NKCPACRSC   59 (159)
Q Consensus        21 C~iC~~~l~--~-Pv~qC~~GH~~C~~C~~~~~----~~CP~Cr~~   59 (159)
                      ||+|.+.+.  + -++.|+||..+|..|+.++.    +.||.||.+
T Consensus         1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~   46 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREP   46 (48)
T ss_dssp             -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B
T ss_pred             CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCC
Confidence            788988883  2 24569999999999988764    679999986

>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=96.82  E-value=0.00029  Score=61.49  Aligned_cols=44  Identities=34%  Similarity=0.739  Sum_probs=39.3

Q ss_pred             CCeeecccccccCCCceeeccCCceeccccccccC---CCCCCCccCc
Q 042263           16 QDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN---NKCPACRSCV   60 (159)
Q Consensus        16 ~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~   60 (159)
                      .+.|+|.||...|.+||.. +|||.||..|+.+..   ..||.||.++
T Consensus        82 ~sef~c~vc~~~l~~pv~t-pcghs~c~~Cl~r~ld~~~~cp~Cr~~l  128 (398)
T KOG4159|consen   82 RSEFECCVCSRALYPPVVT-PCGHSFCLECLDRSLDQETECPLCRDEL  128 (398)
T ss_pred             cchhhhhhhHhhcCCCccc-cccccccHHHHHHHhccCCCCccccccc
Confidence            6789999999999999876 999999999977653   5799999988

>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]

Probab=96.56  E-value=0.00067  Score=54.16  Aligned_cols=56  Identities=23%  Similarity=0.452  Sum_probs=41.4

Q ss_pred             CCeeecccccccCCCceeeccCCceecccccccc-C--CCCCCCccCc---chhhHHHHHHHH
Q 042263           16 QDLFDCPIWYQALKVPVSQSINGHIICSSCLAKV-N--NKCPACRSCV---MLRSRVMDIALE   72 (159)
Q Consensus        16 ~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~-~--~~CP~Cr~~~---~~rn~~le~~~~   72 (159)
                      .--|.|.||.+-+..||.. .|||.||+.|..+- .  ..|-+|....   ..-...+++++.
T Consensus       194 ~IPF~C~iCKkdy~spvvt-~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~G~f~V~~d~~kmL~  255 (259)
T COG5152         194 KIPFLCGICKKDYESPVVT-ECGHSFCSLCAIRKYQKGDECGVCGKATYGRFWVVSDLQKMLN  255 (259)
T ss_pred             CCceeehhchhhccchhhh-hcchhHHHHHHHHHhccCCcceecchhhccceeHHhhHHHHHh
Confidence            3368899999999999864 78999999997653 2  5799998877   222344555543

>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=96.51  E-value=0.0016  Score=54.53  Aligned_cols=48  Identities=27%  Similarity=0.446  Sum_probs=38.6

Q ss_pred             eeecccccccCCCceeeccCCceecccccccc-C--CCCCCCccCc-chhhHH
Q 042263           18 LFDCPIWYQALKVPVSQSINGHIICSSCLAKV-N--NKCPACRSCV-MLRSRV   66 (159)
Q Consensus        18 ~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~-~--~~CP~Cr~~~-~~rn~~   66 (159)
                      -+.|-||.+++..||.. .|||.||..|..+- .  ..|.+|...+ .+-|.+
T Consensus       241 Pf~c~icr~~f~~pVvt-~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g~~~~a  292 (313)
T KOG1813|consen  241 PFKCFICRKYFYRPVVT-KCGHYFCEVCALKPYQKGEKCYVCSQQTHGSFNVA  292 (313)
T ss_pred             Cccccccccccccchhh-cCCceeehhhhccccccCCcceecccccccccchH
Confidence            45799999999999874 78999999997654 2  5799999998 444443

>PLN03086 PRLI-interacting factor K; Provisional

Probab=96.05  E-value=0.0098  Score=54.14  Aligned_cols=17  Identities=18%  Similarity=0.239  Sum_probs=12.6

Q ss_pred             eeCCCeeecccccccCC
Q 042263           13 ISDQDLFDCPIWYQALK   29 (159)
Q Consensus        13 ~~~~~~l~C~iC~~~l~   29 (159)
                      -.+.+...|+-|.....
T Consensus       402 s~~~~~V~C~NC~~~i~  418 (567)
T PLN03086        402 SMDVDTVECRNCKHYIP  418 (567)
T ss_pred             cCCCCeEECCCCCCccc
Confidence            35677788999987764

>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=95.96  E-value=0.0047  Score=50.31  Aligned_cols=44  Identities=23%  Similarity=0.652  Sum_probs=36.0

Q ss_pred             CeeecccccccC-CCceeeccCCceeccccccccCC-CCCCCccCc
Q 042263           17 DLFDCPIWYQAL-KVPVSQSINGHIICSSCLAKVNN-KCPACRSCV   60 (159)
Q Consensus        17 ~~l~C~iC~~~l-~~Pv~qC~~GH~~C~~C~~~~~~-~CP~Cr~~~   60 (159)
                      +-..|..|+.-- .+|.|...|+|+||..|..-..+ .||.|+.++
T Consensus         2 ~~VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~~~~C~lCkk~i   47 (233)
T KOG4739|consen    2 DFVHCNKCFRFPSQDPFFLTACRHVFCEPCLKASSPDVCPLCKKSI   47 (233)
T ss_pred             ceEEeccccccCCCCceeeeechhhhhhhhcccCCcccccccccee
Confidence            456788888654 57788888999999999877654 899999987

>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=95.75  E-value=0.00064  Score=43.49  Aligned_cols=41  Identities=29%  Similarity=0.690  Sum_probs=32.6

Q ss_pred             eecccccccCCCceeeccCCce-eccccccccC----CCCCCCccCc
Q 042263           19 FDCPIWYQALKVPVSQSINGHI-ICSSCLAKVN----NKCPACRSCV   60 (159)
Q Consensus        19 l~C~iC~~~l~~Pv~qC~~GH~-~C~~C~~~~~----~~CP~Cr~~~   60 (159)
                      -+|.||++-..+.|.. .|||. .|-.|-.+++    +.||.||.++
T Consensus         8 dECTICye~pvdsVlY-tCGHMCmCy~Cg~rl~~~~~g~CPiCRapi   53 (62)
T KOG4172|consen    8 DECTICYEHPVDSVLY-TCGHMCMCYACGLRLKKALHGCCPICRAPI   53 (62)
T ss_pred             cceeeeccCcchHHHH-HcchHHhHHHHHHHHHHccCCcCcchhhHH
Confidence            5799999988777553 66995 8889976653    6899999987

>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=95.74  E-value=0.002  Score=58.16  Aligned_cols=42  Identities=33%  Similarity=0.582  Sum_probs=35.1

Q ss_pred             eeecccccccCCC-----ceeeccCCceeccccccccC---CCCCCCccCc
Q 042263           18 LFDCPIWYQALKV-----PVSQSINGHIICSSCLAKVN---NKCPACRSCV   60 (159)
Q Consensus        18 ~l~C~iC~~~l~~-----Pv~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~   60 (159)
                      .-.|+||.+.|..     |... +|||.|+.+|+.+|.   ..||.||..+
T Consensus       291 ~~~C~IC~e~l~~~~~~~~~rL-~C~Hifh~~CL~~W~er~qtCP~CR~~~  340 (543)
T KOG0802|consen  291 DELCIICLEELHSGHNITPKRL-PCGHIFHDSCLRSWFERQQTCPTCRTVL  340 (543)
T ss_pred             CCeeeeechhhcccccccccee-ecccchHHHHHHHHHHHhCcCCcchhhh
Confidence            5679999999977     4443 679999999999873   6899999965

>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=95.64  E-value=0.002  Score=54.05  Aligned_cols=41  Identities=32%  Similarity=0.642  Sum_probs=35.8

Q ss_pred             eeecccccccCCCceeeccCCc-eeccccccccCCCCCCCccCc
Q 042263           18 LFDCPIWYQALKVPVSQSINGH-IICSSCLAKVNNKCPACRSCV   60 (159)
Q Consensus        18 ~l~C~iC~~~l~~Pv~qC~~GH-~~C~~C~~~~~~~CP~Cr~~~   60 (159)
                      ...|.||++...+-++. +||| ..|-.|-.+++ .||+||+-+
T Consensus       300 ~~LC~ICmDaP~DCvfL-eCGHmVtCt~CGkrm~-eCPICRqyi  341 (350)
T KOG4275|consen  300 RRLCAICMDAPRDCVFL-ECGHMVTCTKCGKRMN-ECPICRQYI  341 (350)
T ss_pred             HHHHHHHhcCCcceEEe-ecCcEEeehhhccccc-cCchHHHHH
Confidence            55699999999998776 8899 68999999886 999999876

>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]

Probab=95.63  E-value=0.0012  Score=56.06  Aligned_cols=44  Identities=23%  Similarity=0.483  Sum_probs=38.2

Q ss_pred             CeeecccccccCCCceeeccCCceecccccccc---CCCCCCCccCc
Q 042263           17 DLFDCPIWYQALKVPVSQSINGHIICSSCLAKV---NNKCPACRSCV   60 (159)
Q Consensus        17 ~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~---~~~CP~Cr~~~   60 (159)
                      ....|.+|..+|.++...-.|=|+||.+|+-+.   ...||.|...+
T Consensus        14 ~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~i   60 (331)
T KOG2660|consen   14 PHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEESKYCPTCDIVI   60 (331)
T ss_pred             cceehhhccceeecchhHHHHHHHHHHHHHHHHHHHhccCCccceec
Confidence            367899999999999777778999999998774   36899999988

>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=95.58  E-value=0.0048  Score=51.92  Aligned_cols=42  Identities=26%  Similarity=0.531  Sum_probs=35.7

Q ss_pred             eeecccccccCCCceeeccCCceeccccccccC----CCCCCCccCc
Q 042263           18 LFDCPIWYQALKVPVSQSINGHIICSSCLAKVN----NKCPACRSCV   60 (159)
Q Consensus        18 ~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~----~~CP~Cr~~~   60 (159)
                      .-+|+||+....-|+.. .|+|.||--|+....    ..|+.||.+|
T Consensus         7 ~~eC~IC~nt~n~Pv~l-~C~HkFCyiCiKGsy~ndk~~CavCR~pi   52 (324)
T KOG0824|consen    7 KKECLICYNTGNCPVNL-YCFHKFCYICIKGSYKNDKKTCAVCRFPI   52 (324)
T ss_pred             CCcceeeeccCCcCccc-cccchhhhhhhcchhhcCCCCCceecCCC
Confidence            34799999999999765 789999999998752    4699999998

>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C

Probab=95.55  E-value=0.0043  Score=39.85  Aligned_cols=41  Identities=24%  Similarity=0.487  Sum_probs=28.2

Q ss_pred             CCCeeecccccccCCCceeeccCCceeccccccccC-----CCCCC
Q 042263           15 DQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN-----NKCPA   55 (159)
Q Consensus        15 ~~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~-----~~CP~   55 (159)
                      ..-.+.|||...+|.+||..-.|||+|-.+.+..+.     .+||.
T Consensus         8 ~~~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen    8 GTISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             SB--SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             cEeccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            445689999999999998876789999999988754     35887

>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=95.42  E-value=0.0094  Score=49.62  Aligned_cols=45  Identities=29%  Similarity=0.617  Sum_probs=36.1

Q ss_pred             CCeeecccccccCCCceeeccCCceeccccccccC-----CCCCCCccCc
Q 042263           16 QDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN-----NKCPACRSCV   60 (159)
Q Consensus        16 ~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~-----~~CP~Cr~~~   60 (159)
                      .+..+||+|.+....|...=.|||++|=.|+.+..     -.||.|.++.
T Consensus       237 t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~  286 (298)
T KOG2879|consen  237 TSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENV  286 (298)
T ss_pred             cCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccCccCCCC
Confidence            34567999999999995533579999999998753     3799998876

>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

Probab=95.32  E-value=0.0075  Score=51.00  Aligned_cols=40  Identities=30%  Similarity=0.801  Sum_probs=34.5

Q ss_pred             eecccccccCCCceeeccCCceeccccccccC----CCCCCCcc
Q 042263           19 FDCPIWYQALKVPVSQSINGHIICSSCLAKVN----NKCPACRS   58 (159)
Q Consensus        19 l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~----~~CP~Cr~   58 (159)
                      |.||.|..+++.|+..=.|||.||..|++...    ..||.|..
T Consensus       275 LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~r  318 (427)
T COG5222         275 LKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSR  318 (427)
T ss_pred             ccCcchhhhhhCcccCccccchHHHHHHhhhhhhccccCCCccc
Confidence            99999999999998753489999999998643    58999966

>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger

Probab=95.26  E-value=0.0066  Score=42.17  Aligned_cols=30  Identities=27%  Similarity=0.507  Sum_probs=24.7

Q ss_pred             ceeeccCCceeccccccccC------CCCCCCccCc
Q 042263           31 PVSQSINGHIICSSCLAKVN------NKCPACRSCV   60 (159)
Q Consensus        31 Pv~qC~~GH~~C~~C~~~~~------~~CP~Cr~~~   60 (159)
                      |+....|||.|=..|+.++.      +.||.||++.
T Consensus        46 plv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w   81 (85)
T PF12861_consen   46 PLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPW   81 (85)
T ss_pred             ceeeccCccHHHHHHHHHHHccccCCCCCCCcCCee
Confidence            55556789999999998863      5799999976

>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0

Probab=95.10  E-value=0.006  Score=45.71  Aligned_cols=48  Identities=25%  Similarity=0.562  Sum_probs=38.8

Q ss_pred             eeCCCeeecccccccCCCceeec---cCCceeccccccccC------CCCCCCccCc
Q 042263           13 ISDQDLFDCPIWYQALKVPVSQS---INGHIICSSCLAKVN------NKCPACRSCV   60 (159)
Q Consensus        13 ~~~~~~l~C~iC~~~l~~Pv~qC---~~GH~~C~~C~~~~~------~~CP~Cr~~~   60 (159)
                      -.|+..++|.||.+...++-+.=   -||-.+|..|-..+|      +.||.|++.+
T Consensus        75 F~d~~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSF  131 (140)
T PF05290_consen   75 FLDPKLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSF  131 (140)
T ss_pred             ecCCCceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccc
Confidence            44778999999999987654431   269999999998876      6799999988

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=94.77  E-value=0.0062  Score=52.25  Aligned_cols=45  Identities=29%  Similarity=0.753  Sum_probs=35.7

Q ss_pred             CCCeeecccccccCCC---ceeeccCCceecccccccc----CCCCCCCccCc
Q 042263           15 DQDLFDCPIWYQALKV---PVSQSINGHIICSSCLAKV----NNKCPACRSCV   60 (159)
Q Consensus        15 ~~~~l~C~iC~~~l~~---Pv~qC~~GH~~C~~C~~~~----~~~CP~Cr~~~   60 (159)
                      |.+.+ ||.|.+.|..   -.+.|+||-.+|..|+..+    +++||.||...
T Consensus        12 deed~-cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y   63 (480)
T COG5175          12 DEEDY-CPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKY   63 (480)
T ss_pred             ccccc-CcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhc
Confidence            44445 9999999852   2456999999999999765    47999999865

>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=94.25  E-value=0.015  Score=49.91  Aligned_cols=44  Identities=27%  Similarity=0.609  Sum_probs=36.3

Q ss_pred             CCeeecccccccCCCceeeccCCce-eccccccccC---CCCCCCccCc
Q 042263           16 QDLFDCPIWYQALKVPVSQSINGHI-ICSSCLAKVN---NKCPACRSCV   60 (159)
Q Consensus        16 ~~~l~C~iC~~~l~~Pv~qC~~GH~-~C~~C~~~~~---~~CP~Cr~~~   60 (159)
                      .+--+|-||+.=.++-+.. +|.|. .|++|-+.+.   ++||+||+++
T Consensus       288 ~~gkeCVIClse~rdt~vL-PCRHLCLCs~Ca~~Lr~q~n~CPICRqpi  335 (349)
T KOG4265|consen  288 ESGKECVICLSESRDTVVL-PCRHLCLCSGCAKSLRYQTNNCPICRQPI  335 (349)
T ss_pred             cCCCeeEEEecCCcceEEe-cchhhehhHhHHHHHHHhhcCCCccccch
Confidence            3467899999999886544 77995 9999988874   6899999998

>PLN03086 PRLI-interacting factor K; Provisional

Probab=93.99  E-value=0.082  Score=48.26  Aligned_cols=22  Identities=18%  Similarity=0.463  Sum_probs=10.3

Q ss_pred             chhhhc-cCCCCCCCCCCCCCccee
Q 042263           80 NKDHER-NCQCAPCACPLLDCNFLG  103 (159)
Q Consensus        80 ~~~He~-~C~~~p~~Cp~~gC~~~g  103 (159)
                      +..|.. .|+.+++.|++  |+...
T Consensus       492 L~~H~~thCp~Kpi~C~f--C~~~v  514 (567)
T PLN03086        492 MVQHQASTCPLRLITCRF--CGDMV  514 (567)
T ss_pred             HHhhhhccCCCCceeCCC--CCCcc
Confidence            444432 35555555554  54443

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=93.85  E-value=0.037  Score=35.35  Aligned_cols=39  Identities=31%  Similarity=0.572  Sum_probs=27.6

Q ss_pred             ecccccccC-CCceeeccCCceeccccccccC-CCCCCCccCc
Q 042263           20 DCPIWYQAL-KVPVSQSINGHIICSSCLAKVN-NKCPACRSCV   60 (159)
Q Consensus        20 ~C~iC~~~l-~~Pv~qC~~GH~~C~~C~~~~~-~~CP~Cr~~~   60 (159)
                      .|-.|...- +.++.  +|||.+|..|+.-.. +-||.|..++
T Consensus         9 ~~~~~~~~~~~~~~~--pCgH~I~~~~f~~~rYngCPfC~~~~   49 (55)
T PF14447_consen    9 PCVFCGFVGTKGTVL--PCGHLICDNCFPGERYNGCPFCGTPF   49 (55)
T ss_pred             eEEEccccccccccc--cccceeeccccChhhccCCCCCCCcc
Confidence            344455553 34443  559999999998764 5799999887

>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=93.66  E-value=0.012  Score=50.70  Aligned_cols=55  Identities=25%  Similarity=0.472  Sum_probs=41.1

Q ss_pred             CCCceEEEeeCCCeeecccccccCCCceeeccCCceeccccccccC---CCCCCCccCc
Q 042263            5 KNGSITSTISDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN---NKCPACRSCV   60 (159)
Q Consensus         5 ~~~~~~~~~~~~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~   60 (159)
                      +.-+....+-|.+.-.||||+--.-..|++ +|||.-|..|+.+..   +.|=.|...+
T Consensus       409 ~~~~~~~~lp~sEd~lCpICyA~pi~Avf~-PC~H~SC~~CI~qHlmN~k~CFfCktTv  466 (489)
T KOG4692|consen  409 KEESFNKDLPDSEDNLCPICYAGPINAVFA-PCSHRSCYGCITQHLMNCKRCFFCKTTV  466 (489)
T ss_pred             hHHhhcCCCCCcccccCcceecccchhhcc-CCCCchHHHHHHHHHhcCCeeeEeccee
Confidence            333444456677888899999777777887 899999999999864   4576776665

>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length

Probab=93.19  E-value=0.031  Score=37.47  Aligned_cols=38  Identities=29%  Similarity=0.606  Sum_probs=22.9

Q ss_pred             eeecccccccCCCceeeccCCceeccccccccC--CCCCCCccCc
Q 042263           18 LFDCPIWYQALKVPVSQSINGHIICSSCLAKVN--NKCPACRSCV   60 (159)
Q Consensus        18 ~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~--~~CP~Cr~~~   60 (159)
                      ++.||.|...|..     ..|+..|..|-....  +.||.|..++
T Consensus         1 e~~CP~C~~~L~~-----~~~~~~C~~C~~~~~~~a~CPdC~~~L   40 (70)
T PF07191_consen    1 ENTCPKCQQELEW-----QGGHYHCEACQKDYKKEAFCPDCGQPL   40 (70)
T ss_dssp             --B-SSS-SBEEE-----ETTEEEETTT--EEEEEEE-TTT-SB-
T ss_pred             CCcCCCCCCccEE-----eCCEEECccccccceecccCCCcccHH
Confidence            3679999977643     338999999988754  6899999987

Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.

>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=93.18  E-value=0.037  Score=46.94  Aligned_cols=43  Identities=26%  Similarity=0.493  Sum_probs=35.3

Q ss_pred             eeecccccccCC--CceeeccCCceeccccccccC----CCCCCCccCc
Q 042263           18 LFDCPIWYQALK--VPVSQSINGHIICSSCLAKVN----NKCPACRSCV   60 (159)
Q Consensus        18 ~l~C~iC~~~l~--~Pv~qC~~GH~~C~~C~~~~~----~~CP~Cr~~~   60 (159)
                      -.+|.||++-+.  +.+..-+|.|.|=.+|+++|.    .+||+||+++
T Consensus       323 GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~i  371 (374)
T COG5540         323 GVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAI  371 (374)
T ss_pred             CceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCC
Confidence            478999998874  334456789999999999984    6899999986

>KOG4367 consensus Predicted Zn-finger protein [Function unknown]

Probab=93.12  E-value=0.026  Score=50.06  Aligned_cols=32  Identities=19%  Similarity=0.563  Sum_probs=28.2

Q ss_pred             CeeecccccccCCCceeeccCCceecccccccc
Q 042263           17 DLFDCPIWYQALKVPVSQSINGHIICSSCLAKV   49 (159)
Q Consensus        17 ~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~   49 (159)
                      ++|.||||..++++||.. +|||..|..|-..+
T Consensus         3 eelkc~vc~~f~~epiil-~c~h~lc~~ca~~~   34 (699)
T KOG4367|consen    3 EELKCPVCGSFYREPIIL-PCSHNLCQACARNI   34 (699)
T ss_pred             ccccCceehhhccCceEe-ecccHHHHHHHHhh
Confidence            689999999999999876 78999999997543

>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]

Probab=92.81  E-value=0.026  Score=49.49  Aligned_cols=42  Identities=36%  Similarity=0.666  Sum_probs=35.0

Q ss_pred             eeecccccccCCCceeeccCCceeccccccccC-----CCCCCCccCc
Q 042263           18 LFDCPIWYQALKVPVSQSINGHIICSSCLAKVN-----NKCPACRSCV   60 (159)
Q Consensus        18 ~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~-----~~CP~Cr~~~   60 (159)
                      .-.|-||-+-=++ |-.-+|||..|.+|+..|+     ..||.||-.|
T Consensus       369 FeLCKICaendKd-vkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEI  415 (563)
T KOG1785|consen  369 FELCKICAENDKD-VKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEI  415 (563)
T ss_pred             HHHHHHhhccCCC-cccccccchHHHHHHHhhcccCCCCCCCceeeEe
Confidence            3459999998887 5555789999999999875     5799999887

>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]

Probab=92.13  E-value=0.049  Score=48.23  Aligned_cols=56  Identities=25%  Similarity=0.557  Sum_probs=42.3

Q ss_pred             CCCceEEEeeCCCeeecccccccCCCce---eeccCCceeccccccccC-CCCCCCccCc
Q 042263            5 KNGSITSTISDQDLFDCPIWYQALKVPV---SQSINGHIICSSCLAKVN-NKCPACRSCV   60 (159)
Q Consensus         5 ~~~~~~~~~~~~~~l~C~iC~~~l~~Pv---~qC~~GH~~C~~C~~~~~-~~CP~Cr~~~   60 (159)
                      .+|+-+..+.-.+.-+||||++=|.+-+   ..-.|.|.|=.+|+.+|+ ..||.||-.-
T Consensus       162 ~d~as~~~~~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~~scpvcR~~q  221 (493)
T KOG0804|consen  162 EDGASEPPTGLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWDSSCPVCRYCQ  221 (493)
T ss_pred             ccCCCCCCCCcccCCCcchhHhhcCccccceeeeecccccchHHHhhcccCcChhhhhhc
Confidence            4454445556667889999999997543   444579999999999986 6899998643

>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A

Probab=91.88  E-value=0.045  Score=36.40  Aligned_cols=43  Identities=26%  Similarity=0.488  Sum_probs=19.0

Q ss_pred             eeecccccccCC----Cceeec---cCCceeccccccccC--------------CCCCCCccCc
Q 042263           18 LFDCPIWYQALK----VPVSQS---INGHIICSSCLAKVN--------------NKCPACRSCV   60 (159)
Q Consensus        18 ~l~C~iC~~~l~----~Pv~qC---~~GH~~C~~C~~~~~--------------~~CP~Cr~~~   60 (159)
                      .++|+||+..+.    .|...|   .||..|=..|+.++.              ++||.|+.++
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i   65 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPI   65 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEE
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCee
Confidence            468999998864    356667   367677778887651              4699999987

>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=91.82  E-value=0.12  Score=42.75  Aligned_cols=42  Identities=33%  Similarity=0.709  Sum_probs=33.2

Q ss_pred             CeeecccccccCCC------c-eeeccCCceeccccccccC----CCCCCCccCc
Q 042263           17 DLFDCPIWYQALKV------P-VSQSINGHIICSSCLAKVN----NKCPACRSCV   60 (159)
Q Consensus        17 ~~l~C~iC~~~l~~------P-v~qC~~GH~~C~~C~~~~~----~~CP~Cr~~~   60 (159)
                      ..+.|-||.+.+..      | +.  .|||.+|..|..++.    ..||.||.+.
T Consensus         2 ~~~~c~~c~~~~s~~~~~~~p~~l--~c~h~~c~~c~~~l~~~~~i~cpfcR~~~   54 (296)
T KOG4185|consen    2 SFPECEICNEDYSSEDGDHIPRVL--KCGHTICQNCASKLLGNSRILCPFCRETT   54 (296)
T ss_pred             CCCceeecCccccccCcccCCccc--ccCceehHhHHHHHhcCceeeccCCCCcc
Confidence            46789999988753      4 33  369999999999974    3599999995

>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

Probab=91.07  E-value=0.059  Score=46.53  Aligned_cols=103  Identities=20%  Similarity=0.393  Sum_probs=59.9

Q ss_pred             CCCeeecccccccCCCceeeccCCceeccccccccC-----CCCCCCccCc-----chh------hHHHHHHHHhh--cc
Q 042263           15 DQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN-----NKCPACRSCV-----MLR------SRVMDIALEKT--MS   76 (159)
Q Consensus        15 ~~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~-----~~CP~Cr~~~-----~~r------n~~le~~~~~~--~~   76 (159)
                      |.+.-.|-||-+-+..-. .-+|||..|.-|--++.     +.||.||+..     ..+      ....-+.-++.  +.
T Consensus        58 DEen~~C~ICA~~~TYs~-~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e~V~fT~~~~~DI~D~~~~k~~~EK~GI~  136 (493)
T COG5236          58 DEENMNCQICAGSTTYSA-RYPCGHQICHACAVRLRALYMQKGCPLCRTETEAVVFTASSPADITDRRQWKGREEKVGIF  136 (493)
T ss_pred             ccccceeEEecCCceEEE-eccCCchHHHHHHHHHHHHHhccCCCccccccceEEEecCCCCcchhHhhhcccccceeee
Confidence            455778999998876532 23679999999976652     6799999976     111      11111111111  22


Q ss_pred             CCCchhhhccCCCCCCCCCCCCCcce-eChhHHHhHhhhhcCC
Q 042263           77 FGENKDHERNCQCAPCACPLLDCNFL-GSASQLYLYFSWKNGK  118 (159)
Q Consensus        77 ~~~~~~He~~C~~~p~~Cp~~gC~~~-g~~~~l~~H~~~~H~~  118 (159)
                      |..-..-+++=.--...||...|..+ +...+|..|+...|..
T Consensus       137 y~~E~v~~E~~~LL~F~CP~skc~~~C~~~k~lk~H~K~~H~~  179 (493)
T COG5236         137 YEGEDVRDEMEDLLSFKCPKSKCHRRCGSLKELKKHYKAQHGF  179 (493)
T ss_pred             ecchHHHHHHHHHHHhcCCchhhhhhhhhHHHHHHHHHhhcCc
Confidence            22111111110111247887766544 3478999999999986

>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=90.72  E-value=0.096  Score=45.09  Aligned_cols=45  Identities=22%  Similarity=0.476  Sum_probs=36.2

Q ss_pred             CCeeecccccccCCCce-----e--eccCCceeccccccccC----------CCCCCCccCc
Q 042263           16 QDLFDCPIWYQALKVPV-----S--QSINGHIICSSCLAKVN----------NKCPACRSCV   60 (159)
Q Consensus        16 ~~~l~C~iC~~~l~~Pv-----~--qC~~GH~~C~~C~~~~~----------~~CP~Cr~~~   60 (159)
                      .....|.||++....+.     +  .-.|-|.||..|+.++.          ..||.||...
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s  220 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS  220 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence            44678999999987765     3  12579999999999874          5699999987

>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=90.04  E-value=0.067  Score=46.59  Aligned_cols=92  Identities=22%  Similarity=0.371  Sum_probs=49.8

Q ss_pred             CCCeeeccccc-ccCCCc-ee-eccCCceeccccccccC---------CCCCC--CccCc-chhhHHH--HHHHHhhccC
Q 042263           15 DQDLFDCPIWY-QALKVP-VS-QSINGHIICSSCLAKVN---------NKCPA--CRSCV-MLRSRVM--DIALEKTMSF   77 (159)
Q Consensus        15 ~~~~l~C~iC~-~~l~~P-v~-qC~~GH~~C~~C~~~~~---------~~CP~--Cr~~~-~~rn~~l--e~~~~~~~~~   77 (159)
                      +....+|.||. +..... .+ ...|||.||..|+.+..         ..||.  |...+ ...+..+  -++.+    +
T Consensus       143 ~~~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~~~C~~~l~~~~c~~llt~kl~e----~  218 (384)
T KOG1812|consen  143 KLPKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCPHDGCESRLTLESCRKLLTPKLRE----M  218 (384)
T ss_pred             ccccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhhhccCCCccCCCCCCCccCCHHHHhhhcCHHHHH----H
Confidence            33477899999 544332 11 24579999999998642         35754  54444 1111111  11211    1


Q ss_pred             CCchhhhccCCC-CCCCCCCCCCcceeChhHHHh
Q 042263           78 GENKDHERNCQC-APCACPLLDCNFLGSASQLYL  110 (159)
Q Consensus        78 ~~~~~He~~C~~-~p~~Cp~~gC~~~g~~~~l~~  110 (159)
                      -+.+..++.-+- ...+||+++|.+.....+|..
T Consensus       219 ~e~~~~e~~i~~~~~~ycp~~~C~~l~~~~el~~  252 (384)
T KOG1812|consen  219 WEQRLKEEVIPSLDRVYCPYPRCSSLMSKTELSS  252 (384)
T ss_pred             HHHHHHHHhhhhhhcccCCCCCchHhhhhhhhcc
Confidence            111111111111 123899999999888888865

>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A

Probab=89.99  E-value=0.23  Score=25.62  Aligned_cols=23  Identities=26%  Similarity=0.494  Sum_probs=17.8

Q ss_pred             CCCCCCCcceeChhHHHhHhhhhcC
Q 042263           93 ACPLLDCNFLGSASQLYLYFSWKNG  117 (159)
Q Consensus        93 ~Cp~~gC~~~g~~~~l~~H~~~~H~  117 (159)
                      .|+.  |+|.....+|..|+...|+
T Consensus         2 ~C~~--C~y~t~~~~l~~H~~~~H~   24 (24)
T PF13909_consen    2 KCPH--CSYSTSKSNLKRHLKRHHP   24 (24)
T ss_dssp             E-SS--SS-EESHHHHHHHHHHHHS
T ss_pred             CCCC--CCCcCCHHHHHHHHHhhCc
Confidence            5776  9999888899999998885

>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]

Probab=89.14  E-value=0.081  Score=48.00  Aligned_cols=47  Identities=19%  Similarity=0.458  Sum_probs=38.3

Q ss_pred             eeCCCeeecccccccCCCceeeccCCceecccccccc--------CCCCCCCccCc
Q 042263           13 ISDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKV--------NNKCPACRSCV   60 (159)
Q Consensus        13 ~~~~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~--------~~~CP~Cr~~~   60 (159)
                      ..+.+...|.+|.++-.++|- ..|-|.||..|+..-        +-+||.|...+
T Consensus       531 ~enk~~~~C~lc~d~aed~i~-s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~L  585 (791)
T KOG1002|consen  531 DENKGEVECGLCHDPAEDYIE-SSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGL  585 (791)
T ss_pred             ccccCceeecccCChhhhhHh-hhhhHHHHHHHHHHHHHhhhcccCCCCccccccc
Confidence            446678999999999999865 478999999999543        24799998876

>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair

Probab=89.03  E-value=0.25  Score=31.07  Aligned_cols=37  Identities=16%  Similarity=0.347  Sum_probs=20.4

Q ss_pred             cccccccCCC--------ceeecc-CCceeccccccc---cCCCCCCCc
Q 042263           21 CPIWYQALKV--------PVSQSI-NGHIICSSCLAK---VNNKCPACR   57 (159)
Q Consensus        21 C~iC~~~l~~--------Pv~qC~-~GH~~C~~C~~~---~~~~CP~Cr   57 (159)
                      |--|...|..        ..|+|+ |++.||-.|-.=   .+.+||-|.
T Consensus         2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHE~LH~CPGC~   50 (51)
T PF07975_consen    2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDVFIHETLHNCPGCE   50 (51)
T ss_dssp             ETTTTEE-TTS-------EEE--TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred             CccCCCCCCCcccccccCCeEECCCCCCccccCcChhhhccccCCcCCC
Confidence            5567777765        368887 799999999433   236899884

It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.

>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=88.41  E-value=0.2  Score=43.21  Aligned_cols=44  Identities=25%  Similarity=0.512  Sum_probs=33.1

Q ss_pred             CCCeeecccccccCCCceeeccCCceec-cccccccCCCCCCCccCc
Q 042263           15 DQDLFDCPIWYQALKVPVSQSINGHIIC-SSCLAKVNNKCPACRSCV   60 (159)
Q Consensus        15 ~~~~l~C~iC~~~l~~Pv~qC~~GH~~C-~~C~~~~~~~CP~Cr~~~   60 (159)
                      ++....|.||.+-.+..++. +|||.-| -.|...+ .+||.||..|
T Consensus       302 ~~~p~lcVVcl~e~~~~~fv-pcGh~ccct~cs~~l-~~CPvCR~rI  346 (355)
T KOG1571|consen  302 LPQPDLCVVCLDEPKSAVFV-PCGHVCCCTLCSKHL-PQCPVCRQRI  346 (355)
T ss_pred             cCCCCceEEecCCccceeee-cCCcEEEchHHHhhC-CCCchhHHHH
Confidence            44467799999999988876 8899866 2333333 5799999987

>KOG0825 consensus PHD Zn-finger protein [General function prediction only]

Probab=88.33  E-value=0.057  Score=50.87  Aligned_cols=41  Identities=20%  Similarity=0.545  Sum_probs=29.1

Q ss_pred             ecccccccCCCceee--ccCCceeccccccccC---CCCCCCccCc
Q 042263           20 DCPIWYQALKVPVSQ--SINGHIICSSCLAKVN---NKCPACRSCV   60 (159)
Q Consensus        20 ~C~iC~~~l~~Pv~q--C~~GH~~C~~C~~~~~---~~CP~Cr~~~   60 (159)
                      .||+|..-+.+-...  =.|+|.||..|+..|.   .+||.||..+
T Consensus       125 ~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF  170 (1134)
T KOG0825|consen  125 QCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEF  170 (1134)
T ss_pred             hhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhh
Confidence            466666555443211  1579999999998874   6899999987

>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional

Probab=88.05  E-value=0.27  Score=40.22  Aligned_cols=24  Identities=21%  Similarity=0.340  Sum_probs=20.2

Q ss_pred             eeecccccccCC--CceeeccCCcee
Q 042263           18 LFDCPIWYQALK--VPVSQSINGHII   41 (159)
Q Consensus        18 ~l~C~iC~~~l~--~Pv~qC~~GH~~   41 (159)
                      .|.||+|..+|.  +..+.|.+||.|
T Consensus         2 ~~~CP~C~~~l~~~~~~~~C~~~h~f   27 (272)
T PRK11088          2 SYQCPLCHQPLTLEENSWICPQNHQF   27 (272)
T ss_pred             cccCCCCCcchhcCCCEEEcCCCCCC
Confidence            378999999995  456789999987

>PF04641 Rtf2: Rtf2 RING-finger

Probab=88.03  E-value=0.42  Score=39.28  Aligned_cols=46  Identities=22%  Similarity=0.429  Sum_probs=38.1

Q ss_pred             CCCeeecccccccCCC---ceeeccCCceeccccccccC--CCCCCCccCc
Q 042263           15 DQDLFDCPIWYQALKV---PVSQSINGHIICSSCLAKVN--NKCPACRSCV   60 (159)
Q Consensus        15 ~~~~l~C~iC~~~l~~---Pv~qC~~GH~~C~~C~~~~~--~~CP~Cr~~~   60 (159)
                      ....|.|||....|..   =|+.=+|||+|+..++..+.  ..||.|..++
T Consensus       110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k~~~~Cp~c~~~f  160 (260)
T PF04641_consen  110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELKKSKKCPVCGKPF  160 (260)
T ss_pred             CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhcccccccccCCcc
Confidence            4668999999999954   25555789999999999885  3799999997

>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=87.84  E-value=0.22  Score=43.78  Aligned_cols=33  Identities=30%  Similarity=0.602  Sum_probs=25.9

Q ss_pred             CCeeecccccccCCCc--eeeccCCceeccccccc
Q 042263           16 QDLFDCPIWYQALKVP--VSQSINGHIICSSCLAK   48 (159)
Q Consensus        16 ~~~l~C~iC~~~l~~P--v~qC~~GH~~C~~C~~~   48 (159)
                      ...++|.||++-....  ++.-+|+|.||.+|...
T Consensus       182 ~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kd  216 (445)
T KOG1814|consen  182 NSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKD  216 (445)
T ss_pred             hhcccceeeehhhcCcceeeecccchHHHHHHHHH
Confidence            3478999999988653  33348899999999875

>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines

Probab=87.29  E-value=0.27  Score=26.58  Aligned_cols=22  Identities=14%  Similarity=0.090  Sum_probs=12.1

Q ss_pred             ecccccccCCCceeecc-CCcee
Q 042263           20 DCPIWYQALKVPVSQSI-NGHII   41 (159)
Q Consensus        20 ~C~iC~~~l~~Pv~qC~-~GH~~   41 (159)
                      .||.|......-...|+ |||.|
T Consensus         2 ~CP~C~~~V~~~~~~Cp~CG~~F   24 (26)
T PF10571_consen    2 TCPECGAEVPESAKFCPHCGYDF   24 (26)
T ss_pred             cCCCCcCCchhhcCcCCCCCCCC
Confidence            36666666544444555 56554

Several members are annotated as putative helicases.

>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=87.06  E-value=0.14  Score=47.33  Aligned_cols=38  Identities=37%  Similarity=0.696  Sum_probs=29.2

Q ss_pred             CCeeecccccccCC----CceeeccCCceecccccccc-CCCCC
Q 042263           16 QDLFDCPIWYQALK----VPVSQSINGHIICSSCLAKV-NNKCP   54 (159)
Q Consensus        16 ~~~l~C~iC~~~l~----~Pv~qC~~GH~~C~~C~~~~-~~~CP   54 (159)
                      .+.+.|+||.+.+.    -|+.. .|||++|+.|.+++ +..||
T Consensus         9 ~~~l~c~ic~n~f~~~~~~Pvsl-~cghtic~~c~~~lyn~scp   51 (861)
T KOG3161|consen    9 VLLLLCDICLNLFVVQRLEPVSL-QCGHTICGHCVQLLYNASCP   51 (861)
T ss_pred             HHHhhchHHHHHHHHHhcCcccc-cccchHHHHHHHhHhhccCC
Confidence            45788999976653    46653 56999999999987 46788

>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]

Probab=86.96  E-value=0.2  Score=42.07  Aligned_cols=41  Identities=27%  Similarity=0.659  Sum_probs=29.8

Q ss_pred             ecccccc--cCCCce--eeccCCceeccccccccC----CCCCCCccCc
Q 042263           20 DCPIWYQ--ALKVPV--SQSINGHIICSSCLAKVN----NKCPACRSCV   60 (159)
Q Consensus        20 ~C~iC~~--~l~~Pv--~qC~~GH~~C~~C~~~~~----~~CP~Cr~~~   60 (159)
                      .||+|.-  ++.+.+  +.-+|||..|.+|...+-    +.||.|....
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iL   50 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVIL   50 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchh
Confidence            4888873  343332  233789999999999873    6899998876

>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

Probab=85.72  E-value=0.13  Score=49.58  Aligned_cols=46  Identities=28%  Similarity=0.572  Sum_probs=35.1

Q ss_pred             CCCeeecccccccCC-----Cceeecc-CCceecccccccc-----CCCCCCCccCc
Q 042263           15 DQDLFDCPIWYQALK-----VPVSQSI-NGHIICSSCLAKV-----NNKCPACRSCV   60 (159)
Q Consensus        15 ~~~~l~C~iC~~~l~-----~Pv~qC~-~GH~~C~~C~~~~-----~~~CP~Cr~~~   60 (159)
                      ....-+|+||+.++.     -|.-.|. |-|-|=.+|+-+|     ..+||.||..+
T Consensus      1466 fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRsei 1522 (1525)
T COG5219        1466 FSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEI 1522 (1525)
T ss_pred             cCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCcccccc
Confidence            344668999999985     3555664 7888888888887     26899999876

>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]

Probab=83.01  E-value=0.31  Score=45.49  Aligned_cols=40  Identities=33%  Similarity=0.622  Sum_probs=32.5

Q ss_pred             eecccccccCCCceeeccCCceeccccccccC-----CCCCCCccCc
Q 042263           19 FDCPIWYQALKVPVSQSINGHIICSSCLAKVN-----NKCPACRSCV   60 (159)
Q Consensus        19 l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~-----~~CP~Cr~~~   60 (159)
                      +.|++|.+ ...++ .-.|||.+|.+|+.+..     ..||.||..+
T Consensus       455 ~~c~ic~~-~~~~~-it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l  499 (674)
T KOG1001|consen  455 HWCHICCD-LDSFF-ITRCGHDFCVECLKKSIQQSENAPCPLCRNVL  499 (674)
T ss_pred             cccccccc-cccce-eecccchHHHHHHHhccccccCCCCcHHHHHH
Confidence            89999999 55554 45789999999998863     4699998875

>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1

Probab=82.68  E-value=1.5  Score=30.32  Aligned_cols=35  Identities=17%  Similarity=0.350  Sum_probs=25.7

Q ss_pred             eeCCCeeecccccccCCCc-eeeccCCceeccccccc
Q 042263           13 ISDQDLFDCPIWYQALKVP-VSQSINGHIICSSCLAK   48 (159)
Q Consensus        13 ~~~~~~l~C~iC~~~l~~P-v~qC~~GH~~C~~C~~~   48 (159)
                      +++.+.. |++|.+.+... +...++||.+-..|..+
T Consensus        74 ~i~~~~~-C~vC~k~l~~~~f~~~p~~~v~H~~C~~r  109 (109)
T PF10367_consen   74 VITESTK-CSVCGKPLGNSVFVVFPCGHVVHYSCIKR  109 (109)
T ss_pred             EECCCCC-ccCcCCcCCCceEEEeCCCeEEecccccC
Confidence            3444444 99999999755 44568899999999753

Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].

>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=82.66  E-value=1  Score=38.92  Aligned_cols=42  Identities=17%  Similarity=0.365  Sum_probs=34.3

Q ss_pred             eecccccccCCC--ceeeccCCceeccccccccC----CCCCCCccCc
Q 042263           19 FDCPIWYQALKV--PVSQSINGHIICSSCLAKVN----NKCPACRSCV   60 (159)
Q Consensus        19 l~C~iC~~~l~~--Pv~qC~~GH~~C~~C~~~~~----~~CP~Cr~~~   60 (159)
                      ..|.||+|-+..  -+..=+|+|.|=..|+.+|.    ..||.|+.++
T Consensus       230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di  277 (348)
T KOG4628|consen  230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDI  277 (348)
T ss_pred             ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcC
Confidence            489999998863  35555789999999999984    3499999987

>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454

Probab=82.53  E-value=0.3  Score=37.54  Aligned_cols=20  Identities=40%  Similarity=0.947  Sum_probs=17.4

Q ss_pred             eccccccccCCCCCCCccCc
Q 042263           41 ICSSCLAKVNNKCPACRSCV   60 (159)
Q Consensus        41 ~C~~C~~~~~~~CP~Cr~~~   60 (159)
                      ||+.|-.+...+||.|..+|
T Consensus        30 fC~kCG~~tI~~Cp~C~~~I   49 (158)
T PF10083_consen   30 FCSKCGAKTITSCPNCSTPI   49 (158)
T ss_pred             HHHHhhHHHHHHCcCCCCCC
Confidence            89999888767899999887

The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.

>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=81.89  E-value=0.9  Score=29.40  Aligned_cols=34  Identities=24%  Similarity=0.532  Sum_probs=17.9

Q ss_pred             CCCeeecccccccCCC--ceeecc-CCceeccccccc
Q 042263           15 DQDLFDCPIWYQALKV--PVSQSI-NGHIICSSCLAK   48 (159)
Q Consensus        15 ~~~~l~C~iC~~~l~~--Pv~qC~-~GH~~C~~C~~~   48 (159)
                      |.+.-.|.+|...|.-  .-+.|. ||++||+.|...
T Consensus         6 d~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~   42 (69)
T PF01363_consen    6 DSEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQ   42 (69)
T ss_dssp             GGG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-E
T ss_pred             CCCCCcCcCcCCcCCCceeeEccCCCCCEECCchhCC
Confidence            4556779999988742  235686 899999999865

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. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....

>PRK04023 DNA polymerase II large subunit; Validated

Probab=81.88  E-value=1.6  Score=42.48  Aligned_cols=50  Identities=20%  Similarity=0.392  Sum_probs=37.6

Q ss_pred             CCceEEEeeCCCeeecccccccCCCceeecc-CCc-----eeccccccccC-CCCCCCccCc
Q 042263            6 NGSITSTISDQDLFDCPIWYQALKVPVSQSI-NGH-----IICSSCLAKVN-NKCPACRSCV   60 (159)
Q Consensus         6 ~~~~~~~~~~~~~l~C~iC~~~l~~Pv~qC~-~GH-----~~C~~C~~~~~-~~CP~Cr~~~   60 (159)
                      .|.+++   +.....||-|....  +.+.|+ ||.     .||..|..... ..||.|....
T Consensus       617 ~g~~eV---EVg~RfCpsCG~~t--~~frCP~CG~~Te~i~fCP~CG~~~~~y~CPKCG~El  673 (1121)
T PRK04023        617 KGTIEV---EIGRRKCPSCGKET--FYRRCPFCGTHTEPVYRCPRCGIEVEEDECEKCGREP  673 (1121)
T ss_pred             CCceee---cccCccCCCCCCcC--CcccCCCCCCCCCcceeCccccCcCCCCcCCCCCCCC
Confidence            455544   44566799999886  456897 884     59999987765 5799999887

>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins

Probab=81.03  E-value=1.3  Score=27.62  Aligned_cols=27  Identities=22%  Similarity=0.165  Sum_probs=18.4

Q ss_pred             CCCCCCCCcceeChhHHHhHhhhhcCCce
Q 042263           92 CACPLLDCNFLGSASQLYLYFSWKNGKTF  120 (159)
Q Consensus        92 ~~Cp~~gC~~~g~~~~l~~H~~~~H~~~~  120 (159)
                      +.||+  |+......+|..|+.+.|....
T Consensus         3 f~CP~--C~~~~~~~~L~~H~~~~H~~~~   29 (54)
T PF05605_consen    3 FTCPY--CGKGFSESSLVEHCEDEHRSES   29 (54)
T ss_pred             cCCCC--CCCccCHHHHHHHHHhHCcCCC
Confidence            46776  7775555678888888777643

Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.

>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=80.15  E-value=0.79  Score=40.40  Aligned_cols=43  Identities=26%  Similarity=0.526  Sum_probs=33.7

Q ss_pred             eeecccccccCCCceeec----cCCceeccccccccC-----CCCCCCccCc
Q 042263           18 LFDCPIWYQALKVPVSQS----INGHIICSSCLAKVN-----NKCPACRSCV   60 (159)
Q Consensus        18 ~l~C~iC~~~l~~Pv~qC----~~GH~~C~~C~~~~~-----~~CP~Cr~~~   60 (159)
                      --.||||++-...|.-.|    .|||.|=+.|++++.     ..||.|...-
T Consensus         4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ka   55 (463)
T KOG1645|consen    4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKA   55 (463)
T ss_pred             cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChh
Confidence            357999998877664333    579999999999974     4799998765

>PRK14714 DNA polymerase II large subunit; Provisional

Probab=80.14  E-value=3  Score=41.63  Aligned_cols=51  Identities=24%  Similarity=0.471  Sum_probs=37.4

Q ss_pred             CCCceEEEeeCCCeeecccccccCCCceeecc-CCce-----eccccccccC------CCCCCCccCc
Q 042263            5 KNGSITSTISDQDLFDCPIWYQALKVPVSQSI-NGHI-----ICSSCLAKVN------NKCPACRSCV   60 (159)
Q Consensus         5 ~~~~~~~~~~~~~~l~C~iC~~~l~~Pv~qC~-~GH~-----~C~~C~~~~~------~~CP~Cr~~~   60 (159)
                      +.|.+.+-+   ..+.||-|......  ..|+ ||..     .|..|-.++.      ..||.|..+.
T Consensus       657 ~~G~ieVEV---~~rkCPkCG~~t~~--~fCP~CGs~te~vy~CPsCGaev~~des~a~~CP~CGtpl  719 (1337)
T PRK14714        657 EGGVIEVEV---GRRRCPSCGTETYE--NRCPDCGTHTEPVYVCPDCGAEVPPDESGRVECPRCDVEL  719 (1337)
T ss_pred             cCCeEEEEE---EEEECCCCCCcccc--ccCcccCCcCCCceeCccCCCccCCCccccccCCCCCCcc
Confidence            455665544   38999999986543  3687 8866     4999988763      2799999887

---

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	159
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	3e-05
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	1e-04
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	1e-04
2a25_A	193	Ubiquitin ligase SIAH1; protein-peptide complex, l	1e-04
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	2e-04
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	3e-04
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	4e-04

>3knv_A TNF receptor-associated factor 2; cross-brace, alternative splicing, apoptosis, cytoplasm, metal-binding, UBL conjugation, zinc, zinc-finger; 1.90A {Homo sapiens} Length = 141

 Score = 40.5 bits (94), Expect = 3e-05
 Identities = 20/97 (20%), Positives = 31/97 (31%), Gaps = 8/97 (8%)

Query: 17  DLFDCPIWYQALKVPVSQSINGHIICSSCLAK----VNNKCPACRSCVMLRSRVMDIALE 72
             + C      L+ P  Q+  GH  CS CLA         C AC    +    +  +   
Sbjct: 30  AKYLCSACRNVLRRPF-QAQCGHRYCSFCLASILSSGPQNCAACVHEGIYEEGISILESS 88

Query: 73  KTMSFGENKDHERNCQCAPCACPLLDCNFLGSASQLY 109
                  +    R  +  P  CP   C + G+  +  
Sbjct: 89  SAF---PDNAARREVESLPAVCPSDGCTWKGTLKEYE 122

>3hct_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha, coiled coil, cytoplasm, metal- binding, UBL conjugation, UBL conjugation pathway; 2.10A {Homo sapiens} PDB: 3hcu_A 2eci_A 2jmd_A Length = 118

 Score = 38.6 bits (90), Expect = 1e-04
 Identities = 21/97 (21%), Positives = 36/97 (37%), Gaps = 21/97 (21%)

Query: 19  FDCPIWYQALKVPVSQSINGHIICSSCLAKV----NNKCPACRSCVMLRSRVMDIALEK- 73
           ++CPI   AL+  V Q+  GH  C +C+ K      +KCP     ++      D   ++ 
Sbjct: 19  YECPICLMALREAV-QTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFPDNFAKRE 77

Query: 74  ---------------TMSFGENKDHERNCQCAPCACP 95
                           M     +DH+ +C+ A     
Sbjct: 78  ILSLMVKCPNEGCLHKMELRHLEDHQAHCEFALLEHH 114

>1jm7_B BARD1, BRCA1-associated ring domain protein 1; ring finger, zinc-binding protein, heterodimer, ubiquitin ligase, antitumor; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 117

 Score = 38.3 bits (89), Expect = 1e-04
 Identities = 13/50 (26%), Positives = 21/50 (42%), Gaps = 1/50 (2%)

Query: 16 QDLFDCPIWYQALKVPVSQSINGHIICSSCLAKV-NNKCPACRSCVMLRS 64
          + L  C      L+ PV      HI CS+C++      CP C +   ++ 
Sbjct: 20 EKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIGTGCPVCYTPAWIQD 69

>2a25_A Ubiquitin ligase SIAH1; protein-peptide complex, ligase; 2.20A {Homo sapiens} PDB: 2an6_A 1k2f_A Length = 193

 Score = 39.4 bits (91), Expect = 1e-04
 Identities = 20/86 (23%), Positives = 28/86 (32%), Gaps = 4/86 (4%)

Query: 72  EKTMSFGENKDHERNCQCAP--CACPLLDCNFLGSASQLYLYFSW--KNGKTFVSFTYKK 127
           E T+   E  DHE  C+  P  C CP   C + GS   +  +     K+  T        
Sbjct: 17  EITLPHTEKADHEELCEFRPYSCPCPGASCKWQGSLDAVMPHLMHQHKSITTLQGEDIVF 76

Query: 128 RVKVTLNVNDSVFLFRQQKNGHLFSL 153
                       ++  Q   G  F L
Sbjct: 77  LATDINLPGAVDWVMMQSCFGFHFML 102

>3ng2_A RNF4, snurf, ring finger protein 4; ring domain, E3 ligase, ubiquitylation, sumoylation, zinc-FI metal binding protein; 1.80A {Rattus norvegicus} Length = 71

 Score = 37.1 bits (86), Expect = 2e-04
 Identities = 17/64 (26%), Positives = 22/64 (34%), Gaps = 9/64 (14%)

Query: 10 TSTISDQDLFDCPIWYQALKVPVSQSIN------GHIICSSCLA---KVNNKCPACRSCV 60
          T+ +       CPI        V           GH+ CS CL    K  N CP CR  +
Sbjct: 2  TTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 61

Query: 61 MLRS 64
            + 
Sbjct: 62 NHKR 65

>2d8t_A Dactylidin, ring finger protein 146; RNF146, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 71

 Score = 36.7 bits (85), Expect = 3e-04
 Identities = 15/57 (26%), Positives = 22/57 (38%), Gaps = 4/57 (7%)

Query: 7  GSITSTISDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKV---NNKCPACRSCV 60
          GS  +T     + +C I  Q    PVS     H+ C  C+        +C  CR  +
Sbjct: 4  GSSGNTAPSLTVPECAICLQTCVHPVSLPC-KHVFCYLCVKGASWLGKRCALCRQEI 59

>3lrq_A E3 ubiquitin-protein ligase TRIM37; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; HET: MSE; 2.29A {Homo sapiens} Length = 100

 Score = 36.8 bits (85), Expect = 4e-04
 Identities = 14/53 (26%), Positives = 23/53 (43%), Gaps = 4/53 (7%)

Query: 16 QDLFDCPIWYQALKVPVSQSINGHIICSSC----LAKVNNKCPACRSCVMLRS 64
           ++F C I  + L+          + C SC    L +   +CP CR+ + LR 
Sbjct: 20 AEVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLRE 72

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	159
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	99.79
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.57
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	99.51
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.49
2a25_A	193	Ubiquitin ligase SIAH1; protein-peptide complex, l	99.38
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.11
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.09
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	99.07
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.06
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.04
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.01
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	99.01
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.01
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.0
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	98.98
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	98.97
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	98.97
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	98.95
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	98.94
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	98.94
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	98.93
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	98.92
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	98.91
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	98.91
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	98.89
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	98.87
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	98.87
1z6u_A	150	NP95-like ring finger protein isoform B; structura	98.85
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	98.83
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.81
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	98.81
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	98.81
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.81
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	98.77
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	98.77
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	98.76
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	98.76
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	98.75
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.72
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.71
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	98.68
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	98.67
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	98.67
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	98.63
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.63
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.62
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	98.62
2ect_A	78	Ring finger protein 126; metal binding protein, st	98.6
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	98.57
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	98.56
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	98.56
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.54
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	98.53
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.52
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.48
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	98.41
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	98.41
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	98.35
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	98.34
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	98.32
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.27
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.16
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.15
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.1
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	97.95
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	97.73
2yuc_A	76	TNF receptor-associated factor 4; ZF-TRAF, cystein	97.67
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	97.61
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	97.32
2yre_A	100	F-box only protein 30; zinc binding, E3 ubiquitin	96.85
2yuc_A	76	TNF receptor-associated factor 4; ZF-TRAF, cystein	96.76
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	96.7
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	96.29
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	95.92
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	95.84
2d9k_A	75	FLN29 gene product; zinc finger, ZF-TRAF, structur	94.59
2d9k_A	75	FLN29 gene product; zinc finger, ZF-TRAF, structur	94.28
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	92.14
2cup_A	101	Skeletal muscle LIM-protein 1; four and half LIM d	90.87
2jne_A	101	Hypothetical protein YFGJ; zinc fingers, two zinc,	89.61
1wg2_A	64	Zinc finger (AN1-like) family protein; riken struc	88.23
2xqn_T	126	Testin, TESS; metal-binding protein, cytoskeleton,	87.04
1wfh_A	64	Zinc finger (AN1-like) family protein; ZF-AN1 doma	86.3
2ct7_A	86	Ring finger protein 31; IBR, structural genomics,	86.28
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	84.05
2jrp_A	81	Putative cytoplasmic protein; two-zinc binding pro	83.81
1z2q_A	84	LM5-1; membrane protein, FYVE domain, zinc-finger;	83.75
2yw8_A	82	RUN and FYVE domain-containing protein 1; structur	83.65
1z60_A	59	TFIIH basal transcription factor complex P44 subun	83.59
1x61_A	72	Thyroid receptor interacting protein 6; LIM domain	82.68
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	82.46
1joc_A	125	EEA1, early endosomal autoantigen 1; FYVE domain,	82.46
2jmo_A	80	Parkin; IBR, E3 ligase, zinc binding domain, RBR;	82.45
1iml_A	76	CRIP, cysteine rich intestinal protein; metal-bind	82.16
1x4u_A	84	Zinc finger, FYVE domain containing 27 isoform B;	81.1
2eod_A	66	TNF receptor-associated factor 4; zinc binding, NF	80.09

>3hcs_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha, coiled coil, cytoplasm, metal- binding, UBL conjugation, UBL conjugation pathway; 2.20A {Homo sapiens}

Probab=99.79  E-value=5.1e-20  Score=140.24  Aligned_cols=105  Identities=22%  Similarity=0.448  Sum_probs=90.6

Q ss_pred             eCCCeeecccccccCCCceeeccCCceeccccccccC----CCCCCCccCc----chhhHHHHHHHH------------h
Q 042263           14 SDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN----NKCPACRSCV----MLRSRVMDIALE------------K   73 (159)
Q Consensus        14 ~~~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~----~~CP~Cr~~~----~~rn~~le~~~~------------~   73 (159)
                      .-.+.|.||||+++|.+|+. ++|||+||..|+.++.    .+||.||.++    ..++.++++++.            .
T Consensus        14 ~~~~~~~C~IC~~~~~~pv~-~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~i~~l~v~C~n~GC~~   92 (170)
T 3hcs_A           14 PLESKYECPICLMALREAVQ-TPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFPDNFAKREILSLMVKCPNEGCLH   92 (170)
T ss_dssp             CCCGGGBCTTTCSBCSSEEE-CTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGGCEECHHHHHHHHTSEEECCSTTCCC
T ss_pred             CCCCCCCCCCCChhhcCcEE-CCCCCHHHHHHHHHHHHhCCCCCCCCccCcchhhhhhhHHHHHHHhhcccCCCCCCCCc
Confidence            34568999999999999965 7999999999999874    4899999998    246778888777            4


Q ss_pred             hccCCCchhhhccCCCCCCCCCCCCCcceeChhHHHhHhhhhcCCceE
Q 042263           74 TMSFGENKDHERNCQCAPCACPLLDCNFLGSASQLYLYFSWKNGKTFV  121 (159)
Q Consensus        74 ~~~~~~~~~He~~C~~~p~~Cp~~gC~~~g~~~~l~~H~~~~H~~~~~  121 (159)
                      ++++.++++|+++|+|+++.||  +|+|.+.+.+|..|+....+.+.+
T Consensus        93 ~~~~~~l~~H~~~C~~~~v~C~--~C~~~~~r~~l~~H~~~~C~~r~~  138 (170)
T 3hcs_A           93 KMELRHLEDHQAHCEFALMDCP--QCQRPFQKFHINIHILKDCPRRQV  138 (170)
T ss_dssp             EEEGGGHHHHHTTCTTSEEECT--TTCCEEEGGGHHHHHHHTCTTCEE
T ss_pred             eecHhHHHHHHhcCCceeeECC--CCChHHHHHHHHHHhhhhCCCCCe
Confidence            6778899999999999999998  799999999999999877776654

>3hct_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha, coiled coil, cytoplasm, metal- binding, UBL conjugation, UBL conjugation pathway; 2.10A {Homo sapiens} PDB: 3hcu_A 2eci_A 2jmd_A

Probab=99.57  E-value=4.9e-16  Score=111.92  Aligned_cols=88  Identities=20%  Similarity=0.342  Sum_probs=71.8

Q ss_pred             CCCeeecccccccCCCceeeccCCceeccccccccC----CCCCCCccCc----chhhHHHHHHHHhhccCCCchhhhcc
Q 042263           15 DQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN----NKCPACRSCV----MLRSRVMDIALEKTMSFGENKDHERN   86 (159)
Q Consensus        15 ~~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~----~~CP~Cr~~~----~~rn~~le~~~~~~~~~~~~~~He~~   86 (159)
                      -.+.+.|+||++++.+|+. ..|||+||..|+.++.    ..||.||.++    ..++..+++++...            
T Consensus        15 ~~~~~~C~IC~~~~~~p~~-~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~l~~~i~~l------------   81 (118)
T 3hct_A           15 LESKYECPICLMALREAVQ-TPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFPDNFAKREILSL------------   81 (118)
T ss_dssp             CCGGGBCTTTCSBCSSEEE-CTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGGCEECHHHHHHHHTS------------
T ss_pred             CCCCCCCCcCChhhcCeEE-CCcCChhhHHHHHHHHhhCCCCCCCCCCCcCHHhcccCHHHHHHHccc------------
Confidence            3457899999999999976 4899999999998863    3899999998    23567777776533            


Q ss_pred             CCCCCCCCCCCCCcceeChhHHHhHhhhhcCCc
Q 042263           87 CQCAPCACPLLDCNFLGSASQLYLYFSWKNGKT  119 (159)
Q Consensus        87 C~~~p~~Cp~~gC~~~g~~~~l~~H~~~~H~~~  119 (159)
                          .++||+.||+|+|...++..|+...+...
T Consensus        82 ----~v~C~n~gC~~~~~~~~l~~H~~~c~~~~  110 (118)
T 3hct_A           82 ----MVKCPNEGCLHKMELRHLEDHQAHCEFAL  110 (118)
T ss_dssp             ----EEECSSTTCCCEEEGGGSGGGTSSSCC--
T ss_pred             ----eeECCCCCCCCEEeeHHHHHHHHHchhhh
Confidence                45898889999999999999998877653

>3knv_A TNF receptor-associated factor 2; cross-brace, alternative splicing, apoptosis, cytoplasm, metal-binding, UBL conjugation, zinc, zinc-finger; 1.90A {Homo sapiens}

Probab=99.51  E-value=1.4e-15  Score=113.36  Aligned_cols=82  Identities=23%  Similarity=0.451  Sum_probs=65.6

Q ss_pred             CCeeecccccccCCCceeeccCCceeccccccccC----CCCCCCccCc-c------------hhhHHHHHHHHhhccCC
Q 042263           16 QDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN----NKCPACRSCV-M------------LRSRVMDIALEKTMSFG   78 (159)
Q Consensus        16 ~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~----~~CP~Cr~~~-~------------~rn~~le~~~~~~~~~~   78 (159)
                      .+.+.||||+++|.+|+. ..|||+||..|+.++.    ..||.||.++ .            .++..+++.+.+.    
T Consensus        29 ~~~~~C~IC~~~~~~pv~-~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~l~~~~~~~d~~~~~~i~~L----  103 (141)
T 3knv_A           29 EAKYLCSACRNVLRRPFQ-AQCGHRYCSFCLASILSSGPQNCAACVHEGIYEEGISILESSSAFPDNAARREVESL----  103 (141)
T ss_dssp             CGGGBCTTTCSBCSSEEE-CTTSCEEEHHHHHHHGGGSCEECHHHHHTTCCCTTTTEECGGGCEECHHHHHHHHTS----
T ss_pred             CcCcCCCCCChhhcCcEE-CCCCCccCHHHHHHHHhcCCCCCCCCCCcccccccccccchhhhcccHHHHHHHccc----
Confidence            467899999999999965 6899999999999874    3799999974 1            1455566655422    


Q ss_pred             CchhhhccCCCCCCCCCCCCCcceeChhHHHh-Hhhh
Q 042263           79 ENKDHERNCQCAPCACPLLDCNFLGSASQLYL-YFSW  114 (159)
Q Consensus        79 ~~~~He~~C~~~p~~Cp~~gC~~~g~~~~l~~-H~~~  114 (159)
                                  .++||+.||+|+|...++.. |+..
T Consensus       104 ------------~v~Cpn~GC~~~~~l~~l~~~H~~~  128 (141)
T 3knv_A          104 ------------PAVCPSDGCTWKGTLKEYESCHEGR  128 (141)
T ss_dssp             ------------EEECCSTTCCCEEEHHHHHHHTTTC
T ss_pred             ------------ccccCCCCCCCEeEHHHHHHHHHHH
Confidence                        45899899999999999998 9864

>1rmd_A RAG1; V(D)J recombination, antibody, MAD, ring finger, zinc binuclear cluster, zinc finger, DNA-binding protein; 2.10A {Mus musculus} SCOP: g.37.1.1 g.44.1.1

Probab=99.49  E-value=7.3e-15  Score=105.11  Aligned_cols=82  Identities=24%  Similarity=0.392  Sum_probs=65.5

Q ss_pred             CeeecccccccCCCceeeccCCceeccccccccC----CCCCCCccCc-c----hhhHHHHHHHHhhccCCCchhhhccC
Q 042263           17 DLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN----NKCPACRSCV-M----LRSRVMDIALEKTMSFGENKDHERNC   87 (159)
Q Consensus        17 ~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~----~~CP~Cr~~~-~----~rn~~le~~~~~~~~~~~~~~He~~C   87 (159)
                      +.+.||||++++.+|+. .+|||+||..|+.++.    ..||.||.++ .    ..+..+++++...             
T Consensus        22 ~~~~C~IC~~~~~~p~~-~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~l~~~i~~l-------------   87 (116)
T 1rmd_A           22 KSISCQICEHILADPVE-TSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESPVKSFLNILNSL-------------   87 (116)
T ss_dssp             HHTBCTTTCSBCSSEEE-CTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCBCCCHHHHHHHHHC-------------
T ss_pred             CCCCCCCCCcHhcCcEE-cCCCCcccHHHHHHHHhHCcCcCCCCCCCCCHhhccccHHHHHHHHHHh-------------
Confidence            46889999999999976 5899999999998763    4799999998 1    2244555555422             


Q ss_pred             CCCCCCCCCCCCcceeChhHHHhHhhhh
Q 042263           88 QCAPCACPLLDCNFLGSASQLYLYFSWK  115 (159)
Q Consensus        88 ~~~p~~Cp~~gC~~~g~~~~l~~H~~~~  115 (159)
                         .+.||+.||+|.+...++..|+...
T Consensus        88 ---~v~C~~~gC~~~~~~~~~~~H~~~C  112 (116)
T 1rmd_A           88 ---MVKCPAQDCNEEVSLEKYNHHVSSH  112 (116)
T ss_dssp             ---EEECCSTTCCCEEEHHHHHHHHHTS
T ss_pred             ---cCCCCCCCCcchhhHhHHHHHHHHh
Confidence               3478888999999999999999764

>2a25_A Ubiquitin ligase SIAH1; protein-peptide complex, ligase; 2.20A {Homo sapiens} PDB: 2an6_A 1k2f_A

Probab=99.38  E-value=6.1e-13  Score=103.86  Aligned_cols=80  Identities=21%  Similarity=0.341  Sum_probs=40.6

Q ss_pred             hhccCCCchhhhccCCCCCCCCCCCC--CcceeChhHHHhHhhhhcCCceEEEEeCcEEE-EEEeCC----CcEEEEEEc
Q 042263           73 KTMSFGENKDHERNCQCAPCACPLLD--CNFLGSASQLYLYFSWKNGKTFVSFTYKKRVK-VTLNVN----DSVFLFRQQ  145 (159)
Q Consensus        73 ~~~~~~~~~~He~~C~~~p~~Cp~~g--C~~~g~~~~l~~H~~~~H~~~~~~~~~~~~~~-~~~~~~----~~~~~l~~~  145 (159)
                      ++++|.++.+||++|+|+|+.||.+|  |+|+|..++|..|+.++|+|..+  ..|..+. +..+.+    .+.. +...
T Consensus        18 ~~~~y~~~~~He~~C~f~p~~Cp~~g~~C~~~G~~~~l~~H~~~~H~~~~~--~~g~~i~f~~~~~~l~~~~~~~-~v~~   94 (193)
T 2a25_A           18 ITLPHTEKADHEELCEFRPYSCPCPGASCKWQGSLDAVMPHLMHQHKSITT--LQGEDIVFLATDINLPGAVDWV-MMQS   94 (193)
T ss_dssp             ------------------CEECCCC--CCCCEECSTTHHHHHHHHCTTSCE--EESSEEEEEEECCC----CEEE-EEEE
T ss_pred             cccccccccchhhcCCCCCccCCCCCCCCcCCCCHHHHHHHHHHHCCCcce--ecCceEEEEecccccccceeEE-EEEE
Confidence            67889999999999999999999986  99999999999999999998432  2222211 222222    2333 3335


Q ss_pred             CCCcEEEEEc
Q 042263          146 KNGHLFSLKN  155 (159)
Q Consensus       146 ~d~~lF~l~~  155 (159)
                      .+|+.|+|.+
T Consensus        95 ~~g~~Fll~~  104 (193)
T 2a25_A           95 CFGFHFMLVL  104 (193)
T ss_dssp             ETTEEEEEEE
T ss_pred             ecCceEEEEE
Confidence            6788777753

>3lrq_A E3 ubiquitin-protein ligase TRIM37; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; HET: MSE; 2.29A {Homo sapiens}

Probab=99.11  E-value=9.4e-12  Score=87.02  Aligned_cols=68  Identities=22%  Similarity=0.477  Sum_probs=49.0

Q ss_pred             CeeecccccccCCCceeeccCCceeccccccccC----CCCCCCccCc----chhhHHHHHHHH--hhccCCCchhhh
Q 042263           17 DLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN----NKCPACRSCV----MLRSRVMDIALE--KTMSFGENKDHE   84 (159)
Q Consensus        17 ~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~----~~CP~Cr~~~----~~rn~~le~~~~--~~~~~~~~~~He   84 (159)
                      +.+.|+||++++.+|+..-.|||.||..|+.++.    ..||.||.++    ..+++.++.+++  +.+....+..|+
T Consensus        21 ~~~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~l~~~~~~~~i~~~~~~l~~~~~~~~~   98 (100)
T 3lrq_A           21 EVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLRELVNCRWAEEVTQQLDTLQLCSLTKHE   98 (100)
T ss_dssp             HHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCEECTTHHHHHHHHHHHCC-------
T ss_pred             CCCCCccCCccccCccccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCCHHHhHhhHHHHHHHHHHHHHHHHHhhhhc
Confidence            5789999999999998745789999999999873    4799999998    345677777766  445555555554

>1t1h_A Gspef-atpub14, armadillo repeat containing protein; ubiquitin ligase, E3 ligase, U-BOX,; NMR {Arabidopsis thaliana} SCOP: g.44.1.2

Probab=99.09  E-value=1.5e-11  Score=81.68  Aligned_cols=56  Identities=23%  Similarity=0.440  Sum_probs=46.8

Q ss_pred             CCeeecccccccCCCceeeccCCceeccccccccC----CCCCCCccCc----chhhHHHHHHHH
Q 042263           16 QDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN----NKCPACRSCV----MLRSRVMDIALE   72 (159)
Q Consensus        16 ~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~----~~CP~Cr~~~----~~rn~~le~~~~   72 (159)
                      ++.+.||||+++|.+|+.. .|||+||..|+.++.    ..||.||.++    ...|..++++++
T Consensus         6 ~~~~~C~IC~~~~~~Pv~~-~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~~~l~~n~~l~~~i~   69 (78)
T 1t1h_A            6 PEYFRCPISLELMKDPVIV-STGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLTPNYVLKSLIA   69 (78)
T ss_dssp             SSSSSCTTTSCCCSSEEEE-TTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCCEECTTTHHHHH
T ss_pred             cccCCCCCccccccCCEEc-CCCCeecHHHHHHHHHHCcCCCCCCcCCCChhhCccCHHHHHHHH
Confidence            5689999999999999875 799999999998763    4699999998    345777777766

>1jm7_B BARD1, BRCA1-associated ring domain protein 1; ring finger, zinc-binding protein, heterodimer, ubiquitin ligase, antitumor; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=99.07  E-value=6.7e-11  Score=84.69  Aligned_cols=57  Identities=26%  Similarity=0.576  Sum_probs=48.8

Q ss_pred             CCeeecccccccCCCceeeccCCceeccccccccC-CCCCCCccCc----chhhHHHHHHHH
Q 042263           16 QDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN-NKCPACRSCV----MLRSRVMDIALE   72 (159)
Q Consensus        16 ~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~-~~CP~Cr~~~----~~rn~~le~~~~   72 (159)
                      .+.+.||||++++.+|+....|||+||..|+.++. ..||.||.++    ...|..+.++++
T Consensus        20 ~~~~~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~~~CP~Cr~~~~~~~~~~n~~l~~l~~   81 (117)
T 1jm7_B           20 EKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIGTGCPVCYTPAWIQDLKINRQLDSMIQ   81 (117)
T ss_dssp             HHTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTTTBCSSSCCBCSCSSCCCCHHHHHHHH
T ss_pred             hhCCCCCCCChHhhCccEeCCCCCHHHHHHHHHHhcCCCcCCCCcCccccccccHHHHHHHH
Confidence            35789999999999998765789999999999876 4899999998    355888888877

>3ztg_A E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mRNA processing, mRNA splicing; NMR {Homo sapiens}

Probab=99.06  E-value=4.4e-11  Score=81.74  Aligned_cols=56  Identities=20%  Similarity=0.463  Sum_probs=47.4

Q ss_pred             CCeeecccccccCCCceeecc-CCceeccccccccC-----CCCCCCccCc-----chhhHHHHHHHH
Q 042263           16 QDLFDCPIWYQALKVPVSQSI-NGHIICSSCLAKVN-----NKCPACRSCV-----MLRSRVMDIALE   72 (159)
Q Consensus        16 ~~~l~C~iC~~~l~~Pv~qC~-~GH~~C~~C~~~~~-----~~CP~Cr~~~-----~~rn~~le~~~~   72 (159)
                      .+.+.||||+++|.+|+.. + |||+||..|+.++.     ..||.||.++     ...|..++++++
T Consensus        11 ~~~~~C~IC~~~~~~p~~~-~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~n~~l~~~i~   77 (92)
T 3ztg_A           11 PDELLCLICKDIMTDAVVI-PCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDALIANKFLRQAVN   77 (92)
T ss_dssp             CTTTEETTTTEECSSCEEC-TTTCCEECHHHHHHHHHHCTTCCCTTTCCSSCCTTSCEECHHHHHHHH
T ss_pred             CcCCCCCCCChhhcCceEC-CCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCCCccccCcCHHHHHHHH
Confidence            5679999999999999875 6 89999999998763     4799999986     346888888877

>2egp_A Tripartite motif-containing protein 34; ZF-C3HC4 domain, tripartite motif protein 34, interferon- responsive finger protein 1; NMR {Homo sapiens}

Probab=99.04  E-value=8.5e-12  Score=82.75  Aligned_cols=54  Identities=28%  Similarity=0.612  Sum_probs=42.7

Q ss_pred             CCCeeecccccccCCCceeeccCCceeccccccccC----------CCCCCCccCc----chhhHHHHH
Q 042263           15 DQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN----------NKCPACRSCV----MLRSRVMDI   69 (159)
Q Consensus        15 ~~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~----------~~CP~Cr~~~----~~rn~~le~   69 (159)
                      ..+.+.|+||++.+.+|+. .+|||.||..|+.++.          ..||.||.++    ..+|..+++
T Consensus         9 ~~~~~~C~IC~~~~~~p~~-l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~~~l~~n~~l~~   76 (79)
T 2egp_A            9 VQEEVTCPICLELLTEPLS-LDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFEHLQANQHLAN   76 (79)
T ss_dssp             CCCCCEETTTTEECSSCCC-CSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCSSGGGTCSSSCC
T ss_pred             cccCCCCcCCCcccCCeeE-CCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCHhhCCcCHHHHH
Confidence            4568899999999999976 4899999999998753          3699999998    234544443

>2y43_A E3 ubiquitin-protein ligase RAD18; DNA repair, metal-binding, translesion synthesis, UB conjugation pathway; 1.80A {Homo sapiens}

Probab=99.01  E-value=5.7e-11  Score=82.42  Aligned_cols=56  Identities=27%  Similarity=0.634  Sum_probs=47.5

Q ss_pred             CeeecccccccCCCceeeccCCceeccccccccC---CCCCCCccCc----chhhHHHHHHHH
Q 042263           17 DLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN---NKCPACRSCV----MLRSRVMDIALE   72 (159)
Q Consensus        17 ~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~----~~rn~~le~~~~   72 (159)
                      +.+.|+||++.+.+|+..-.|||.||..|+.++.   ..||.||.++    ..+|..++++++
T Consensus        21 ~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~l~~n~~l~~~i~   83 (99)
T 2y43_A           21 DLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTEPDLKNNRILDELVK   83 (99)
T ss_dssp             HHTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBCCGGGCEECHHHHHHHH
T ss_pred             CCCCcccCChhhCCcCEECCCCCHhhHHHHHHHHHCCCCCCCCCCcCChhhCCcCHHHHHHHH
Confidence            4689999999999997754789999999998863   5799999998    346888888877

>1bor_A Transcription factor PML; proto-oncogene, nuclear bodies (PODS), leukemia, transcription regulation; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=99.01  E-value=1.5e-10  Score=72.77  Aligned_cols=45  Identities=24%  Similarity=0.515  Sum_probs=39.9

Q ss_pred             CCCeeecccccccCCCceeeccCCceeccccccccCCCCCCCccCc
Q 042263           15 DQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPACRSCV   60 (159)
Q Consensus        15 ~~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~~~CP~Cr~~~   60 (159)
                      +.+.+.|+||++.+.+|+.. +|||+||..|+.+....||.||.++
T Consensus         3 e~~~~~C~IC~~~~~~p~~l-~CgH~fC~~Ci~~~~~~CP~Cr~~~   47 (56)
T 1bor_A            3 EFQFLRCQQCQAEAKCPKLL-PCLHTLCSGCLEASGMQCPICQAPW   47 (56)
T ss_dssp             SCCCSSCSSSCSSCBCCSCS-TTSCCSBTTTCSSSSSSCSSCCSSS
T ss_pred             cccCCCceEeCCccCCeEEc-CCCCcccHHHHccCCCCCCcCCcEe
Confidence            56788999999999999764 7899999999988667899999987

>2kre_A Ubiquitin conjugation factor E4 B; U-box domain, E3 ubiquitin ligase, E4 polyubiquitin chain EL factor, phosphoprotein, UBL conjugation pathway; NMR {Homo sapiens} PDB: 3l1x_A 3l1z_B

Probab=99.01  E-value=1.1e-10  Score=82.08  Aligned_cols=58  Identities=17%  Similarity=0.174  Sum_probs=49.5

Q ss_pred             CCeeecccccccCCCceeeccCCceeccccccccC---CCCCCCccCc----chhhHHHHHHHHhh
Q 042263           16 QDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN---NKCPACRSCV----MLRSRVMDIALEKT   74 (159)
Q Consensus        16 ~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~----~~rn~~le~~~~~~   74 (159)
                      ++.|.||||+++|++||.. .+||+||.+|+.+++   ..||.|+.++    ...|..+.++++..
T Consensus        27 p~~~~CpI~~~~m~dPV~~-~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~L~pn~~Lk~~I~~~   91 (100)
T 2kre_A           27 PDEFRDPLMDTLMTDPVRL-PSGTIMDRSIILRHLLNSPTDPFNRQTLTESMLEPVPELKEQIQAW   91 (100)
T ss_dssp             STTTBCTTTCSBCSSEEEE-TTTEEEEHHHHHHHTTSCSBCSSSCCBCCTTSSEECHHHHHHHHHH
T ss_pred             cHhhCCcCccCcccCCeEC-CCCCEEchHHHHHHHHcCCCCCCCCCCCChhhceECHHHHHHHHHH
Confidence            5689999999999999875 689999999999875   5799999998    45688888877743

>4ayc_A E3 ubiquitin-protein ligase RNF8; DNA damage, K63 chains; HET: CPQ; 1.90A {Homo sapiens} PDB: 4epo_C

Probab=99.00  E-value=9.1e-11  Score=86.35  Aligned_cols=55  Identities=25%  Similarity=0.470  Sum_probs=43.7

Q ss_pred             CeeecccccccCCCceeeccCCceeccccccccC---CCCCCCccCc--chhhHHHHHHHH
Q 042263           17 DLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN---NKCPACRSCV--MLRSRVMDIALE   72 (159)
Q Consensus        17 ~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~--~~rn~~le~~~~   72 (159)
                      +.+.||||++++.+|+.. +|||.||..|+.++.   ..||.||.++  ...+..++.+++
T Consensus        52 ~~~~C~iC~~~~~~~~~~-~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~i~  111 (138)
T 4ayc_A           52 NELQCIICSEYFIEAVTL-NCAHSFCSYCINEWMKRKIECPICRKDIKSKTYSLVLDNCIN  111 (138)
T ss_dssp             HHSBCTTTCSBCSSEEEE-TTSCEEEHHHHHHHTTTCSBCTTTCCBCCCEEECHHHHHHHH
T ss_pred             ccCCCcccCcccCCceEC-CCCCCccHHHHHHHHHcCCcCCCCCCcCCCCCCccchhHHHH
Confidence            457899999999999874 799999999998874   5799999998  334555554444

>3fl2_A E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA damage, DNA repair, ring finger domain, metal binding, DNA replication; 1.75A {Homo sapiens}

Probab=98.98  E-value=1.2e-10  Score=84.04  Aligned_cols=60  Identities=23%  Similarity=0.561  Sum_probs=49.6

Q ss_pred             CCeeecccccccCCCceeeccCCceeccccccccC----CCCCCCccCc-----chhhHHHHHHHHhhcc
Q 042263           16 QDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN----NKCPACRSCV-----MLRSRVMDIALEKTMS   76 (159)
Q Consensus        16 ~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~----~~CP~Cr~~~-----~~rn~~le~~~~~~~~   76 (159)
                      .+.+.||||++++.+|+.. +|||+||..|+.++.    ..||.||.++     ...|..+.++++..++
T Consensus        50 ~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~n~~l~~~i~~~~p  118 (124)
T 3fl2_A           50 EETFQCICCQELVFRPITT-VCQHNVCKDCLDRSFRAQVFSCPACRYDLGRSYAMQVNQPLQTVLNQLFP  118 (124)
T ss_dssp             HHHTBCTTTSSBCSSEEEC-TTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTTCCCCCCHHHHHHHHHHST
T ss_pred             ccCCCCCcCChHHcCcEEe-eCCCcccHHHHHHHHhHCcCCCCCCCccCCCCCCCCCCHHHHHHHHHHcc
Confidence            3468899999999999875 899999999998763    3899999998     2468888888875554

>2ysl_A Tripartite motif-containing protein 31; ring-type zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.97  E-value=1.8e-10  Score=75.19  Aligned_cols=45  Identities=36%  Similarity=0.795  Sum_probs=39.4

Q ss_pred             CCCeeecccccccCCCceeeccCCceeccccccccCC------CCCCCccCc
Q 042263           15 DQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNN------KCPACRSCV   60 (159)
Q Consensus        15 ~~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~~------~CP~Cr~~~   60 (159)
                      ..+.+.|+||++.+.+|+.. .|||.||..|+.++..      .||.||.++
T Consensus        17 ~~~~~~C~IC~~~~~~~~~~-~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~   67 (73)
T 2ysl_A           17 LQEEVICPICLDILQKPVTI-DCGHNFCLKCITQIGETSCGFFKCPLCKTSV   67 (73)
T ss_dssp             CCCCCBCTTTCSBCSSEEEC-TTCCEEEHHHHHHHCSSSCSCCCCSSSCCCC
T ss_pred             CccCCEeccCCcccCCeEEc-CCCChhhHHHHHHHHHcCCCCCCCCCCCCcC
Confidence            45688999999999999875 8999999999988752      799999987

>2kr4_A Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ring, E3 ligase, UBL conjugation pathway; NMR {Mus musculus}

Probab=98.97  E-value=1.5e-10  Score=78.92  Aligned_cols=56  Identities=16%  Similarity=0.195  Sum_probs=48.3

Q ss_pred             CCeeecccccccCCCceeeccCCceeccccccccC---CCCCCCccCc----chhhHHHHHHHH
Q 042263           16 QDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN---NKCPACRSCV----MLRSRVMDIALE   72 (159)
Q Consensus        16 ~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~----~~rn~~le~~~~   72 (159)
                      ++.|.||||+++|++||.. .+||+||.+|+.+++   ..||.|+.++    ...|..+.++++
T Consensus        12 p~~~~CpI~~~~m~dPV~~-~cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~l~pn~~L~~~i~   74 (85)
T 2kr4_A           12 PDEFRDPLMDTLMTDPVRL-PSGTVMDRSIILRHLLNSPTDPFNRQMLTESMLEPVPELKEQIQ   74 (85)
T ss_dssp             CTTTBCTTTCSBCSSEEEC-TTSCEEEHHHHHHHHHHCSBCTTTCCBCCGGGCEECHHHHHHHH
T ss_pred             chheECcccCchhcCCeEC-CCCCEECHHHHHHHHhcCCCCCCCcCCCChHhcchHHHHHHHHH
Confidence            5689999999999999875 689999999998874   6899999998    456888877776

>1wgm_A Ubiquitin conjugation factor E4A; ubiquitinating enzyme, KIAA0126, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.44.1.2

Probab=98.95  E-value=2.6e-10  Score=79.91  Aligned_cols=56  Identities=20%  Similarity=0.135  Sum_probs=48.6

Q ss_pred             CCeeecccccccCCCceeeccCC-ceeccccccccC---CCCCCCccCc----chhhHHHHHHHH
Q 042263           16 QDLFDCPIWYQALKVPVSQSING-HIICSSCLAKVN---NKCPACRSCV----MLRSRVMDIALE   72 (159)
Q Consensus        16 ~~~l~C~iC~~~l~~Pv~qC~~G-H~~C~~C~~~~~---~~CP~Cr~~~----~~rn~~le~~~~   72 (159)
                      ++.|.||||+++|++||.. .+| |+||..|+.+++   ..||.|+.++    ...|..+.++++
T Consensus        20 p~~~~CpI~~~~m~dPV~~-~cG~htf~r~cI~~~l~~~~~cP~~~~~l~~~~L~pn~~Lk~~I~   83 (98)
T 1wgm_A           20 CDEFLDPIMSTLMCDPVVL-PSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQIRPNTELKEKIQ   83 (98)
T ss_dssp             CTTTBCTTTCSBCSSEEEC-TTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTTSEECHHHHHHHH
T ss_pred             cHhcCCcCccccccCCeEC-CCCCeEECHHHHHHHHHhCCCCCCCCCCCChhhceEcHHHHHHHH
Confidence            5689999999999999874 789 999999999875   5799999998    456888888877

>2ckl_A Polycomb group ring finger protein 4; BMI1, RING1B, polycomb, E3-ligase, nuclear protein, chromosomal protein, transcription regulation; 2.0A {Mus musculus} PDB: 3rpg_B 2h0d_A

Probab=98.94  E-value=1.9e-10  Score=80.99  Aligned_cols=60  Identities=15%  Similarity=0.269  Sum_probs=49.0

Q ss_pred             CCeeecccccccCCCceeeccCCceeccccccccC---CCCCCCccCc-c-------hhhHHHHHHHHhhc
Q 042263           16 QDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN---NKCPACRSCV-M-------LRSRVMDIALEKTM   75 (159)
Q Consensus        16 ~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~-~-------~rn~~le~~~~~~~   75 (159)
                      .+.+.|+||++++.+|+....|||+||..|+.++.   ..||.||..+ .       ..|..++++++...
T Consensus        13 ~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~l~~n~~l~~~i~~~~   83 (108)
T 2ckl_A           13 NPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTRPLLNIRSDKTLQDIVYKLV   83 (108)
T ss_dssp             GGGTBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHTSCSBCTTTCCBSCSSCGGGGEEECHHHHHHHHHHS
T ss_pred             CCcCCCccCChHHhCcCEeCCCCChhhHHHHHHHHHhCCcCcCCCccccccCcccccCcCHHHHHHHHHHh
Confidence            45789999999999998755889999999998873   5799999998 2       34778888877443

>2csy_A Zinc finger protein 183-like 1; ring finger protein 161, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.94  E-value=2e-10  Score=76.88  Aligned_cols=56  Identities=23%  Similarity=0.395  Sum_probs=44.1

Q ss_pred             eeCCCeeecccccccCCCceeeccCCceeccccccccC---CCCCCCccCc---chhhHHHHH
Q 042263           13 ISDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN---NKCPACRSCV---MLRSRVMDI   69 (159)
Q Consensus        13 ~~~~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~---~~rn~~le~   69 (159)
                      -.+.+.+.|+||++.+.+|+. ..|||.||..|+.++.   ..||.||.++   ...|..+.+
T Consensus        10 ~~~~~~~~C~IC~~~~~~p~~-~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~l~~   71 (81)
T 2csy_A           10 EEEEIPFRCFICRQAFQNPVV-TKCRHYFCESCALEHFRATPRCYICDQPTGGIFNPAKELMA   71 (81)
T ss_dssp             SCCCCCSBCSSSCSBCCSEEE-CTTSCEEEHHHHHHHHHHCSBCSSSCCBCCSCCEECHHHHH
T ss_pred             ccCCCCCCCcCCCchhcCeeE-ccCCCHhHHHHHHHHHHCCCcCCCcCccccccCCcHHHHHH
Confidence            345568899999999999976 4889999999998874   5799999998   334544433

>2ecv_A Tripartite motif-containing protein 5; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.93  E-value=6.2e-11  Score=79.12  Aligned_cols=45  Identities=33%  Similarity=0.747  Sum_probs=38.7

Q ss_pred             CCCeeecccccccCCCceeeccCCceecccccccc---------CCCCCCCccCc
Q 042263           15 DQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKV---------NNKCPACRSCV   60 (159)
Q Consensus        15 ~~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~---------~~~CP~Cr~~~   60 (159)
                      ..+.+.|+||++.+.+|+.. +|||.||..|+.++         ...||.||..+
T Consensus        16 ~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~   69 (85)
T 2ecv_A           16 VKEEVTCPICLELLTQPLSL-DCGHSFCQACLTANHKKSMLDKGESSCPVCRISY   69 (85)
T ss_dssp             CCCCCCCTTTCSCCSSCBCC-SSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSS
T ss_pred             ccCCCCCCCCCcccCCceeC-CCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCcc
Confidence            34578999999999999764 88999999999875         35799999998

>3l11_A E3 ubiquitin-protein ligase RNF168; E3 ligase, ring domain, DNA damage, chromatin regulator, CHR protein, DNA repair, metal-binding, nucleus; 2.12A {Homo sapiens}

Probab=98.92  E-value=3.3e-10  Score=80.57  Aligned_cols=45  Identities=29%  Similarity=0.572  Sum_probs=39.5

Q ss_pred             CCCeeecccccccCCCceeeccCCceeccccccccC----CCCCCCccCc
Q 042263           15 DQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN----NKCPACRSCV   60 (159)
Q Consensus        15 ~~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~----~~CP~Cr~~~   60 (159)
                      ..+.+.|+||++++.+|+.. .|||+||..|+.++.    ..||.||..+
T Consensus        12 ~~~~~~C~iC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~   60 (115)
T 3l11_A           12 SLSECQCGICMEILVEPVTL-PCNHTLCKPCFQSTVEKASLCCPFCRRRV   60 (115)
T ss_dssp             CHHHHBCTTTCSBCSSCEEC-TTSCEECHHHHCCCCCTTTSBCTTTCCBC
T ss_pred             CCCCCCCccCCcccCceeEc-CCCCHHhHHHHHHHHhHCcCCCCCCCccc
Confidence            44578999999999999876 899999999998874    3799999997

>2ecw_A Tripartite motif-containing protein 30; metal binding protein, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=98.91  E-value=5e-11  Score=79.56  Aligned_cols=54  Identities=28%  Similarity=0.575  Sum_probs=42.3

Q ss_pred             CCeeecccccccCCCceeeccCCceecccccccc---------CCCCCCCccCc----chhhHHHHHH
Q 042263           16 QDLFDCPIWYQALKVPVSQSINGHIICSSCLAKV---------NNKCPACRSCV----MLRSRVMDIA   70 (159)
Q Consensus        16 ~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~---------~~~CP~Cr~~~----~~rn~~le~~   70 (159)
                      .+.+.|+||++.+.+|+. .+|||.||..|+.++         ...||.||.++    ..+|..++++
T Consensus        17 ~~~~~C~IC~~~~~~p~~-~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~n~~l~~~   83 (85)
T 2ecw_A           17 KEEVTCPICLELLKEPVS-ADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGNLKPNLHVANI   83 (85)
T ss_dssp             CTTTSCTTTCSCCSSCEE-CTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTTCCEECSCCCSS
T ss_pred             ccCCCCcCCChhhCccee-CCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHHhCCcCHHHHHh
Confidence            457899999999999975 579999999999875         24799999998    2345444443

>2djb_A Polycomb group ring finger protein 6; PCGF6, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.91  E-value=2.2e-10  Score=75.09  Aligned_cols=46  Identities=26%  Similarity=0.466  Sum_probs=39.9

Q ss_pred             CCCeeecccccccCCCceeeccCCceeccccccccC---CCCCCCccCc
Q 042263           15 DQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN---NKCPACRSCV   60 (159)
Q Consensus        15 ~~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~   60 (159)
                      ..+.+.|+||++.+.+|+..-.|||.||..|+.++.   ..||.||.++
T Consensus        12 ~~~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~   60 (72)
T 2djb_A           12 LTPYILCSICKGYLIDATTITECLHTFCKSCIVRHFYYSNRCPKCNIVV   60 (72)
T ss_dssp             CCGGGSCTTTSSCCSSCEECSSSCCEECHHHHHHHHHHCSSCTTTCCCC
T ss_pred             cCCCCCCCCCChHHHCcCEECCCCCHHHHHHHHHHHHcCCcCCCcCccc
Confidence            345789999999999998755789999999998863   6899999988

>2ckl_B Ubiquitin ligase protein RING2; BMI1, RING1B, polycomb, E3-ligase, nuclear protein, chromosomal protein, transcription regulation; 2.0A {Mus musculus} PDB: 3rpg_C 2h0d_B

Probab=98.89  E-value=4.2e-10  Score=84.85  Aligned_cols=58  Identities=24%  Similarity=0.523  Sum_probs=48.3

Q ss_pred             CeeecccccccCCCceeeccCCceeccccccccC----CCCCCCccCc-----chhhHHHHHHHHhh
Q 042263           17 DLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN----NKCPACRSCV-----MLRSRVMDIALEKT   74 (159)
Q Consensus        17 ~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~----~~CP~Cr~~~-----~~rn~~le~~~~~~   74 (159)
                      +.+.||||++++.+|+....|||.||..|+.++.    ..||.||.++     ...|..+++++...
T Consensus        53 ~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~l~~~~~l~~~i~~~  119 (165)
T 2ckl_B           53 SELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLRPDPNFDALISKI  119 (165)
T ss_dssp             HHHBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCCSGGGEEECHHHHHHHHHH
T ss_pred             CCCCCcccChHhhCcCEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCCCcccCCcCHHHHHHHHHH
Confidence            4679999999999998766899999999998873    4699999988     23578888888743

>1e4u_A Transcriptional repressor NOT4; gene regulation, transcriptional control; NMR {Homo sapiens} SCOP: g.44.1.1 PDB: 1ur6_B

Probab=98.87  E-value=4.7e-10  Score=75.53  Aligned_cols=46  Identities=28%  Similarity=0.618  Sum_probs=37.5

Q ss_pred             CCCeeecccccccCC--Cce-eeccCCceeccccccccC----CCCCCCccCc
Q 042263           15 DQDLFDCPIWYQALK--VPV-SQSINGHIICSSCLAKVN----NKCPACRSCV   60 (159)
Q Consensus        15 ~~~~l~C~iC~~~l~--~Pv-~qC~~GH~~C~~C~~~~~----~~CP~Cr~~~   60 (159)
                      ..+.+.||||++++.  ++. ..|.|||.||..|+.+++    ..||.||.++
T Consensus         8 ~~~~~~CpICle~~~~~d~~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~   60 (78)
T 1e4u_A            8 KEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPY   60 (78)
T ss_dssp             CCCCCBCTTTCCBCCTTTTTCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBC
T ss_pred             cccCCcCCccCccCccccccccccCCCCCcCHHHHHHHHhcCCCCCCCCCCcc
Confidence            457889999999984  343 346689999999998874    5799999988

>2d8t_A Dactylidin, ring finger protein 146; RNF146, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.87  E-value=6.3e-10  Score=72.68  Aligned_cols=46  Identities=26%  Similarity=0.580  Sum_probs=39.9

Q ss_pred             eCCCeeecccccccCCCceeeccCCceeccccccccC---CCCCCCccCc
Q 042263           14 SDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN---NKCPACRSCV   60 (159)
Q Consensus        14 ~~~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~   60 (159)
                      ...+.+.|+||++.+.+|+.. .|||.||..|+.++.   ..||.||..+
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~~-~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~   59 (71)
T 2d8t_A           11 PSLTVPECAICLQTCVHPVSL-PCKHVFCYLCVKGASWLGKRCALCRQEI   59 (71)
T ss_dssp             SSSSCCBCSSSSSBCSSEEEE-TTTEEEEHHHHHHCTTCSSBCSSSCCBC
T ss_pred             cCCCCCCCccCCcccCCCEEc-cCCCHHHHHHHHHHHHCCCcCcCcCchh
Confidence            456688999999999999765 789999999998864   5799999987

>1z6u_A NP95-like ring finger protein isoform B; structural genomics consortium, ligase, ubiquitin-protein ligase, cell cycle regulation, SGC; 2.10A {Homo sapiens}

Probab=98.85  E-value=5.3e-10  Score=83.78  Aligned_cols=59  Identities=24%  Similarity=0.502  Sum_probs=49.0

Q ss_pred             CeeecccccccCCCceeeccCCceeccccccccC----CCCCCCccCc-c----hhhHHHHHHHHhhcc
Q 042263           17 DLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN----NKCPACRSCV-M----LRSRVMDIALEKTMS   76 (159)
Q Consensus        17 ~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~----~~CP~Cr~~~-~----~rn~~le~~~~~~~~   76 (159)
                      +.+.|+||++++.+|+. .+|||+||..|+.++.    ..||.||.++ .    ..|..++++++..++
T Consensus        77 ~~~~C~IC~~~~~~pv~-~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~l~~n~~l~~lv~~~~p  144 (150)
T 1z6u_A           77 QSFMCVCCQELVYQPVT-TECFHNVCKDCLQRSFKAQVFSCPACRHDLGQNYIMIPNEILQTLLDLFFP  144 (150)
T ss_dssp             HHTBCTTTSSBCSSEEE-CTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTTCCCCBCHHHHHHHHHHST
T ss_pred             cCCEeecCChhhcCCEE-cCCCCchhHHHHHHHHHhCCCcCCCCCccCCCCCCCCCCHHHHHHHHHHhh
Confidence            46899999999999987 4899999999998874    3799999998 2    468888888875443

>2ecy_A TNF receptor-associated factor 3; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.83  E-value=5.8e-10  Score=71.78  Aligned_cols=45  Identities=31%  Similarity=0.648  Sum_probs=39.1

Q ss_pred             CCCeeecccccccCCCceeeccCCceeccccccccC----CCCCCCccCc
Q 042263           15 DQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN----NKCPACRSCV   60 (159)
Q Consensus        15 ~~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~----~~CP~Cr~~~   60 (159)
                      ..+.+.|+||++.+.+|+. ..|||.||..|+.++.    ..||.||.++
T Consensus        12 ~~~~~~C~IC~~~~~~p~~-~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~   60 (66)
T 2ecy_A           12 VEDKYKCEKCHLVLCSPKQ-TECGHRFCESCMAALLSSSSPKCTACQESI   60 (66)
T ss_dssp             CCCCEECTTTCCEESSCCC-CSSSCCCCHHHHHHHHTTSSCCCTTTCCCC
T ss_pred             CCcCCCCCCCChHhcCeeE-CCCCCHHHHHHHHHHHHhCcCCCCCCCcCC
Confidence            3568999999999999976 4899999999998763    4799999987

>2yu4_A E3 SUMO-protein ligase NSE2; SP-ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.81  E-value=1.3e-09  Score=75.41  Aligned_cols=59  Identities=24%  Similarity=0.575  Sum_probs=48.3

Q ss_pred             CCeeecccccccCCCceeeccCCceeccccccccC---------CCCCC--CccC-c----chhhHHHHHHHHhh
Q 042263           16 QDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN---------NKCPA--CRSC-V----MLRSRVMDIALEKT   74 (159)
Q Consensus        16 ~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~---------~~CP~--Cr~~-~----~~rn~~le~~~~~~   74 (159)
                      .+.|.||||+++|.+||..-.|||+||..|+.+++         ..||.  |+.. +    ...|..|.++++..
T Consensus         5 ~~~~~CPI~~~~~~dPV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~~~~L~pn~~L~~~I~~~   79 (94)
T 2yu4_A            5 SSGFTCPITKEEMKKPVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRKSDLIQDEALRRAIENH   79 (94)
T ss_dssp             SSCCBCTTTCSBCSSEEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBCGGGEEECHHHHHHHHHH
T ss_pred             CcEeECcCcCchhcCCEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccCHhhCcCCHHHHHHHHHH
Confidence            56789999999999998753489999999998874         27999  9865 4    56788888888743

>2yur_A Retinoblastoma-binding protein 6; P53-associated cellular protein of testis, proliferation potential-related protein, protein P2P-R; NMR {Homo sapiens}

Probab=98.81  E-value=1.3e-09  Score=71.96  Aligned_cols=45  Identities=22%  Similarity=0.442  Sum_probs=39.1

Q ss_pred             CCCeeecccccccCCCceeecc-CCceeccccccccC-----CCCCCCccCc
Q 042263           15 DQDLFDCPIWYQALKVPVSQSI-NGHIICSSCLAKVN-----NKCPACRSCV   60 (159)
Q Consensus        15 ~~~~l~C~iC~~~l~~Pv~qC~-~GH~~C~~C~~~~~-----~~CP~Cr~~~   60 (159)
                      ..+.+.|+||++++.+|+.. . |||.||..|+.++.     ..||.||.++
T Consensus        12 ~~~~~~C~IC~~~~~~p~~~-~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~   62 (74)
T 2yur_A           12 IPDELLCLICKDIMTDAVVI-PCCGNSYCDECIRTALLESDEHTCPTCHQND   62 (74)
T ss_dssp             SCGGGSCSSSCCCCTTCEEC-SSSCCEECTTHHHHHHHHSSSSCCSSSCCSS
T ss_pred             CCCCCCCcCCChHHhCCeEc-CCCCCHHHHHHHHHHHHhcCCCcCCCCCCcC
Confidence            45688999999999999874 6 89999999998874     4799999986

>3ng2_A RNF4, snurf, ring finger protein 4; ring domain, E3 ligase, ubiquitylation, sumoylation, zinc-FI metal binding protein; 1.80A {Rattus norvegicus}

Probab=98.81  E-value=4.2e-10  Score=72.96  Aligned_cols=48  Identities=31%  Similarity=0.710  Sum_probs=39.7

Q ss_pred             eeCCCeeecccccccCCCce------eeccCCceeccccccccC---CCCCCCccCc
Q 042263           13 ISDQDLFDCPIWYQALKVPV------SQSINGHIICSSCLAKVN---NKCPACRSCV   60 (159)
Q Consensus        13 ~~~~~~l~C~iC~~~l~~Pv------~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~   60 (159)
                      ....+.+.|+||++.+.+|+      ..-.|||.||..|+.++.   ..||.||.++
T Consensus         5 ~~~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~   61 (71)
T 3ng2_A            5 LRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI   61 (71)
T ss_dssp             -CCTTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHHCSBCTTTCCBC
T ss_pred             CCCCCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHcCCCCCCCCCcc
Confidence            45667899999999998872      445789999999998863   6899999987

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.81  E-value=1.6e-09  Score=86.59  Aligned_cols=58  Identities=14%  Similarity=0.153  Sum_probs=49.0

Q ss_pred             CCCeeecccccccCCCceeeccCCceeccccccccC----CCCCCCccCc----chhhHHHHHHHHh
Q 042263           15 DQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN----NKCPACRSCV----MLRSRVMDIALEK   73 (159)
Q Consensus        15 ~~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~----~~CP~Cr~~~----~~rn~~le~~~~~   73 (159)
                      .++.+.||||.++|.+||.. +|||+||..|+.+++    ..||.|+.++    ...|..+.++++.
T Consensus       205 ~~~~~~c~i~~~~~~dPv~~-~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~~~l~~n~~l~~~i~~  270 (281)
T 2c2l_A          205 IPDYLCGKISFELMREPCIT-PSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLIPNLAMKEVIDA  270 (281)
T ss_dssp             CCSTTBCTTTCSBCSSEEEC-SSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGGCEECHHHHHHHHH
T ss_pred             CCcccCCcCcCCHhcCCeEC-CCCCEECHHHHHHHHHHCCCCCcCCCCCCchhcCcccHHHHHHHHH
Confidence            46789999999999999874 689999999998864    2499999998    4568888888773

>1chc_A Equine herpes virus-1 ring domain; viral protein; NMR {Equid herpesvirus 1} SCOP: g.44.1.1

Probab=98.77  E-value=2.9e-09  Score=68.56  Aligned_cols=46  Identities=22%  Similarity=0.374  Sum_probs=39.0

Q ss_pred             CCCeeecccccccCCCceeeccCCceeccccccccC---CCCCCCccCc
Q 042263           15 DQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN---NKCPACRSCV   60 (159)
Q Consensus        15 ~~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~   60 (159)
                      ..+...|+||++.+.+|+..-+|||.||..|+.++.   ..||.||.++
T Consensus         2 ~~~~~~C~IC~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~   50 (68)
T 1chc_A            2 ATVAERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPV   50 (68)
T ss_dssp             CCCCCCCSSCCSCCCSCEEETTTTEEESTTHHHHHHHHSCSTTTTCCCC
T ss_pred             CCCCCCCeeCCccccCCcEecCCCCeeHHHHHHHHHhCcCcCcCCChhh
Confidence            345678999999999986666889999999998763   6899999987

>2ysj_A Tripartite motif-containing protein 31; ring-type zinc finger domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.77  E-value=1.4e-09  Score=69.19  Aligned_cols=41  Identities=37%  Similarity=0.777  Sum_probs=35.2

Q ss_pred             CCCeeecccccccCCCceeeccCCceeccccccccC------CCCCCC
Q 042263           15 DQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN------NKCPAC   56 (159)
Q Consensus        15 ~~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~------~~CP~C   56 (159)
                      ..+.+.|+||++.+.+|+.. .|||+||..|+.++.      .+||.|
T Consensus        17 ~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           17 LQEEVICPICLDILQKPVTI-DCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCCBCTTTCSBCSSCEEC-TTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             CccCCCCCcCCchhCCeEEe-CCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            45688999999999999875 899999999998864      369988

>1jm7_A BRCA1, breast cancer type 1 susceptibility protein; ring finger, zinc-binding protein, heterodimer, ubiquitin ligase, antitumor; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=98.76  E-value=3.8e-10  Score=79.38  Aligned_cols=43  Identities=35%  Similarity=0.897  Sum_probs=37.4

Q ss_pred             CeeecccccccCCCceeeccCCceeccccccccC------CCCCCCccCc
Q 042263           17 DLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN------NKCPACRSCV   60 (159)
Q Consensus        17 ~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~------~~CP~Cr~~~   60 (159)
                      +.+.|+||++.+.+|+. ..|||.||..|+.++.      ..||.||.++
T Consensus        20 ~~~~C~IC~~~~~~p~~-~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~   68 (112)
T 1jm7_A           20 KILECPICLELIKEPVS-TKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDI   68 (112)
T ss_dssp             HHTSCSSSCCCCSSCCB-CTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCC
T ss_pred             CCCCCcccChhhcCeEE-CCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcC
Confidence            46789999999999976 4899999999998763      2799999998

>1g25_A CDK-activating kinase assembly factor MAT1; ring finger (C3HC4), metal binding protein; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=98.76  E-value=8.8e-10  Score=70.71  Aligned_cols=45  Identities=27%  Similarity=0.638  Sum_probs=37.2

Q ss_pred             CCeeecccccc-cCCCce---eeccCCceeccccccccC----CCCCCCccCc
Q 042263           16 QDLFDCPIWYQ-ALKVPV---SQSINGHIICSSCLAKVN----NKCPACRSCV   60 (159)
Q Consensus        16 ~~~l~C~iC~~-~l~~Pv---~qC~~GH~~C~~C~~~~~----~~CP~Cr~~~   60 (159)
                      ++.+.||||++ ++..|+   ..-.|||+||..|+.++.    ..||.||.++
T Consensus         1 m~~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~   53 (65)
T 1g25_A            1 MDDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPL   53 (65)
T ss_dssp             CCTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCC
T ss_pred             CCCCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCcc
Confidence            35688999999 898884   234789999999998872    4799999987

>2ea6_A Ring finger protein 4; RNF4, RES4-26, ring domain, zinc- binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.75  E-value=7.3e-10  Score=71.24  Aligned_cols=50  Identities=30%  Similarity=0.684  Sum_probs=40.3

Q ss_pred             EEeeCCCeeecccccccCCCce------eeccCCceeccccccccC---CCCCCCccCc
Q 042263           11 STISDQDLFDCPIWYQALKVPV------SQSINGHIICSSCLAKVN---NKCPACRSCV   60 (159)
Q Consensus        11 ~~~~~~~~l~C~iC~~~l~~Pv------~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~   60 (159)
                      ......+.+.|+||++.+.+|.      ..-.|||.||..|+.++.   ..||.||.++
T Consensus         8 ~~~~~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~   66 (69)
T 2ea6_A            8 TGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI   66 (69)
T ss_dssp             CCCCTTCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHHCSSCTTTCCCC
T ss_pred             cccCCCCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHcCCCCCCCCCcc
Confidence            3345667899999999998762      345789999999998873   5899999986

>2ea5_A Cell growth regulator with ring finger domain protein 1; CGRRF1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.72  E-value=4.4e-09  Score=68.83  Aligned_cols=53  Identities=26%  Similarity=0.490  Sum_probs=45.3

Q ss_pred             CCceEEEeeCCCeeecccccccCCCceeeccCCce-eccccccccCCCCCCCccCc
Q 042263            6 NGSITSTISDQDLFDCPIWYQALKVPVSQSINGHI-ICSSCLAKVNNKCPACRSCV   60 (159)
Q Consensus         6 ~~~~~~~~~~~~~l~C~iC~~~l~~Pv~qC~~GH~-~C~~C~~~~~~~CP~Cr~~~   60 (159)
                      ||+-+....+.+...|+||++...++++. +|||. ||..|...+ .+||.||.++
T Consensus         3 ~~s~e~e~~~~~~~~C~IC~~~~~~~v~~-pCgH~~~C~~C~~~~-~~CP~CR~~i   56 (68)
T 2ea5_A            3 SGSSGVEPSEENSKDCVVCQNGTVNWVLL-PCRHTCLCDGCVKYF-QQCPMCRQFV   56 (68)
T ss_dssp             SSCCCCCCSCCCSSCCSSSSSSCCCCEET-TTTBCCSCTTHHHHC-SSCTTTCCCC
T ss_pred             CccccccccCCCCCCCCCcCcCCCCEEEE-CCCChhhhHHHHhcC-CCCCCCCcch
Confidence            55666666777788999999999998875 78999 999999876 5999999988

>4ic3_A E3 ubiquitin-protein ligase XIAP; ring domain, zinc-finger, E3 ligase; 1.78A {Homo sapiens} PDB: 4ic2_A

Probab=98.71  E-value=2.9e-09  Score=70.44  Aligned_cols=42  Identities=29%  Similarity=0.570  Sum_probs=38.2

Q ss_pred             CeeecccccccCCCceeeccCCce-eccccccccCCCCCCCccCc
Q 042263           17 DLFDCPIWYQALKVPVSQSINGHI-ICSSCLAKVNNKCPACRSCV   60 (159)
Q Consensus        17 ~~l~C~iC~~~l~~Pv~qC~~GH~-~C~~C~~~~~~~CP~Cr~~~   60 (159)
                      +.+.|+||++.+.+|++. +|||. ||..|+.++ ..||.||.++
T Consensus        23 ~~~~C~iC~~~~~~~~~~-pCgH~~~C~~C~~~~-~~CP~Cr~~i   65 (74)
T 4ic3_A           23 EEKLCKICMDRNIAIVFV-PCGHLVTCKQCAEAV-DKCPMCYTVI   65 (74)
T ss_dssp             HHTBCTTTSSSBCCEEEE-TTCCBCCCHHHHTTC-SBCTTTCCBC
T ss_pred             cCCCCCCCCCCCCCEEEc-CCCChhHHHHhhhcC-ccCCCcCcCc
Confidence            367899999999999876 88999 999999988 6999999988

>2xeu_A Ring finger protein 4; transcription, zinc-finger, metal-binding; HET: SUC; 1.50A {Homo sapiens}

Probab=98.68  E-value=1.5e-09  Score=68.76  Aligned_cols=44  Identities=34%  Similarity=0.786  Sum_probs=36.8

Q ss_pred             CeeecccccccCCCce------eeccCCceeccccccccC---CCCCCCccCc
Q 042263           17 DLFDCPIWYQALKVPV------SQSINGHIICSSCLAKVN---NKCPACRSCV   60 (159)
Q Consensus        17 ~~l~C~iC~~~l~~Pv------~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~   60 (159)
                      +.+.|+||++.+..|.      ....|||.||..|+.++.   ..||.||.++
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~   54 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI   54 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHHCSBCTTTCCBC
T ss_pred             CCCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHcCCCCCCCCccC
Confidence            4678999999998762      445789999999998863   5899999987

>2ct2_A Tripartite motif protein 32; zinc-finger protein HT2A, TAT- interacting protein, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.67  E-value=6.4e-09  Score=69.88  Aligned_cols=45  Identities=31%  Similarity=0.758  Sum_probs=38.3

Q ss_pred             CCCeeecccccccCCC----ceeeccCCceeccccccccC------CCCCCCccCc
Q 042263           15 DQDLFDCPIWYQALKV----PVSQSINGHIICSSCLAKVN------NKCPACRSCV   60 (159)
Q Consensus        15 ~~~~l~C~iC~~~l~~----Pv~qC~~GH~~C~~C~~~~~------~~CP~Cr~~~   60 (159)
                      ..+.+.|+||++.+.+    |+.. .|||.||..|+.++.      ..||.||.++
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~-~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~   66 (88)
T 2ct2_A           12 LREVLECPICMESFTEEQLRPKLL-HCGHTICRQCLEKLLASSINGVRCPFCSKIT   66 (88)
T ss_dssp             CCSCCBCTTTCCBCCTTSSCEEEC-SSSCEEEHHHHHHHHHHCSSCBCCTTTCCCB
T ss_pred             ccCCCCCccCCccccccCCCeEEC-CCCChhhHHHHHHHHHcCCCCcCCCCCCCcc
Confidence            4557899999999998    8654 789999999998872      4799999987

>1iym_A EL5; ring-H2 finger, ubiquitin ligase, DNA binding protein; NMR {Oryza sativa} SCOP: g.44.1.1

Probab=98.67  E-value=1.2e-08  Score=63.02  Aligned_cols=45  Identities=24%  Similarity=0.454  Sum_probs=35.7

Q ss_pred             CCeeecccccccCCC---ceeeccCCceeccccccccC---CCCCCCccCc
Q 042263           16 QDLFDCPIWYQALKV---PVSQSINGHIICSSCLAKVN---NKCPACRSCV   60 (159)
Q Consensus        16 ~~~l~C~iC~~~l~~---Pv~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~   60 (159)
                      .+...|+||++.+..   ++..-.|||.||..|+.++.   ..||.||.++
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~   53 (55)
T 1iym_A            3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV   53 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCS
T ss_pred             CCCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcCCcCcCCCCEe
Confidence            345789999999976   44432389999999998874   5799999875

>2ecm_A Ring finger and CHY zinc finger domain- containing protein 1; RCHY1, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2jrj_A

Probab=98.63  E-value=1.4e-08  Score=62.59  Aligned_cols=45  Identities=20%  Similarity=0.510  Sum_probs=36.3

Q ss_pred             CCeeecccccccCCC---ceeeccCCceeccccccccC---CCCCCCccCc
Q 042263           16 QDLFDCPIWYQALKV---PVSQSINGHIICSSCLAKVN---NKCPACRSCV   60 (159)
Q Consensus        16 ~~~l~C~iC~~~l~~---Pv~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~   60 (159)
                      .+...|+||++.+.+   ++..-.|||.||..|+.++.   ..||.||.++
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~   53 (55)
T 2ecm_A            3 SGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPS   53 (55)
T ss_dssp             SCCCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHHTCCCTTSCCSS
T ss_pred             CCCCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHcCCcCCCCCCcC
Confidence            456789999999865   34445789999999998873   6899999875

>2ecg_A Baculoviral IAP repeat-containing protein 4; BIRC4, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.63  E-value=4.4e-09  Score=69.59  Aligned_cols=42  Identities=29%  Similarity=0.570  Sum_probs=37.3

Q ss_pred             CeeecccccccCCCceeeccCCce-eccccccccCCCCCCCccCc
Q 042263           17 DLFDCPIWYQALKVPVSQSINGHI-ICSSCLAKVNNKCPACRSCV   60 (159)
Q Consensus        17 ~~l~C~iC~~~l~~Pv~qC~~GH~-~C~~C~~~~~~~CP~Cr~~~   60 (159)
                      +.+.|+||++.+.+|++. +|||. ||..|+.++ ..||.||.++
T Consensus        24 ~~~~C~IC~~~~~~~~~~-pCgH~~~C~~C~~~~-~~CP~Cr~~i   66 (75)
T 2ecg_A           24 EEKLCKICMDRNIAIVFV-PCGHLVTCKQCAEAV-DKCPMCYTVI   66 (75)
T ss_dssp             HHHSCSSSCSSCCCBCCS-SSCCCCBCHHHHHHC-SBCTTTCCBC
T ss_pred             CCCCCCcCCCCCCCEEEe-cCCCHHHHHHHhhCC-CCCccCCcee
Confidence            367899999999999874 78999 999999876 5999999987

>2f42_A STIP1 homology and U-box containing protein 1; chaperone; 2.50A {Danio rerio} PDB: 2c2v_S 2oxq_C

Probab=98.62  E-value=9.5e-09  Score=79.39  Aligned_cols=57  Identities=14%  Similarity=0.149  Sum_probs=48.7

Q ss_pred             CCCeeecccccccCCCceeeccCCceeccccccccC----CCCCCCccCc----chhhHHHHHHHH
Q 042263           15 DQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN----NKCPACRSCV----MLRSRVMDIALE   72 (159)
Q Consensus        15 ~~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~----~~CP~Cr~~~----~~rn~~le~~~~   72 (159)
                      -++.|.||||+++|.+||.. ++||+||..|+.++.    ..||.|+.++    ...|..+.++++
T Consensus       103 ip~~f~CPI~~elm~DPV~~-~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~~~L~pN~~Lk~~Ie  167 (179)
T 2f42_A          103 IPDYLCGKISFELMREPCIT-PSGITYDRKDIEEHLQRVGHFDPVTRSPLTQDQLIPNLAMKEVID  167 (179)
T ss_dssp             CCGGGBCTTTCSBCSSEEEC-TTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCEECHHHHHHHH
T ss_pred             CcHhhcccCccccCCCCeEC-CCCCEECHHHHHHHHHhCCCCCCCCcCCCChhhCcchHHHHHHHH
Confidence            36789999999999999886 799999999998863    2599999998    456888887776

>2ecj_A Tripartite motif-containing protein 39; TRIM39, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.62  E-value=5.7e-09  Score=64.94  Aligned_cols=41  Identities=32%  Similarity=0.609  Sum_probs=34.7

Q ss_pred             CCCeeecccccccCCCceeeccCCceeccccccccC------CCCCCC
Q 042263           15 DQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN------NKCPAC   56 (159)
Q Consensus        15 ~~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~------~~CP~C   56 (159)
                      ..+.+.|+||++.+.+|+. ..|||+||..|+.++.      ..||.|
T Consensus        12 ~~~~~~C~IC~~~~~~p~~-~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           12 LQVEASCSVCLEYLKEPVI-IECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             SCCCCBCSSSCCBCSSCCC-CSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             cccCCCCccCCcccCccEe-CCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            4567899999999999976 4789999999998872      469987

>2ect_A Ring finger protein 126; metal binding protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=98.60  E-value=2.1e-08  Score=66.20  Aligned_cols=46  Identities=24%  Similarity=0.552  Sum_probs=37.7

Q ss_pred             CCCeeecccccccCCCc--eeeccCCceeccccccccC---CCCCCCccCc
Q 042263           15 DQDLFDCPIWYQALKVP--VSQSINGHIICSSCLAKVN---NKCPACRSCV   60 (159)
Q Consensus        15 ~~~~l~C~iC~~~l~~P--v~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~   60 (159)
                      ..+.+.|+||++.+..+  +..-.|||.||..|+.++.   ..||.||.++
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~   62 (78)
T 2ect_A           12 VGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSL   62 (78)
T ss_dssp             SSSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTTTCSCTTTCCCC
T ss_pred             CCCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHcCCcCcCcCCcc
Confidence            45578999999999765  3344789999999998863   5799999988

>2ep4_A Ring finger protein 24; zinc binding, ubiquitin, E3 enzyme, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.57  E-value=1.3e-08  Score=66.52  Aligned_cols=47  Identities=21%  Similarity=0.289  Sum_probs=38.1

Q ss_pred             eCCCeeecccccccCCCc--eeeccCCceeccccccccC---CCCCCCccCc
Q 042263           14 SDQDLFDCPIWYQALKVP--VSQSINGHIICSSCLAKVN---NKCPACRSCV   60 (159)
Q Consensus        14 ~~~~~l~C~iC~~~l~~P--v~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~   60 (159)
                      ...+...|+||++.+..+  +....|||.||..|+.++.   ..||.||.++
T Consensus        11 ~~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~   62 (74)
T 2ep4_A           11 ELNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPV   62 (74)
T ss_dssp             CCCCSCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHHCSBCTTTCCBC
T ss_pred             cCCCCCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHcCCcCCCcCccc
Confidence            345577899999999865  3344789999999998873   6899999987

>2ecn_A Ring finger protein 141; RNF141, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.56  E-value=5.7e-09  Score=67.62  Aligned_cols=45  Identities=24%  Similarity=0.469  Sum_probs=37.7

Q ss_pred             eCCCeeecccccccCCCceeeccCCceeccccccccC---CCCCCCccCc
Q 042263           14 SDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN---NKCPACRSCV   60 (159)
Q Consensus        14 ~~~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~   60 (159)
                      ...+.+.|+||++.+.+ +. -+|||.||..|+.++.   ..||.||.++
T Consensus        11 ~~~~~~~C~IC~~~~~~-~~-~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~   58 (70)
T 2ecn_A           11 QLTDEEECCICMDGRAD-LI-LPCAHSFCQKCIDKWSDRHRNCPICRLQM   58 (70)
T ss_dssp             CCCCCCCCSSSCCSCCS-EE-ETTTEEECHHHHHHSSCCCSSCHHHHHCT
T ss_pred             cCCCCCCCeeCCcCccC-cc-cCCCCcccHHHHHHHHHCcCcCCCcCCcc
Confidence            34567899999999988 44 4789999999998874   5799999987

>2kiz_A E3 ubiquitin-protein ligase arkadia; ring-H2 finger, E3 ligase, Zn binding domain, metal zinc, zinc-finger, metal binding protein; NMR {Homo sapiens}

Probab=98.56  E-value=1.9e-08  Score=64.96  Aligned_cols=47  Identities=23%  Similarity=0.447  Sum_probs=37.7

Q ss_pred             eCCCeeecccccccCC--CceeeccCCceeccccccccC---CCCCCCccCc
Q 042263           14 SDQDLFDCPIWYQALK--VPVSQSINGHIICSSCLAKVN---NKCPACRSCV   60 (159)
Q Consensus        14 ~~~~~l~C~iC~~~l~--~Pv~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~   60 (159)
                      .+.+...|+||++.+.  .++....|||.||..|+.++.   ..||.||.++
T Consensus        10 ~~~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~CP~Cr~~~   61 (69)
T 2kiz_A           10 EEDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDI   61 (69)
T ss_dssp             STTCCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHHCSBCTTTCSBS
T ss_pred             cCCCCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHcCCCCcCcCccc
Confidence            3456788999999885  234455789999999998873   6899999987

>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex, chimera; 2.21A {Rattus norvegicus}

Probab=98.54  E-value=8.5e-09  Score=73.79  Aligned_cols=46  Identities=33%  Similarity=0.728  Sum_probs=38.4

Q ss_pred             CCCeeecccccccCCCce------eeccCCceeccccccccC---CCCCCCccCc
Q 042263           15 DQDLFDCPIWYQALKVPV------SQSINGHIICSSCLAKVN---NKCPACRSCV   60 (159)
Q Consensus        15 ~~~~l~C~iC~~~l~~Pv------~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~   60 (159)
                      ..+.+.|+||++.+.+|+      ....|||.||..|+.++.   ..||.||..+
T Consensus         4 ~~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~   58 (133)
T 4ap4_A            4 GSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI   58 (133)
T ss_dssp             -CCSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTTCSBCTTTCCBC
T ss_pred             CCCCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHhCCCCCCCCCcC
Confidence            457899999999998882      344889999999998873   5899999988

>1x4j_A Ring finger protein 38; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.53  E-value=2.6e-08  Score=65.45  Aligned_cols=45  Identities=18%  Similarity=0.341  Sum_probs=37.3

Q ss_pred             CCeeecccccccCCCc--eeeccCCceeccccccccC---CCCCCCccCc
Q 042263           16 QDLFDCPIWYQALKVP--VSQSINGHIICSSCLAKVN---NKCPACRSCV   60 (159)
Q Consensus        16 ~~~l~C~iC~~~l~~P--v~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~   60 (159)
                      .+...|+||++.+..+  +..-+|||.||..|+.++.   ..||.||.++
T Consensus        21 ~~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~~~~CP~Cr~~~   70 (75)
T 1x4j_A           21 SEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRADS   70 (75)
T ss_dssp             SSCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHHCSSCTTTCCCC
T ss_pred             CCCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHcCCcCcCcCCcC
Confidence            4578899999999766  3444689999999999873   6899999987

>3htk_C E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-ring, ring, ATP-binding, chromosomal protein, coiled coil, DNA damage; 2.31A {Saccharomyces cerevisiae}

Probab=98.52  E-value=2e-08  Score=81.83  Aligned_cols=60  Identities=18%  Similarity=0.444  Sum_probs=49.5

Q ss_pred             eeCCCeeecccccccCCCceeeccCCceeccccccccC-----CCCCC--CccCc----chhhHHHHHHHH
Q 042263           13 ISDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN-----NKCPA--CRSCV----MLRSRVMDIALE   72 (159)
Q Consensus        13 ~~~~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~-----~~CP~--Cr~~~----~~rn~~le~~~~   72 (159)
                      ......+.||||+++|++||..-.|||+||..|+.+++     ..||.  |+..+    ...|..|.++++
T Consensus       176 ~~~~~el~CPIcl~~f~DPVts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~~dL~pN~~L~~lve  246 (267)
T 3htk_C          176 EGGKIELTCPITCKPYEAPLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMRDFVRDPIMELRCK  246 (267)
T ss_dssp             CSSBCCSBCTTTSSBCSSEEEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEECGGGEEECHHHHHHHH
T ss_pred             cCCceeeECcCccCcccCCeeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCchhhCCcCHHHHHHHH
Confidence            44567899999999999999744689999999999875     26999  99987    455788877776

>2yho_A E3 ubiquitin-protein ligase mylip; ligase, E2 ligase-E3 ligase complex, ring zinc-finger, UBL conjugation pathway; 2.10A {Homo sapiens} PDB: 2yhn_A

Probab=98.48  E-value=3.1e-08  Score=66.53  Aligned_cols=42  Identities=31%  Similarity=0.600  Sum_probs=37.8

Q ss_pred             CeeecccccccCCCceeeccCCce-eccccccccCCCCCCCccCc
Q 042263           17 DLFDCPIWYQALKVPVSQSINGHI-ICSSCLAKVNNKCPACRSCV   60 (159)
Q Consensus        17 ~~l~C~iC~~~l~~Pv~qC~~GH~-~C~~C~~~~~~~CP~Cr~~~   60 (159)
                      +...|+||++.+.+|++. +|||. ||..|..++. .||.||.++
T Consensus        17 ~~~~C~IC~~~~~~~v~~-pCgH~~~C~~C~~~~~-~CP~Cr~~i   59 (79)
T 2yho_A           17 EAMLCMVCCEEEINSTFC-PCGHTVCCESCAAQLQ-SCPVCRSRV   59 (79)
T ss_dssp             HHTBCTTTSSSBCCEEEE-TTCBCCBCHHHHTTCS-BCTTTCCBC
T ss_pred             CCCEeEEeCcccCcEEEE-CCCCHHHHHHHHHhcC-cCCCCCchh
Confidence            356899999999999886 88999 9999999885 999999998

>2ecl_A Ring-box protein 2; RNF7, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.41  E-value=8.9e-08  Score=64.23  Aligned_cols=53  Identities=21%  Similarity=0.237  Sum_probs=41.4

Q ss_pred             ceEEEeeCCCeeecccccccCCC--------------ceeeccCCceeccccccccC---CCCCCCccCc
Q 042263            8 SITSTISDQDLFDCPIWYQALKV--------------PVSQSINGHIICSSCLAKVN---NKCPACRSCV   60 (159)
Q Consensus         8 ~~~~~~~~~~~l~C~iC~~~l~~--------------Pv~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~   60 (159)
                      ++.+-.-|.+.-.|+||++.+.+              ++....|||.|+..|+.++.   ..||.||.++
T Consensus         5 ~~~~w~~~~~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~   74 (81)
T 2ecl_A            5 SSGMWSWDVECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDW   74 (81)
T ss_dssp             CCCCCCCSCCCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBC
T ss_pred             eeEEeeecCCCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCc
Confidence            34444556778889999999976              33444589999999999874   5799999987

>2l0b_A E3 ubiquitin-protein ligase praja-1; zinc finger, NESG, structural genomics, PSI-2, protein struc initiative; NMR {Homo sapiens}

Probab=98.41  E-value=5.9e-08  Score=66.37  Aligned_cols=45  Identities=20%  Similarity=0.408  Sum_probs=35.9

Q ss_pred             CCeeecccccccCCC--ceeeccCCceeccccccccC---CCCCCCccCc
Q 042263           16 QDLFDCPIWYQALKV--PVSQSINGHIICSSCLAKVN---NKCPACRSCV   60 (159)
Q Consensus        16 ~~~l~C~iC~~~l~~--Pv~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~   60 (159)
                      .+...|+||++.+..  ++...+|||.||..|+.+|.   ..||.||.++
T Consensus        38 ~~~~~C~IC~~~~~~~~~~~~l~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~   87 (91)
T 2l0b_A           38 GQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCRCMF   87 (91)
T ss_dssp             SSCSEETTTTEECCTTCEEEEETTTEEEEHHHHHHHHTTTCBCTTTCCBS
T ss_pred             CCCCCCcccChhhcCCCcEEecCCCChHHHHHHHHHHHcCCcCcCcCccC
Confidence            356789999998865  23344789999999998873   5799999876

>1v87_A Deltex protein 2; ring-H2 domain, zinc-binding domain, notch signaling, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: g.44.1.1

Probab=98.35  E-value=1e-07  Score=67.21  Aligned_cols=48  Identities=23%  Similarity=0.415  Sum_probs=37.2

Q ss_pred             eeCCCeeecccccccCCCce-----------------eeccCCceeccccccccC--------CCCCCCccCc
Q 042263           13 ISDQDLFDCPIWYQALKVPV-----------------SQSINGHIICSSCLAKVN--------NKCPACRSCV   60 (159)
Q Consensus        13 ~~~~~~l~C~iC~~~l~~Pv-----------------~qC~~GH~~C~~C~~~~~--------~~CP~Cr~~~   60 (159)
                      +.+.....|+||++.|..|.                 ..-.|||.||..|+.++.        ..||.||..+
T Consensus        20 ~~~~~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~   92 (114)
T 1v87_A           20 LKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIY   92 (114)
T ss_dssp             CSSCCSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBS
T ss_pred             ccCCCCCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCcc
Confidence            33445569999999997653                 134689999999998763        3799999987

>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex, chimera; 2.21A {Rattus norvegicus}

Probab=98.34  E-value=8.8e-08  Score=68.42  Aligned_cols=52  Identities=27%  Similarity=0.618  Sum_probs=42.2

Q ss_pred             eEEEeeCCCeeecccccccCCCc------eeeccCCceeccccccccC---CCCCCCccCc
Q 042263            9 ITSTISDQDLFDCPIWYQALKVP------VSQSINGHIICSSCLAKVN---NKCPACRSCV   60 (159)
Q Consensus         9 ~~~~~~~~~~l~C~iC~~~l~~P------v~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~   60 (159)
                      +.....+.+.+.|+||++.+..|      +....|||.||..|+.++.   ..||.||.++
T Consensus        63 l~~l~i~~~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~  123 (133)
T 4ap4_A           63 YHPIYIGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI  123 (133)
T ss_dssp             EEECBCSSSSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHHCSBCTTTCCBC
T ss_pred             ccccccCCCCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHcCCCCCCCCCcC
Confidence            33345577889999999999876      2456889999999998873   6899999987

>2vje_A E3 ubiquitin-protein ligase MDM2; proto-oncogene, phosphorylation, alternative splicing, HOST-virus interaction, UBL conjugation pathway, zinc-finger, polymorphism; HET: FLC; 2.20A {Homo sapiens} PDB: 2vjf_A* 2hdp_A

Probab=98.32  E-value=8.6e-08  Score=61.70  Aligned_cols=48  Identities=25%  Similarity=0.529  Sum_probs=38.9

Q ss_pred             eeCCCeeecccccccCCCceee-ccCCce-eccccccccC---CCCCCCccCc
Q 042263           13 ISDQDLFDCPIWYQALKVPVSQ-SINGHI-ICSSCLAKVN---NKCPACRSCV   60 (159)
Q Consensus        13 ~~~~~~l~C~iC~~~l~~Pv~q-C~~GH~-~C~~C~~~~~---~~CP~Cr~~~   60 (159)
                      +...+...|+||++...++++. -+|||. +|..|..++.   ..||.||.++
T Consensus         3 l~~~~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i   55 (64)
T 2vje_A            3 LPLNAIEPCVICQGRPKNGCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPI   55 (64)
T ss_dssp             --CGGGSCCTTTSSSCSCEEEEETTEEEEEECHHHHHHHHHTTCCCTTTCCCC
T ss_pred             CCCCCcCCCCcCCCCCCCEEEECCCCCChhhHHHHHHHHHHcCCcCCCcCcch
Confidence            4456677899999999998763 367999 8999998874   4699999987

>3t6p_A Baculoviral IAP repeat-containing protein 2; ring, BIR, CARD, UBA, apoptosis, ubiquitin ligase, SMAC/ ubiquitin, caspase, IAP family, SMAC mimetic; 1.90A {Homo sapiens} PDB: 1qbh_A 2l9m_A 3eb5_A 3eb6_A 4auq_B

Probab=98.27  E-value=4.2e-07  Score=76.50  Aligned_cols=42  Identities=26%  Similarity=0.638  Sum_probs=38.4

Q ss_pred             CeeecccccccCCCceeeccCCce-eccccccccCCCCCCCccCc
Q 042263           17 DLFDCPIWYQALKVPVSQSINGHI-ICSSCLAKVNNKCPACRSCV   60 (159)
Q Consensus        17 ~~l~C~iC~~~l~~Pv~qC~~GH~-~C~~C~~~~~~~CP~Cr~~~   60 (159)
                      +.+.|+||++.+.+|++. +|||. ||..|+.++ ..||.||.++
T Consensus       294 ~~~~C~IC~~~~~~~v~l-pCgH~~fC~~C~~~~-~~CP~CR~~i  336 (345)
T 3t6p_A          294 EERTCKVCMDKEVSVVFI-PCGHLVVCQECAPSL-RKCPICRGII  336 (345)
T ss_dssp             TTCBCTTTSSSBCCEEEE-TTCCEEECTTTGGGC-SBCTTTCCBC
T ss_pred             CCCCCCccCCcCCceEEc-CCCChhHhHHHHhcC-CcCCCCCCCc
Confidence            457899999999999886 88999 999999988 5999999988

>1wim_A KIAA0161 protein; ring finger domain, UBCM4-interacting protein 4, UIP4, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: g.44.1.1

Probab=98.16  E-value=2.9e-07  Score=63.06  Aligned_cols=44  Identities=20%  Similarity=0.420  Sum_probs=35.5

Q ss_pred             CCeeecccccccCCCceee--ccCCceeccccccccC-----------CCCCC--CccC
Q 042263           16 QDLFDCPIWYQALKVPVSQ--SINGHIICSSCLAKVN-----------NKCPA--CRSC   59 (159)
Q Consensus        16 ~~~l~C~iC~~~l~~Pv~q--C~~GH~~C~~C~~~~~-----------~~CP~--Cr~~   59 (159)
                      .+.++|+||++.+..|...  -.|||.||..|+...+           -.||.  |+..
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            3 SGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             CSBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CCCcCCcccCcccccccceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            4678999999999888543  2589999999987642           26999  9998

>2y1n_A E3 ubiquitin-protein ligase; ligase-transferase complex, ubiquitin ring E3 ligase; HET: PTR; 2.00A {Homo sapiens} PDB: 2y1m_A* 4a4c_A* 4a4b_A* 1fbv_A* 3vgo_A 4a49_A* 2k4d_A 2ldr_A*

Probab=98.15  E-value=5.9e-07  Score=76.75  Aligned_cols=42  Identities=31%  Similarity=0.609  Sum_probs=36.7

Q ss_pred             eeecccccccCCCceeeccCCceecccccccc----CCCCCCCccCc
Q 042263           18 LFDCPIWYQALKVPVSQSINGHIICSSCLAKV----NNKCPACRSCV   60 (159)
Q Consensus        18 ~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~----~~~CP~Cr~~~   60 (159)
                      ...|+||.+.+.+|+.. +|||.||..|+..+    ...||.||.++
T Consensus       332 ~~~C~ICle~~~~pv~l-pCGH~FC~~Ci~~wl~~~~~~CP~CR~~i  377 (389)
T 2y1n_A          332 FQLCKICAENDKDVKIE-PCGHLMCTSCLTSWQESEGQGCPFCRCEI  377 (389)
T ss_dssp             SSBCTTTSSSBCCEEEE-TTCCEECHHHHHHHHHHTCSBCTTTCCBC
T ss_pred             CCCCCccCcCCCCeEEe-CCCChhhHHHHHHHHhcCCCCCCCCCCcc
Confidence            47899999999999764 88999999999875    25899999987

>2vje_B MDM4 protein; proto-oncogene, phosphorylation, alternative splicing, HOST-virus interaction, UBL conjugation pathway, zinc-finger, polymorphism; HET: FLC; 2.20A {Homo sapiens} PDB: 2vjf_B*

Probab=98.10  E-value=4.7e-07  Score=58.01  Aligned_cols=44  Identities=20%  Similarity=0.533  Sum_probs=36.6

Q ss_pred             CeeecccccccCCCcee-eccCCce-eccccccccC---CCCCCCccCc
Q 042263           17 DLFDCPIWYQALKVPVS-QSINGHI-ICSSCLAKVN---NKCPACRSCV   60 (159)
Q Consensus        17 ~~l~C~iC~~~l~~Pv~-qC~~GH~-~C~~C~~~~~---~~CP~Cr~~~   60 (159)
                      ....|+||++..+++++ .-+|||. +|..|..++.   .+||.||.++
T Consensus         6 ~~~~C~IC~~~~~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CPiCR~~i   54 (63)
T 2vje_B            6 LLKPCSLCEKRPRDGNIIHGRTGHLVTCFHCARRLKKAGASCPICKKEI   54 (63)
T ss_dssp             GGSBCTTTSSSBSCEEEEETTEEEEEECHHHHHHHHHTTCBCTTTCCBC
T ss_pred             cCCCCcccCCcCCCeEEEecCCCCHhHHHHHHHHHHHhCCcCCCcCchh
Confidence            35579999999998864 3477998 9999998874   4899999987

>3dpl_R Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST-virus interaction, receptor, UBL conjugation, UBL conjugation pathway, acetylation, cytoplasm; 2.60A {Homo sapiens} SCOP: g.44.1.1 PDB: 3dqv_R 3rtr_B 4f52_B 1u6g_B 2hye_D* 4a0c_D 4a0l_F* 1ldj_B 1ldk_C 2lgv_A

Probab=97.95  E-value=4.1e-06  Score=59.20  Aligned_cols=46  Identities=17%  Similarity=0.255  Sum_probs=37.8

Q ss_pred             CCCeeecccccccCCCc-----------------eeeccCCceeccccccccC---CCCCCCccCc
Q 042263           15 DQDLFDCPIWYQALKVP-----------------VSQSINGHIICSSCLAKVN---NKCPACRSCV   60 (159)
Q Consensus        15 ~~~~l~C~iC~~~l~~P-----------------v~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~   60 (159)
                      |.+.-.|+||++.+..+                 +..-.|||.|+..|+.++.   ..||.||.++
T Consensus        34 d~~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~   99 (106)
T 3dpl_R           34 DIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREW   99 (106)
T ss_dssp             SSCSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBC
T ss_pred             CCCCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHcCCcCcCCCCcc
Confidence            56677899999999765                 3445789999999999873   6799999986

>4a0k_B E3 ubiquitin-protein ligase RBX1; ligase-DNA-binding protein-DNA complex, DNA-binding protein- complex; HET: DNA 3DR; 5.93A {Mus musculus}

Probab=97.73  E-value=8.6e-06  Score=58.66  Aligned_cols=47  Identities=17%  Similarity=0.226  Sum_probs=2.8

Q ss_pred             eCCCeeecccccccCCCc-----------------eeeccCCceeccccccccC---CCCCCCccCc
Q 042263           14 SDQDLFDCPIWYQALKVP-----------------VSQSINGHIICSSCLAKVN---NKCPACRSCV   60 (159)
Q Consensus        14 ~~~~~l~C~iC~~~l~~P-----------------v~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~   60 (159)
                      -|.+.-.|+||++.+..|                 +...+|||.|+..|+.++.   ..||.||.++
T Consensus        44 wd~~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~~~~CP~Cr~~~  110 (117)
T 4a0k_B           44 WDIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREW  110 (117)
T ss_dssp             ECCCC--------------------------------------------------------------
T ss_pred             ecCCCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHcCCcCCCCCCee
Confidence            355667899999999764                 2223689999999999874   5799999986

>2yuc_A TNF receptor-associated factor 4; ZF-TRAF, cysteine-rich domain associated with ring and TRAF domains protein 1, malignant 62; NMR {Homo sapiens}

Probab=97.67  E-value=1e-05  Score=53.07  Aligned_cols=40  Identities=20%  Similarity=0.294  Sum_probs=23.7

Q ss_pred             CchhhhccCCCCCCCCCCCCCcceeChhHHHhHhhhhcCCc
Q 042263           79 ENKDHERNCQCAPCACPLLDCNFLGSASQLYLYFSWKNGKT  119 (159)
Q Consensus        79 ~~~~He~~C~~~p~~Cp~~gC~~~g~~~~l~~H~~~~H~~~  119 (159)
                      ++..|+..|+|+++.||. +|+....+.+|.+|+...-+.+
T Consensus         4 ~l~~H~~~C~~~~v~C~~-~C~~~v~r~~l~~H~~~~C~~r   43 (76)
T 2yuc_A            4 GSSGHLNTCSFNVIPCPN-RCPMKLSRRDLPAHLQHDCPKR   43 (76)
T ss_dssp             SCSCCCCCCCCSCCBCTT-CCSCBCCSSSSTTTTTTSCTTS
T ss_pred             HHHHHHHHCCCcccCCCc-cccHHhhHhHHHhhCHhhCCCc
Confidence            455666666666666654 5666666666666665444443

>2bay_A PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin ligase, E3 ligase; 1.50A {Saccharomyces cerevisiae} SCOP: g.44.1.2 PDB: 1n87_A

Probab=97.61  E-value=1.5e-05  Score=50.79  Aligned_cols=43  Identities=19%  Similarity=0.155  Sum_probs=36.9

Q ss_pred             eeecccccccCCCceeeccCCceeccccccccC---CCCCCCccCc
Q 042263           18 LFDCPIWYQALKVPVSQSINGHIICSSCLAKVN---NKCPACRSCV   60 (159)
Q Consensus        18 ~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~   60 (159)
                      .+.|||++++|.+||..-.+||+|+..|+.++.   .+||..+.++
T Consensus         3 ~~~CpIs~~~m~dPV~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L   48 (61)
T 2bay_A            3 HMLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPL   48 (61)
T ss_dssp             -CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBC
T ss_pred             eEEecCCCCCCCCCEEeCCCCcEEcHHHHHHHHHhCCCCcCCcCCC
Confidence            477999999999997643689999999999974   5799999987

>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding domain; 1.90A {Mus musculus}

Probab=97.32  E-value=4.3e-05  Score=53.55  Aligned_cols=80  Identities=18%  Similarity=0.253  Sum_probs=57.1

Q ss_pred             ecccccccCCCceeeccCCceecccccccc----CCCCCCCccCc-chhhHHHHHHHHhhccCCCchhhhccCCCCCCCC
Q 042263           20 DCPIWYQALKVPVSQSINGHIICSSCLAKV----NNKCPACRSCV-MLRSRVMDIALEKTMSFGENKDHERNCQCAPCAC   94 (159)
Q Consensus        20 ~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~----~~~CP~Cr~~~-~~rn~~le~~~~~~~~~~~~~~He~~C~~~p~~C   94 (159)
                      -|++|..++..=...=+|.|.||..|...+    .+.||.|+.++ ......++.                     ..-|
T Consensus         3 fC~~C~~Pi~iygRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V~rVe~~~~~~---------------------if~C   61 (101)
T 3vk6_A            3 FCDKCGLPIKVYGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQRIEQCTRGS---------------------LFMC   61 (101)
T ss_dssp             BCTTTCSBCSEEEEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBCSEEEEEEGGG---------------------CCCC
T ss_pred             ecCccCCCeEEEeeeccccccHHHHHHHHHHhccCCCCcCcCCeeeeeEEeccCC---------------------EEEC
Confidence            489999888653333367999999999764    25799999988 222211111                     4578


Q ss_pred             C-CCCCcce-eChhHHHhHhhhhcCCce
Q 042263           95 P-LLDCNFL-GSASQLYLYFSWKNGKTF  120 (159)
Q Consensus        95 p-~~gC~~~-g~~~~l~~H~~~~H~~~~  120 (159)
                      + ..||.-+ .+.++|..|....|....
T Consensus        62 ~~~~~CkrtyLs~rdlqaHI~~~H~~~~   89 (101)
T 3vk6_A           62 SIVQGCKRTYLSQRDLQAHINHRHMRAG   89 (101)
T ss_dssp             CCCCCCCCCCSSHHHHHHHHHHHTTTSC
T ss_pred             CCCCCHHHHhcCHHHHHHHHHHHhhhcC
Confidence            8 6799765 556899999999998654

>2yre_A F-box only protein 30; zinc binding, E3 ubiquitin ligase, SCF, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=96.85  E-value=0.00025  Score=49.64  Aligned_cols=41  Identities=12%  Similarity=0.203  Sum_probs=35.6

Q ss_pred             ccCCCchhhhccCCCCCCCCCCC--CCcceeChhHHHhHhhhh
Q 042263           75 MSFGENKDHERNCQCAPCACPLL--DCNFLGSASQLYLYFSWK  115 (159)
Q Consensus        75 ~~~~~~~~He~~C~~~p~~Cp~~--gC~~~g~~~~l~~H~~~~  115 (159)
                      +...++++|...|+.+.+.|++.  ||.+++.+.+|.+|++..
T Consensus        48 i~rckL~EH~~~CP~a~v~C~~~~yGCp~~~~R~~L~~He~~C   90 (100)
T 2yre_A           48 FHSCKADEHRLLCPFERVPCLNSDFGCPFTMARNKVAEHLEMC   90 (100)
T ss_dssp             EEHHHHHHHHHHCSSSEEECTTTTTTCCCEEESSTHHHHHHTC
T ss_pred             eehhhHHHHHhhcccccccccccCcCCceeecHHHHHHHHhhC
Confidence            34446679999999999999987  999999999999999853

>2yuc_A TNF receptor-associated factor 4; ZF-TRAF, cysteine-rich domain associated with ring and TRAF domains protein 1, malignant 62; NMR {Homo sapiens}

Probab=96.76  E-value=0.00085  Score=43.66  Aligned_cols=38  Identities=16%  Similarity=0.157  Sum_probs=34.0

Q ss_pred             ccCCCchhhhc-cCCCCCCCCCCCCCcceeChhHHHhHhhh
Q 042263           75 MSFGENKDHER-NCQCAPCACPLLDCNFLGSASQLYLYFSW  114 (159)
Q Consensus        75 ~~~~~~~~He~-~C~~~p~~Cp~~gC~~~g~~~~l~~H~~~  114 (159)
                      +...++++|++ .|+++++.|++  |++...+.+|..|...
T Consensus        27 v~r~~l~~H~~~~C~~r~v~C~~--C~~~~~~~~l~~H~~~   65 (76)
T 2yuc_A           27 LSRRDLPAHLQHDCPKRRLKCEF--CGCDFSGEAYESHEGM   65 (76)
T ss_dssp             CCSSSSTTTTTTSCTTSCCCCSS--SCCCCCHHHHHHTTTS
T ss_pred             hhHhHHHhhCHhhCCCcceECCC--CCCccCHHHHHHHHhH
Confidence            66678889998 89999999998  9999999999999853

>2d8s_A Cellular modulator of immune recognition; C-MIR, march8, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=96.70  E-value=0.00082  Score=44.87  Aligned_cols=56  Identities=18%  Similarity=0.245  Sum_probs=38.4

Q ss_pred             ccCCCceEEEeeCCCeeecccccccCC--Ccee-eccC---CceeccccccccC-----CCCCCCccCc
Q 042263            3 SCKNGSITSTISDQDLFDCPIWYQALK--VPVS-QSIN---GHIICSSCLAKVN-----NKCPACRSCV   60 (159)
Q Consensus         3 ~~~~~~~~~~~~~~~~l~C~iC~~~l~--~Pv~-qC~~---GH~~C~~C~~~~~-----~~CP~Cr~~~   60 (159)
                      +.|.+..+  ..+.+...|.||++-+.  .++. .|.|   +|.|-..|+.+|.     ..||+||..+
T Consensus         2 ~~~~s~~s--~~~~~~~~C~IC~~~~~~~~~l~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~   68 (80)
T 2d8s_A            2 SSGSSGTS--ITPSSQDICRICHCEGDDESPLITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEF   68 (80)
T ss_dssp             CCCCCCCC--CCCTTSCCCSSSCCCCCSSSCEECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBC
T ss_pred             CcccCCCC--CCCCCCCCCeEcCccccCCCeeEeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCee
Confidence            34443333  34455668999997663  4543 3433   4999999999984     3799999987

>3k1l_B Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A {Drosophila melanogaster}

Probab=96.29  E-value=0.0011  Score=55.90  Aligned_cols=45  Identities=18%  Similarity=0.376  Sum_probs=37.5

Q ss_pred             CCeeecccccccCCC----ceeec---cCCceeccccccccC--------------CCCCCCccCc
Q 042263           16 QDLFDCPIWYQALKV----PVSQS---INGHIICSSCLAKVN--------------NKCPACRSCV   60 (159)
Q Consensus        16 ~~~l~C~iC~~~l~~----Pv~qC---~~GH~~C~~C~~~~~--------------~~CP~Cr~~~   60 (159)
                      ...-+|+||+..+.+    |...|   +|||.|=+.|+.+|.              +.||.||.++
T Consensus       306 e~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pI  371 (381)
T 3k1l_B          306 NEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKL  371 (381)
T ss_dssp             CSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEE
T ss_pred             cCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcC
Confidence            457789999999876    76667   489999999998862              4699999988

>2ct0_A Non-SMC element 1 homolog; ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=95.92  E-value=0.0034  Score=41.39  Aligned_cols=48  Identities=21%  Similarity=0.301  Sum_probs=38.1

Q ss_pred             EeeCCCeeecccccccCCCceeec-cCCceeccccccccC-----CCCCCCccCc
Q 042263           12 TISDQDLFDCPIWYQALKVPVSQS-INGHIICSSCLAKVN-----NKCPACRSCV   60 (159)
Q Consensus        12 ~~~~~~~l~C~iC~~~l~~Pv~qC-~~GH~~C~~C~~~~~-----~~CP~Cr~~~   60 (159)
                      ..-....-.|.||++++.+ -..| .|||.|=..|+.++.     .+||.|+.++
T Consensus         9 ~~y~~~i~~C~IC~~~i~~-g~~C~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w   62 (74)
T 2ct0_A            9 ETYPDAVKICNICHSLLIQ-GQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYW   62 (74)
T ss_dssp             CCCSSSSCBCSSSCCBCSS-SEECSSSCCEECHHHHHHHSTTCSSCCCTTTCSCC
T ss_pred             hhccCCCCcCcchhhHccc-CCccCCCCchhhHHHHHHHHHhcCCCCCCCCcCcC
Confidence            3445567889999999974 4567 589999999998763     4799999986

>2jun_A Midline-1; B-BOX, TRIM, ring finger, alternative splicing, coiled coil, cytoplasm, cytoskeleton, disease mutation, ligase, metal-binding; NMR {Homo sapiens}

Probab=95.84  E-value=0.0023  Score=43.69  Aligned_cols=32  Identities=19%  Similarity=0.339  Sum_probs=27.1

Q ss_pred             Ceeecccccc-cCCCceeecc-CCceeccccccc
Q 042263           17 DLFDCPIWYQ-ALKVPVSQSI-NGHIICSSCLAK   48 (159)
Q Consensus        17 ~~l~C~iC~~-~l~~Pv~qC~-~GH~~C~~C~~~   48 (159)
                      +.+.|+||.+ ++.+|+..|. |||.||..|+..
T Consensus         2 ee~~C~~C~~~~~~~av~~C~~C~~~~C~~Cl~~   35 (101)
T 2jun_A            2 EKVLCQFCDQDPAQDAVKTCVTCEVSYCDECLKA   35 (101)
T ss_dssp             CCCBCTTCCSSSCCBCCEEETTTTEEECHHHHHH
T ss_pred             CCCCCcCCCCCCCCCceEECCcCChHHhHHHCHH
Confidence            5678999996 5788888764 899999999987

>2d9k_A FLN29 gene product; zinc finger, ZF-TRAF, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=94.59  E-value=0.0023  Score=41.48  Aligned_cols=34  Identities=21%  Similarity=0.186  Sum_probs=22.7

Q ss_pred             CchhhhccCCCCCCCCCCCCCcceeChhHHHhHhhh
Q 042263           79 ENKDHERNCQCAPCACPLLDCNFLGSASQLYLYFSW  114 (159)
Q Consensus        79 ~~~~He~~C~~~p~~Cp~~gC~~~g~~~~l~~H~~~  114 (159)
                      ++..|+..|+.+|+.|+.  |+....+.+|..|...
T Consensus        31 ~L~~H~~~c~~~~~~C~~--C~~~~~~~~l~~H~~~   64 (75)
T 2d9k_A           31 KLKEHEDYCGARTELCGN--CGRNVLVKDLKTHPEV   64 (75)
T ss_dssp             HHHHHHHHHHHCEEECSS--SCCEEETTGGGTHHHH
T ss_pred             HHHHHHhHcCCCceEccc--CCCcCcHHHHHHHHHH
Confidence            445677667777777765  7766666777777654

>2d9k_A FLN29 gene product; zinc finger, ZF-TRAF, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=94.28  E-value=0.023  Score=36.62  Aligned_cols=33  Identities=21%  Similarity=0.313  Sum_probs=29.9

Q ss_pred             CCchhhhc-cCCCCCCCCCCCCCcceeChhHHHhHh
Q 042263           78 GENKDHER-NCQCAPCACPLLDCNFLGSASQLYLYF  112 (159)
Q Consensus        78 ~~~~~He~-~C~~~p~~Cp~~gC~~~g~~~~l~~H~  112 (159)
                      .+|..|+. .|+++|+.|++  |+......+|..|.
T Consensus         3 ~~L~~H~~~~c~~r~~~C~~--C~~~~~~~~L~~H~   36 (75)
T 2d9k_A            3 SGSSGHEETECPLRLAVCQH--CDLELSILKLKEHE   36 (75)
T ss_dssp             CCCSCCCCCCCCCCCEECSS--SCCEECHHHHHHHH
T ss_pred             hHHHhhCcccCCCcccCCcc--cChHhhHHHHHHHH
Confidence            46789986 79999999987  99999999999998

>3hcs_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha, coiled coil, cytoplasm, metal- binding, UBL conjugation, UBL conjugation pathway; 2.20A {Homo sapiens}

Probab=92.14  E-value=0.046  Score=40.44  Aligned_cols=40  Identities=10%  Similarity=0.017  Sum_probs=34.6

Q ss_pred             hccCCCchhhh-ccCCCCCCCCCCCCCcceeChhHHHhHhhhh
Q 042263           74 TMSFGENKDHE-RNCQCAPCACPLLDCNFLGSASQLYLYFSWK  115 (159)
Q Consensus        74 ~~~~~~~~~He-~~C~~~p~~Cp~~gC~~~g~~~~l~~H~~~~  115 (159)
                      .+...++..|+ ..|+++++.|++  |++.....+|..|....
T Consensus       119 ~~~r~~l~~H~~~~C~~r~~~C~~--C~~~~~~~~l~~H~~~~  159 (170)
T 3hcs_A          119 PFQKFHINIHILKDCPRRQVSCDN--CAASMAFEDKEIHDQNC  159 (170)
T ss_dssp             EEEGGGHHHHHHHTCTTCEEECTT--TCCEEEGGGHHHHHTTC
T ss_pred             HHHHHHHHHHhhhhCCCCCeECCC--CCCccCHHHHHhHHHhC
Confidence            35666788998 699999999995  99999999999998654

>2cup_A Skeletal muscle LIM-protein 1; four and half LIM domains protein 1, LIM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 g.39.1.3

Probab=90.87  E-value=0.1  Score=34.98  Aligned_cols=45  Identities=20%  Similarity=0.548  Sum_probs=37.0

Q ss_pred             CCeeecccccccCCCceeeccCCceeccccccccC-CCCCCCccCc
Q 042263           16 QDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN-NKCPACRSCV   60 (159)
Q Consensus        16 ~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~-~~CP~Cr~~~   60 (159)
                      .+-|.|..|...|....+.-..|..+|..|..++. .+|..|..+|
T Consensus        31 ~~CF~C~~C~~~L~~~~~~~~~g~~yC~~cy~~~~~~~C~~C~~~I   76 (101)
T 2cup_A           31 DTCFRCAKCLHPLANETFVAKDNKILCNKCTTREDSPKCKGCFKAI   76 (101)
T ss_dssp             TTTCCCSSSCCCTTSSCCEEETTEEECHHHHTTCCCCBCSSSCCBC
T ss_pred             hcCCcccccCCCCCcCeeECcCCEEEChhHhhhhcCCccccCCCcc
Confidence            45689999999997655555789999999998764 6899999887

>2jne_A Hypothetical protein YFGJ; zinc fingers, two zinc, structural genomics, PSI-2, protein structure initiative; NMR {Escherichia coli} SCOP: g.41.18.1

Probab=89.61  E-value=0.11  Score=36.02  Aligned_cols=37  Identities=32%  Similarity=0.714  Sum_probs=29.1

Q ss_pred             eecccccccCCCceeeccCCceeccccccccC--CCCCCCccCc
Q 042263           19 FDCPIWYQALKVPVSQSINGHIICSSCLAKVN--NKCPACRSCV   60 (159)
Q Consensus        19 l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~--~~CP~Cr~~~   60 (159)
                      ..||+|...|..     ..|+..|..|-....  +.||.|.+++
T Consensus        33 ~~CP~Cq~eL~~-----~g~~~hC~~C~~~f~~~a~CPdC~q~L   71 (101)
T 2jne_A           33 LHCPQCQHVLDQ-----DNGHARCRSCGEFIEMKALCPDCHQPL   71 (101)
T ss_dssp             CBCSSSCSBEEE-----ETTEEEETTTCCEEEEEEECTTTCSBC
T ss_pred             ccCccCCCccee-----cCCEEECccccchhhccccCcchhhHH
Confidence            789999977642     346677999988754  6799999987

>1wg2_A Zinc finger (AN1-like) family protein; riken structural genomics/proteomics initiative, RSGI, structural genomics, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: g.80.1.1

Probab=88.23  E-value=0.37  Score=30.81  Aligned_cols=45  Identities=13%  Similarity=0.069  Sum_probs=33.3

Q ss_pred             eCCCeeecccccccCCCceeeccCCceeccccccccCCCCCCCcc
Q 042263           14 SDQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPACRS   58 (159)
Q Consensus        14 ~~~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~~~CP~Cr~   58 (159)
                      .-...-.|..|..-+.-+.++|.||..||+.=...-...|+.-..
T Consensus        11 ~~~~~~rC~~C~kkvgl~~f~CrCg~~FC~~HR~~e~H~C~fDyk   55 (64)
T 1wg2_A           11 PVRPNNRCFSCNKKVGVMGFKCKCGSTFCGSHRYPEKHECSFDFK   55 (64)
T ss_dssp             CSCCSCSCTTTCCCCTTSCEECTTSCEECSSSCSSTTTTCCCCCS
T ss_pred             CCCcCCcChhhCCcccccCeEeecCCEecccCCCccccCCCcchh
Confidence            334456899999977655689999999999887665556765433

>2xqn_T Testin, TESS; metal-binding protein, cytoskeleton, focal adhesion, acrosom; 2.62A {Homo sapiens}

Probab=87.04  E-value=0.27  Score=34.31  Aligned_cols=45  Identities=20%  Similarity=0.411  Sum_probs=37.2

Q ss_pred             CCeeecccccccCCCceeeccCCceecccccccc-CCCCCCCccCc
Q 042263           16 QDLFDCPIWYQALKVPVSQSINGHIICSSCLAKV-NNKCPACRSCV   60 (159)
Q Consensus        16 ~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~-~~~CP~Cr~~~   60 (159)
                      .+-|.|..|...|...-+.-..|..+|..|..+. ..+|..|..+|
T Consensus        28 ~~CF~C~~C~~~L~~~~f~~~~g~~yC~~cy~~~~~~~C~~C~~~I   73 (126)
T 2xqn_T           28 LKHFCCFDCDSILAGEIYVMVNDKPVCKPCYVKNHAVVCQGCHNAI   73 (126)
T ss_dssp             GGGSBCTTTCCBCTTSEEEEETTEEEEHHHHHHHSCCBCTTTCSBC
T ss_pred             CCCCCcCCCCCCCCcCEEEeECCEEechHHhCcCcCccCcccCCcC
Confidence            4568999999999875454578999999998875 36899999988

>1wfh_A Zinc finger (AN1-like) family protein; ZF-AN1 domain, zinc binding, structural genomics, riken structural genomics/proteomics initiative; NMR {Arabidopsis thaliana} SCOP: g.80.1.1

Probab=86.30  E-value=0.57  Score=29.89  Aligned_cols=41  Identities=15%  Similarity=0.144  Sum_probs=31.5

Q ss_pred             CCeeecccccccCCCceeeccCCceeccccccccCCCCCCC
Q 042263           16 QDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPAC   56 (159)
Q Consensus        16 ~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~~~CP~C   56 (159)
                      ...-.|..|.+-+.-+.++|.||..||+.=...-...|+.-
T Consensus        13 ~~~~rC~~C~kkvgl~~f~CrCg~~FC~~HRy~e~H~C~fD   53 (64)
T 1wfh_A           13 QRPNRCTVCRKRVGLTGFMCRCGTTFCGSHRYPEVHGCTFD   53 (64)
T ss_dssp             SSCCCCTTTCCCCCTTCEECSSSCEECTTTCSTTTTTCCCC
T ss_pred             CcCCcChhhCCccCccCEEeecCCEeccccCCcccCCCCch
Confidence            34578999998766556899999999999876655567654

>2ct7_A Ring finger protein 31; IBR, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.44.1.4

Probab=86.28  E-value=0.45  Score=31.55  Aligned_cols=35  Identities=11%  Similarity=0.172  Sum_probs=25.1

Q ss_pred             CCCeeecccccccCC----Cceeecc-CCceecccccccc
Q 042263           15 DQDLFDCPIWYQALK----VPVSQSI-NGHIICSSCLAKV   49 (159)
Q Consensus        15 ~~~~l~C~iC~~~l~----~Pv~qC~-~GH~~C~~C~~~~   49 (159)
                      +++..-||-|..++.    .+..+|+ ||+.||..|...+
T Consensus        22 ~~~~~wCP~C~~~~~~~~~~~~v~C~~C~~~FC~~C~~~w   61 (86)
T 2ct7_A           22 DPKFLWCAQCSFGFIYEREQLEATCPQCHQTFCVRCKRQW   61 (86)
T ss_dssp             CCCEECCSSSCCCEECCCSCSCEECTTTCCEECSSSCSBC
T ss_pred             CCCEeECcCCCchheecCCCCceEeCCCCCccccccCCch
Confidence            333444999988653    2235796 9999999998877

>1vyx_A ORF K3, K3RING; zinc-binding protein, ring domain, cross-brace motif; NMR {Human herpesvirus 8} SCOP: g.44.1.3

Probab=84.05  E-value=0.31  Score=30.30  Aligned_cols=46  Identities=22%  Similarity=0.264  Sum_probs=30.8

Q ss_pred             CCCeeecccccccCCCce-eeccCCc---eeccccccccC-----CCCCCCccCc
Q 042263           15 DQDLFDCPIWYQALKVPV-SQSINGH---IICSSCLAKVN-----NKCPACRSCV   60 (159)
Q Consensus        15 ~~~~l~C~iC~~~l~~Pv-~qC~~GH---~~C~~C~~~~~-----~~CP~Cr~~~   60 (159)
                      +.+.-.|.||++-..+|+ ..|.|.+   .|=..|+.++.     ..||+|+.++
T Consensus         3 ~~~~~~CrIC~~~~~~~l~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~   57 (60)
T 1vyx_A            3 DEDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVY   57 (60)
T ss_dssp             TCSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBC
T ss_pred             CCCCCEeEEeecCCCCceecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCee
Confidence            445668999987655553 3465544   45556777762     5799999876

>2jrp_A Putative cytoplasmic protein; two-zinc binding protein, structural genomics, PSI-2, protein structure initiative; NMR {Salmonella typhimurium LT2}

Probab=83.81  E-value=0.44  Score=31.84  Aligned_cols=37  Identities=27%  Similarity=0.696  Sum_probs=26.6

Q ss_pred             eecccccccCCCceeeccCCceeccccccccC--CCCCCCccCc
Q 042263           19 FDCPIWYQALKVPVSQSINGHIICSSCLAKVN--NKCPACRSCV   60 (159)
Q Consensus        19 l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~--~~CP~Cr~~~   60 (159)
                      ..||.|...|..     ..++..|..|-..+.  +.||.|..++
T Consensus         3 ~~CP~C~~~l~~-----~~~~~~C~~C~~~~~~~afCPeCgq~L   41 (81)
T 2jrp_A            3 ITCPVCHHALER-----NGDTAHCETCAKDFSLQALCPDCRQPL   41 (81)
T ss_dssp             CCCSSSCSCCEE-----CSSEEECTTTCCEEEEEEECSSSCSCC
T ss_pred             CCCCCCCCcccc-----CCCceECccccccCCCcccCcchhhHH
Confidence            679999977642     335566888877653  5799888876

>1z2q_A LM5-1; membrane protein, FYVE domain, zinc-finger; NMR {Leishmania major}

Probab=83.75  E-value=0.71  Score=30.51  Aligned_cols=36  Identities=17%  Similarity=0.299  Sum_probs=27.9

Q ss_pred             eeCCCeeecccccccCCCc--eeecc-CCceeccccccc
Q 042263           13 ISDQDLFDCPIWYQALKVP--VSQSI-NGHIICSSCLAK   48 (159)
Q Consensus        13 ~~~~~~l~C~iC~~~l~~P--v~qC~-~GH~~C~~C~~~   48 (159)
                      +.|.+.-.|.+|...|..-  -..|. ||.+||+.|...
T Consensus        16 ~pd~~~~~C~~C~~~Fs~~~RrHHCR~CG~v~C~~Cs~~   54 (84)
T 1z2q_A           16 QEDEDAPACNGCGCVFTTTVRRHHCRNCGYVLCGDCSRH   54 (84)
T ss_dssp             CCTTTCCBCTTTCCBCCTTSCCEECTTTCCEECTGGGCC
T ss_pred             ccCCCCCCCcCcCCccccchhcccccCCCcEEChHHhCC
Confidence            4567788999999987532  35686 799999999765

>2yw8_A RUN and FYVE domain-containing protein 1; structure genomics, structural genomics, NPPSFA; 3.00A {Homo sapiens} PDB: 2yqm_A

Probab=83.65  E-value=0.77  Score=30.19  Aligned_cols=36  Identities=19%  Similarity=0.540  Sum_probs=27.0

Q ss_pred             eeCCCeeecccccccCCCc--eeecc-CCceeccccccc
Q 042263           13 ISDQDLFDCPIWYQALKVP--VSQSI-NGHIICSSCLAK   48 (159)
Q Consensus        13 ~~~~~~l~C~iC~~~l~~P--v~qC~-~GH~~C~~C~~~   48 (159)
                      +.|.+.-.|.+|...|..-  -..|. ||.+||+.|...
T Consensus        14 ~~d~~~~~C~~C~~~Fs~~~RrHHCR~CG~v~C~~Cs~~   52 (82)
T 2yw8_A           14 LKDDEATHCRQCEKEFSISRRKHHCRNCGHIFCNTCSSN   52 (82)
T ss_dssp             -CCCCCCBCTTTCCBCBTTBCCEECTTTCCEECSGGGCE
T ss_pred             ccCccCCcccCcCCcccCccccccCCCCCCEEChHHhCC
Confidence            3466777899999887532  24686 799999999865

>1z60_A TFIIH basal transcription factor complex P44 subunit; basic transcription factor, zinc binding protein, ring finger; NMR {Homo sapiens} SCOP: g.49.1.2

Probab=83.59  E-value=0.48  Score=29.70  Aligned_cols=37  Identities=27%  Similarity=0.449  Sum_probs=29.0

Q ss_pred             ecccccccCCCc-eeecc-CCceecccccccc---CCCCCCC
Q 042263           20 DCPIWYQALKVP-VSQSI-NGHIICSSCLAKV---NNKCPAC   56 (159)
Q Consensus        20 ~C~iC~~~l~~P-v~qC~-~GH~~C~~C~~~~---~~~CP~C   56 (159)
                      .|-.|...+.+. +|+|+ |++.||-.|-.=+   ...||-|
T Consensus        17 ~C~~C~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPgC   58 (59)
T 1z60_A           17 FCYGCQGELKDQHVYVCAVCQNVFCVDCDVFVHDSLHSCPGC   58 (59)
T ss_dssp             EETTTTEECTTSEEECCTTTTCCBCHHHHHTTTTTSCSSSTT
T ss_pred             cccccCcccCCCccEECCccCcCcccchhHHHHhhccCCcCC
Confidence            489999988655 48997 7999999995432   3689988

>1x61_A Thyroid receptor interacting protein 6; LIM domain, OPA-interacting protein 1, zyxin related protein 1 (ZRP-1), structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3

Probab=82.68  E-value=0.33  Score=30.36  Aligned_cols=41  Identities=15%  Similarity=0.305  Sum_probs=28.2

Q ss_pred             CCeeecccccccCCCceeeccCCceeccccccccCCCCCCC
Q 042263           16 QDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPAC   56 (159)
Q Consensus        16 ~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~~~CP~C   56 (159)
                      .+-|.|..|...|....+.-..|..+|..|..++..+|+.+
T Consensus        31 ~~CF~C~~C~~~L~~~~~~~~~~~~yC~~cy~~~~~~~~~~   71 (72)
T 1x61_A           31 VGCFVCSTCRAQLRGQHFYAVERRAYCEGCYVATLESGPSS   71 (72)
T ss_dssp             TTTCBCSSSCCBCTTSCEEESSSCEEEHHHHHHHHHTCSSC
T ss_pred             ccCCcccccCCcCCcCcCEeeCCeEECHHHHHHHHccCCCC
Confidence            34578888888886544544678888888887765566543

>2cs3_A Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.44.1.3

Probab=82.46  E-value=0.32  Score=32.66  Aligned_cols=36  Identities=19%  Similarity=0.383  Sum_probs=29.3

Q ss_pred             eeCCCeeecccccccCCCc-eeecc--CCceeccccccc
Q 042263           13 ISDQDLFDCPIWYQALKVP-VSQSI--NGHIICSSCLAK   48 (159)
Q Consensus        13 ~~~~~~l~C~iC~~~l~~P-v~qC~--~GH~~C~~C~~~   48 (159)
                      ..+...|.|.+|.+-|.+- ..||+  .+|.||-.|...
T Consensus        10 ~~~~a~l~CtlC~erLEdtHFVQCPsv~~HkFCFpCsr~   48 (93)
T 2cs3_A           10 MANSGPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRE   48 (93)
T ss_dssp             SCSCCSCCCSSSCSCCSSTTSEECSSCSSCEECHHHHHH
T ss_pred             CCCCCeeEeecchhhhccCceeeCCCccCCeeeccccHH
Confidence            3467789999999999886 34897  599999999654

>1joc_A EEA1, early endosomal autoantigen 1; FYVE domain, inositol 3-phosphate binding, membrane protein; HET: ITP; 2.20A {Homo sapiens} SCOP: g.50.1.1 h.1.21.1 PDB: 1hyi_A* 1hyj_A

Probab=82.46  E-value=0.57  Score=33.42  Aligned_cols=35  Identities=26%  Similarity=0.535  Sum_probs=26.5

Q ss_pred             eCCCeeecccccccCCCc--eeecc-CCceeccccccc
Q 042263           14 SDQDLFDCPIWYQALKVP--VSQSI-NGHIICSSCLAK   48 (159)
Q Consensus        14 ~~~~~l~C~iC~~~l~~P--v~qC~-~GH~~C~~C~~~   48 (159)
                      .|.+.-.|.+|...|..-  -..|. ||.+||+.|...
T Consensus        65 ~d~~~~~C~~C~~~Fs~~~RrHHCR~CG~vfC~~Cs~~  102 (125)
T 1joc_A           65 EDNEVQNCMACGKGFSVTVRRHHCRQCGNIFCAECSAK  102 (125)
T ss_dssp             CGGGCCBCTTTCCBCCSSSCCEECTTTCCEECGGGSCE
T ss_pred             cCCCCCCCcCcCCccccccccccCCCCCeEEChHHhCC
Confidence            355567899999987532  25686 899999999765

>2jmo_A Parkin; IBR, E3 ligase, zinc binding domain, RBR; NMR {Homo sapiens}

Probab=82.45  E-value=0.82  Score=29.95  Aligned_cols=42  Identities=17%  Similarity=0.266  Sum_probs=30.5

Q ss_pred             CCCeeeccc--ccccCC----Cceeec------cCCceeccccccccCCCCCCCcc
Q 042263           15 DQDLFDCPI--WYQALK----VPVSQS------INGHIICSSCLAKVNNKCPACRS   58 (159)
Q Consensus        15 ~~~~l~C~i--C~~~l~----~Pv~qC------~~GH~~C~~C~~~~~~~CP~Cr~   58 (159)
                      +.+..-||.  |..++.    .+..+|      .||+.||..|...+..  -.|..
T Consensus        22 ~~~~~~CP~p~C~~~v~~~~~~~~v~C~~~~~~~C~~~FC~~C~~~wH~--~~C~~   75 (80)
T 2jmo_A           22 QMGGVLCPRPGCGAGLLPEPDQRKVTCEGGNGLGCGFAFCRECKEAYHE--GECSA   75 (80)
T ss_dssp             CCSSCCCCSSSCCCCCCCCSCTTSBCTTSSSTTCCSCCEETTTTEECCS--SCSSS
T ss_pred             hCCcEECCCCCCCcccEECCCCCcCCCCCCCCCCCCCeeccccCccccC--Ccccc
Confidence            344667998  988774    234579      6999999999998763  55654

>1iml_A CRIP, cysteine rich intestinal protein; metal-binding protein, LIM domain protein; NMR {Rattus rattus} SCOP: g.39.1.3 g.39.1.3

Probab=82.16  E-value=0.78  Score=29.00  Aligned_cols=45  Identities=13%  Similarity=0.185  Sum_probs=34.5

Q ss_pred             CCeeecccccccCCCceeeccCCceecc-ccccccC-CCCCCCccCc
Q 042263           16 QDLFDCPIWYQALKVPVSQSINGHIICS-SCLAKVN-NKCPACRSCV   60 (159)
Q Consensus        16 ~~~l~C~iC~~~l~~Pv~qC~~GH~~C~-~C~~~~~-~~CP~Cr~~~   60 (159)
                      .+-|.|..|...|..-.+.-..|..+|. .|..+.. .+|..|....
T Consensus        25 ~~CF~C~~C~~~L~~~~~~~~~g~~yC~~~cy~~~f~~~C~~C~~~~   71 (76)
T 1iml_A           25 RPCLKCEKCGKTLTSGGHAEHEGKPYCNHPCYSAMFGPKGFGRGGAE   71 (76)
T ss_dssp             TTTCBCTTTCCBCCTTTEEEETTEEEETTTHHHHHSSCCCSSCCCSS
T ss_pred             CCCCCccccCccCCCCceECcCCeEeeCHHHHHHHhCccCCCcCCce
Confidence            4568999999999764344478999999 6987753 6898887654

>1x4u_A Zinc finger, FYVE domain containing 27 isoform B; phosphoinositide binding, zinc binding, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=81.10  E-value=0.91  Score=29.93  Aligned_cols=36  Identities=17%  Similarity=0.299  Sum_probs=27.2

Q ss_pred             eeCCCeeecccccccCCCc--eeecc-CCceeccccccc
Q 042263           13 ISDQDLFDCPIWYQALKVP--VSQSI-NGHIICSSCLAK   48 (159)
Q Consensus        13 ~~~~~~l~C~iC~~~l~~P--v~qC~-~GH~~C~~C~~~   48 (159)
                      +-|.+.-.|.+|...|..-  -..|. ||.+||+.|...
T Consensus         9 ~pd~~~~~C~~C~~~F~~~~RrHHCR~CG~vfC~~Cs~~   47 (84)
T 1x4u_A            9 YPTNNFGNCTGCSATFSVLKKRRSCSNCGNSFCSRCCSF   47 (84)
T ss_dssp             CSCCCCSSCSSSCCCCCSSSCCEECSSSCCEECTTTSCE
T ss_pred             ccCCCCCcCcCcCCccccchhhhhhcCCCcEEChhhcCC
Confidence            3466777899999887432  24686 799999999764

>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=80.09  E-value=1.2  Score=26.69  Aligned_cols=28  Identities=7%  Similarity=-0.084  Sum_probs=16.2

Q ss_pred             ccCCCCCCCCCCCCCcceeChhHHHhHhhh
Q 042263           85 RNCQCAPCACPLLDCNFLGSASQLYLYFSW  114 (159)
Q Consensus        85 ~~C~~~p~~Cp~~gC~~~g~~~~l~~H~~~  114 (159)
                      +.|+.+|+.|+.  |+.......|..|...
T Consensus         4 ~~C~~~~~~C~~--C~k~f~~~~L~~H~~~   31 (66)
T 2eod_A            4 GSSGKRTQPCTY--CTKEFVFDTIQSHQYQ   31 (66)
T ss_dssp             SCCCCCEEECSS--SCCEEEHHHHHHHHHH
T ss_pred             ccCCCCCeeccc--cCCccCHHHHHHHHHH
Confidence            356666666654  6554445556666654

---

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	159
d1k2fa_	190	b.8.1.2 (A:) SIAH, seven in absentia homolog {Mous	1e-06
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	0.001

>d1k2fa_ b.8.1.2 (A:) SIAH, seven in absentia homolog {Mouse (Mus musculus) [TaxId: 10090]} Length = 190

class: All beta proteins
fold: TRAF domain-like
superfamily: TRAF domain-like
family: SIAH, seven in absentia homolog
domain: SIAH, seven in absentia homolog
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 43.9 bits (103), Expect = 1e-06
 Identities = 19/86 (22%), Positives = 28/86 (32%), Gaps = 4/86 (4%)

Query: 72  EKTMSFGENKDHERNCQCAP--CACPLLDCNFLGSASQLYLYFSW--KNGKTFVSFTYKK 127
           E T+   E  +HE  C+  P  C CP   C + GS   +  +     K+  T        
Sbjct: 14  EITLPHTEKAEHEELCEFRPYSCPCPGASCKWQGSLDAVMPHLMHQHKSITTLQGEDIVF 73

Query: 128 RVKVTLNVNDSVFLFRQQKNGHLFSL 153
                       ++  Q   G  F L
Sbjct: 74  LATDINLPGAVDWVMMQSCFGFHFML 99

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]} Length = 56

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 33.3 bits (76), Expect = 0.001
 Identities = 12/43 (27%), Positives = 16/43 (37%), Gaps = 1/43 (2%)

Query: 21 CPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPACRSCVMLR 63
          C       K P       H +CS CL     +CP C++   L 
Sbjct: 9  CQQCQAEAKCPK-LLPCLHTLCSGCLEASGMQCPICQAPWPLG 50

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	159
d1k2fa_	190	SIAH, seven in absentia homolog {Mouse (Mus muscul	99.46
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.28
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.13
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.12
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.05
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.02
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	98.99
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	98.81
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.8
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	98.79
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	98.79
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	98.77
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	98.63
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	98.61
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	98.13
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	97.98
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	97.8
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	96.82
d1zfda_	32	SWI5 zinc-finger domains {Baker's yeast (Saccharom	94.0
d1ubdc4	28	Ying-yang 1 (yy1, zinc finger domain) {Human (Homo	93.48
d2jnea1	71	Hypothetical protein YfgJ {Escherichia coli [TaxId	93.32
d1sp2a_	31	Transcription factor sp1 {Human (Homo sapiens) [Ta	92.04
d1a1ia1	29	ZIF268 {Mouse (Mus musculus) [TaxId: 10090]}	91.77
d2glia3	30	Five-finger GLI1 {Human (Homo sapiens) [TaxId: 960	91.11
d1z60a1	59	TFIIH p44 subunit cysteine-rich domain {Human (Hom	91.04
d1wfpa_	74	Zinc finger A20 and AN1 domains containing protein	90.95
d1ubdc3	30	Ying-yang 1 (yy1, zinc finger domain) {Human (Homo	90.45
d1wfha_	64	Zinc finger A20 and AN1 domains containing protein	85.4
d1joca1	64	Eea1 {Human (Homo sapiens) [TaxId: 9606]}	85.13
d1zbdb_	124	Effector domain of rabphilin-3a {Rat (Rattus norve	83.7
d2ct7a1	73	Ring finger protein 31 {Human (Homo sapiens) [TaxI	83.6
d2cs3a1	80	Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [	83.41
d1wfla_	74	Zinc finger A20 domain containing protein 2 {Mouse	82.61
d1wffa_	85	ANUBL1 (AN1, ubiquitin-like, homolog) {Mouse (Mus	82.52
d2glia5	29	Five-finger GLI1 {Human (Homo sapiens) [TaxId: 960	81.58
d1ncsa_	47	SWI5 zinc-finger domains {Baker's yeast (Saccharom	80.83

>d1k2fa_ b.8.1.2 (A:) SIAH, seven in absentia homolog {Mouse (Mus musculus) [TaxId: 10090]}

class: All beta proteins
fold: TRAF domain-like
superfamily: TRAF domain-like
family: SIAH, seven in absentia homolog
domain: SIAH, seven in absentia homolog
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.46  E-value=4.1e-14  Score=108.39  Aligned_cols=85  Identities=19%  Similarity=0.214  Sum_probs=69.2

Q ss_pred             hhccCCCchhhhccCCCCCCCCCCC--CCcceeChhHHHhHhhhhcCCceEEEEeCcEEEEEE--eCCCcEEEEEEcCCC
Q 042263           73 KTMSFGENKDHERNCQCAPCACPLL--DCNFLGSASQLYLYFSWKNGKTFVSFTYKKRVKVTL--NVNDSVFLFRQQKNG  148 (159)
Q Consensus        73 ~~~~~~~~~~He~~C~~~p~~Cp~~--gC~~~g~~~~l~~H~~~~H~~~~~~~~~~~~~~~~~--~~~~~~~~l~~~~d~  148 (159)
                      ++++|.++.+||++|.|+|+.||.+  +|+|+|..++|..|+..+|++..+.+.++..+....  .++....++++..+|
T Consensus        15 ~~~~~~~~~~HE~~C~~~p~~C~~~~~~C~~~G~~~~l~~Hl~~~H~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~g   94 (190)
T d1k2fa_          15 ITLPHTEKAEHEELCEFRPYSCPCPGASCKWQGSLDAVMPHLMHQHKSITTLQGEDIVFLATDINLPGAVDWVMMQSCFG   94 (190)
T ss_dssp             CCCCGGGHHHHHHTCTTSCEECCSSSTTCCCEECHHHHHHHHHHSSCCCEEEESSEEEEEECCTTCTTCCEEEEEEEETT
T ss_pred             EeccccchhhHHhcCCCcccCCCCCCCCCccCCCHhHHHHHHHhcCCcccccCccceEEeeeccccccceeEEEEEecCC
Confidence            5688999999999999999777665  699999999999999999998777666666555433  233557788888999


Q ss_pred             cEEEEEcee
Q 042263          149 HLFSLKNVV  157 (159)
Q Consensus       149 ~lF~l~~~~  157 (159)
                      .+|+|...+
T Consensus        95 ~~F~l~~~~  103 (190)
T d1k2fa_          95 FHFMLVLEK  103 (190)
T ss_dssp             EEEEEEEEE
T ss_pred             CEEEEEEEE
Confidence            999998654

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: bard1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.28  E-value=8.2e-13  Score=90.54  Aligned_cols=56  Identities=27%  Similarity=0.576  Sum_probs=48.0

Q ss_pred             CeeecccccccCCCceeeccCCceeccccccccC-CCCCCCccCc----chhhHHHHHHHH
Q 042263           17 DLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN-NKCPACRSCV----MLRSRVMDIALE   72 (159)
Q Consensus        17 ~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~-~~CP~Cr~~~----~~rn~~le~~~~   72 (159)
                      +.+.||||.++|.+|+....|||+||..|+.++. .+||.||.++    ...|..++++++
T Consensus        21 ~~l~C~IC~~~~~~pv~~~~CgH~fC~~Ci~~~~~~~CP~Cr~~~~~~~l~~n~~l~~lv~   81 (97)
T d1jm7b_          21 KLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIGTGCPVCYTPAWIQDLKINRQLDSMIQ   81 (97)
T ss_dssp             HTTSCSSSCSCCSSCBCCCSSSCCBCTTTGGGGTTTBCSSSCCBCSCSSCCCCHHHHHHHH
T ss_pred             hcCCCccCCchhhcCceeCCCCCchhHHHHHHHHhccccccCCcCchhhCcccHHHHHHHH
Confidence            4679999999999998766789999999999875 5799999988    346888888876

>d2c2la2 g.44.1.2 (A:225-304) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.13  E-value=8.6e-12  Score=82.52  Aligned_cols=57  Identities=14%  Similarity=0.186  Sum_probs=48.7

Q ss_pred             CCeeecccccccCCCceeeccCCceeccccccccC----CCCCCCccCc----chhhHHHHHHHHh
Q 042263           16 QDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN----NKCPACRSCV----MLRSRVMDIALEK   73 (159)
Q Consensus        16 ~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~----~~CP~Cr~~~----~~rn~~le~~~~~   73 (159)
                      ++.|.||||+++|++||. ..|||+||.+|+.++.    ..||.|+.++    ...|.+|.+++++
T Consensus         5 P~~l~CpIc~~l~~dPv~-~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~~~l~pN~~L~~~I~~   69 (80)
T d2c2la2           5 PDYLCGKISFELMREPCI-TPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLIPNLAMKEVIDA   69 (80)
T ss_dssp             CSTTBCTTTCSBCSSEEE-CSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGGCEECHHHHHHHHH
T ss_pred             CccccCcCcCchhhhhcc-cCCcCeecHHHHHHHHhcCCccCCCccccccccccccHHHHHHHHHH
Confidence            688999999999999986 4899999999998863    4799999998    3458888888774

>d1bora_ g.44.1.1 (A:) Acute promyelocytic leukaemia proto-oncoprotein PML {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Acute promyelocytic leukaemia proto-oncoprotein PML
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.12  E-value=1.2e-11  Score=77.09  Aligned_cols=45  Identities=24%  Similarity=0.511  Sum_probs=40.2

Q ss_pred             CCCeeecccccccCCCceeeccCCceeccccccccCCCCCCCccCc
Q 042263           15 DQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPACRSCV   60 (159)
Q Consensus        15 ~~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~~~CP~Cr~~~   60 (159)
                      +.+.|.|+||++.+.+|+. .+|||+||..|+.+...+||.||.++
T Consensus         3 e~~~l~C~IC~~~~~~p~~-lpCgH~fC~~Ci~~~~~~CP~Cr~~~   47 (56)
T d1bora_           3 EFQFLRCQQCQAEAKCPKL-LPCLHTLCSGCLEASGMQCPICQAPW   47 (56)
T ss_dssp             SCCCSSCSSSCSSCBCCSC-STTSCCSBTTTCSSSSSSCSSCCSSS
T ss_pred             ccCCCCCcccCcccCCCEE-ecCCCHHhHHHHHcCCCcCcCCCCcc
Confidence            4466899999999999976 47999999999998878999999988

>d1t1ha_ g.44.1.2 (A:) E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: E3 ubiquitin ligase PUB14
species: Thale-cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.05  E-value=1.3e-11  Score=81.19  Aligned_cols=57  Identities=23%  Similarity=0.423  Sum_probs=47.3

Q ss_pred             CCeeecccccccCCCceeeccCCceeccccccccC----CCCCCCccCc----chhhHHHHHHHHh
Q 042263           16 QDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN----NKCPACRSCV----MLRSRVMDIALEK   73 (159)
Q Consensus        16 ~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~----~~CP~Cr~~~----~~rn~~le~~~~~   73 (159)
                      ++.|.||||+++|++||. ..|||+||.+|+.++.    ..||.|+.++    ...|.+|.+++++
T Consensus         6 P~~l~CpIc~~~m~dPV~-~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~~l~pN~~L~~~I~~   70 (78)
T d1t1ha_           6 PEYFRCPISLELMKDPVI-VSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLTPNYVLKSLIAL   70 (78)
T ss_dssp             SSSSSCTTTSCCCSSEEE-ETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCCEECTTTHHHHHH
T ss_pred             CccCCCcCcCchhhCceE-ccCCCcchHHHHHHHHHHCCCCCCcccccCCcccccchHHHHHHHHH
Confidence            578999999999999986 4899999999998753    4699999998    3457777777763

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: V(D)J recombination activating protein 1 (RAG1), dimerization domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.02  E-value=2.6e-11  Score=81.78  Aligned_cols=43  Identities=28%  Similarity=0.631  Sum_probs=37.9

Q ss_pred             CeeecccccccCCCceeeccCCceeccccccccC----CCCCCCccCc
Q 042263           17 DLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN----NKCPACRSCV   60 (159)
Q Consensus        17 ~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~----~~CP~Cr~~~   60 (159)
                      +.+.||||++++.+|+.. +|||.||..|+.++.    .+||.||.++
T Consensus        22 ~~l~C~IC~~~~~~pv~~-~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~   68 (86)
T d1rmda2          22 KSISCQICEHILADPVET-SCKHLFCRICILRCLKVMGSYCPSCRYPC   68 (86)
T ss_dssp             HHTBCTTTCSBCSSEEEC-TTSCEEEHHHHHHHHHHTCSBCTTTCCBC
T ss_pred             cCcCCccCCcchhcceec-CCCChhhHHHHHHHHhhCCCcCcccCCCC
Confidence            457899999999999864 899999999998863    5799999988

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: brca1 RING domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.99  E-value=1.2e-11  Score=85.46  Aligned_cols=43  Identities=35%  Similarity=0.897  Sum_probs=37.3

Q ss_pred             CeeecccccccCCCceeeccCCceeccccccccC------CCCCCCccCc
Q 042263           17 DLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN------NKCPACRSCV   60 (159)
Q Consensus        17 ~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~------~~CP~Cr~~~   60 (159)
                      +.|.||||++++.+|+. .+|||+||..|+.++.      ..||.||.++
T Consensus        20 ~~l~CpIC~~~~~~pv~-~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~   68 (103)
T d1jm7a_          20 KILECPICLELIKEPVS-TKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDI   68 (103)
T ss_dssp             HHTSCSSSCCCCSSCCB-CTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCC
T ss_pred             cCcCCCccCchhCCeEE-cCCCCchhhHHHHHHHHHCCCCCcCcCCCCcC
Confidence            45889999999999976 4799999999988752      3799999988

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Not-4 N-terminal RING finger domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.81  E-value=3.3e-10  Score=69.17  Aligned_cols=42  Identities=29%  Similarity=0.721  Sum_probs=34.2

Q ss_pred             eecccccccCCCc---eeeccCCceeccccccccC----CCCCCCccCc
Q 042263           19 FDCPIWYQALKVP---VSQSINGHIICSSCLAKVN----NKCPACRSCV   60 (159)
Q Consensus        19 l~C~iC~~~l~~P---v~qC~~GH~~C~~C~~~~~----~~CP~Cr~~~   60 (159)
                      ++||||++.+...   +..+.|||.||..|+.++.    .+||+||+++
T Consensus         1 leCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~~~CP~CR~~~   49 (52)
T d1ur6b_           1 VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPY   49 (52)
T ss_dssp             CEETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTSCCBCTTTCCBC
T ss_pred             CCCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhcCCCCCccCCcC
Confidence            5899999988532   3456899999999999874    4699999986

>d1wgma_ g.44.1.2 (A:) Ubiquitin conjugation factor E4A {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Ubiquitin conjugation factor E4A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.80  E-value=8.3e-10  Score=75.68  Aligned_cols=59  Identities=19%  Similarity=0.140  Sum_probs=48.5

Q ss_pred             CCCeeecccccccCCCceeeccCCceeccccccccC---CCCCCCccCc----chhhHHHHHHHHh
Q 042263           15 DQDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN---NKCPACRSCV----MLRSRVMDIALEK   73 (159)
Q Consensus        15 ~~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~----~~rn~~le~~~~~   73 (159)
                      -++.|.||||+++|++||....+||+||..|+.++.   ..||.|+.++    ...|.+|.+.+++
T Consensus        19 ~P~~f~CPI~~~lm~dPV~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~~~L~pN~~Lr~~I~~   84 (98)
T d1wgma_          19 ACDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQIRPNTELKEKIQR   84 (98)
T ss_dssp             CCTTTBCTTTCSBCSSEEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTTSEECHHHHHHHHH
T ss_pred             CcHHhCCcCchhHHHHHHhcccccchhhHHHHHHHHHhcCCcccccccccchhhcchHHHHHHHHH
Confidence            467899999999999998753445699999999974   6799999998    4468888887773

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

Probab=98.79  E-value=9.6e-10  Score=70.39  Aligned_cols=44  Identities=23%  Similarity=0.393  Sum_probs=37.8

Q ss_pred             CeeecccccccCCCceeeccCCceeccccccccC---CCCCCCccCc
Q 042263           17 DLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN---NKCPACRSCV   60 (159)
Q Consensus        17 ~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~   60 (159)
                      ..-+||||++.+..|+..-+|||.||..|+.++.   .+||.||.++
T Consensus         4 ~~d~C~IC~~~~~~~~~~~~C~H~Fc~~Ci~~w~~~~~~CP~CR~~i   50 (68)
T d1chca_           4 VAERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPV   50 (68)
T ss_dssp             CCCCCSSCCSCCCSCEEETTTTEEESTTHHHHHHHHSCSTTTTCCCC
T ss_pred             CCCCCccCCcCccCCcEEeCCCCcCcHHHHHHHHHhCCcCCCCCcch
Confidence            3446999999998887766899999999998873   6899999987

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: U-box
domain: Pre-mRNA splicing factor Prp19
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.79  E-value=5.2e-10  Score=69.17  Aligned_cols=42  Identities=19%  Similarity=0.173  Sum_probs=37.1

Q ss_pred             eecccccccCCCceeeccCCceeccccccccC---CCCCCCccCc
Q 042263           19 FDCPIWYQALKVPVSQSINGHIICSSCLAKVN---NKCPACRSCV   60 (159)
Q Consensus        19 l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~   60 (159)
                      |.||||++++++|+..-.+||+||.+|+.++.   ++||.||.++
T Consensus         1 l~C~Ic~~~~~~Pv~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l   45 (56)
T d2baya1           1 MLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPL   45 (56)
T ss_dssp             CCCTTTCSCCSSEEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBC
T ss_pred             CCCccCCchHHhcCccCCCCCcccHHHHHHHHhhccCCCccCCcC
Confidence            56999999999998754689999999999874   6899999987

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: CBL
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.77  E-value=5.9e-10  Score=73.57  Aligned_cols=44  Identities=30%  Similarity=0.585  Sum_probs=37.1

Q ss_pred             CCeeecccccccCCCceeeccCCceeccccccccC----CCCCCCccCc
Q 042263           16 QDLFDCPIWYQALKVPVSQSINGHIICSSCLAKVN----NKCPACRSCV   60 (159)
Q Consensus        16 ~~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~----~~CP~Cr~~~   60 (159)
                      .+...|+||++.+.+|+.. +|||.||..|+.++.    .+||.||..+
T Consensus        21 ~~~~~C~IC~~~~~~~~~~-~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i   68 (79)
T d1fbva4          21 STFQLCKICAENDKDVKIE-PCGHLMCTSCLTSWQESEGQGCPFCRCEI   68 (79)
T ss_dssp             CCTTBCTTTSSSBCCEECS-SSCCEECHHHHHHHHHTTCCSCTTTCCCC
T ss_pred             CCCCCCccCCCcCCCeEEe-CCCCeeeHHHHHHHHHHCcCcCCCCCcCc
Confidence            3445699999999999764 799999999998762    4699999998

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

Probab=98.63  E-value=8.3e-09  Score=63.49  Aligned_cols=44  Identities=25%  Similarity=0.452  Sum_probs=35.3

Q ss_pred             CeeecccccccCCCc--eeec-cCCceeccccccccC---CCCCCCccCc
Q 042263           17 DLFDCPIWYQALKVP--VSQS-INGHIICSSCLAKVN---NKCPACRSCV   60 (159)
Q Consensus        17 ~~l~C~iC~~~l~~P--v~qC-~~GH~~C~~C~~~~~---~~CP~Cr~~~   60 (159)
                      +..+|+||++.+.+.  +.+. .|||.||..|+.++.   +.||.||.++
T Consensus         4 d~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i   53 (55)
T d1iyma_           4 DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV   53 (55)
T ss_dssp             CSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCS
T ss_pred             CCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEe
Confidence            446799999999643  4454 489999999999974   6799999875

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: TFIIH Mat1 subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.61  E-value=2.7e-09  Score=67.69  Aligned_cols=44  Identities=25%  Similarity=0.575  Sum_probs=34.6

Q ss_pred             CeeecccccccCC-C---ceeeccCCceeccccccccC----CCCCCCccCc
Q 042263           17 DLFDCPIWYQALK-V---PVSQSINGHIICSSCLAKVN----NKCPACRSCV   60 (159)
Q Consensus        17 ~~l~C~iC~~~l~-~---Pv~qC~~GH~~C~~C~~~~~----~~CP~Cr~~~   60 (159)
                      +...||||++.+. +   ++...+|||.||..|+.++.    .+||.||+++
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i   53 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPL   53 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCC
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCc
Confidence            5678999998652 2   23456789999999998862    4799999987

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Deltex protein 2 RING-H2 domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.13  E-value=2.7e-07  Score=63.76  Aligned_cols=46  Identities=24%  Similarity=0.395  Sum_probs=35.0

Q ss_pred             CCCeeecccccccCCCc-----------------eeeccCCceeccccccccC--------CCCCCCccCc
Q 042263           15 DQDLFDCPIWYQALKVP-----------------VSQSINGHIICSSCLAKVN--------NKCPACRSCV   60 (159)
Q Consensus        15 ~~~~l~C~iC~~~l~~P-----------------v~qC~~GH~~C~~C~~~~~--------~~CP~Cr~~~   60 (159)
                      ....-.|+||++.|..+                 +....|||.||..|+.+|.        .+||.||..+
T Consensus        22 ~~~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~   92 (114)
T d1v87a_          22 VAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIY   92 (114)
T ss_dssp             SCCSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBS
T ss_pred             ccccccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchh
Confidence            33455799999988643                 2345689999999998863        2699999877

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.98  E-value=1.6e-06  Score=57.44  Aligned_cols=48  Identities=15%  Similarity=0.193  Sum_probs=37.1

Q ss_pred             eeCCCeeecccccccCCCce-----------------eeccCCceeccccccccC---CCCCCCccCc
Q 042263           13 ISDQDLFDCPIWYQALKVPV-----------------SQSINGHIICSSCLAKVN---NKCPACRSCV   60 (159)
Q Consensus        13 ~~~~~~l~C~iC~~~l~~Pv-----------------~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~   60 (159)
                      .-|...-.|+||.+.+.++-                 ..-.|||.|+..|+.++.   ..||+||.++
T Consensus        16 ~~d~~~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~   83 (88)
T d3dplr1          16 AWDIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNREW   83 (88)
T ss_dssp             EESSCSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTTCSBCSSSCSBC
T ss_pred             eecCCCCcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHHCCcCCCCCCcc
Confidence            44566667999998886532                 223589999999999874   6899999986

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: IE1B protein (ORF K3), N-terminal domain
species: Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]

Probab=97.80  E-value=1.9e-06  Score=53.09  Aligned_cols=47  Identities=21%  Similarity=0.250  Sum_probs=37.1

Q ss_pred             eCCCeeecccccccCCCcee-ecc---CCceeccccccccC-----CCCCCCccCc
Q 042263           14 SDQDLFDCPIWYQALKVPVS-QSI---NGHIICSSCLAKVN-----NKCPACRSCV   60 (159)
Q Consensus        14 ~~~~~l~C~iC~~~l~~Pv~-qC~---~GH~~C~~C~~~~~-----~~CP~Cr~~~   60 (159)
                      .|.+...|+||++.+.++.. .|.   ++|.|+..|+.++.     .+||.||+++
T Consensus         2 eded~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~   57 (60)
T d1vyxa_           2 EDEDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVY   57 (60)
T ss_dssp             TTCSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBC
T ss_pred             CCCCCCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCee
Confidence            46778889999998876633 343   47999999999873     4799999986

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: UbcM4-interacting protein 4 (KIAA0161)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.82  E-value=0.00017  Score=47.33  Aligned_cols=42  Identities=19%  Similarity=0.422  Sum_probs=29.5

Q ss_pred             CeeecccccccCCC-ceee-ccCCceeccccccccC-----------CCCCCCcc
Q 042263           17 DLFDCPIWYQALKV-PVSQ-SINGHIICSSCLAKVN-----------NKCPACRS   58 (159)
Q Consensus        17 ~~l~C~iC~~~l~~-Pv~q-C~~GH~~C~~C~~~~~-----------~~CP~Cr~   58 (159)
                      ....|+||++.+.. -++. -.|||.||..|+....           -+||.|.-
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C   58 (94)
T d1wima_           4 GSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAAC   58 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTC
T ss_pred             CCCcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCCC
Confidence            45689999988753 1222 3589999999998641           25998643

>d1zfda_ g.37.1.1 (A:) SWI5 zinc-finger domains {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: SWI5 zinc-finger domains
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.00  E-value=0.021  Score=30.34  Aligned_cols=25  Identities=16%  Similarity=0.133  Sum_probs=21.0

Q ss_pred             CCCCCCCCCCcceeCh-hHHHhHhhh
Q 042263           90 APCACPLLDCNFLGSA-SQLYLYFSW  114 (159)
Q Consensus        90 ~p~~Cp~~gC~~~g~~-~~l~~H~~~  114 (159)
                      +|+.|+++||++...+ ..|..|...
T Consensus         2 rP~~C~~pgC~k~F~r~~~L~~H~r~   27 (32)
T d1zfda_           2 RPYSCDHPGCDKAFVRNHDLIRHKKS   27 (32)
T ss_dssp             CSBCCCCTTCCCCBSSSHHHHHHHGG
T ss_pred             cCeECcCCCCCCeeCCHHHHHHHhhh
Confidence            6899999999998775 579999654

>d1ubdc4 g.37.1.1 (C:381-408) Ying-yang 1 (yy1, zinc finger domain) {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: Ying-yang 1 (yy1, zinc finger domain)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.48  E-value=0.016  Score=29.90  Aligned_cols=25  Identities=24%  Similarity=0.329  Sum_probs=20.5

Q ss_pred             CCCCCCCCCCcceeCh-hHHHhHhhh
Q 042263           90 APCACPLLDCNFLGSA-SQLYLYFSW  114 (159)
Q Consensus        90 ~p~~Cp~~gC~~~g~~-~~l~~H~~~  114 (159)
                      +|+.|+++||++.... .+|..|...
T Consensus         1 rPf~C~~~gC~K~F~~~~~L~~H~r~   26 (28)
T d1ubdc4           1 RPYVCPFDGCNKKFAQSTNLKSHILT   26 (28)
T ss_dssp             CCCCCCSTTCCCCCSSTTTTHHHHHH
T ss_pred             CCcCCCCCCcCCcCCCHHHHHHHHhh
Confidence            5899999999998665 579998753

>d2jnea1 g.41.18.1 (A:1-71) Hypothetical protein YfgJ {Escherichia coli [TaxId: 562]}

class: Small proteins
fold: Rubredoxin-like
superfamily: YfgJ-like
family: YfgJ-like
domain: Hypothetical protein YfgJ
species: Escherichia coli [TaxId: 562]

Probab=93.32  E-value=0.011  Score=37.12  Aligned_cols=38  Identities=32%  Similarity=0.671  Sum_probs=30.3

Q ss_pred             eeecccccccCCCceeeccCCceeccccccccC--CCCCCCccCc
Q 042263           18 LFDCPIWYQALKVPVSQSINGHIICSSCLAKVN--NKCPACRSCV   60 (159)
Q Consensus        18 ~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~--~~CP~Cr~~~   60 (159)
                      .+.||.|...|..     ..||..|..|-....  ..||.|..++
T Consensus         2 ~~~CP~C~~eL~~-----~~~~~~C~~C~~~~~~~a~CPdC~~~L   41 (71)
T d2jnea1           2 ELHCPQCQHVLDQ-----DNGHARCRSCGEFIEMKALCPDCHQPL   41 (71)
T ss_dssp             CCBCSSSCSBEEE-----ETTEEEETTTCCEEEEEEECTTTCSBC
T ss_pred             CCcCCCccCcccc-----cCCCEehhhhhhhheeEEeCCccccHH
Confidence            3679999976533     458999999988764  6899999987

>d1sp2a_ g.37.1.1 (A:) Transcription factor sp1 {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: Transcription factor sp1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.04  E-value=0.051  Score=28.48  Aligned_cols=25  Identities=16%  Similarity=0.091  Sum_probs=20.9

Q ss_pred             CCCCCCCCCCcceeCh-hHHHhHhhh
Q 042263           90 APCACPLLDCNFLGSA-SQLYLYFSW  114 (159)
Q Consensus        90 ~p~~Cp~~gC~~~g~~-~~l~~H~~~  114 (159)
                      +|+.||++||+..-.. ..|..|+..
T Consensus         1 kpf~C~~~~C~k~F~~~~~L~~H~r~   26 (31)
T d1sp2a_           1 RPFMCTWSYCGKRFTRSDELQRHKRT   26 (31)
T ss_dssp             CCCBCCSTTCCCBCSSHHHHHHHHTT
T ss_pred             CcCCCcCCCCCcCcCChhHhhhhcCc
Confidence            5889999999998765 579999864

>d1a1ia1 g.37.1.1 (A:103-131) ZIF268 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: ZIF268
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=91.77  E-value=0.043  Score=28.40  Aligned_cols=24  Identities=29%  Similarity=0.455  Sum_probs=19.9

Q ss_pred             CCCCCCCCCCcceeCh-hHHHhHhh
Q 042263           90 APCACPLLDCNFLGSA-SQLYLYFS  113 (159)
Q Consensus        90 ~p~~Cp~~gC~~~g~~-~~l~~H~~  113 (159)
                      +|+.|+++||++.... ..|..|..
T Consensus         1 Kp~~C~~~gC~k~F~~~~~L~~H~r   25 (29)
T d1a1ia1           1 RPYACPVESCDRRFSRSADLTRHIR   25 (29)
T ss_dssp             CCEECCSTTCCCEESSHHHHHHHTH
T ss_pred             CCeECCCCCCCcEECchhHhhhhcC
Confidence            5889999999998765 57999964

>d2glia3 g.37.1.1 (A:168-197) Five-finger GLI1 {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: Five-finger GLI1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.11  E-value=0.072  Score=27.70  Aligned_cols=24  Identities=21%  Similarity=0.300  Sum_probs=20.1

Q ss_pred             CCCCCCCCCCcceeCh-hHHHhHhh
Q 042263           90 APCACPLLDCNFLGSA-SQLYLYFS  113 (159)
Q Consensus        90 ~p~~Cp~~gC~~~g~~-~~l~~H~~  113 (159)
                      +|+.|+++||++.... ..|..|+.
T Consensus         1 kp~~C~~~gCgk~F~~~~~L~~H~r   25 (30)
T d2glia3           1 KPHKCTFEGCRKSYSRLENLKTHLR   25 (30)
T ss_dssp             CCCCCCSTTCCCCCSSHHHHHHHHH
T ss_pred             CCeeCCCCCCCceECChhHhhhhcC
Confidence            5889999999998665 57999975

>d1z60a1 g.49.1.2 (A:328-386) TFIIH p44 subunit cysteine-rich domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Cysteine-rich domain
superfamily: Cysteine-rich domain
family: TFIIH p44 subunit cysteine-rich domain
domain: TFIIH p44 subunit cysteine-rich domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.04  E-value=0.05  Score=32.79  Aligned_cols=39  Identities=26%  Similarity=0.375  Sum_probs=30.0

Q ss_pred             eeecccccccCCCc-eeecc-CCceecccccccc---CCCCCCC
Q 042263           18 LFDCPIWYQALKVP-VSQSI-NGHIICSSCLAKV---NNKCPAC   56 (159)
Q Consensus        18 ~l~C~iC~~~l~~P-v~qC~-~GH~~C~~C~~~~---~~~CP~C   56 (159)
                      .-.|--|...+.+. +|+|+ |++.||..|-.=+   ..+||.|
T Consensus        15 ~~~C~gC~~~l~~~~~y~C~~C~~~FC~dCD~fiHe~lh~CpgC   58 (59)
T d1z60a1          15 ERFCYGCQGELKDQHVYVCAVCQNVFCVDCDVFVHDSLHSCPGC   58 (59)
T ss_dssp             CCEETTTTEECTTSEEECCTTTTCCBCHHHHHTTTTTSCSSSTT
T ss_pred             CCCccCCCCcCCCCceEECcCCCCccccccchhhhhhhcCCCCC
Confidence            34588899888765 78997 8999999995432   3689988

>d1wfpa_ g.80.1.1 (A:) Zinc finger A20 and AN1 domains containing protein At1g12440 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: AN1-like Zinc finger
superfamily: AN1-like Zinc finger
family: AN1-like Zinc finger
domain: Zinc finger A20 and AN1 domains containing protein At1g12440
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=90.95  E-value=0.098  Score=32.86  Aligned_cols=40  Identities=13%  Similarity=0.134  Sum_probs=32.3

Q ss_pred             eeecccccccCCCceeeccCCceeccccccccCCCCCCCc
Q 042263           18 LFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPACR   57 (159)
Q Consensus        18 ~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~~~CP~Cr   57 (159)
                      .-.|.+|..-+.-..++|.||+.||..........|+.--
T Consensus        25 k~RC~~C~KKl~l~~~~CrCg~~FC~~HR~pe~H~C~fDy   64 (74)
T d1wfpa_          25 ATRCLSCNKKVGVTGFKCRCGSTFCGTHRYPESHECQFDF   64 (74)
T ss_dssp             CCBCSSSCCBCTTTCEECTTSCEECTTTCSTTTSCCCSCT
T ss_pred             CCcChhcCCccCCCceecCCCChhhhccCCccCcCCCCcc
Confidence            5679999988776678999999999999877656776543

>d1ubdc3 g.37.1.1 (C:351-380) Ying-yang 1 (yy1, zinc finger domain) {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: Ying-yang 1 (yy1, zinc finger domain)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.45  E-value=0.074  Score=27.62  Aligned_cols=25  Identities=20%  Similarity=0.188  Sum_probs=20.6

Q ss_pred             CCCCCCCCCCcceeCh-hHHHhHhhh
Q 042263           90 APCACPLLDCNFLGSA-SQLYLYFSW  114 (159)
Q Consensus        90 ~p~~Cp~~gC~~~g~~-~~l~~H~~~  114 (159)
                      +|+.|+++||++.... ..|..|+..
T Consensus         1 kp~~C~~~gCgk~F~~~~~L~~H~r~   26 (30)
T d1ubdc3           1 KPFQCTFEGCGKRFSLDFNLRTHVRI   26 (30)
T ss_dssp             CCEECCSTTCCCEESCHHHHHHHHHH
T ss_pred             CCccCCCCCCCceECcHHHcCccccc
Confidence            5889999999998665 679999753

>d1wfha_ g.80.1.1 (A:) Zinc finger A20 and AN1 domains containing protein At2g36320 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: AN1-like Zinc finger
superfamily: AN1-like Zinc finger
family: AN1-like Zinc finger
domain: Zinc finger A20 and AN1 domains containing protein At2g36320
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=85.40  E-value=0.37  Score=29.24  Aligned_cols=40  Identities=13%  Similarity=0.125  Sum_probs=30.2

Q ss_pred             CeeecccccccCCCceeeccCCceeccccccccCCCCCCC
Q 042263           17 DLFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPAC   56 (159)
Q Consensus        17 ~~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~~~CP~C   56 (159)
                      ..-.|.+|..-+.---++|.||+.||+.-...-...|+.-
T Consensus        14 k~~RC~~C~KKl~l~~~~CrCg~~FC~~HR~pe~H~CtfD   53 (64)
T d1wfha_          14 RPNRCTVCRKRVGLTGFMCRCGTTFCGSHRYPEVHGCTFD   53 (64)
T ss_dssp             SCCCCTTTCCCCCTTCEECSSSCEECTTTCSTTTTTCCCC
T ss_pred             CCCcChhhCCCccceeeeccCCCEehhhcCCCcCcCCCCc
Confidence            3457999998775433799999999999987655567544

>d1joca1 g.50.1.1 (A:1348-1411) Eea1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: FYVE, a phosphatidylinositol-3-phosphate binding domain
domain: Eea1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.13  E-value=0.22  Score=29.86  Aligned_cols=35  Identities=26%  Similarity=0.525  Sum_probs=26.0

Q ss_pred             eCCCeeecccccccCCC--ceeecc-CCceeccccccc
Q 042263           14 SDQDLFDCPIWYQALKV--PVSQSI-NGHIICSSCLAK   48 (159)
Q Consensus        14 ~~~~~l~C~iC~~~l~~--Pv~qC~-~GH~~C~~C~~~   48 (159)
                      .|.+.-.|.+|...|..  .-..|. ||.+||+.|...
T Consensus         4 ~d~~~~~C~~C~~~F~~~~rrHHCR~CG~v~C~~Cs~~   41 (64)
T d1joca1           4 EDNEVQNCMACGKGFSVTVRRHHCRQCGNIFCAECSAK   41 (64)
T ss_dssp             CGGGCCBCTTTCCBCCSSSCCEECTTTCCEECGGGSCE
T ss_pred             CcccCCcCcCcCCcccCCccccchhhhCCeecccccCC
Confidence            35566679999987743  235686 899999999765

>d1zbdb_ g.50.1.1 (B:) Effector domain of rabphilin-3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: FYVE, a phosphatidylinositol-3-phosphate binding domain
domain: Effector domain of rabphilin-3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=83.70  E-value=0.37  Score=32.47  Aligned_cols=35  Identities=11%  Similarity=0.224  Sum_probs=26.0

Q ss_pred             CCCeeecccccccCC---Cceeecc-CCceecccccccc
Q 042263           15 DQDLFDCPIWYQALK---VPVSQSI-NGHIICSSCLAKV   49 (159)
Q Consensus        15 ~~~~l~C~iC~~~l~---~Pv~qC~-~GH~~C~~C~~~~   49 (159)
                      +.+.-.|++|...|.   ..-.+|. ||+.||+.|....
T Consensus        45 ~~~~~~C~~C~~~f~~~~~~~~~C~~C~~~~C~~C~~~~   83 (124)
T d1zbdb_          45 GDGVNRCILCGEQLGMLGSASVVCEDCKKNVCTKCGVET   83 (124)
T ss_dssp             SCSSSBCSSSCCBCSTTSCCEEECTTTCCEEETTSEEEC
T ss_pred             ccCCCcCcccCCcccCCCCCCCcCccCCcccccCCCCCc
Confidence            445567999988764   3445786 8999999997553

>d2ct7a1 g.44.1.4 (A:8-80) Ring finger protein 31 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: IBR domain
domain: Ring finger protein 31
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.60  E-value=0.39  Score=29.33  Aligned_cols=37  Identities=11%  Similarity=0.190  Sum_probs=28.8

Q ss_pred             eeCCCeeecccccccCC----Cceeec-cCCceecccccccc
Q 042263           13 ISDQDLFDCPIWYQALK----VPVSQS-INGHIICSSCLAKV   49 (159)
Q Consensus        13 ~~~~~~l~C~iC~~~l~----~Pv~qC-~~GH~~C~~C~~~~   49 (159)
                      ..|++.--||-|..++.    .+.++| .||+.||-.|...+
T Consensus        13 ~~~~~~k~CP~C~~~~~~~~~~~~~~C~~C~~~fC~~C~~~w   54 (73)
T d2ct7a1          13 MRDPKFLWCAQCSFGFIYEREQLEATCPQCHQTFCVRCKRQW   54 (73)
T ss_dssp             CSCCCEECCSSSCCCEECCCSCSCEECTTTCCEECSSSCSBC
T ss_pred             HHCCCCCCCCCCCCEeEECCCCCEEEcCCCCCeECcccCcch
Confidence            34677888999988763    356678 68999999998876

>d2cs3a1 g.44.1.3 (A:8-87) Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: Protein c14orf4 (KIAA1865)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.41  E-value=0.19  Score=31.34  Aligned_cols=35  Identities=20%  Similarity=0.371  Sum_probs=28.1

Q ss_pred             eCCCeeecccccccCCCc-eeecc--CCceeccccccc
Q 042263           14 SDQDLFDCPIWYQALKVP-VSQSI--NGHIICSSCLAK   48 (159)
Q Consensus        14 ~~~~~l~C~iC~~~l~~P-v~qC~--~GH~~C~~C~~~   48 (159)
                      .....+.|.+|.+-|.+- ..||+  .+|.||-.|...
T Consensus         4 ~~~~~l~CtlC~erLEdtHFVQCPsv~~HkFCFpCsr~   41 (80)
T d2cs3a1           4 ANSGPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRE   41 (80)
T ss_dssp             CSCCSCCCSSSCSCCSSTTSEECSSCSSCEECHHHHHH
T ss_pred             CCCCceeeeeehhhhcCCceEeCCCCcCCceeccccHH
Confidence            345678999999999886 34897  599999999654

>d1wfla_ g.80.1.1 (A:) Zinc finger A20 domain containing protein 2 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: AN1-like Zinc finger
superfamily: AN1-like Zinc finger
family: AN1-like Zinc finger
domain: Zinc finger A20 domain containing protein 2
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=82.61  E-value=0.47  Score=29.55  Aligned_cols=38  Identities=13%  Similarity=0.255  Sum_probs=28.4

Q ss_pred             eeecccccccCCCceeeccCCceeccccccccCCCCCC
Q 042263           18 LFDCPIWYQALKVPVSQSINGHIICSSCLAKVNNKCPA   55 (159)
Q Consensus        18 ~l~C~iC~~~l~~Pv~qC~~GH~~C~~C~~~~~~~CP~   55 (159)
                      .-.|.+|..-+.---+.|.||..||+.-+..-...|..
T Consensus        25 ~~RC~~C~KKl~l~~~~CrCg~~FC~~HR~pe~H~Ctf   62 (74)
T d1wfla_          25 KNRCFMCRKKVGLTGFDCRCGNLFCGLHRYSDKHNCPY   62 (74)
T ss_dssp             TTBCSSSCCBCGGGCEECTTSCEECSSSCSTTTTTCCC
T ss_pred             CCcChhhCCcccceeeEccCCCEehhhcCCCcCcCCCC
Confidence            45799999665432378999999999998765556654

>d1wffa_ g.80.1.1 (A:) ANUBL1 (AN1, ubiquitin-like, homolog) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: AN1-like Zinc finger
superfamily: AN1-like Zinc finger
family: AN1-like Zinc finger
domain: ANUBL1 (AN1, ubiquitin-like, homolog)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=82.52  E-value=0.47  Score=30.32  Aligned_cols=42  Identities=12%  Similarity=0.098  Sum_probs=31.6

Q ss_pred             CeeecccccccCCC-ceeeccCCceeccccccccCCCCCCCcc
Q 042263           17 DLFDCPIWYQALKV-PVSQSINGHIICSSCLAKVNNKCPACRS   58 (159)
Q Consensus        17 ~~l~C~iC~~~l~~-Pv~qC~~GH~~C~~C~~~~~~~CP~Cr~   58 (159)
                      ..-.|.+|..-+.- -.++|.||+.||+.....-...|+.--.
T Consensus        24 ~~~RC~~C~KKl~l~~~~~CrCg~~FC~~HR~pe~H~CtfDyK   66 (85)
T d1wffa_          24 IMKHCFLCGKKTGLATSFECRCGNNFCASHRYAEAHGCNYDYK   66 (85)
T ss_dssp             CCCBCSSSCCBCSSSSCEECTTCCEECTTTCSTGGGTCCSCCS
T ss_pred             cCCcChhcCCeecCCcCeecCCCCEehhhcCCCcCcCCCcchH
Confidence            34579999988753 1379999999999998875557765433

>d2glia5 g.37.1.1 (A:229-257) Five-finger GLI1 {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: Five-finger GLI1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.58  E-value=0.57  Score=23.85  Aligned_cols=28  Identities=25%  Similarity=0.322  Sum_probs=22.6

Q ss_pred             CCCCCCCCCCcceeC-hhHHHhHhhhhcC
Q 042263           90 APCACPLLDCNFLGS-ASQLYLYFSWKNG  117 (159)
Q Consensus        90 ~p~~Cp~~gC~~~g~-~~~l~~H~~~~H~  117 (159)
                      .|+.|.+.||+-.-. ...|..|+.+.|+
T Consensus         1 KPY~Ck~~gC~K~YtdPSSLRKH~k~~HG   29 (29)
T d2glia5           1 KPYVCKLPGCTKRYTDPSSLRKHVKTVHG   29 (29)
T ss_dssp             CCEECCSTTTCCEESSHHHHHHHHHHSCC
T ss_pred             CCeecccCCCCcccCCHHHHHHHHHhhCC
Confidence            378899999987643 5789999998884

>d1ncsa_ g.37.1.1 (A:) SWI5 zinc-finger domains {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: SWI5 zinc-finger domains
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=80.83  E-value=0.38  Score=27.20  Aligned_cols=40  Identities=8%  Similarity=0.027  Sum_probs=28.4

Q ss_pred             ccCCCchhhhccCCCCCCCCCCCCCcceeCh-hHHHhHhhh
Q 042263           75 MSFGENKDHERNCQCAPCACPLLDCNFLGSA-SQLYLYFSW  114 (159)
Q Consensus        75 ~~~~~~~~He~~C~~~p~~Cp~~gC~~~g~~-~~l~~H~~~  114 (159)
                      ++-+.+..|...=.-+|+.|+++||+..... ..|..|...
T Consensus         2 ~p~~~l~~h~~h~gekpy~C~~~~C~k~F~~~~~L~~H~r~   42 (47)
T d1ncsa_           2 LPRGSIDKYVKEMPDKTFECLFPGCTKTFKRRYNIRSHIQT   42 (47)
T ss_dssp             CCCSSGGGSCEEETTTEEECCCTTCCCEECSSSSHHHHHHH
T ss_pred             CCcchhcchhhccCCCCeECCcCCCCccccCchHHHhhccc
Confidence            3445555555433458999999999998775 579999654