Citrus Sinensis ID: 037839

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------
Protein Sequence
MNETTVKASDGFLGSSNIGGFGYGIGVSVGILILITTITLASYFCTRGQQQQQTTNQRSNNNNRGQNDGGADHNQSSIVIDVGLDESTIKSYPKLPYSEARLQKKDSTATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTPLSTPLAEVVPLAARTD
Secondary Structure (PSIPRED)
ccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccHHHHHHcccEEcccccccccccccccccccccccccccccccccccccccccccHHHHHccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccHHHHcccccHHHHHHccEEEEEccccccccccccEEEEEEcccccccEEEEcccccccccHHHHHHHHHcccccccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
mnettvkasdgflgssniggfgyGIGVSVGILILITTITLASYFctrgqqqqqttnqrsnnnnrgqndggadhnqssividvgldestiksypklpysearlqkkdstatcCSICLAdyrssdmlrllpdcshlfhvkcvdpwlrlhptcpvcrtsplptplstplaevvplaartd
Flexible Loop (DISEMBL)
mnettvkasdgflgssnIGGFGYGIGVSVGILILITTITLASYFCTRGQQQqqttnqrsnnNNRGQNDGGADHNQSSIVIDVGLDESTIKSYPKLpysearlqkkdstATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRtsplptplstplaevvplaartd
Low Complexity Region (SEG)
MNETTVKASDGFLgssniggfgygigvsvgililittitlASYFCtrgqqqqqttnqrsnnnnrgqnDGGADHNQSSIVIDVGLDESTIKSYPKLPYSEARLQKKDSTATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRtsplptplstplAEVVPLAARTD
Disordered region (IsUnstruct)
***********FLGSSNIGGFGYGIGVSVGILILITTITLASYFCTR******************************IVIDVGLDESTIKSY**************STATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSP********************
Disordered Region (DISOPRED)
********************FGYGIGVSVGILILITTITLASYFCTRGQQQQQ******************************LDESTIKSYPKLPYSEA*******TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSP********************
Disordered Region (DISEMBL)
********SDGFLGSSNIGGFGYGIGVSVGILILITTITLASYFCT***************NNRGQNDGGADHNQSSIVIDVGLDESTIKSYPKLPYSEARLQKKDSTATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTPLSTPLAEVVPLAARTD
Disordered Region (DISPRO)
*******************GFGYGIGVSVGILILITTITLASYFCTRGQQQQ*****************************VGLDESTIKSYPKLPYSEARLQKKDSTATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPL*******************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
iiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MNETTVKASDGFLGSSNIGGFGYGIGVSVGILILITTITLASYFCTRGQQQQQTTNQRSNNNNRGQNDGGADHNQSSIVIDVGLDESTIKSYPKLPYSEARLQKKDSTATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTPLSTPLAEVVPLAARTD
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	177	2.2.26 [Sep-21-2011]
Q9FG21	197	Putative RING-H2 finger p	yes	no	0.988	0.888	0.536	2e-50
Q8RX29	217	RING-H2 finger protein AT	no	no	0.887	0.723	0.593	3e-44
Q9M313	212	RING-H2 finger protein AT	no	no	0.870	0.726	0.406	2e-30
Q9FL42	159	Putative RING-H2 finger p	no	no	0.813	0.905	0.409	3e-29
O82353	214	RING-H2 finger protein AT	no	no	0.819	0.677	0.413	9e-28
Q9SKK8	377	RING-H2 finger protein AT	no	no	0.514	0.241	0.450	4e-19
Q8LGA5	368	E3 ubiquitin-protein liga	no	no	0.559	0.269	0.431	3e-18
Q9C7E9	299	RING-H2 finger protein AT	no	no	0.689	0.408	0.36	6e-18
Q9SK92	381	E3 ubiquitin-protein liga	no	no	0.632	0.293	0.359	2e-17
P0CH01	372	Putative RING-H2 finger p	no	no	0.768	0.365	0.333	3e-17

>sp|Q9FG21|ATL71_ARATH Putative RING-H2 finger protein ATL71 OS=Arabidopsis thaliana GN=ATL71 PE=3 SV=1

 Score =  198 bits (503), Expect = 2e-50,   Method: Compositional matrix adjust.
 Identities = 103/192 (53%), Positives = 125/192 (65%), Gaps = 17/192 (8%)

Query: 1   MNETTVKASDG--FLGSSNIGGFGYGIGVSVGILILITTITLASYFCTRGQ-------QQ 51
           MN T V    G     +  +GG  YGIGVS+GIL+LITTITL SY+CTR           
Sbjct: 1   MNATVVPPYSGHWLTNTDRMGGLAYGIGVSIGILMLITTITLTSYYCTRSHISASPTTTP 60

Query: 52  QQTTNQRSNNNNR--GQN--DGGADHNQSSIVIDVGLDESTIKSYPKLPYSEAR----LQ 103
           +    QR +N     GQ   D   D + + +V  +GL E  IK +PKLPY EAR    LQ
Sbjct: 61  RTRRRQRESNGTLPPGQERFDFEDDESDTVVVEVLGLTEEVIKGFPKLPYEEARVSYSLQ 120

Query: 104 KKDSTATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTPLS 163
           K+ ST +CCSICLADY+  DM+R+LPDC+HLFH  CVDPWLRLHPTCPVCRTSPLP+P  
Sbjct: 121 KESSTTSCCSICLADYKKMDMIRVLPDCNHLFHDNCVDPWLRLHPTCPVCRTSPLPSPAM 180

Query: 164 TPLAEVVPLAAR 175
           TP+A+VVP + R
Sbjct: 181 TPVADVVPFSRR 192

Arabidopsis thaliana (taxid: 3702)

>sp|Q8RX29|ATL70_ARATH RING-H2 finger protein ATL70 OS=Arabidopsis thaliana GN=ATL70 PE=2 SV=1

 Score =  177 bits (449), Expect = 3e-44,   Method: Compositional matrix adjust.
 Identities = 98/165 (59%), Positives = 122/165 (73%), Gaps = 8/165 (4%)

Query: 10  DGFLGSSNIGGFGYGIGVSVGILILITTITLASYFCTRGQQQQQTTNQRSNNNNRGQNDG 69
           +G LG+ +IGGF YGIGVS+G+L+LITTITL SY+CTR Q      +   +  N+     
Sbjct: 53  NGLLGTDDIGGFRYGIGVSIGVLLLITTITLTSYYCTRNQ-----LSSSPSQTNQDSTRI 107

Query: 70  GADHNQSSIVIDVGLDESTIKSYPKLPYSEARLQKKDSTATCCSICLADYRSSDMLRLLP 129
              H+   I +  GLDE TI+SYPK+ YSEA   K  +TA+CC+ICL DY+   +LR LP
Sbjct: 108 HHHHHHVIIDVVPGLDEDTIQSYPKILYSEA---KGPTTASCCAICLGDYKGKHLLRQLP 164

Query: 130 DCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTPLSTPLAEVVPLAA 174
           DC+HLFH+KC+D WLRL+PTCPVCRTSPLPTPLSTPLAEVVPLA+
Sbjct: 165 DCNHLFHLKCIDTWLRLNPTCPVCRTSPLPTPLSTPLAEVVPLAS 209

Arabidopsis thaliana (taxid: 3702)

>sp|Q9M313|ATL68_ARATH RING-H2 finger protein ATL68 OS=Arabidopsis thaliana GN=ATL68 PE=2 SV=1

 Score =  131 bits (330), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 72/177 (40%), Positives = 101/177 (57%), Gaps = 23/177 (12%)

Query: 20  GFGYGIGVSVGILILITTITLASYFCTRGQQQQQTTNQRSNNNNRGQNDGGA-------- 71
           G GY I +++G L+LI+TI L+SY C R  + + + +  + N N   +D G         
Sbjct: 25  GLGYSIAIALGFLVLISTIILSSYICCRASRLRFSASAANANANASFSDRGVIVPRIIFV 84

Query: 72  ---DHNQSSIVIDVGLDESTIKSYPKLPYSEA--------RLQKKDSTATCCSICLADYR 120
              D  +S  V+  GLD S I SYPK  +++              +   T CSICL +Y 
Sbjct: 85  AEDDDLESGNVVVGGLDHSVINSYPKFHFTKDITAVVNGDGFHDGEGRETTCSICLCEYM 144

Query: 121 SSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLP----TPLSTPLAEVVPLA 173
             +MLR++P+C H FHV C+D WL+L+ +CPVCR SPLP    TP STPL+EVVPL+
Sbjct: 145 EEEMLRMMPECKHYFHVYCLDAWLKLNGSCPVCRNSPLPTPQSTPQSTPLSEVVPLS 201

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FL42|ATL69_ARATH Putative RING-H2 finger protein ATL69 OS=Arabidopsis thaliana GN=ATL69 PE=3 SV=1

 Score =  127 bits (320), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 63/154 (40%), Positives = 92/154 (59%), Gaps = 10/154 (6%)

Query: 20  GFGYGIGVSVGILILITTITLASYFCTRGQQQQQTTNQRSNNNNRGQNDGGADHNQSSIV 79
           G GYGI ++V IL+LI+ I LASY C R          +S   +   +D   D    +  
Sbjct: 12  GLGYGIAIAVSILVLISFIMLASYICIR---------SKSTGRDEATSDVVLDLPSPAAE 62

Query: 80  IDVGLDESTIKSYPKLPYSEARLQKKDSTATCCSICLADYRSSDMLRLLPDCSHLFHVKC 139
           + +GLD   I+SYP++   ++R   + +   C SICL DY + + +R +P+C+H FH  C
Sbjct: 63  VKLGLDRPVIESYPRIVLGDSRRLPRPNNGPC-SICLCDYEAREPVRCIPECNHCFHTDC 121

Query: 140 VDPWLRLHPTCPVCRTSPLPTPLSTPLAEVVPLA 173
           VD WLR   TCP+CR SP P+ L+TPL+++VPLA
Sbjct: 122 VDEWLRTSATCPLCRNSPAPSRLATPLSDLVPLA 155

Arabidopsis thaliana (taxid: 3702)

>sp|O82353|ATL67_ARATH RING-H2 finger protein ATL67 OS=Arabidopsis thaliana GN=ATL67 PE=2 SV=1

 Score =  122 bits (307), Expect = 9e-28,   Method: Compositional matrix adjust.
 Identities = 74/179 (41%), Positives = 107/179 (59%), Gaps = 34/179 (18%)

Query: 20  GFGYGIGVSVGILILITTITLASYFCTRGQQQQQTTNQRSNNNNRGQ----------NDG 69
           GFGY I +++G L+L++T+ L+SY C R   +++TT   S  +  G            + 
Sbjct: 34  GFGYSIAIALGFLVLLSTVLLSSYICCR-DSRRRTTAVESTGDRGGSVILPRIIFVAEED 92

Query: 70  GADHNQSSIVIDVGLDESTIKSYPKLPYSEARLQKKDSTA-----------TCCSICLAD 118
             D     +V  VGLD++ I SYPK  +S      KD++A           T CSICL +
Sbjct: 93  NEDLEAGDVV--VGLDQAVINSYPKFHFS------KDTSAASSDGFGGGGDTTCSICLCE 144

Query: 119 YRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLP----TPLSTPLAEVVPLA 173
           Y+ ++MLR++P+C H FH+ C+D WL+L+ +CPVCR SPLP    TPLSTPL+EVVPL+
Sbjct: 145 YKEAEMLRMMPECKHYFHLCCLDAWLKLNGSCPVCRNSPLPTPTSTPLSTPLSEVVPLS 203

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SKK8|ATL22_ARATH RING-H2 finger protein ATL22 OS=Arabidopsis thaliana GN=ATL22 PE=2 SV=2

 Score = 94.4 bits (233), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 41/91 (45%), Positives = 58/91 (63%)

Query: 69  GGADHNQSSIVIDVGLDESTIKSYPKLPYSEARLQKKDSTATCCSICLADYRSSDMLRLL 128
           G      S+ V  +GLDESTI+SY K+   E+R     S    C ICL++Y + + +R L
Sbjct: 284 GSVTSQPSNEVARIGLDESTIESYKKVELGESRRLPTGSNDVVCPICLSEYATKETVRCL 343

Query: 129 PDCSHLFHVKCVDPWLRLHPTCPVCRTSPLP 159
           P+C H FH +C+D WL+LH +CPVCR++P P
Sbjct: 344 PECEHCFHTECIDAWLKLHSSCPVCRSNPSP 374

Arabidopsis thaliana (taxid: 3702)

>sp|Q8LGA5|ATL31_ARATH E3 ubiquitin-protein ligase ATL31 OS=Arabidopsis thaliana GN=ATL31 PE=1 SV=2

 Score = 91.3 bits (225), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 44/102 (43%), Positives = 59/102 (57%), Gaps = 3/102 (2%)

Query: 69  GGADHNQSSIVIDVGLDESTIKSYPKLPYSEARLQKKDSTATCCSICLADYRSSDMLRLL 128
           GGA    ++  +  GLD  TI+++P   YSE + QK    A  C+ICL ++   + LRLL
Sbjct: 81  GGARRRVTNATVARGLDAETIETFPTFVYSEVKTQKIGKGALECAICLNEFEDDETLRLL 140

Query: 129 PDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTPLSTPLAEVV 170
           P C H+FH  C+  WL+ H TCPVCRT+       TP  EVV
Sbjct: 141 PKCDHVFHPHCIGAWLQGHVTCPVCRTN---LAEQTPEPEVV 179

E3 ubiquitin-protein ligase that is required for the plant C/N response during seedling growth transition. May be involved in the early steps of the plant defense signaling pathway.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9C7E9|ATL20_ARATH RING-H2 finger protein ATL20 OS=Arabidopsis thaliana GN=ATL20 PE=2 SV=2

 Score = 90.1 bits (222), Expect = 6e-18,   Method: Compositional matrix adjust.
 Identities = 45/125 (36%), Positives = 67/125 (53%), Gaps = 3/125 (2%)

Query: 32  LILITTITLASYFCTRGQQQQQTTNQRSNNNNRGQNDGGADHNQSSIVIDVGLDESTIKS 91
           L +I  IT       R    ++  NQR    N              +V+  GLD+STI+S
Sbjct: 176 LCIIGGITATCIAAIRIYNSERFVNQR--RQNAAITARNTTQQPRGVVVTTGLDQSTIES 233

Query: 92  YPKLPYSEARLQKKDSTATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCP 151
           Y K+   E+R +   +    C ICL++Y S + +R +P+C H FHV+C+D WL++H +CP
Sbjct: 234 YKKVELGESR-RLPGTNGIICPICLSEYASKETVRCMPECDHCFHVQCIDEWLKIHSSCP 292

Query: 152 VCRTS 156
           VCR S
Sbjct: 293 VCRNS 297

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SK92|ATL15_ARATH E3 ubiquitin-protein ligase ATL15 OS=Arabidopsis thaliana GN=ATL15 PE=1 SV=1

 Score = 88.6 bits (218), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 41/114 (35%), Positives = 63/114 (55%), Gaps = 2/114 (1%)

Query: 65  GQNDGGADHNQSSI--VIDVGLDESTIKSYPKLPYSEARLQKKDSTATCCSICLADYRSS 122
           G + GG   N  ++    + GLD S I+++P  PYS  +  +    A  C +CL ++   
Sbjct: 69  GMDSGGGPGNWLNVRQTTEPGLDASVIETFPTFPYSTVKTLRIGKEALECPVCLNEFEDD 128

Query: 123 DMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTPLSTPLAEVVPLAART 176
           + LRL+P C H+FH  C+D WLR   TCP+CR + +P P  +  +E+  LA  T
Sbjct: 129 ETLRLIPQCCHVFHPGCIDAWLRSQTTCPLCRANLVPVPGESVSSEIPGLARET 182

E3 ubiquitin-protein ligase able to catalyze polyubiquitination with ubiquitin-conjugating enzyme E2 UBC8, UBC10, UBC11, UBC28 and UBC29 in vitro.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|P0CH01|AT21A_ARATH Putative RING-H2 finger protein ATL21A OS=Arabidopsis thaliana GN=ATL21A PE=3 SV=1

 Score = 87.8 bits (216), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 46/138 (33%), Positives = 74/138 (53%), Gaps = 2/138 (1%)

Query: 22  GYGIGVSVGILILITTITLASYFCTRGQQQQQTTNQRSNNNNRGQNDGGADHNQSSIVID 81
           GY     V  +IL++ I   + F T       T+ + ++   R         N+  +++ 
Sbjct: 232 GYNTEPQVLKIILLSIIGPLTIFATCIAVGVCTSERFASLIQRNVAIAALQPNE--VIVT 289

Query: 82  VGLDESTIKSYPKLPYSEARLQKKDSTATCCSICLADYRSSDMLRLLPDCSHLFHVKCVD 141
            GLDES I+SY K    E+R    ++    C ICL++Y S + +R +P+C H FH +C+D
Sbjct: 290 TGLDESIIESYKKTELGESRRLPGNNDDIVCPICLSEYASKETVRCIPECDHCFHSECID 349

Query: 142 PWLRLHPTCPVCRTSPLP 159
            WL++H +CP+CR SP P
Sbjct: 350 VWLKIHGSCPLCRNSPSP 367

Arabidopsis thaliana (taxid: 3702)

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	177
255566181	172	ring finger protein, putative [Ricinus c	0.971	1.0	0.694	1e-57
225439364	169	PREDICTED: RING-H2 finger protein ATL70-	0.920	0.964	0.721	1e-57
449451185	172	PREDICTED: putative RING-H2 finger prote	0.971	1.0	0.683	1e-56
224139994	154	predicted protein [Populus trichocarpa]	0.870	1.0	0.709	3e-56
147802745	275	hypothetical protein VITISV_030130 [Viti	0.853	0.549	0.707	9e-54
297810753	197	zinc finger family protein [Arabidopsis	0.988	0.888	0.531	1e-49
224113379	165	predicted protein [Populus trichocarpa]	0.887	0.951	0.577	3e-49
15240066	197	putative RING-H2 finger protein ATL71 [A	0.988	0.888	0.536	8e-49
413932867	184	putative RING zinc finger domain superfa	0.892	0.858	0.555	7e-48
356503859	171	PREDICTED: RING-H2 finger protein ATL70-	0.960	0.994	0.649	5e-47

>gi|255566181|ref|XP_002524078.1| ring finger protein, putative [Ricinus communis] gi|223536646|gb|EEF38288.1| ring finger protein, putative [Ricinus communis]

 Score =  228 bits (580), Expect = 1e-57,   Method: Compositional matrix adjust.
 Identities = 123/177 (69%), Positives = 146/177 (82%), Gaps = 5/177 (2%)

Query: 1   MNETTVKASDGFLGSSNIGGFGYGIGVSVGILILITTITLASYFCTRGQQQQQTTNQRSN 60
           MN T+  +  GFLGS++IGGFGYGIGVS+GIL+LITTITLASYFCTR  QQQQ + Q   
Sbjct: 1   MNNTS--SGGGFLGSNDIGGFGYGIGVSIGILLLITTITLASYFCTRNHQQQQQSMQ--- 55

Query: 61  NNNRGQNDGGADHNQSSIVIDVGLDESTIKSYPKLPYSEARLQKKDSTATCCSICLADYR 120
              R +++   D     IV++VG+DE+T+K+YPKL YS+A+L   D+TATCCSICLADY+
Sbjct: 56  TRRRNRSEEPPDDRLQDIVVEVGIDEATLKNYPKLLYSQAKLHNTDTTATCCSICLADYK 115

Query: 121 SSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTPLSTPLAEVVPLAARTD 177
           S+DMLRLLPDC HLFH+KCVDPWLRLHPTCPVCR SPLPTPLSTPLAEVVPLA+R D
Sbjct: 116 STDMLRLLPDCGHLFHLKCVDPWLRLHPTCPVCRNSPLPTPLSTPLAEVVPLASRRD 172

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225439364|ref|XP_002269714.1| PREDICTED: RING-H2 finger protein ATL70-like [Vitis vinifera]

 Score =  227 bits (579), Expect = 1e-57,   Method: Compositional matrix adjust.
 Identities = 122/169 (72%), Positives = 131/169 (77%), Gaps = 6/169 (3%)

Query: 9   SDGFLGSSNIGGFGYGIGVSVGILILITTITLASYFCTRGQQQQQTTNQRSNNNNRGQND 68
           S GFLGS+NIGG GYGIGVSVGIL+LITTITLASYFCTR QQ               Q  
Sbjct: 7   SGGFLGSNNIGGLGYGIGVSVGILLLITTITLASYFCTRPQQVPAAAYGGGGGLREQQP- 65

Query: 69  GGADHNQSSIVIDVGLDESTIKSYPKLPYSEARLQKKDSTATCCSICLADYRSSDMLRLL 128
                     V+DVGLDE+TI SYPK+ YSEA+LQ KDSTA CCSICLADY+ SDMLRLL
Sbjct: 66  -----VVEEFVVDVGLDEATILSYPKMVYSEAKLQHKDSTAACCSICLADYKGSDMLRLL 120

Query: 129 PDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTPLSTPLAEVVPLAARTD 177
           PDC HLFH+KCVDPWLRLHPTCPVCRTSP+PTPLSTPLAEVVPLA R D
Sbjct: 121 PDCGHLFHLKCVDPWLRLHPTCPVCRTSPMPTPLSTPLAEVVPLATRRD 169

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449451185|ref|XP_004143342.1| PREDICTED: putative RING-H2 finger protein ATL71-like [Cucumis sativus]

 Score =  224 bits (571), Expect = 1e-56,   Method: Compositional matrix adjust.
 Identities = 121/177 (68%), Positives = 140/177 (79%), Gaps = 5/177 (2%)

Query: 1   MNETTVKASDGFLGSSNIGGFGYGIGVSVGILILITTITLASYFCTRGQQQQQTTNQRSN 60
           MN  T + + GFL SSNIGGFGYGIGVS+G+LILITTI LASY+CTR         +   
Sbjct: 1   MNNGTAE-TGGFLSSSNIGGFGYGIGVSLGLLILITTILLASYYCTRNGLSSSVVQRTPP 59

Query: 61  NNNRGQNDGGADHNQSSIVIDVGLDESTIKSYPKLPYSEARLQKKDSTATCCSICLADYR 120
           N +  Q  G  D    S+V+D+GLD+ TI SYPKL YSEA+LQK DSTA+CCSICLADY+
Sbjct: 60  NRSPPQAVGEMD----SVVVDIGLDQETITSYPKLLYSEAKLQKNDSTASCCSICLADYK 115

Query: 121 SSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTPLSTPLAEVVPLAARTD 177
           +SD+LRLLPDC HLFH+KCVDPWLRLHPTCPVCRTSP+PTPLSTPLAE VPLA+R D
Sbjct: 116 NSDVLRLLPDCGHLFHLKCVDPWLRLHPTCPVCRTSPIPTPLSTPLAEQVPLASRRD 172

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224139994|ref|XP_002323373.1| predicted protein [Populus trichocarpa] gi|222868003|gb|EEF05134.1| predicted protein [Populus trichocarpa]

 Score =  223 bits (567), Expect = 3e-56,   Method: Compositional matrix adjust.
 Identities = 115/162 (70%), Positives = 135/162 (83%), Gaps = 8/162 (4%)

Query: 12  FLGSSNIGGFGYGIGVSVGILILITTITLASYFCTRGQQQQQTTNQRSNNNNRGQNDGGA 71
            LGS+NIGGFGYGIGVS+GIL+LITTITLASYFC R        NQ+++  ++G+N    
Sbjct: 1   LLGSNNIGGFGYGIGVSIGILLLITTITLASYFCAR--------NQQTSVPSQGRNSADQ 52

Query: 72  DHNQSSIVIDVGLDESTIKSYPKLPYSEARLQKKDSTATCCSICLADYRSSDMLRLLPDC 131
             N  S V+++GLDE+T+KSYP L YSEA+L K DST+TCCSICLADY+S+D LRLLPDC
Sbjct: 53  QLNLQSFVVEIGLDEATLKSYPTLLYSEAKLHKTDSTSTCCSICLADYKSTDKLRLLPDC 112

Query: 132 SHLFHVKCVDPWLRLHPTCPVCRTSPLPTPLSTPLAEVVPLA 173
            HLFH+KCVDPWLRLHPTCPVCRTSPLPTPL+TPLAEVVPLA
Sbjct: 113 GHLFHLKCVDPWLRLHPTCPVCRTSPLPTPLATPLAEVVPLA 154

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147802745|emb|CAN70851.1| hypothetical protein VITISV_030130 [Vitis vinifera]

 Score =  214 bits (546), Expect = 9e-54,   Method: Compositional matrix adjust.
 Identities = 116/164 (70%), Positives = 126/164 (76%), Gaps = 13/164 (7%)

Query: 9   SDGFLGSSNIGGFGYGIGVSVGILILITTITLASYFCTRGQQQQQTTNQRSNNNNRGQND 68
           S G LGS+NIGG GYGIGVSVGIL+LITTITLASYFCTR QQ                  
Sbjct: 7   SGGLLGSNNIGGLGYGIGVSVGILLLITTITLASYFCTRPQQVPAAA----------YGG 56

Query: 69  GGADHNQ---SSIVIDVGLDESTIKSYPKLPYSEARLQKKDSTATCCSICLADYRSSDML 125
           GG    Q      V+DVGLDE+TI SYPK+ YSEA+LQ KDSTA CCSICLADY+ SDML
Sbjct: 57  GGLRLQQPVVEEFVVDVGLDEATILSYPKMVYSEAKLQHKDSTAACCSICLADYKGSDML 116

Query: 126 RLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTPLSTPLAEV 169
           RLLPDC HLFH+KCVDPWLRLHPTCPVCRTSP+PTPLSTPLAE+
Sbjct: 117 RLLPDCGHLFHLKCVDPWLRLHPTCPVCRTSPMPTPLSTPLAEI 160

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297810753|ref|XP_002873260.1| zinc finger family protein [Arabidopsis lyrata subsp. lyrata] gi|297319097|gb|EFH49519.1| zinc finger family protein [Arabidopsis lyrata subsp. lyrata]

 Score =  201 bits (510), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 102/192 (53%), Positives = 127/192 (66%), Gaps = 17/192 (8%)

Query: 1   MNETTVKASDG--FLGSSNIGGFGYGIGVSVGILILITTITLASYFCTRGQ--------Q 50
           MN T V    G     +  +GG  YGIGVS+GIL+LITTITL SY+CTR           
Sbjct: 1   MNATVVPPYSGHWLTNTDRMGGLAYGIGVSIGILMLITTITLTSYYCTRSHISASPTTTP 60

Query: 51  QQQTTNQRSNNN---NRGQNDGGADHNQSSIVIDVGLDESTIKSYPKLPYSEAR----LQ 103
           + +   + +N      + Q D   D N + +V  +GL+E  IKS+PKLPY EAR    LQ
Sbjct: 61  RTRRRRRETNGTLQPGQDQFDFEGDENDTVVVEVMGLNEEVIKSFPKLPYEEARVSYSLQ 120

Query: 104 KKDSTATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTPLS 163
           K+ ST +CCSICLADY+  DM+R+LPDC+HLFH  CVDPWLRLHPTCPVCRTSPLP+P  
Sbjct: 121 KESSTTSCCSICLADYKKMDMIRVLPDCNHLFHDTCVDPWLRLHPTCPVCRTSPLPSPAM 180

Query: 164 TPLAEVVPLAAR 175
           TP+A+VVP + R
Sbjct: 181 TPVADVVPFSRR 192

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224113379|ref|XP_002316476.1| predicted protein [Populus trichocarpa] gi|222865516|gb|EEF02647.1| predicted protein [Populus trichocarpa]

 Score =  199 bits (507), Expect = 3e-49,   Method: Compositional matrix adjust.
 Identities = 97/168 (57%), Positives = 121/168 (72%), Gaps = 11/168 (6%)

Query: 9   SDGFLGSSNIGGFGYGIGVSVGILILITTITLASYFCTRGQQQQQTTNQRSNNNNRGQND 68
           S  + GS+ I G+ Y IG+S G+L+LI +ITLA+YFCT G      T         G N 
Sbjct: 4   STEYSGSAGINGYAYAIGMSSGVLVLIISITLAAYFCTYGVDSPTHT---------GTNQ 54

Query: 69  GGADHNQSSIVIDVGLDESTIKSYPKLPYSEARLQKK--DSTATCCSICLADYRSSDMLR 126
           G +  +  SIV+++GLDE+T+ SYPKL YS+ARL+ +  D   +CCSICL DY+ SDMLR
Sbjct: 55  GDSITDHDSIVMELGLDEATLASYPKLLYSKARLEPRGNDLLPSCCSICLGDYKDSDMLR 114

Query: 127 LLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTPLSTPLAEVVPLAA 174
           LLPDC H+FH+KCVD WLRLHPTCP+CR SP+PTPLSTPLAEV PLA 
Sbjct: 115 LLPDCGHVFHLKCVDCWLRLHPTCPICRNSPMPTPLSTPLAEVAPLAV 162

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15240066|ref|NP_196267.1| putative RING-H2 finger protein ATL71 [Arabidopsis thaliana] gi|68565285|sp|Q9FG21.1|ATL71_ARATH RecName: Full=Putative RING-H2 finger protein ATL71 gi|10178105|dbj|BAB11398.1| C3HC4-type RING zinc finger protein-like [Arabidopsis thaliana] gi|332003640|gb|AED91023.1| putative RING-H2 finger protein ATL71 [Arabidopsis thaliana]

 Score =  198 bits (503), Expect = 8e-49,   Method: Compositional matrix adjust.
 Identities = 103/192 (53%), Positives = 125/192 (65%), Gaps = 17/192 (8%)

Query: 1   MNETTVKASDG--FLGSSNIGGFGYGIGVSVGILILITTITLASYFCTRGQ-------QQ 51
           MN T V    G     +  +GG  YGIGVS+GIL+LITTITL SY+CTR           
Sbjct: 1   MNATVVPPYSGHWLTNTDRMGGLAYGIGVSIGILMLITTITLTSYYCTRSHISASPTTTP 60

Query: 52  QQTTNQRSNNNNR--GQN--DGGADHNQSSIVIDVGLDESTIKSYPKLPYSEAR----LQ 103
           +    QR +N     GQ   D   D + + +V  +GL E  IK +PKLPY EAR    LQ
Sbjct: 61  RTRRRQRESNGTLPPGQERFDFEDDESDTVVVEVLGLTEEVIKGFPKLPYEEARVSYSLQ 120

Query: 104 KKDSTATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTPLS 163
           K+ ST +CCSICLADY+  DM+R+LPDC+HLFH  CVDPWLRLHPTCPVCRTSPLP+P  
Sbjct: 121 KESSTTSCCSICLADYKKMDMIRVLPDCNHLFHDNCVDPWLRLHPTCPVCRTSPLPSPAM 180

Query: 164 TPLAEVVPLAAR 175
           TP+A+VVP + R
Sbjct: 181 TPVADVVPFSRR 192

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|413932867|gb|AFW67418.1| putative RING zinc finger domain superfamily protein [Zea mays]

 Score =  195 bits (495), Expect = 7e-48,   Method: Compositional matrix adjust.
 Identities = 95/171 (55%), Positives = 119/171 (69%), Gaps = 13/171 (7%)

Query: 8   ASDGFLGSSNIGGFGYGIGVSVGILILITTITLASYFCTRGQQQQQTTNQRSNNNNRGQN 67
           A  G   +  IGGFGYG+GVSVGIL+L+TTITLASYFCTR           S+    G++
Sbjct: 14  ADGGMFSTDRIGGFGYGVGVSVGILLLVTTITLASYFCTRAPADAAGEAAPSS----GRH 69

Query: 68  DGGADHNQSSIVIDVGLDESTIKSYPKLPYSEAR-----LQKKDSTATCCSICLADYRSS 122
            G   H+     +++G+DE+T+K YP++ Y EAR      +K  ST TCCSICL +Y   
Sbjct: 70  GGEGAHDD----VELGIDEATLKGYPEVVYGEARKLAKATKKGTSTCTCCSICLDNYGKG 125

Query: 123 DMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTPLSTPLAEVVPLA 173
           D+LR+LPDC HLFH +CVDPWLR HPTCPVCRTSP+P+P+ TPLAEV PLA
Sbjct: 126 DVLRMLPDCGHLFHRECVDPWLRHHPTCPVCRTSPVPSPMPTPLAEVTPLA 176

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356503859|ref|XP_003520719.1| PREDICTED: RING-H2 finger protein ATL70-like [Glycine max]

 Score =  192 bits (487), Expect = 5e-47,   Method: Compositional matrix adjust.
 Identities = 115/177 (64%), Positives = 134/177 (75%), Gaps = 7/177 (3%)

Query: 1   MNETTVKASDGFLGSSNIGGFGYGIGVSVGILILITTITLASYFCTRGQQQQQTTNQRSN 60
           M+  T   S GFLGSSNI G+ YGIG+S+GIL+LI TITL SYFCTR Q       +   
Sbjct: 1   MSSNTTVNSPGFLGSSNISGYSYGIGISIGILLLIITITLTSYFCTRSQVSFAPATR--- 57

Query: 61  NNNRGQNDGGADHNQSSIVIDVGLDESTIKSYPKLPYSEARLQKKDSTATCCSICLADYR 120
           N  R  N     H+    ++DV LDE+TI SYP L YSEA+L+K DSTATCCSICLADY+
Sbjct: 58  NRRRTPNVLEPQHS----IVDVSLDEATILSYPTLLYSEAKLKKSDSTATCCSICLADYK 113

Query: 121 SSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTPLSTPLAEVVPLAARTD 177
            +DMLR+LPDC H FH+KC+DPWLRLHPTCPVCRTSP+PTPLSTPLAEVVPLA+R D
Sbjct: 114 GTDMLRMLPDCGHQFHLKCIDPWLRLHPTCPVCRTSPIPTPLSTPLAEVVPLASRQD 170

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	177
TAIR|locus:2144088	197	AT5G06490 [Arabidopsis thalian	0.587	0.527	0.568	1.1e-30
TAIR|locus:2039170	217	AT2G35910 [Arabidopsis thalian	0.559	0.456	0.567	1.9e-28
TAIR|locus:2040085	377	AT2G25410 [Arabidopsis thalian	0.485	0.228	0.453	1e-18
TAIR|locus:2010489	299	AT1G28040 [Arabidopsis thalian	0.429	0.254	0.454	2.8e-18
TAIR|locus:2146330	368	CNI1 "carbon/nitrogen insensit	0.485	0.233	0.441	3.6e-17
TAIR|locus:2169399	159	AT5G07040 [Arabidopsis thalian	0.525	0.584	0.382	4.1e-17
TAIR|locus:2062892	214	AT2G46160 [Arabidopsis thalian	0.519	0.429	0.405	5.3e-17
TAIR|locus:2140069	323	AT4G40070 [Arabidopsis thalian	0.536	0.294	0.406	4.3e-16
TAIR|locus:2082762	212	AT3G61550 [Arabidopsis thalian	0.576	0.481	0.377	4.7e-16
TAIR|locus:2096309	398	ATL6 "Arabidopsis toxicos en l	0.485	0.216	0.418	8.3e-16

TAIR|locus:2144088 AT5G06490 [Arabidopsis thaliana (taxid:3702)]

 Score = 338 (124.0 bits), Expect = 1.1e-30, P = 1.1e-30
 Identities = 62/109 (56%), Positives = 75/109 (68%)

Query:    72 DHNQSSIVIDV-GLDESTIKSYPKLPYSEAR----LQKKDSTATCCSICLADYRSSDMLR 126
             D    ++V++V GL E  IK +PKLPY EAR    LQK+ ST +CCSICLADY+  DM+R
Sbjct:    84 DDESDTVVVEVLGLTEEVIKGFPKLPYEEARVSYSLQKESSTTSCCSICLADYKKMDMIR 143

Query:   127 LLPDCSHLFHVKCVDPWLRLHPTCPVCRXXXXXXXXXXXXAEVVPLAAR 175
             +LPDC+HLFH  CVDPWLRLHPTCPVCR            A+VVP + R
Sbjct:   144 VLPDCNHLFHDNCVDPWLRLHPTCPVCRTSPLPSPAMTPVADVVPFSRR 192

GO:0005634 "nucleus" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA;ISS

TAIR|locus:2039170 AT2G35910 [Arabidopsis thaliana (taxid:3702)]

 Score = 317 (116.6 bits), Expect = 1.9e-28, P = 1.9e-28
 Identities = 59/104 (56%), Positives = 74/104 (71%)

Query:    73 HNQSSIVIDV--GLDESTIKSYPKLPYSEARLQKKDSTATCCSICLADYRSSDMLRLLPD 130
             H+   ++IDV  GLDE TI+SYPK+ YSEA   K  +TA+CC+ICL DY+   +LR LPD
Sbjct:   109 HHHHHVIIDVVPGLDEDTIQSYPKILYSEA---KGPTTASCCAICLGDYKGKHLLRQLPD 165

Query:   131 CSHLFHVKCVDPWLRLHPTCPVCRXXXXXXXXXXXXAEVVPLAA 174
             C+HLFH+KC+D WLRL+PTCPVCR            AEVVPLA+
Sbjct:   166 CNHLFHLKCIDTWLRLNPTCPVCRTSPLPTPLSTPLAEVVPLAS 209

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2040085 AT2G25410 [Arabidopsis thaliana (taxid:3702)]

 Score = 228 (85.3 bits), Expect = 1.0e-18, P = 1.0e-18
 Identities = 39/86 (45%), Positives = 54/86 (62%)

Query:    69 GGADHNQSSIVIDVGLDESTIKSYPKLPYSEARLQKKDSTATCCSICLADYRSSDMLRLL 128
             G      S+ V  +GLDESTI+SY K+   E+R     S    C ICL++Y + + +R L
Sbjct:   284 GSVTSQPSNEVARIGLDESTIESYKKVELGESRRLPTGSNDVVCPICLSEYATKETVRCL 343

Query:   129 PDCSHLFHVKCVDPWLRLHPTCPVCR 154
             P+C H FH +C+D WL+LH +CPVCR
Sbjct:   344 PECEHCFHTECIDAWLKLHSSCPVCR 369

GO:0005576 "extracellular region" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2010489 AT1G28040 [Arabidopsis thaliana (taxid:3702)]

 Score = 221 (82.9 bits), Expect = 2.8e-18, P = 2.8e-18
 Identities = 35/77 (45%), Positives = 54/77 (70%)

Query:    78 IVIDVGLDESTIKSYPKLPYSEARLQKKDSTATCCSICLADYRSSDMLRLLPDCSHLFHV 137
             +V+  GLD+STI+SY K+   E+R +   +    C ICL++Y S + +R +P+C H FHV
Sbjct:   220 VVVTTGLDQSTIESYKKVELGESR-RLPGTNGIICPICLSEYASKETVRCMPECDHCFHV 278

Query:   138 KCVDPWLRLHPTCPVCR 154
             +C+D WL++H +CPVCR
Sbjct:   279 QCIDEWLKIHSSCPVCR 295

GO:0005634 "nucleus" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA;ISS

TAIR|locus:2146330 CNI1 "carbon/nitrogen insensitive 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 214 (80.4 bits), Expect = 3.6e-17, P = 3.6e-17
 Identities = 38/86 (44%), Positives = 52/86 (60%)

Query:    69 GGADHNQSSIVIDVGLDESTIKSYPKLPYSEARLQKKDSTATCCSICLADYRSSDMLRLL 128
             GGA    ++  +  GLD  TI+++P   YSE + QK    A  C+ICL ++   + LRLL
Sbjct:    81 GGARRRVTNATVARGLDAETIETFPTFVYSEVKTQKIGKGALECAICLNEFEDDETLRLL 140

Query:   129 PDCSHLFHVKCVDPWLRLHPTCPVCR 154
             P C H+FH  C+  WL+ H TCPVCR
Sbjct:   141 PKCDHVFHPHCIGAWLQGHVTCPVCR 166

GO:0005576 "extracellular region" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA;ISS

GO:0009737 "response to abscisic acid stimulus" evidence=IEP;RCA

GO:0010200 "response to chitin" evidence=IEP;RCA

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

GO:0016020 "membrane" evidence=IDA

GO:0043562 "cellular response to nitrogen levels" evidence=IMP

GO:0009814 "defense response, incompatible interaction" evidence=IEP

GO:0009816 "defense response to bacterium, incompatible interaction" evidence=IMP

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

GO:0007165 "signal transduction" evidence=RCA

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

GO:0009611 "response to wounding" evidence=RCA

GO:0009693 "ethylene biosynthetic process" evidence=RCA

GO:0009723 "response to ethylene stimulus" evidence=RCA

GO:0009733 "response to auxin stimulus" evidence=RCA

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

GO:0009753 "response to jasmonic acid stimulus" evidence=RCA

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

GO:0035556 "intracellular signal transduction" evidence=RCA

GO:0042538 "hyperosmotic salinity response" evidence=RCA

TAIR|locus:2169399 AT5G07040 [Arabidopsis thaliana (taxid:3702)]

 Score = 210 (79.0 bits), Expect = 4.1e-17, P = 4.1e-17
 Identities = 36/94 (38%), Positives = 55/94 (58%)

Query:    80 IDVGLDESTIKSYPKLPYSEARLQKKDSTATCCSICLADYRSSDMLRLLPDCSHLFHVKC 139
             + +GLD   I+SYP++   ++R   + +   C SICL DY + + +R +P+C+H FH  C
Sbjct:    63 VKLGLDRPVIESYPRIVLGDSRRLPRPNNGPC-SICLCDYEAREPVRCIPECNHCFHTDC 121

Query:   140 VDPWLRLHPTCPVCRXXXXXXXXXXXXAEVVPLA 173
             VD WLR   TCP+CR            +++VPLA
Sbjct:   122 VDEWLRTSATCPLCRNSPAPSRLATPLSDLVPLA 155

GO:0005634 "nucleus" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA;ISS

TAIR|locus:2062892 AT2G46160 [Arabidopsis thaliana (taxid:3702)]

 Score = 209 (78.6 bits), Expect = 5.3e-17, P = 5.3e-17
 Identities = 41/101 (40%), Positives = 59/101 (58%)

Query:    82 VGLDESTIKSYPKLPYS-EARLQKKDSTA----TCCSICLADYRSSDMLRLLPDCSHLFH 136
             VGLD++ I SYPK  +S +      D       T CSICL +Y+ ++MLR++P+C H FH
Sbjct:   103 VGLDQAVINSYPKFHFSKDTSAASSDGFGGGGDTTCSICLCEYKEAEMLRMMPECKHYFH 162

Query:   137 VKCVDPWLRLHPTCPVCRXXX----XXXXXXXXXAEVVPLA 173
             + C+D WL+L+ +CPVCR                +EVVPL+
Sbjct:   163 LCCLDAWLKLNGSCPVCRNSPLPTPTSTPLSTPLSEVVPLS 203

GO:0008270 "zinc ion binding" evidence=IEA;ISS

GO:0009507 "chloroplast" evidence=ISM

TAIR|locus:2140069 AT4G40070 [Arabidopsis thaliana (taxid:3702)]

 Score = 202 (76.2 bits), Expect = 4.3e-16, P = 4.3e-16
 Identities = 39/96 (40%), Positives = 52/96 (54%)

Query:    83 GLDESTIKSYPKLPYSEARLQKKDSTATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDP 142
             GLD + ++S+P   YS  +  K  S    C+ICL +    + +RLLP C+HLFH+ C+D 
Sbjct:    95 GLDNAVVESFPVFAYSSVKESKIGSKDLECAICLNELEDHETVRLLPICNHLFHIDCIDT 154

Query:   143 WLRLHPTCPVCRXXXXXXXXXXXXAEV-VPLAARTD 177
             WL  H TCPVCR             +  VPLAA  D
Sbjct:   155 WLYSHATCPVCRSNLTAKSNKPGDEDDGVPLAAMRD 190

GO:0005576 "extracellular region" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2082762 AT3G61550 [Arabidopsis thaliana (taxid:3702)]

 Score = 200 (75.5 bits), Expect = 4.7e-16, P = 4.7e-16
 Identities = 43/114 (37%), Positives = 60/114 (52%)

Query:    72 DHNQSSIVIDVGLDESTIKSYPKLPYSEA--------RLQKKDSTATCCSICLADYRSSD 123
             D  +S  V+  GLD S I SYPK  +++              +   T CSICL +Y   +
Sbjct:    88 DDLESGNVVVGGLDHSVINSYPKFHFTKDITAVVNGDGFHDGEGRETTCSICLCEYMEEE 147

Query:   124 MLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRXXXX----XXXXXXXXAEVVPLA 173
             MLR++P+C H FHV C+D WL+L+ +CPVCR                +EVVPL+
Sbjct:   148 MLRMMPECKHYFHVYCLDAWLKLNGSCPVCRNSPLPTPQSTPQSTPLSEVVPLS 201

GO:0005634 "nucleus" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA;ISS

TAIR|locus:2096309 ATL6 "Arabidopsis toxicos en levadura 6" [Arabidopsis thaliana (taxid:3702)]

 Score = 203 (76.5 bits), Expect = 8.3e-16, P = 8.3e-16
 Identities = 36/86 (41%), Positives = 49/86 (56%)

Query:    69 GGADHNQSSIVIDVGLDESTIKSYPKLPYSEARLQKKDSTATCCSICLADYRSSDMLRLL 128
             GGA    +      GLD S ++++P   YS+ + QK       C+ICL ++   + LRLL
Sbjct:    85 GGARSRATVNAAARGLDVSVVETFPTFLYSDVKTQKLGKGELECAICLNEFEDDETLRLL 144

Query:   129 PDCSHLFHVKCVDPWLRLHPTCPVCR 154
             P C H+FH  C+D WL  H TCPVCR
Sbjct:   145 PKCDHVFHPHCIDAWLEAHVTCPVCR 170

GO:0005576 "extracellular region" evidence=ISM

GO:0008270 "zinc ion binding" evidence=ISS

GO:0005886 "plasma membrane" evidence=IDA

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

GO:0016567 "protein ubiquitination" evidence=IDA

GO:0010200 "response to chitin" evidence=IEP;RCA

GO:0009814 "defense response, incompatible interaction" evidence=IEP

GO:0009816 "defense response to bacterium, incompatible interaction" evidence=IMP

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

GO:0035556 "intracellular signal transduction" evidence=RCA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9FG21	ATL71_ARATH	No assigned EC number	0.5364	0.9887	0.8883	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	177
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	1e-14
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	2e-11
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	2e-11
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	4e-07
PHA02929	238	PHA02929, PHA02929, N1R/p28-like protein; Provisio	5e-07
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	6e-07
smart00184	40	smart00184, RING, Ring finger	3e-06
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	0.001
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	0.002
COG5432	391	COG5432, RAD18, RING-finger-containing E3 ubiquiti	0.003

>gnl|CDD|222279 pfam13639, zf-RING_2, Ring finger domain

 Score = 64.0 bits (156), Expect = 1e-14
 Identities = 20/45 (44%), Positives = 29/45 (64%), Gaps = 1/45 (2%)

Query: 112 CSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTS 156
           C ICL ++   + + +LP C H+FH +C+D WLR   TCP+CR  
Sbjct: 3   CPICLDEFEPGEEVVVLP-CGHVFHKECLDKWLRSSNTCPLCRAP 46

Length = 46

>gnl|CDD|227827 COG5540, COG5540, RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

 Score = 61.2 bits (148), Expect = 2e-11
 Identities = 33/82 (40%), Positives = 45/82 (54%), Gaps = 5/82 (6%)

Query: 81  DVGLDESTIKSYPKLPYSEARLQKKDSTATCCSICLADYRSSDMLRLLPDCSHLFHVKCV 140
              +  +T K   K P S  R  + D    C +IC++++  +D LR+LP C H FHV CV
Sbjct: 297 SEAIPTTTTKGSLK-PLSIERAVEADKGVEC-AICMSNFIKNDRLRVLP-CDHRFHVGCV 353

Query: 141 DPWLRLHP-TCPVCRTSPLPTP 161
           D WL  +   CPVCRT  +P P
Sbjct: 354 DKWLLGYSNKCPVCRT-AIPPP 374

Length = 374

>gnl|CDD|238093 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)

 Score = 55.5 bits (134), Expect = 2e-11
 Identities = 19/47 (40%), Positives = 26/47 (55%), Gaps = 4/47 (8%)

Query: 111 CCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL-HPTCPVCRTS 156
            C ICL ++R      +L  C H+F   C+D WL+    TCP+CRT 
Sbjct: 1   ECPICLEEFREP---VVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTP 44

Length = 45

>gnl|CDD|206094 pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RING finger)

 Score = 44.4 bits (105), Expect = 4e-07
 Identities = 18/45 (40%), Positives = 25/45 (55%), Gaps = 3/45 (6%)

Query: 111 CCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRT 155
            C ICL   R  D + L P C H+F  +C+  +L+    CP+CRT
Sbjct: 4   ECPICLDLLR--DPVVLTP-CGHVFCRECILRYLKKKSKCPICRT 45

Length = 45

>gnl|CDD|222944 PHA02929, PHA02929, N1R/p28-like protein; Provisional

 Score = 47.5 bits (113), Expect = 5e-07
 Identities = 17/49 (34%), Positives = 30/49 (61%), Gaps = 6/49 (12%)

Query: 112 CSICL-----ADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRT 155
           C+IC+      + ++     +L +C+H+F ++C+D W +   TCPVCRT
Sbjct: 177 CAICMEKVYDKEIKNM-YFGILSNCNHVFCIECIDIWKKEKNTCPVCRT 224

Length = 238

>gnl|CDD|221705 pfam12678, zf-rbx1, RING-H2 zinc finger

 Score = 44.7 bits (106), Expect = 6e-07
 Identities = 16/53 (30%), Positives = 23/53 (43%), Gaps = 9/53 (16%)

Query: 111 CCSICL---------ADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCR 154
            C+IC                D   +  +C H FH+ C+  WL+   TCP+CR
Sbjct: 21  VCAICRNHFDGTCPECKSPGDDCPVVWGECGHAFHLHCISRWLKTRNTCPLCR 73

There are 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding. The protein, of which this domain is the conserved region, participates in diverse functions relevant to chromosome metabolism and cell cycle control. Length = 73

>gnl|CDD|214546 smart00184, RING, Ring finger

 Score = 41.7 bits (98), Expect = 3e-06
 Identities = 17/43 (39%), Positives = 21/43 (48%), Gaps = 4/43 (9%)

Query: 112 CSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLH-PTCPVC 153
           C ICL +Y       +LP C H F   C+  WL     TCP+C
Sbjct: 1   CPICLEEY--LKDPVILP-CGHTFCRSCIRKWLESGNNTCPIC 40

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). Length = 40

>gnl|CDD|227568 COG5243, HRD1, HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]

 Score = 38.4 bits (89), Expect = 0.001
 Identities = 18/55 (32%), Positives = 25/55 (45%), Gaps = 11/55 (20%)

Query: 112 CSICLADYRSSDMLRL----------LPDCSHLFHVKCVDPWLRLHPTCPVCRTS 156
           C+IC+ +    D   L          LP C H+ H+ C+  WL    TCP+CR  
Sbjct: 290 CTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRP 343

Length = 491

>gnl|CDD|215715 pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING finger)

 Score = 34.8 bits (80), Expect = 0.002
 Identities = 19/43 (44%), Positives = 25/43 (58%), Gaps = 4/43 (9%)

Query: 112 CSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL-HPTCPVC 153
           C ICL +    D + +LP C HLF  KC+  WL   + TCP+C
Sbjct: 1   CPICLEEP--KDPVTILP-CGHLFCSKCILSWLESGNVTCPLC 40

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. Length = 40

>gnl|CDD|227719 COG5432, RAD18, RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]

 Score = 37.0 bits (85), Expect = 0.003
 Identities = 15/46 (32%), Positives = 17/46 (36%), Gaps = 4/46 (8%)

Query: 112 CSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSP 157
           C IC         +     C H F   C+   L   P CPVCR  P
Sbjct: 28  CRICDCRIS----IPCETTCGHTFCSLCIRRHLGTQPFCPVCREDP 69

Length = 391

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	177
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.81
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.65
PHA02929	238	N1R/p28-like protein; Provisional	99.48
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.44
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.35
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	99.33
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.33
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.26
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	99.19
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	99.17
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	99.16
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	99.15
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	99.12
PHA02926	242	zinc finger-like protein; Provisional	99.06
PF14634	44	zf-RING_5: zinc-RING finger domain	99.02
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	99.0
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	99.0
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.99
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.98
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.94
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.9
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.89
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.79
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.77
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	98.77
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	98.73
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.65
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.65
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.55
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.55
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	98.49
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	98.42
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.41
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	98.37
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	98.34
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.31
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	98.28
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.26
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.23
COG5219	1525	Uncharacterized conserved protein, contains RING Z	98.15
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	98.13
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	98.07
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	98.07
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	98.06
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	98.05
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.94
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.79
KOG4445	368	consensus Uncharacterized conserved protein, conta	97.76
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	97.72
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.68
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	97.62
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.56
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.39
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	97.34
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	97.34
PHA02862	156	5L protein; Provisional	97.21
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.21
KOG0297	391	consensus TNF receptor-associated factor [Signal t	97.1
KOG1941	518	consensus Acetylcholine receptor-associated protei	97.05
KOG0801	205	consensus Predicted E3 ubiquitin ligase [Posttrans	96.99
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	96.97
PHA02825	162	LAP/PHD finger-like protein; Provisional	96.92
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	96.91
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	96.86
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	96.84
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	96.83
COG5152	259	Uncharacterized conserved protein, contains RING a	96.81
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	96.8
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	96.75
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	96.65
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	96.59
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	96.53
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	96.51
KOG1002	791	consensus Nucleotide excision repair protein RAD16	96.49
KOG3039	303	consensus Uncharacterized conserved protein [Funct	96.41
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	96.26
KOG4739	233	consensus Uncharacterized protein involved in syna	96.14
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	96.08
PHA03096	284	p28-like protein; Provisional	96.06
KOG2660	331	consensus Locus-specific chromosome binding protei	95.88
PF04641	260	Rtf2: Rtf2 RING-finger	95.73
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	95.72
KOG1940	276	consensus Zn-finger protein [General function pred	95.61
COG5222	427	Uncharacterized conserved protein, contains RING Z	95.5
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	95.5
COG5236	493	Uncharacterized conserved protein, contains RING Z	95.42
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	95.12
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	95.04
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	94.86
KOG0309	1081	consensus Conserved WD40 repeat-containing protein	94.71
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	94.65
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	94.46
KOG3002	299	consensus Zn finger protein [General function pred	94.42
KOG3053	293	consensus Uncharacterized conserved protein [Funct	94.35
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	94.01
KOG1001	674	consensus Helicase-like transcription factor HLTF/	93.26
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	93.01
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	92.6
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	92.53
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	92.14
KOG0298	1394	consensus DEAD box-containing helicase-like transc	91.98
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	91.58
COG5175	480	MOT2 Transcriptional repressor [Transcription]	91.42
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	91.21
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	91.0
PF08693	40	SKG6: Transmembrane alpha-helix domain; InterPro:	90.98
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	90.48
KOG3899	381	consensus Uncharacterized conserved protein [Funct	90.3
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	89.17
KOG1609	323	consensus Protein involved in mRNA turnover and st	88.68
PF04478	154	Mid2: Mid2 like cell wall stress sensor; InterPro:	88.19
PRK06287	107	cobalt transport protein CbiN; Validated	86.78
PF02891	50	zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR0041	86.29
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	85.81
PF01102	122	Glycophorin_A: Glycophorin A; InterPro: IPR001195	85.7
KOG0269	839	consensus WD40 repeat-containing protein [Function	85.29
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	84.72
PF05568	189	ASFV_J13L: African swine fever virus J13L protein;	84.39
smart00132	39	LIM Zinc-binding domain present in Lin-11, Isl-1,	84.1
PF01034	64	Syndecan: Syndecan domain; InterPro: IPR001050 The	83.27
PF07975	51	C1_4: TFIIH C1-like domain; InterPro: IPR004595 Al	83.13
PF13901	202	DUF4206: Domain of unknown function (DUF4206)	83.0
KOG0825	1134	consensus PHD Zn-finger protein [General function	82.94
KOG4367	699	consensus Predicted Zn-finger protein [Function un	82.6
PTZ00370	296	STEVOR; Provisional	82.03
PF11023	114	DUF2614: Protein of unknown function (DUF2614); In	81.62
PF01102	122	Glycophorin_A: Glycophorin A; InterPro: IPR001195	80.69

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

Probab=99.81  E-value=3.1e-20  Score=151.55  Aligned_cols=85  Identities=39%  Similarity=0.823  Sum_probs=71.2

Q ss_pred             CCCHHHHhhCCCccchhhhhccCCCCcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCC-CCcCCCCCCCCCC
Q 037839           83 GLDESTIKSYPKLPYSEARLQKKDSTATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHP-TCPVCRTSPLPTP  161 (177)
Q Consensus        83 ~l~~~~~~~~p~~~~~~~~~~~~~~~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~-~CP~CR~~~~~~~  161 (177)
                      .+.+..++++|...|.........   ..|+||||+|+.+|.+|.|| |+|.||..||+.|+.+.+ .||+||+++....
T Consensus       206 r~~k~~l~~~p~~~f~~~~~~~~~---~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~  281 (348)
T KOG4628|consen  206 RLIKRLLKKLPVRTFTKGDDEDAT---DTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDS  281 (348)
T ss_pred             hhHHHHHhhCCcEEeccccccCCC---ceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCCCCC
Confidence            477888999999888875532221   57999999999999999999 999999999999998775 5999999998877


Q ss_pred             CCCCcccccC
Q 037839          162 LSTPLAEVVP  171 (177)
Q Consensus       162 ~~~~~~~~~~  171 (177)
                      ..+...|..+
T Consensus       282 ~~~~~~e~tp  291 (348)
T KOG4628|consen  282 GSEPVSEDTP  291 (348)
T ss_pred             CCCCccCCCc
Confidence            7777777554

>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=99.65  E-value=3.1e-17  Score=96.73  Aligned_cols=43  Identities=42%  Similarity=1.182  Sum_probs=40.3

Q ss_pred             cCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCC
Q 037839          111 CCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCR  154 (177)
Q Consensus       111 ~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR  154 (177)
                      +|+||+++|..++.+..++ |||+||.+||..|++++.+||+||
T Consensus         2 ~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~~~~~~~~CP~CR   44 (44)
T PF13639_consen    2 ECPICLEEFEDGEKVVKLP-CGHVFHRSCIKEWLKRNNSCPVCR   44 (44)
T ss_dssp             CETTTTCBHHTTSCEEEET-TSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred             CCcCCChhhcCCCeEEEcc-CCCeeCHHHHHHHHHhCCcCCccC
Confidence            6999999999999999999 999999999999999999999997

...

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.48  E-value=4.6e-14  Score=110.81  Aligned_cols=77  Identities=27%  Similarity=0.638  Sum_probs=57.6

Q ss_pred             CCCCHHHHhhCCCccchhhhhccCCCCcccCccccccccCCC----ceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCC
Q 037839           82 VGLDESTIKSYPKLPYSEARLQKKDSTATCCSICLADYRSSD----MLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSP  157 (177)
Q Consensus        82 ~~l~~~~~~~~p~~~~~~~~~~~~~~~~~~C~ICl~~f~~~~----~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~  157 (177)
                      .+..+..+..+|.+......... ...+.+|+||++.+..+.    .+..++.|+|.||.+||..|+..+.+||+||.++
T Consensus       148 ~~~~~~~i~~lp~vl~~~e~~~~-~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~  226 (238)
T PHA02929        148 GKNYKKFLKTIPSVLSEYEKLYN-RSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPF  226 (238)
T ss_pred             cchhHHHHHhcchhhhhhhhhhc-CCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEe
Confidence            35677788888887655433222 234578999999987643    1334545999999999999999999999999987


Q ss_pred             CC
Q 037839          158 LP  159 (177)
Q Consensus       158 ~~  159 (177)
                      ..
T Consensus       227 ~~  228 (238)
T PHA02929        227 IS  228 (238)
T ss_pred             eE
Confidence            64

>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=99.44  E-value=6.2e-14  Score=91.33  Aligned_cols=46  Identities=35%  Similarity=0.950  Sum_probs=36.1

Q ss_pred             CcccCccccccccCC----------CceeecCCCCCcccHhhHHHHHhcCCCCcCCC
Q 037839          108 TATCCSICLADYRSS----------DMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCR  154 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~----------~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR  154 (177)
                      .++.|+||++.|..+          -.+...+ |||.||..||.+|++.+.+||+||
T Consensus        18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   18 ADDNCAICREPLEDPCPECQAPQDECPIVWGP-CGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             CCSBETTTTSBTTSTTCCHHHCTTTS-EEEET-TSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             cCCcccccChhhhChhhhhcCCccccceEecc-cCCCEEHHHHHHHHhcCCcCCCCC
Confidence            345699999999432          2344455 999999999999999999999998

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 ....

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

Probab=99.35  E-value=4.8e-13  Score=106.54  Aligned_cols=51  Identities=49%  Similarity=1.114  Sum_probs=46.0

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHh-cCCCCcCCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLR-LHPTCPVCRTSPLP  159 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~-~~~~CP~CR~~~~~  159 (177)
                      .+-+|+||++.|..+|.++.+| |.|.||..|++.|+. -+..||+||.++-|
T Consensus       322 ~GveCaICms~fiK~d~~~vlP-C~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP  373 (374)
T COG5540         322 KGVECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAIPP  373 (374)
T ss_pred             CCceEEEEhhhhcccceEEEec-cCceechhHHHHHHhhhcccCCccCCCCCC
Confidence            4578999999999999999999 999999999999998 46689999998843

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

Probab=99.33  E-value=1.8e-12  Score=102.69  Aligned_cols=51  Identities=29%  Similarity=0.804  Sum_probs=44.2

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTPL  162 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~~~~  162 (177)
                      ....|.+||+...++   ..+| |||+||+.||..|...+..||+||..+.|..+
T Consensus       238 a~~kC~LCLe~~~~p---SaTp-CGHiFCWsCI~~w~~ek~eCPlCR~~~~pskv  288 (293)
T KOG0317|consen  238 ATRKCSLCLENRSNP---SATP-CGHIFCWSCILEWCSEKAECPLCREKFQPSKV  288 (293)
T ss_pred             CCCceEEEecCCCCC---CcCc-CcchHHHHHHHHHHccccCCCcccccCCCcce
Confidence            345799999997766   5667 99999999999999999999999999988653

>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]

Probab=99.33  E-value=1e-12  Score=107.23  Aligned_cols=55  Identities=31%  Similarity=0.880  Sum_probs=44.6

Q ss_pred             CCCcccCccccccccCCC----------ceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCCCC
Q 037839          106 DSTATCCSICLADYRSSD----------MLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTP  161 (177)
Q Consensus       106 ~~~~~~C~ICl~~f~~~~----------~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~~~  161 (177)
                      ..++..|+||++++-.++          .-..+| |||++|-+|++.|++++++||+||.++..+.
T Consensus       284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPICr~p~ifd~  348 (491)
T COG5243         284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRPVIFDQ  348 (491)
T ss_pred             cCCCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcccCcccccc
Confidence            345678999999953332          235788 9999999999999999999999999976543

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.26  E-value=4.3e-12  Score=96.13  Aligned_cols=57  Identities=30%  Similarity=0.691  Sum_probs=44.7

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhc----------------CCCCcCCCCCCCCCCCCCCccc
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL----------------HPTCPVCRTSPLPTPLSTPLAE  168 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~----------------~~~CP~CR~~~~~~~~~~~~~~  168 (177)
                      +..+|+||++.+.++   .+++ |||+||+.||..|+..                ...||+||+++....+.+.+.+
T Consensus        17 ~~~~CpICld~~~dP---VvT~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvPiygr   89 (193)
T PLN03208         17 GDFDCNICLDQVRDP---VVTL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVPIYGR   89 (193)
T ss_pred             CccCCccCCCcCCCc---EEcC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEEeecc
Confidence            457899999998766   4566 9999999999999852                2479999999987665555443

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

Probab=99.19  E-value=9.3e-12  Score=96.03  Aligned_cols=59  Identities=27%  Similarity=0.611  Sum_probs=46.3

Q ss_pred             CCCcccCccccccccCCCceeecCCCCCcccHhhHHHHHhc---CCCCcCCCCCCCCCCCCCCccc
Q 037839          106 DSTATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL---HPTCPVCRTSPLPTPLSTPLAE  168 (177)
Q Consensus       106 ~~~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~---~~~CP~CR~~~~~~~~~~~~~~  168 (177)
                      .....+|-|||+.-+++  | ++. |||+|||-||.+|+..   ++.||+||+.+..+.+-+.+..
T Consensus        44 ~~~~FdCNICLd~akdP--V-vTl-CGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlYGr  105 (230)
T KOG0823|consen   44 DGGFFDCNICLDLAKDP--V-VTL-CGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLYGR  105 (230)
T ss_pred             CCCceeeeeeccccCCC--E-Eee-cccceehHHHHHHHhhcCCCeeCCccccccccceEEeeecc
Confidence            34567899999996655  3 444 9999999999999965   4469999999988776555543

>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=99.17  E-value=2.8e-11  Score=70.42  Aligned_cols=44  Identities=45%  Similarity=1.152  Sum_probs=36.7

Q ss_pred             cCccccccccCCCceeecCCCCCcccHhhHHHHHhc-CCCCcCCCCCC
Q 037839          111 CCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL-HPTCPVCRTSP  157 (177)
Q Consensus       111 ~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~-~~~CP~CR~~~  157 (177)
                      .|+||++.+  .+.+...+ |||.||..|+..|+.. +..||+||..+
T Consensus         1 ~C~iC~~~~--~~~~~~~~-C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEF--REPVVLLP-CGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhh--hCceEecC-CCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            499999998  34455665 9999999999999987 77899999864

>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=99.16  E-value=1.9e-11  Score=73.79  Aligned_cols=45  Identities=38%  Similarity=0.889  Sum_probs=38.0

Q ss_pred             ccCccccccccCCCceeecCCCCCc-ccHhhHHHHHhcCCCCcCCCCCCC
Q 037839          110 TCCSICLADYRSSDMLRLLPDCSHL-FHVKCVDPWLRLHPTCPVCRTSPL  158 (177)
Q Consensus       110 ~~C~ICl~~f~~~~~v~~l~~C~H~-fH~~Ci~~Wl~~~~~CP~CR~~~~  158 (177)
                      ..|.||++...   .+..+| |||. |+..|+..|++....||+||+++.
T Consensus         3 ~~C~iC~~~~~---~~~~~p-CgH~~~C~~C~~~~~~~~~~CP~Cr~~i~   48 (50)
T PF13920_consen    3 EECPICFENPR---DVVLLP-CGHLCFCEECAERLLKRKKKCPICRQPIE   48 (50)
T ss_dssp             SB-TTTSSSBS---SEEEET-TCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred             CCCccCCccCC---ceEEeC-CCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence            46999999854   467888 9999 999999999999999999999874

...

>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=99.15  E-value=2.2e-11  Score=69.69  Aligned_cols=39  Identities=41%  Similarity=1.123  Sum_probs=32.7

Q ss_pred             CccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCC
Q 037839          112 CSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVC  153 (177)
Q Consensus       112 C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~C  153 (177)
                      |+||++.+.+  .+..++ |||+||.+|+..|++.+..||+|
T Consensus         1 C~iC~~~~~~--~~~~~~-CGH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRD--PVVVTP-CGHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SS--EEEECT-TSEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCCCCCcccC--cCEECC-CCCchhHHHHHHHHHCcCCCcCC
Confidence            7899999776  455777 99999999999999998899998

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

Probab=99.12  E-value=4.6e-11  Score=78.94  Aligned_cols=52  Identities=31%  Similarity=0.710  Sum_probs=39.2

Q ss_pred             CcccCccccccccC--------CCc-eeecCCCCCcccHhhHHHHHhc---CCCCcCCCCCCCC
Q 037839          108 TATCCSICLADYRS--------SDM-LRLLPDCSHLFHVKCVDPWLRL---HPTCPVCRTSPLP  159 (177)
Q Consensus       108 ~~~~C~ICl~~f~~--------~~~-v~~l~~C~H~fH~~Ci~~Wl~~---~~~CP~CR~~~~~  159 (177)
                      .++.|.||...|..        ++. -.++..|+|.||..||.+|+.+   +..||+||++...
T Consensus        20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~   83 (85)
T PF12861_consen   20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF   83 (85)
T ss_pred             CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence            36679999999962        232 2234459999999999999975   4689999998643

>PHA02926 zinc finger-like protein; Provisional

Probab=99.06  E-value=1.1e-10  Score=89.77  Aligned_cols=52  Identities=33%  Similarity=0.792  Sum_probs=39.6

Q ss_pred             CcccCccccccccCC-----CceeecCCCCCcccHhhHHHHHhcC------CCCcCCCCCCCC
Q 037839          108 TATCCSICLADYRSS-----DMLRLLPDCSHLFHVKCVDPWLRLH------PTCPVCRTSPLP  159 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~-----~~v~~l~~C~H~fH~~Ci~~Wl~~~------~~CP~CR~~~~~  159 (177)
                      .+.+|+||+|..-.+     ..-.+|+.|+|.||..||..|...+      .+||+||..+..
T Consensus       169 kE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~  231 (242)
T PHA02926        169 KEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRN  231 (242)
T ss_pred             CCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence            456799999986332     2234666799999999999998753      359999997753

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=99.02  E-value=2.8e-10  Score=66.83  Aligned_cols=44  Identities=34%  Similarity=0.850  Sum_probs=37.3

Q ss_pred             cCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCC
Q 037839          111 CCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRT  155 (177)
Q Consensus       111 ~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~  155 (177)
                      .|.||++.|...+..++++ |||+|+..|+..+......||+||+
T Consensus         1 ~C~~C~~~~~~~~~~~l~~-CgH~~C~~C~~~~~~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTS-CGHIFCEKCLKKLKGKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEcc-cCCHHHHHHHHhhcCCCCCCcCCCC
Confidence            4999999995556677777 9999999999998756678999985

>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]

Probab=99.00  E-value=1.7e-10  Score=74.50  Aligned_cols=51  Identities=27%  Similarity=0.605  Sum_probs=39.2

Q ss_pred             cccCcccccccc-----------CCC-ceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCC
Q 037839          109 ATCCSICLADYR-----------SSD-MLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLP  159 (177)
Q Consensus       109 ~~~C~ICl~~f~-----------~~~-~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~  159 (177)
                      .+.|+||...+.           .++ .......|+|.||..||.+||.++..||++|++...
T Consensus        20 id~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~   82 (88)
T COG5194          20 IDVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVL   82 (88)
T ss_pred             cchhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEE
Confidence            456777777763           233 333444699999999999999999999999998753

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

Probab=99.00  E-value=1.7e-10  Score=101.32  Aligned_cols=54  Identities=37%  Similarity=0.858  Sum_probs=46.1

Q ss_pred             CcccCccccccccCCCc--eeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCCCCC
Q 037839          108 TATCCSICLADYRSSDM--LRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTPL  162 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~--v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~~~~  162 (177)
                      ....|+||+|++..+..  ...++ |+|+||..|+..|+++.++||.||..+...+.
T Consensus       290 ~~~~C~IC~e~l~~~~~~~~~rL~-C~Hifh~~CL~~W~er~qtCP~CR~~~~~~~~  345 (543)
T KOG0802|consen  290 SDELCIICLEELHSGHNITPKRLP-CGHIFHDSCLRSWFERQQTCPTCRTVLYDYVL  345 (543)
T ss_pred             cCCeeeeechhhccccccccceee-cccchHHHHHHHHHHHhCcCCcchhhhhcccc
Confidence            45679999999998655  66888 99999999999999999999999996655443

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

Probab=98.99  E-value=2.5e-10  Score=66.36  Aligned_cols=38  Identities=34%  Similarity=0.892  Sum_probs=29.3

Q ss_pred             CccccccccCCCceeecCCCCCcccHhhHHHHHhcC----CCCcCC
Q 037839          112 CSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLH----PTCPVC  153 (177)
Q Consensus       112 C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~----~~CP~C  153 (177)
                      |+||++.|.++   ..++ |||.|+..||..|++..    ..||.|
T Consensus         1 CpiC~~~~~~P---v~l~-CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDP---VSLP-CGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSE---EE-S-SSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCCc---cccC-CcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            89999999988   5676 99999999999999653    369987

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

Probab=98.98  E-value=5.4e-10  Score=83.05  Aligned_cols=53  Identities=25%  Similarity=0.580  Sum_probs=42.9

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTPL  162 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~~~~  162 (177)
                      ....|+|||+.+.+...  +..+|||+||..||..-++....||+||+.+.-+.+
T Consensus       130 ~~~~CPiCl~~~sek~~--vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~~  182 (187)
T KOG0320|consen  130 GTYKCPICLDSVSEKVP--VSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQF  182 (187)
T ss_pred             cccCCCceecchhhccc--cccccchhHHHHHHHHHHHhCCCCCCcccccchhhh
Confidence            34679999999986543  323599999999999999999999999987755543

>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=98.94  E-value=4e-10  Score=64.99  Aligned_cols=39  Identities=41%  Similarity=1.063  Sum_probs=33.1

Q ss_pred             CccccccccCCCceeecCCCCCcccHhhHHHHHh--cCCCCcCC
Q 037839          112 CSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLR--LHPTCPVC  153 (177)
Q Consensus       112 C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~--~~~~CP~C  153 (177)
                      |+||++.+..+.  ..++ |||.||..|+..|+.  ....||+|
T Consensus         1 C~iC~~~~~~~~--~~~~-C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDPV--ILLP-CGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSEE--EETT-TSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCCC--EEec-CCCcchHHHHHHHHHhcCCccCCcC
Confidence            789999987663  4676 999999999999998  45579988

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 ....

>smart00504 Ubox Modified RING finger domain

Probab=98.90  E-value=2e-09  Score=67.73  Aligned_cols=48  Identities=23%  Similarity=0.442  Sum_probs=41.2

Q ss_pred             ccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCCCC
Q 037839          110 TCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTP  161 (177)
Q Consensus       110 ~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~~~  161 (177)
                      ..|+||.+.+.++   ..++ |||+|+..||..|++++..||+|+.++....
T Consensus         2 ~~Cpi~~~~~~~P---v~~~-~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~   49 (63)
T smart00504        2 FLCPISLEVMKDP---VILP-SGQTYERRAIEKWLLSHGTDPVTGQPLTHED   49 (63)
T ss_pred             cCCcCCCCcCCCC---EECC-CCCEEeHHHHHHHHHHCCCCCCCcCCCChhh
Confidence            3599999999887   4567 9999999999999998889999999885433

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

>smart00184 RING Ring finger

Probab=98.89  E-value=1.7e-09  Score=60.63  Aligned_cols=38  Identities=42%  Similarity=1.101  Sum_probs=31.9

Q ss_pred             CccccccccCCCceeecCCCCCcccHhhHHHHHh-cCCCCcCC
Q 037839          112 CSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLR-LHPTCPVC  153 (177)
Q Consensus       112 C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~-~~~~CP~C  153 (177)
                      |+||++.   ......++ |||.||..|+..|+. .+..||+|
T Consensus         1 C~iC~~~---~~~~~~~~-C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEE---LKDPVVLP-CGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccC---CCCcEEec-CCChHHHHHHHHHHHhCcCCCCCC
Confidence            7899988   34556777 999999999999998 56679987

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)

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.79  E-value=4.7e-09  Score=88.21  Aligned_cols=50  Identities=32%  Similarity=0.696  Sum_probs=42.7

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTP  161 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~~~  161 (177)
                      ....|+||++.|..+   .+++ |||.||..||..|+.....||+||..+....
T Consensus        25 ~~l~C~IC~d~~~~P---vitp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~   74 (397)
T TIGR00599        25 TSLRCHICKDFFDVP---VLTS-CSHTFCSLCIRRCLSNQPKCPLCRAEDQESK   74 (397)
T ss_pred             cccCCCcCchhhhCc---cCCC-CCCchhHHHHHHHHhCCCCCCCCCCcccccc
Confidence            455799999999876   3566 9999999999999988888999999987643

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

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

Probab=98.77  E-value=3.1e-09  Score=83.53  Aligned_cols=51  Identities=29%  Similarity=0.775  Sum_probs=41.6

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHH-HHhcCCC-CcCCCCCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDP-WLRLHPT-CPVCRTSPLPTPL  162 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~-Wl~~~~~-CP~CR~~~~~~~~  162 (177)
                      ....|+||++....+   ..++ |||+||+.||.. |-.++.. ||+||+.+.++..
T Consensus       214 ~d~kC~lC~e~~~~p---s~t~-CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~v  266 (271)
T COG5574         214 ADYKCFLCLEEPEVP---SCTP-CGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKKV  266 (271)
T ss_pred             cccceeeeecccCCc---cccc-ccchhhHHHHHHHHHhhccccCchhhhhccchhh
Confidence            356799999996655   5666 999999999999 8766665 9999999988653

>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.77  E-value=1.4e-09  Score=85.62  Aligned_cols=61  Identities=28%  Similarity=0.574  Sum_probs=47.0

Q ss_pred             hhhhhccCCCCcccCccccccccCCC-------ceeecCCCCCcccHhhHHHHH--hcCCCCcCCCCCCCC
Q 037839           98 SEARLQKKDSTATCCSICLADYRSSD-------MLRLLPDCSHLFHVKCVDPWL--RLHPTCPVCRTSPLP  159 (177)
Q Consensus        98 ~~~~~~~~~~~~~~C~ICl~~f~~~~-------~v~~l~~C~H~fH~~Ci~~Wl--~~~~~CP~CR~~~~~  159 (177)
                      +......+..++..|+||-..+....       .+..|. |+|+||..||..|.  -++++||.|+..+-.
T Consensus       213 s~~glPtkhl~d~vCaVCg~~~~~s~~eegvienty~Ls-CnHvFHEfCIrGWcivGKkqtCPYCKekVdl  282 (328)
T KOG1734|consen  213 SPSGLPTKHLSDSVCAVCGQQIDVSVDEEGVIENTYKLS-CNHVFHEFCIRGWCIVGKKQTCPYCKEKVDL  282 (328)
T ss_pred             CCCCCCCCCCCcchhHhhcchheeecchhhhhhhheeee-cccchHHHhhhhheeecCCCCCchHHHHhhH
Confidence            33334445566778999988886544       677887 99999999999996  567899999987654

>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]

Probab=98.73  E-value=4.7e-09  Score=71.12  Aligned_cols=53  Identities=26%  Similarity=0.589  Sum_probs=41.5

Q ss_pred             CCCCcccCcccccccc-------------CCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCC
Q 037839          105 KDSTATCCSICLADYR-------------SSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSP  157 (177)
Q Consensus       105 ~~~~~~~C~ICl~~f~-------------~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~  157 (177)
                      .....+.|+||.....             .++.+.....|+|.||..||.+|++++..||+|.++-
T Consensus        42 WDi~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW  107 (114)
T KOG2930|consen   42 WDIVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEW  107 (114)
T ss_pred             eeeeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcce
Confidence            3445667999987662             2345556667999999999999999999999998764

>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=98.65  E-value=3.1e-09  Score=68.15  Aligned_cols=52  Identities=29%  Similarity=0.719  Sum_probs=38.3

Q ss_pred             CCcccCccccccccC--------CC-ceeecCCCCCcccHhhHHHHHhc---CCCCcCCCCCCC
Q 037839          107 STATCCSICLADYRS--------SD-MLRLLPDCSHLFHVKCVDPWLRL---HPTCPVCRTSPL  158 (177)
Q Consensus       107 ~~~~~C~ICl~~f~~--------~~-~v~~l~~C~H~fH~~Ci~~Wl~~---~~~CP~CR~~~~  158 (177)
                      ...+.|-||.-.|..        +| .-.++..|.|.||..||..|+..   +..||+||++..
T Consensus        18 ~~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~   81 (84)
T KOG1493|consen   18 APDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ   81 (84)
T ss_pred             CCCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence            344579999999852        33 22233359999999999999965   347999999764

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

Probab=98.65  E-value=5.7e-08  Score=82.73  Aligned_cols=52  Identities=25%  Similarity=0.588  Sum_probs=40.7

Q ss_pred             cccCccccccccCCCceeecCCCCCcccHhhHHHHHhcC-----CCCcCCCCCCCCCCCCC
Q 037839          109 ATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLH-----PTCPVCRTSPLPTPLST  164 (177)
Q Consensus       109 ~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~-----~~CP~CR~~~~~~~~~~  164 (177)
                      ...|+|||+...-+   ..+ .|||+||..||-.++...     ..||+||..+.+.-+.+
T Consensus       186 ~~~CPICL~~~~~p---~~t-~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~p  242 (513)
T KOG2164|consen  186 DMQCPICLEPPSVP---VRT-NCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLP  242 (513)
T ss_pred             CCcCCcccCCCCcc---ccc-ccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceee
Confidence            66799999996655   233 499999999999988543     47999999998755443

>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins

Probab=98.55  E-value=6.5e-08  Score=57.98  Aligned_cols=42  Identities=26%  Similarity=0.775  Sum_probs=32.6

Q ss_pred             cCccccccccCCCceeecCCCC-----CcccHhhHHHHHhcC--CCCcCCC
Q 037839          111 CCSICLADYRSSDMLRLLPDCS-----HLFHVKCVDPWLRLH--PTCPVCR  154 (177)
Q Consensus       111 ~C~ICl~~f~~~~~v~~l~~C~-----H~fH~~Ci~~Wl~~~--~~CP~CR  154 (177)
                      .|.||++ +..++.....| |.     |.+|..|+..|+..+  .+||+|+
T Consensus         1 ~CrIC~~-~~~~~~~l~~P-C~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHD-EGDEGDPLVSP-CRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCC-CCCCCCeeEec-cccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            3899999 34445555788 75     899999999999654  4899995

Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class

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

Probab=98.55  E-value=5.2e-08  Score=56.71  Aligned_cols=38  Identities=29%  Similarity=0.810  Sum_probs=22.1

Q ss_pred             CccccccccCCC-ceeecCCCCCcccHhhHHHHHhcC----CCCc
Q 037839          112 CSICLADYRSSD-MLRLLPDCSHLFHVKCVDPWLRLH----PTCP  151 (177)
Q Consensus       112 C~ICl~~f~~~~-~v~~l~~C~H~fH~~Ci~~Wl~~~----~~CP  151 (177)
                      |+||.+ |..++ .-.+|+ |||+|+.+|+..|+.++    ..||
T Consensus         1 CpIc~e-~~~~~n~P~~L~-CGH~~c~~cl~~l~~~~~~~~~kCP   43 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLP-CGHVFCKDCLQKLSKKSDRNRFKCP   43 (43)
T ss_dssp             -TTT-----TTSS-EEE-S-SS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred             CCcccc-ccCCCCCCEEEe-CccHHHHHHHHHHHhcCCCCeeeCc
Confidence            899999 86644 346788 99999999999999753    2576

>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.49  E-value=2.5e-07  Score=78.47  Aligned_cols=50  Identities=34%  Similarity=0.848  Sum_probs=37.9

Q ss_pred             cccCccccccccC---CC-----------ceeecCCCCCcccHhhHHHHHhc-CCCCcCCCCCCCC
Q 037839          109 ATCCSICLADYRS---SD-----------MLRLLPDCSHLFHVKCVDPWLRL-HPTCPVCRTSPLP  159 (177)
Q Consensus       109 ~~~C~ICl~~f~~---~~-----------~v~~l~~C~H~fH~~Ci~~Wl~~-~~~CP~CR~~~~~  159 (177)
                      ..+|+||+.....   +.           .-...| |.|+||..|+..|+.. +-.||+||+++-+
T Consensus       571 t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tP-C~HifH~~CL~~WMd~ykl~CPvCR~pLPp  635 (636)
T KOG0828|consen  571 TNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTP-CHHIFHRQCLLQWMDTYKLICPVCRCPLPP  635 (636)
T ss_pred             cccceEeccccceeeccCcchhhhhhhhccccccc-hHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence            4579999988742   11           122446 9999999999999985 4489999998843

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

Probab=98.42  E-value=1.4e-07  Score=77.21  Aligned_cols=49  Identities=31%  Similarity=0.683  Sum_probs=41.1

Q ss_pred             CCcccCccccccccCCCceeecCCCCCc-ccHhhHHHHHhcCCCCcCCCCCCCC
Q 037839          107 STATCCSICLADYRSSDMLRLLPDCSHL-FHVKCVDPWLRLHPTCPVCRTSPLP  159 (177)
Q Consensus       107 ~~~~~C~ICl~~f~~~~~v~~l~~C~H~-fH~~Ci~~Wl~~~~~CP~CR~~~~~  159 (177)
                      ....+|+||+.+   ...+.+|| |.|. .|..|.+..--.+..||+||+++..
T Consensus       288 ~~gkeCVIClse---~rdt~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~  337 (349)
T KOG4265|consen  288 ESGKECVICLSE---SRDTVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPIEE  337 (349)
T ss_pred             cCCCeeEEEecC---CcceEEec-chhhehhHhHHHHHHHhhcCCCccccchHh
Confidence            346789999999   55668999 9999 8999999866567789999999854

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

Probab=98.41  E-value=9.2e-08  Score=77.77  Aligned_cols=48  Identities=29%  Similarity=0.773  Sum_probs=42.5

Q ss_pred             cccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCCC
Q 037839          109 ATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPT  160 (177)
Q Consensus       109 ~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~~  160 (177)
                      -..|.||.+.|..+   .++| |+|.||..||..+|..+..||.|+.++...
T Consensus        23 lLRC~IC~eyf~ip---~itp-CsHtfCSlCIR~~L~~~p~CP~C~~~~~Es   70 (442)
T KOG0287|consen   23 LLRCGICFEYFNIP---MITP-CSHTFCSLCIRKFLSYKPQCPTCCVTVTES   70 (442)
T ss_pred             HHHHhHHHHHhcCc---eecc-ccchHHHHHHHHHhccCCCCCceecccchh
Confidence            34699999999988   5666 999999999999999999999999988753

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=98.37  E-value=3.9e-07  Score=74.03  Aligned_cols=55  Identities=25%  Similarity=0.551  Sum_probs=40.7

Q ss_pred             cccCcccccc-ccCCCc-eeecCCCCCcccHhhHHHHHhc-CCCCcCCCCCCCCCCCCC
Q 037839          109 ATCCSICLAD-YRSSDM-LRLLPDCSHLFHVKCVDPWLRL-HPTCPVCRTSPLPTPLST  164 (177)
Q Consensus       109 ~~~C~ICl~~-f~~~~~-v~~l~~C~H~fH~~Ci~~Wl~~-~~~CP~CR~~~~~~~~~~  164 (177)
                      +..|++|... +..++. +.+.+ |||.||..|++..+.. ...||.|+.++...++.+
T Consensus         3 ~~~CP~Ck~~~y~np~~kl~i~~-CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~fr~   60 (309)
T TIGR00570         3 DQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGSGSCPECDTPLRKNNFRV   60 (309)
T ss_pred             CCCCCcCCCCCccCcccccccCC-CCCcccHHHHHHHhcCCCCCCCCCCCccchhhccc
Confidence            3569999996 445543 22334 9999999999996644 558999999998776543

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).

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

Probab=98.34  E-value=7.5e-08  Score=62.07  Aligned_cols=49  Identities=24%  Similarity=0.654  Sum_probs=23.7

Q ss_pred             ccCccccccccCCC----ceeecCCCCCcccHhhHHHHHhc---CC--------CCcCCCCCCC
Q 037839          110 TCCSICLADYRSSD----MLRLLPDCSHLFHVKCVDPWLRL---HP--------TCPVCRTSPL  158 (177)
Q Consensus       110 ~~C~ICl~~f~~~~----~v~~l~~C~H~fH~~Ci~~Wl~~---~~--------~CP~CR~~~~  158 (177)
                      .+|.||+..+..++    .+-.-+.|++.||..|+..||..   .+        .||.|++++.
T Consensus         3 ~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~   66 (70)
T PF11793_consen    3 LECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS   66 (70)
T ss_dssp             -S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred             CCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence            46999999876332    22222259999999999999954   11        5999998874

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

Probab=98.31  E-value=3.2e-07  Score=73.29  Aligned_cols=47  Identities=32%  Similarity=0.675  Sum_probs=40.7

Q ss_pred             cccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCC
Q 037839          109 ATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLP  159 (177)
Q Consensus       109 ~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~  159 (177)
                      ...|.||-+.|..+   ..++ |||-||..||...|..+..||+||.+...
T Consensus        25 ~lrC~IC~~~i~ip---~~Tt-CgHtFCslCIR~hL~~qp~CP~Cr~~~~e   71 (391)
T COG5432          25 MLRCRICDCRISIP---CETT-CGHTFCSLCIRRHLGTQPFCPVCREDPCE   71 (391)
T ss_pred             HHHhhhhhheeecc---eecc-cccchhHHHHHHHhcCCCCCccccccHHh
Confidence            34699999999877   3455 99999999999999999999999998764

>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.28  E-value=2.8e-07  Score=76.13  Aligned_cols=47  Identities=28%  Similarity=0.823  Sum_probs=36.5

Q ss_pred             cCccccccccCCCceeecCCCCCcccHhhHHHHHhc---CCCCcCCCCCC
Q 037839          111 CCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL---HPTCPVCRTSP  157 (177)
Q Consensus       111 ~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~---~~~CP~CR~~~  157 (177)
                      .|.||-+-+....++.-...|||+||..|+..|+..   +..||.||-.+
T Consensus         6 ~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~   55 (465)
T KOG0827|consen    6 ECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKL   55 (465)
T ss_pred             eeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecc
Confidence            699996666555566655569999999999999975   35799999443

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

Probab=98.26  E-value=4.5e-07  Score=58.92  Aligned_cols=50  Identities=22%  Similarity=0.380  Sum_probs=38.3

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhc-CCCCcCCCCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL-HPTCPVCRTSPLPTP  161 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~-~~~CP~CR~~~~~~~  161 (177)
                      +...|+|+.+-|.++   ..++ +||.|...||..|+.+ +..||+|+.++....
T Consensus         3 ~~f~CpIt~~lM~dP---Vi~~-~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~   53 (73)
T PF04564_consen    3 DEFLCPITGELMRDP---VILP-SGHTYERSAIERWLEQNGGTDPFTRQPLSESD   53 (73)
T ss_dssp             GGGB-TTTSSB-SSE---EEET-TSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGG
T ss_pred             cccCCcCcCcHhhCc---eeCC-cCCEEcHHHHHHHHHcCCCCCCCCCCcCCccc
Confidence            346799999999987   5677 9999999999999988 789999999887644

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 ....

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

Probab=98.23  E-value=4.9e-07  Score=72.25  Aligned_cols=44  Identities=39%  Similarity=0.834  Sum_probs=38.7

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRT  155 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~  155 (177)
                      +...|+||++.|..+   ..++ |||.||..|+..++.....||.||.
T Consensus        12 ~~~~C~iC~~~~~~p---~~l~-C~H~~c~~C~~~~~~~~~~Cp~cr~   55 (386)
T KOG2177|consen   12 EELTCPICLEYFREP---VLLP-CGHNFCRACLTRSWEGPLSCPVCRP   55 (386)
T ss_pred             ccccChhhHHHhhcC---cccc-ccchHhHHHHHHhcCCCcCCcccCC
Confidence            456799999999998   6787 9999999999999885567999993

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

Probab=98.15  E-value=5.5e-07  Score=81.50  Aligned_cols=53  Identities=25%  Similarity=0.620  Sum_probs=38.0

Q ss_pred             CCCcccCccccccccC-CC--ceeecCCCCCcccHhhHHHHHhc--CCCCcCCCCCCC
Q 037839          106 DSTATCCSICLADYRS-SD--MLRLLPDCSHLFHVKCVDPWLRL--HPTCPVCRTSPL  158 (177)
Q Consensus       106 ~~~~~~C~ICl~~f~~-~~--~v~~l~~C~H~fH~~Ci~~Wl~~--~~~CP~CR~~~~  158 (177)
                      ....++|+||..-+.. +.  .-...+.|.|-||..|+..|+++  +.+||+||..+.
T Consensus      1466 fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1466 FSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             cCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            3557889999887651 10  00122349999999999999986  457999998763

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

Probab=98.13  E-value=4.1e-07  Score=54.70  Aligned_cols=45  Identities=31%  Similarity=0.678  Sum_probs=34.5

Q ss_pred             ccCccccccccCCCceeecCCCCCc-ccHhhHHHHHh-cCCCCcCCCCCCC
Q 037839          110 TCCSICLADYRSSDMLRLLPDCSHL-FHVKCVDPWLR-LHPTCPVCRTSPL  158 (177)
Q Consensus       110 ~~C~ICl~~f~~~~~v~~l~~C~H~-fH~~Ci~~Wl~-~~~~CP~CR~~~~  158 (177)
                      .+|.||+|.-.+.    ++..|||. .|.+|-.+.++ .+-.||+||+++.
T Consensus         8 dECTICye~pvds----VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~   54 (62)
T KOG4172|consen    8 DECTICYEHPVDS----VLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK   54 (62)
T ss_pred             cceeeeccCcchH----HHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence            5799999985443    34459999 79999766555 5779999999874

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

Probab=98.07  E-value=1.2e-06  Score=73.66  Aligned_cols=49  Identities=35%  Similarity=0.851  Sum_probs=38.7

Q ss_pred             CcccCccccccccCCC-ceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCC
Q 037839          108 TATCCSICLADYRSSD-MLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLP  159 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~-~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~  159 (177)
                      +...|+||||.+...- -++... |.|.||..|+..|..  .+||+||-...+
T Consensus       174 ELPTCpVCLERMD~s~~gi~t~~-c~Hsfh~~cl~~w~~--~scpvcR~~q~p  223 (493)
T KOG0804|consen  174 ELPTCPVCLERMDSSTTGILTIL-CNHSFHCSCLMKWWD--SSCPVCRYCQSP  223 (493)
T ss_pred             cCCCcchhHhhcCccccceeeee-cccccchHHHhhccc--CcChhhhhhcCc
Confidence            3567999999987643 334455 999999999999965  589999987764

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

Probab=98.07  E-value=8.5e-07  Score=55.43  Aligned_cols=46  Identities=30%  Similarity=0.755  Sum_probs=23.0

Q ss_pred             ccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCCC
Q 037839          110 TCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPT  160 (177)
Q Consensus       110 ~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~~  160 (177)
                      ..|++|.+-+..+  | .+..|.|+|+..||..-+.  ..||+|+.+....
T Consensus         8 LrCs~C~~~l~~p--v-~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~q   53 (65)
T PF14835_consen    8 LRCSICFDILKEP--V-CLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQ   53 (65)
T ss_dssp             TS-SSS-S--SS---B----SSS--B-TTTGGGGTT--TB-SSS--B-S-S
T ss_pred             cCCcHHHHHhcCC--c-eeccCccHHHHHHhHHhcC--CCCCCcCChHHHH
Confidence            3599999998877  3 3345999999999988544  3599999887543

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

Probab=98.06  E-value=3e-06  Score=70.55  Aligned_cols=50  Identities=32%  Similarity=0.852  Sum_probs=38.5

Q ss_pred             CcccCccccccccCC-CceeecCCCCCcccHhhHHHHHhc--CCCCcCCCCCC
Q 037839          108 TATCCSICLADYRSS-DMLRLLPDCSHLFHVKCVDPWLRL--HPTCPVCRTSP  157 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~-~~v~~l~~C~H~fH~~Ci~~Wl~~--~~~CP~CR~~~  157 (177)
                      ....|+|||+++..+ +.....+.|||.|-.+||+.|+.+  ...||.|...-
T Consensus         3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ka   55 (463)
T KOG1645|consen    3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKA   55 (463)
T ss_pred             ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChh
Confidence            456799999999754 444444469999999999999953  34799997654

>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=98.05  E-value=3.5e-06  Score=65.12  Aligned_cols=58  Identities=36%  Similarity=0.746  Sum_probs=47.0

Q ss_pred             cccCccccccccCCCceeecCCCCCcccHhhHHHHHhc--------CCCCcCCCCCCCCC-CCCCCccc
Q 037839          109 ATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL--------HPTCPVCRTSPLPT-PLSTPLAE  168 (177)
Q Consensus       109 ~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~--------~~~CP~CR~~~~~~-~~~~~~~~  168 (177)
                      ...|..|--.+..+|.+|..  |-|+||++|++.|...        ..+||.|..++++. ++..++++
T Consensus        50 ~pNC~LC~t~La~gdt~RLv--CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~NlvsPva~  116 (299)
T KOG3970|consen   50 NPNCRLCNTPLASGDTTRLV--CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPINLVSPVAE  116 (299)
T ss_pred             CCCCceeCCccccCcceeeh--hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCccccchhHH
Confidence            45699999999999988754  9999999999999754        34899999999874 66566654

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

Probab=97.94  E-value=1.6e-06  Score=77.23  Aligned_cols=51  Identities=27%  Similarity=0.436  Sum_probs=41.9

Q ss_pred             cccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCCC
Q 037839          109 ATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPT  160 (177)
Q Consensus       109 ~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~~  160 (177)
                      ...|++|+..+..+......+ |+|.||..|+..|-+.-.+||+||..+.-.
T Consensus       123 ~~~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v  173 (1134)
T KOG0825|consen  123 ENQCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGEFGEV  173 (1134)
T ss_pred             hhhhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhhhhee
Confidence            345888888887665555565 999999999999999999999999987653

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

Probab=97.79  E-value=7.8e-06  Score=72.82  Aligned_cols=49  Identities=22%  Similarity=0.591  Sum_probs=38.0

Q ss_pred             cccCccccccccCCCceeecCCCCCcccHhhHHHHHh-cCCCCcCCCCCCCCCC
Q 037839          109 ATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLR-LHPTCPVCRTSPLPTP  161 (177)
Q Consensus       109 ~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~-~~~~CP~CR~~~~~~~  161 (177)
                      -..|++|-..+++   +.+. .|||+||..|+..-+. +...||.|.+.+.+.-
T Consensus       643 ~LkCs~Cn~R~Kd---~vI~-kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganD  692 (698)
T KOG0978|consen  643 LLKCSVCNTRWKD---AVIT-KCGHVFCEECVQTRYETRQRKCPKCNAAFGAND  692 (698)
T ss_pred             ceeCCCccCchhh---HHHH-hcchHHHHHHHHHHHHHhcCCCCCCCCCCCccc
Confidence            3469999966443   3344 4999999999999885 5678999999987654

>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]

Probab=97.76  E-value=6.1e-06  Score=66.30  Aligned_cols=52  Identities=31%  Similarity=0.695  Sum_probs=43.2

Q ss_pred             CCcccCccccccccCCCceeecCCCCCcccHhhHHHHHhc-----------------------CCCCcCCCCCCCC
Q 037839          107 STATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL-----------------------HPTCPVCRTSPLP  159 (177)
Q Consensus       107 ~~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~-----------------------~~~CP~CR~~~~~  159 (177)
                      .....|+|||..|..++....++ |-|.||..|+.+++..                       ...||+||-.+..
T Consensus       113 ~p~gqCvICLygfa~~~~ft~T~-C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~  187 (368)
T KOG4445|consen  113 HPNGQCVICLYGFASSPAFTVTA-CDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKI  187 (368)
T ss_pred             CCCCceEEEEEeecCCCceeeeh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccc
Confidence            34567999999999999898998 9999999999887632                       1269999998764

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

Probab=97.72  E-value=2e-05  Score=65.38  Aligned_cols=52  Identities=29%  Similarity=0.832  Sum_probs=39.6

Q ss_pred             CCcccCccccccccCCC----ceeecCCCCCcccHhhHHHHH--hc-----CCCCcCCCCCCC
Q 037839          107 STATCCSICLADYRSSD----MLRLLPDCSHLFHVKCVDPWL--RL-----HPTCPVCRTSPL  158 (177)
Q Consensus       107 ~~~~~C~ICl~~f~~~~----~v~~l~~C~H~fH~~Ci~~Wl--~~-----~~~CP~CR~~~~  158 (177)
                      ..+..|.||++......    .-..+|+|.|.||..||..|-  .+     .+.||.||....
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~  221 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS  221 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence            34678999999876543    123557799999999999997  33     468999998654

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

Probab=97.68  E-value=1.1e-05  Score=67.28  Aligned_cols=50  Identities=32%  Similarity=0.767  Sum_probs=40.6

Q ss_pred             CCCcccCccccccccCCCceeecCCCCCcccHhhHHHHHhc--CCCCcCCCCCCCC
Q 037839          106 DSTATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL--HPTCPVCRTSPLP  159 (177)
Q Consensus       106 ~~~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~--~~~CP~CR~~~~~  159 (177)
                      +.....|.||-|.   +..|.+-| |||+.|..|+..|-..  .+.||.||..+-.
T Consensus       366 gsTFeLCKICaen---dKdvkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKG  417 (563)
T KOG1785|consen  366 GSTFELCKICAEN---DKDVKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEIKG  417 (563)
T ss_pred             cchHHHHHHhhcc---CCCccccc-ccchHHHHHHHhhcccCCCCCCCceeeEecc
Confidence            3445679999887   56788888 9999999999999743  5789999997654

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

Probab=97.62  E-value=2.9e-05  Score=62.51  Aligned_cols=49  Identities=29%  Similarity=0.442  Sum_probs=38.9

Q ss_pred             cccCccccccccCCCceeecCCCCCcccHhhHHHHHhc-CCCCcCCCCCCCCCC
Q 037839          109 ATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL-HPTCPVCRTSPLPTP  161 (177)
Q Consensus       109 ~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~-~~~CP~CR~~~~~~~  161 (177)
                      ..+|+||+....-+   ..++ |+|.||..||+.=... +..|++||.++-++=
T Consensus         7 ~~eC~IC~nt~n~P---v~l~-C~HkFCyiCiKGsy~ndk~~CavCR~pids~i   56 (324)
T KOG0824|consen    7 KKECLICYNTGNCP---VNLY-CFHKFCYICIKGSYKNDKKTCAVCRFPIDSTI   56 (324)
T ss_pred             CCcceeeeccCCcC---cccc-ccchhhhhhhcchhhcCCCCCceecCCCCcch
Confidence            34799999996655   5666 9999999999876654 456999999997653

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

Probab=97.56  E-value=8.2e-06  Score=66.89  Aligned_cols=49  Identities=29%  Similarity=0.651  Sum_probs=39.1

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhc-CCCCcCCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL-HPTCPVCRTSPLP  159 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~-~~~CP~CR~~~~~  159 (177)
                      .+..|+|||+-++..   +..+.|.|-||.+||..-++. ++.||.||+.+.+
T Consensus        42 ~~v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~S   91 (381)
T KOG0311|consen   42 IQVICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVS   91 (381)
T ss_pred             hhhccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccc
Confidence            355699999998765   344469999999999887754 6789999997765

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

Probab=97.39  E-value=7e-05  Score=46.20  Aligned_cols=41  Identities=22%  Similarity=0.587  Sum_probs=27.7

Q ss_pred             cccCccccccccCCCceeecCCCCCcccHhhHHHHHhc--CCCCcC
Q 037839          109 ATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL--HPTCPV  152 (177)
Q Consensus       109 ~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~--~~~CP~  152 (177)
                      ...|+|.+..|++|  |+-.. |||+|-.+.|..|+++  ...||+
T Consensus        11 ~~~CPiT~~~~~~P--V~s~~-C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen   11 SLKCPITLQPFEDP--VKSKK-CGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             -SB-TTTSSB-SSE--EEESS-S--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             ccCCCCcCChhhCC--cCcCC-CCCeecHHHHHHHHHhcCCCCCCC
Confidence            45699999999876  55555 9999999999999944  446998

>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]

Probab=97.34  E-value=0.00019  Score=64.80  Aligned_cols=53  Identities=25%  Similarity=0.657  Sum_probs=42.0

Q ss_pred             CCCcccCccccccccCCCceeecCCCCCcccHhhHHHHHhc-------CCCCcCCCCCCC
Q 037839          106 DSTATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL-------HPTCPVCRTSPL  158 (177)
Q Consensus       106 ~~~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~-------~~~CP~CR~~~~  158 (177)
                      ...-.+|.||.+.+.....+.--..|-|+||..||..|.++       ...||.|+....
T Consensus       188 ~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~~  247 (950)
T KOG1952|consen  188 SNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVSK  247 (950)
T ss_pred             hcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchhc
Confidence            34456899999999888777765568899999999999864       237999985443

>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]

Probab=97.34  E-value=0.00013  Score=69.15  Aligned_cols=53  Identities=28%  Similarity=0.637  Sum_probs=42.2

Q ss_pred             CCCcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCC----------CCcCCCCCCCC
Q 037839          106 DSTATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHP----------TCPVCRTSPLP  159 (177)
Q Consensus       106 ~~~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~----------~CP~CR~~~~~  159 (177)
                      ...++.|.||+-+-......+.|. |+|+||..|-.+-+.+..          +||+|+.++.-
T Consensus      3483 QD~DDmCmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3483 QDADDMCMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred             cccCceEEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence            345677999998877777777887 999999999977665532          79999998754

>PHA02862 5L protein; Provisional

Probab=97.21  E-value=0.00016  Score=52.32  Aligned_cols=54  Identities=20%  Similarity=0.503  Sum_probs=39.8

Q ss_pred             ccCccccccccCCCceeecCCCC-----CcccHhhHHHHHhc--CCCCcCCCCCCCCCCCCCCccc
Q 037839          110 TCCSICLADYRSSDMLRLLPDCS-----HLFHVKCVDPWLRL--HPTCPVCRTSPLPTPLSTPLAE  168 (177)
Q Consensus       110 ~~C~ICl~~f~~~~~v~~l~~C~-----H~fH~~Ci~~Wl~~--~~~CP~CR~~~~~~~~~~~~~~  168 (177)
                      ..|-||+++-.+.    .-| |.     ..-|.+|+.+|+..  +..||+|+.++..++...++.+
T Consensus         3 diCWIC~~~~~e~----~~P-C~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik~~yKpf~k   63 (156)
T PHA02862          3 DICWICNDVCDER----NNF-CGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIKKTYVSFKK   63 (156)
T ss_pred             CEEEEecCcCCCC----ccc-ccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEEEccccHHH
Confidence            4699999984322    345 54     56799999999965  4479999999988776655543

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

Probab=97.21  E-value=0.00019  Score=60.68  Aligned_cols=50  Identities=26%  Similarity=0.668  Sum_probs=42.5

Q ss_pred             CCcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCCC
Q 037839          107 STATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPT  160 (177)
Q Consensus       107 ~~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~~  160 (177)
                      ..+.+|.||..-+..+   ..+| |||.||..|+++-+.....||.||..+...
T Consensus        82 ~sef~c~vc~~~l~~p---v~tp-cghs~c~~Cl~r~ld~~~~cp~Cr~~l~e~  131 (398)
T KOG4159|consen   82 RSEFECCVCSRALYPP---VVTP-CGHSFCLECLDRSLDQETECPLCRDELVEL  131 (398)
T ss_pred             cchhhhhhhHhhcCCC---cccc-ccccccHHHHHHHhccCCCCcccccccccc
Confidence            4577899999998877   4567 999999999999777778899999998753

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

Probab=97.10  E-value=0.00033  Score=59.45  Aligned_cols=52  Identities=29%  Similarity=0.574  Sum_probs=42.5

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTPL  162 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~~~~  162 (177)
                      ....|++|...+.++-..  .. |||.||..|+..|+..+..||.|+..+.....
T Consensus        20 ~~l~C~~C~~vl~~p~~~--~~-cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~   71 (391)
T KOG0297|consen   20 ENLLCPICMSVLRDPVQT--TT-CGHRFCAGCLLESLSNHQKCPVCRQELTQAEE   71 (391)
T ss_pred             ccccCccccccccCCCCC--CC-CCCcccccccchhhccCcCCcccccccchhhc
Confidence            345799999998887332  34 99999999999999999999999988765443

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=97.05  E-value=0.00026  Score=59.05  Aligned_cols=46  Identities=35%  Similarity=0.878  Sum_probs=37.7

Q ss_pred             cccCccccccccC-CCceeecCCCCCcccHhhHHHHHhc--CCCCcCCCC
Q 037839          109 ATCCSICLADYRS-SDMLRLLPDCSHLFHVKCVDPWLRL--HPTCPVCRT  155 (177)
Q Consensus       109 ~~~C~ICl~~f~~-~~~v~~l~~C~H~fH~~Ci~~Wl~~--~~~CP~CR~  155 (177)
                      +..|-.|=+.+.. ++.+.-|| |.|+||..|+...+.+  .++||-||+
T Consensus       365 ~L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~Crk  413 (518)
T KOG1941|consen  365 ELYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCRK  413 (518)
T ss_pred             hhhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence            5569999888864 44677888 9999999999999865  458999993

>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=96.99  E-value=0.00022  Score=52.61  Aligned_cols=29  Identities=34%  Similarity=0.783  Sum_probs=26.5

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccH
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHV  137 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~  137 (177)
                      +..+|+||||++..++.+..|| |--+||+
T Consensus       176 dkGECvICLEdL~~GdtIARLP-CLCIYHK  204 (205)
T KOG0801|consen  176 DKGECVICLEDLEAGDTIARLP-CLCIYHK  204 (205)
T ss_pred             cCCcEEEEhhhccCCCceeccc-eEEEeec
Confidence            4567999999999999999999 9999996

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

Probab=96.97  E-value=0.00036  Score=58.49  Aligned_cols=48  Identities=25%  Similarity=0.721  Sum_probs=38.8

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcC--------CCCcCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLH--------PTCPVCRTS  156 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~--------~~CP~CR~~  156 (177)
                      .-..|.||+++.........+| |+|+||..|+..++...        -.||-+...
T Consensus       183 slf~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~  238 (445)
T KOG1814|consen  183 SLFDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCG  238 (445)
T ss_pred             hcccceeeehhhcCcceeeecc-cchHHHHHHHHHHHHHhhhcceeeeecCCCCCCc
Confidence            4557999999998888899999 99999999999998431        258776543

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=96.92  E-value=0.00077  Score=49.68  Aligned_cols=55  Identities=20%  Similarity=0.595  Sum_probs=37.9

Q ss_pred             CcccCccccccccCCCceeecC-CCCC---cccHhhHHHHHhcC--CCCcCCCCCCCCCCCCCCc
Q 037839          108 TATCCSICLADYRSSDMLRLLP-DCSH---LFHVKCVDPWLRLH--PTCPVCRTSPLPTPLSTPL  166 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~-~C~H---~fH~~Ci~~Wl~~~--~~CP~CR~~~~~~~~~~~~  166 (177)
                      .+..|-||.++-.  +.  ..| .|..   ..|.+|+..|+..+  ..|++|++++.......++
T Consensus         7 ~~~~CRIC~~~~~--~~--~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~~~~kpl   67 (162)
T PHA02825          7 MDKCCWICKDEYD--VV--TNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIKKNYKKC   67 (162)
T ss_pred             CCCeeEecCCCCC--Cc--cCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEEEecCCC
Confidence            4567999998843  22  245 2333   46999999999654  4799999988765444333

>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length

Probab=96.91  E-value=0.00047  Score=49.55  Aligned_cols=39  Identities=21%  Similarity=0.505  Sum_probs=30.5

Q ss_pred             CcccCccccccccCCCceeecCCCC------CcccHhhHHHHHhcC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCS------HLFHVKCVDPWLRLH  147 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~------H~fH~~Ci~~Wl~~~  147 (177)
                      ...+|+||++.....+-|..++ ||      |.||.+|+.+|-+.+
T Consensus        25 ~~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~~~~   69 (134)
T PF05883_consen   25 CTVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWRRER   69 (134)
T ss_pred             cCeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHHhhc
Confidence            4568999999998855566666 65      899999999994433

The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.

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

Probab=96.86  E-value=0.00051  Score=56.72  Aligned_cols=47  Identities=30%  Similarity=0.695  Sum_probs=33.4

Q ss_pred             CCCCcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCC
Q 037839          105 KDSTATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPL  158 (177)
Q Consensus       105 ~~~~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~  158 (177)
                      .......|+||+++..+   ...+| |||.-+  |..- -+...+||+||+.+.
T Consensus       301 ~~~~p~lcVVcl~e~~~---~~fvp-cGh~cc--ct~c-s~~l~~CPvCR~rI~  347 (355)
T KOG1571|consen  301 ELPQPDLCVVCLDEPKS---AVFVP-CGHVCC--CTLC-SKHLPQCPVCRQRIR  347 (355)
T ss_pred             ccCCCCceEEecCCccc---eeeec-CCcEEE--chHH-HhhCCCCchhHHHHH
Confidence            33456679999999554   56888 999965  5533 233456999998764

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

Probab=96.84  E-value=0.0012  Score=54.46  Aligned_cols=51  Identities=29%  Similarity=0.541  Sum_probs=42.3

Q ss_pred             CCCCcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCC
Q 037839          105 KDSTATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLP  159 (177)
Q Consensus       105 ~~~~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~  159 (177)
                      ...++..|+||...   +-.....| |+|.-|++||.+-+.+.+.|=.|++.+..
T Consensus       418 p~sEd~lCpICyA~---pi~Avf~P-C~H~SC~~CI~qHlmN~k~CFfCktTv~~  468 (489)
T KOG4692|consen  418 PDSEDNLCPICYAG---PINAVFAP-CSHRSCYGCITQHLMNCKRCFFCKTTVID  468 (489)
T ss_pred             CCcccccCcceecc---cchhhccC-CCCchHHHHHHHHHhcCCeeeEecceeee
Confidence            33556789999876   44445777 99999999999999999999999998864

>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A

Probab=96.83  E-value=0.00072  Score=39.97  Aligned_cols=40  Identities=30%  Similarity=0.931  Sum_probs=26.4

Q ss_pred             CccccccccCCCceeecCCCC-----CcccHhhHHHHHhc--CCCCcCC
Q 037839          112 CSICLADYRSSDMLRLLPDCS-----HLFHVKCVDPWLRL--HPTCPVC  153 (177)
Q Consensus       112 C~ICl~~f~~~~~v~~l~~C~-----H~fH~~Ci~~Wl~~--~~~CP~C  153 (177)
                      |-||++.-...+. ...| |+     ...|.+|+..|+..  +.+|++|
T Consensus         1 CrIC~~~~~~~~~-li~p-C~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEEDEP-LISP-CRCKGSMKYVHRSCLERWIRESGNRKCEIC   47 (47)
T ss_dssp             ETTTTEE-SSSS--EE-S-SS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred             CeEeCCcCCCCCc-eecc-cccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence            6799998766553 3455 64     35799999999964  4579887

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

Probab=96.81  E-value=0.00058  Score=52.10  Aligned_cols=45  Identities=29%  Similarity=0.586  Sum_probs=38.1

Q ss_pred             cccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCC
Q 037839          109 ATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSP  157 (177)
Q Consensus       109 ~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~  157 (177)
                      ...|.||-++|+.+   .+.. |||.||..|...-++....|-+|-+..
T Consensus       196 PF~C~iCKkdy~sp---vvt~-CGH~FC~~Cai~~y~kg~~C~~Cgk~t  240 (259)
T COG5152         196 PFLCGICKKDYESP---VVTE-CGHSFCSLCAIRKYQKGDECGVCGKAT  240 (259)
T ss_pred             ceeehhchhhccch---hhhh-cchhHHHHHHHHHhccCCcceecchhh
Confidence            55799999999987   3444 999999999988888888999997654

>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]

Probab=96.80  E-value=0.0023  Score=52.35  Aligned_cols=48  Identities=19%  Similarity=0.450  Sum_probs=37.4

Q ss_pred             CCCcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCC
Q 037839          106 DSTATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTS  156 (177)
Q Consensus       106 ~~~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~  156 (177)
                      ..+...|++|+..-.++-.+-   .-|-+||..|+..++.++..||+=-.+
T Consensus       297 ~~~~~~CpvClk~r~Nptvl~---vSGyVfCY~Ci~~Yv~~~~~CPVT~~p  344 (357)
T KOG0826|consen  297 PPDREVCPVCLKKRQNPTVLE---VSGYVFCYPCIFSYVVNYGHCPVTGYP  344 (357)
T ss_pred             CCccccChhHHhccCCCceEE---ecceEEeHHHHHHHHHhcCCCCccCCc
Confidence            345667999999988763332   269999999999999999999984433

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

Probab=96.75  E-value=0.00096  Score=39.48  Aligned_cols=45  Identities=24%  Similarity=0.609  Sum_probs=21.8

Q ss_pred             CccccccccCCCceeecC-CCCCcccHhhHHHHHh-cCCCCcCCCCCC
Q 037839          112 CSICLADYRSSDMLRLLP-DCSHLFHVKCVDPWLR-LHPTCPVCRTSP  157 (177)
Q Consensus       112 C~ICl~~f~~~~~v~~l~-~C~H~fH~~Ci~~Wl~-~~~~CP~CR~~~  157 (177)
                      |++|.+++...+. ...| .||+.++..|...-+. ....||-||.+.
T Consensus         1 cp~C~e~~d~~d~-~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETDK-DFYPCECGFQICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCCT-T--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCcccccccCCC-ccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence            7889999844332 3444 4889999999988665 366899999875

>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=96.65  E-value=0.00073  Score=46.49  Aligned_cols=32  Identities=28%  Similarity=0.800  Sum_probs=26.3

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHH
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVD  141 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~  141 (177)
                      +...|++|-..+.. ......| |||+||..|+.
T Consensus        77 ~~~~C~vC~k~l~~-~~f~~~p-~~~v~H~~C~~  108 (109)
T PF10367_consen   77 ESTKCSVCGKPLGN-SVFVVFP-CGHVVHYSCIK  108 (109)
T ss_pred             CCCCccCcCCcCCC-ceEEEeC-CCeEEeccccc
Confidence            45679999999987 4556777 99999999985

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 [].

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

Probab=96.59  E-value=0.0023  Score=51.17  Aligned_cols=53  Identities=21%  Similarity=0.456  Sum_probs=39.1

Q ss_pred             CCCcccCccccccccCCCceeecCCCCCcccHhhHHHHHhc--CCCCcCCCCCCCCCC
Q 037839          106 DSTATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL--HPTCPVCRTSPLPTP  161 (177)
Q Consensus       106 ~~~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~--~~~CP~CR~~~~~~~  161 (177)
                      .....+|++|-+.-..|  ....+ |||+||.-||..=+..  ...||.|-.++.+.+
T Consensus       236 ~t~~~~C~~Cg~~PtiP--~~~~~-C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~lq  290 (298)
T KOG2879|consen  236 GTSDTECPVCGEPPTIP--HVIGK-CGHIYCYYCIATSRLWDASFTCPLCGENVEPLQ  290 (298)
T ss_pred             ccCCceeeccCCCCCCC--eeecc-ccceeehhhhhhhhcchhhcccCccCCCCcchh
Confidence            34577899998885555  23444 9999999999775543  468999988887543

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

Probab=96.53  E-value=0.00041  Score=55.81  Aligned_cols=41  Identities=29%  Similarity=0.709  Sum_probs=33.4

Q ss_pred             cccCccccccccCCCceeecCCCCCc-ccHhhHHHHHhcCCCCcCCCCCC
Q 037839          109 ATCCSICLADYRSSDMLRLLPDCSHL-FHVKCVDPWLRLHPTCPVCRTSP  157 (177)
Q Consensus       109 ~~~C~ICl~~f~~~~~v~~l~~C~H~-fH~~Ci~~Wl~~~~~CP~CR~~~  157 (177)
                      ...|+||++.   +.++..|+ |||. -|..|-...    +.||+||+-+
T Consensus       300 ~~LC~ICmDa---P~DCvfLe-CGHmVtCt~CGkrm----~eCPICRqyi  341 (350)
T KOG4275|consen  300 RRLCAICMDA---PRDCVFLE-CGHMVTCTKCGKRM----NECPICRQYI  341 (350)
T ss_pred             HHHHHHHhcC---CcceEEee-cCcEEeehhhcccc----ccCchHHHHH
Confidence            4569999988   77788998 9998 588888653    4899999855

>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=96.51  E-value=5.9e-05  Score=62.66  Aligned_cols=52  Identities=25%  Similarity=0.565  Sum_probs=44.4

Q ss_pred             CCcccCccccccccCC-CceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCC
Q 037839          107 STATCCSICLADYRSS-DMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLP  159 (177)
Q Consensus       107 ~~~~~C~ICl~~f~~~-~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~  159 (177)
                      .....|+||.+.++.. +.+..+. |||++|.+|+..|+.+...||.|++.+--
T Consensus       194 slv~sl~I~~~slK~~y~k~~~~~-~g~~~~~~kL~k~L~~~~kl~~~~rel~~  246 (465)
T KOG0827|consen  194 SLVGSLSICFESLKQNYDKISAIV-CGHIYHHGKLSKWLATKRKLPSCRRELPK  246 (465)
T ss_pred             HHHhhhHhhHHHHHHHHHHHHHHh-hcccchhhHHHHHHHHHHHhHHHHhhhhh
Confidence            4466799999999876 6666776 99999999999999988899999997743

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

Probab=96.49  E-value=0.0013  Score=57.01  Aligned_cols=58  Identities=26%  Similarity=0.525  Sum_probs=41.9

Q ss_pred             CCCcccCccccccccCCCceeecCCCCCcccHhhHHHHHhc-----CCCCcCCCCCCCCCCCCCCccc
Q 037839          106 DSTATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL-----HPTCPVCRTSPLPTPLSTPLAE  168 (177)
Q Consensus       106 ~~~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~-----~~~CP~CR~~~~~~~~~~~~~~  168 (177)
                      +....+|-+|-+.-++.   .... |.|.||..|+..++..     +-+||.|...+..+ ++.+.++
T Consensus       533 nk~~~~C~lc~d~aed~---i~s~-ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiD-lse~ale  595 (791)
T KOG1002|consen  533 NKGEVECGLCHDPAEDY---IESS-CHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSID-LSEPALE  595 (791)
T ss_pred             ccCceeecccCChhhhh---Hhhh-hhHHHHHHHHHHHHHhhhcccCCCCcccccccccc-ccchhhh
Confidence            34567899999985543   3555 9999999999888743     34799998887655 4444444

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.41  E-value=0.0034  Score=49.49  Aligned_cols=52  Identities=15%  Similarity=0.256  Sum_probs=45.4

Q ss_pred             ccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCCCC
Q 037839          110 TCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTP  161 (177)
Q Consensus       110 ~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~~~  161 (177)
                      ..|+||.+.+.+.-.+..|..|||+|+.+|.+..+..-..||+|-.++....
T Consensus       222 yiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrd  273 (303)
T KOG3039|consen  222 YICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRD  273 (303)
T ss_pred             eecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccc
Confidence            4599999999988877777779999999999999998999999988876543

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

Probab=96.26  E-value=0.0017  Score=52.32  Aligned_cols=47  Identities=21%  Similarity=0.391  Sum_probs=39.7

Q ss_pred             cccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCC
Q 037839          109 ATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLP  159 (177)
Q Consensus       109 ~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~  159 (177)
                      ...|-||...|..+   ++.. |+|.||..|...=+++...|++|.+....
T Consensus       241 Pf~c~icr~~f~~p---Vvt~-c~h~fc~~ca~~~~qk~~~c~vC~~~t~g  287 (313)
T KOG1813|consen  241 PFKCFICRKYFYRP---VVTK-CGHYFCEVCALKPYQKGEKCYVCSQQTHG  287 (313)
T ss_pred             Cccccccccccccc---hhhc-CCceeehhhhccccccCCcceeccccccc
Confidence            45699999999987   3444 99999999998888888999999887653

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

Probab=96.14  E-value=0.0027  Score=49.89  Aligned_cols=47  Identities=26%  Similarity=0.545  Sum_probs=34.2

Q ss_pred             cCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCCCC
Q 037839          111 CCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTP  161 (177)
Q Consensus       111 ~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~~~  161 (177)
                      .|--|...-. ++...++. |+|+||..|...-  ....||+||.++-...
T Consensus         5 hCn~C~~~~~-~~~f~LTa-C~HvfC~~C~k~~--~~~~C~lCkk~ir~i~   51 (233)
T KOG4739|consen    5 HCNKCFRFPS-QDPFFLTA-CRHVFCEPCLKAS--SPDVCPLCKKSIRIIQ   51 (233)
T ss_pred             EeccccccCC-CCceeeee-chhhhhhhhcccC--Cccccccccceeeeee
Confidence            3666665544 67777776 9999999998652  2238999999976544

>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=96.08  E-value=0.005  Score=46.31  Aligned_cols=30  Identities=33%  Similarity=0.839  Sum_probs=24.3

Q ss_pred             CCCCcccHhhHHHHHhc----CC-------CCcCCCCCCCC
Q 037839          130 DCSHLFHVKCVDPWLRL----HP-------TCPVCRTSPLP  159 (177)
Q Consensus       130 ~C~H~fH~~Ci~~Wl~~----~~-------~CP~CR~~~~~  159 (177)
                      .||.-||.-|+..|++.    .+       .||+|..++..
T Consensus       189 qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial  229 (234)
T KOG3268|consen  189 QCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL  229 (234)
T ss_pred             ccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence            49999999999999964    11       69999888753

>PHA03096 p28-like protein; Provisional

Probab=96.06  E-value=0.0035  Score=50.90  Aligned_cols=46  Identities=26%  Similarity=0.645  Sum_probs=33.1

Q ss_pred             ccCccccccccCC----CceeecCCCCCcccHhhHHHHHhcC---CCCcCCCC
Q 037839          110 TCCSICLADYRSS----DMLRLLPDCSHLFHVKCVDPWLRLH---PTCPVCRT  155 (177)
Q Consensus       110 ~~C~ICl~~f~~~----~~v~~l~~C~H~fH~~Ci~~Wl~~~---~~CP~CR~  155 (177)
                      ..|.||++.....    ..-..|+.|.|.||..|+..|-...   ..||.||.
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~  231 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR  231 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence            5699999987642    2344677899999999999997542   34544443

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

Probab=95.88  E-value=0.002  Score=52.63  Aligned_cols=51  Identities=22%  Similarity=0.505  Sum_probs=41.4

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTP  161 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~~~  161 (177)
                      ..-.|.+|-..|.+...+  . .|-|-||..||...+.....||.|...+....
T Consensus        14 ~~itC~LC~GYliDATTI--~-eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t~   64 (331)
T KOG2660|consen   14 PHITCRLCGGYLIDATTI--T-ECLHTFCKSCIVKYLEESKYCPTCDIVIHKTH   64 (331)
T ss_pred             cceehhhccceeecchhH--H-HHHHHHHHHHHHHHHHHhccCCccceeccCcc
Confidence            455799998888765333  2 49999999999999999999999998876653

>PF04641 Rtf2: Rtf2 RING-finger

Probab=95.73  E-value=0.013  Score=47.00  Aligned_cols=52  Identities=19%  Similarity=0.480  Sum_probs=40.6

Q ss_pred             CCcccCccccccccCCC-ceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCCC
Q 037839          107 STATCCSICLADYRSSD-MLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPT  160 (177)
Q Consensus       107 ~~~~~C~ICl~~f~~~~-~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~~  160 (177)
                      .....|+|...+|.... -+.+.+ |||+|...++..- .....||+|-.++...
T Consensus       111 ~~~~~CPvt~~~~~~~~~fv~l~~-cG~V~s~~alke~-k~~~~Cp~c~~~f~~~  163 (260)
T PF04641_consen  111 EGRFICPVTGKEFNGKHKFVYLRP-CGCVFSEKALKEL-KKSKKCPVCGKPFTEE  163 (260)
T ss_pred             CceeECCCCCcccCCceeEEEEcC-CCCEeeHHHHHhh-cccccccccCCccccC
Confidence            45678999999995544 455556 9999999999985 4456899999988754

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=95.72  E-value=0.0078  Score=36.52  Aligned_cols=45  Identities=27%  Similarity=0.428  Sum_probs=32.2

Q ss_pred             cCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCCCC
Q 037839          111 CCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTP  161 (177)
Q Consensus       111 ~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~~~  161 (177)
                      .|..|...   +..-.++| |||+.+..|...+  +-+-||.|-+++....
T Consensus         9 ~~~~~~~~---~~~~~~~p-CgH~I~~~~f~~~--rYngCPfC~~~~~~~~   53 (55)
T PF14447_consen    9 PCVFCGFV---GTKGTVLP-CGHLICDNCFPGE--RYNGCPFCGTPFEFDD   53 (55)
T ss_pred             eEEEcccc---cccccccc-ccceeeccccChh--hccCCCCCCCcccCCC
Confidence            35555554   33345777 9999999998774  4457999999887643

>KOG1940 consensus Zn-finger protein [General function prediction only]

Probab=95.61  E-value=0.0085  Score=48.35  Aligned_cols=46  Identities=28%  Similarity=0.582  Sum_probs=38.2

Q ss_pred             cccCccccccccCCC-ceeecCCCCCcccHhhHHHHHhcCCCCcCCCC
Q 037839          109 ATCCSICLADYRSSD-MLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRT  155 (177)
Q Consensus       109 ~~~C~ICl~~f~~~~-~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~  155 (177)
                      ...|+||.+.+-... .+..++ |||.-|..|+......+..||+|.+
T Consensus       158 ~~ncPic~e~l~~s~~~~~~~~-CgH~~h~~cf~e~~~~~y~CP~C~~  204 (276)
T KOG1940|consen  158 EFNCPICKEYLFLSFEDAGVLK-CGHYMHSRCFEEMICEGYTCPICSK  204 (276)
T ss_pred             cCCCchhHHHhccccccCCccC-cccchHHHHHHHHhccCCCCCcccc
Confidence            445999999886554 445676 9999999999999887899999988

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

Probab=95.50  E-value=0.01  Score=48.17  Aligned_cols=53  Identities=26%  Similarity=0.528  Sum_probs=39.4

Q ss_pred             ccCccccccccCCCceeecCCCCCcccHhhHHHHH-hcCCCCcCCCC-CCCCCCCCCC
Q 037839          110 TCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWL-RLHPTCPVCRT-SPLPTPLSTP  165 (177)
Q Consensus       110 ~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl-~~~~~CP~CR~-~~~~~~~~~~  165 (177)
                      ..|+.|-.-+.++   ...+.|+|.||.+||..-| .....||.|.+ +++.+.+.+-
T Consensus       275 LkCplc~~Llrnp---~kT~cC~~~fc~eci~~al~dsDf~CpnC~rkdvlld~l~pD  329 (427)
T COG5222         275 LKCPLCHCLLRNP---MKTPCCGHTFCDECIGTALLDSDFKCPNCSRKDVLLDGLTPD  329 (427)
T ss_pred             ccCcchhhhhhCc---ccCccccchHHHHHHhhhhhhccccCCCcccccchhhccCcc
Confidence            5699998887766   3346799999999998655 56789999965 6655555443

>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO)

Probab=95.50  E-value=0.0066  Score=35.15  Aligned_cols=41  Identities=24%  Similarity=0.622  Sum_probs=22.3

Q ss_pred             CccccccccCCCceeecCCCCCcccHhhHHHHHhcCC--CCcCC
Q 037839          112 CSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHP--TCPVC  153 (177)
Q Consensus       112 C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~--~CP~C  153 (177)
                      |.+|-+-...+...... +|+=.+|..|+..+++...  .||.|
T Consensus         1 C~~C~~iv~~G~~C~~~-~C~~r~H~~C~~~y~r~~~~~~CP~C   43 (43)
T PF08746_consen    1 CEACKEIVTQGQRCSNR-DCNVRLHDDCFKKYFRHRSNPKCPNC   43 (43)
T ss_dssp             -TTT-SB-SSSEE-SS---S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred             CcccchhHeeeccCCCC-ccCchHHHHHHHHHHhcCCCCCCcCC
Confidence            55666666655433322 3888899999999997655  69987

; PDB: 3NW0_A 2CT0_A.

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

Probab=95.42  E-value=0.022  Score=47.22  Aligned_cols=47  Identities=28%  Similarity=0.626  Sum_probs=35.2

Q ss_pred             CCcccCccccccccCCCceeecCCCCCcccHhhHHHH--HhcCCCCcCCCCCC
Q 037839          107 STATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPW--LRLHPTCPVCRTSP  157 (177)
Q Consensus       107 ~~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~W--l~~~~~CP~CR~~~  157 (177)
                      .+...|.||-+....   ...+| |+|..|.-|.-+.  |-..+.||+||..-
T Consensus        59 Een~~C~ICA~~~TY---s~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE~  107 (493)
T COG5236          59 EENMNCQICAGSTTY---SARYP-CGHQICHACAVRLRALYMQKGCPLCRTET  107 (493)
T ss_pred             cccceeEEecCCceE---EEecc-CCchHHHHHHHHHHHHHhccCCCcccccc
Confidence            345679999888554   46788 9999999997553  34567899999853

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=95.12  E-value=0.033  Score=33.76  Aligned_cols=34  Identities=21%  Similarity=0.692  Sum_probs=30.2

Q ss_pred             cccCccccccccCCCceeecCCCCCcccHhhHHH
Q 037839          109 ATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDP  142 (177)
Q Consensus       109 ~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~  142 (177)
                      ...|.+|-+.|.+++.+.+-|.||=.+|.+|.+.
T Consensus         5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~   38 (54)
T PF14446_consen    5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK   38 (54)
T ss_pred             CccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence            4569999999998888889999999999999855

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.04  E-value=0.011  Score=53.81  Aligned_cols=43  Identities=23%  Similarity=0.576  Sum_probs=33.1

Q ss_pred             cccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCC
Q 037839          109 ATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSP  157 (177)
Q Consensus       109 ~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~  157 (177)
                      ...|..|--.+.-|-  ..-. |||.||.+|++   .+...||-|+..+
T Consensus       840 ~skCs~C~~~LdlP~--VhF~-CgHsyHqhC~e---~~~~~CP~C~~e~  882 (933)
T KOG2114|consen  840 VSKCSACEGTLDLPF--VHFL-CGHSYHQHCLE---DKEDKCPKCLPEL  882 (933)
T ss_pred             eeeecccCCccccce--eeee-cccHHHHHhhc---cCcccCCccchhh
Confidence            357999988877663  3333 99999999998   4556899998744

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

Probab=94.86  E-value=0.023  Score=46.23  Aligned_cols=48  Identities=35%  Similarity=0.748  Sum_probs=36.9

Q ss_pred             cccCccccccccCCC---ceeecCCCCCcccHhhHHHHHhcC-CCCcCCCCCC
Q 037839          109 ATCCSICLADYRSSD---MLRLLPDCSHLFHVKCVDPWLRLH-PTCPVCRTSP  157 (177)
Q Consensus       109 ~~~C~ICl~~f~~~~---~v~~l~~C~H~fH~~Ci~~Wl~~~-~~CP~CR~~~  157 (177)
                      ...|-||-++|...+   .-+.|. |||.|+..|+..-+... ..||.||.+.
T Consensus         3 ~~~c~~c~~~~s~~~~~~~p~~l~-c~h~~c~~c~~~l~~~~~i~cpfcR~~~   54 (296)
T KOG4185|consen    3 FPECEICNEDYSSEDGDHIPRVLK-CGHTICQNCASKLLGNSRILCPFCRETT   54 (296)
T ss_pred             CCceeecCccccccCcccCCcccc-cCceehHhHHHHHhcCceeeccCCCCcc
Confidence            346999999998763   234555 99999999997766543 4699999984

>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]

Probab=94.71  E-value=0.021  Score=51.57  Aligned_cols=25  Identities=32%  Similarity=0.800  Sum_probs=22.5

Q ss_pred             ecCCCCCcccHhhHHHHHhcCCCCcC
Q 037839          127 LLPDCSHLFHVKCVDPWLRLHPTCPV  152 (177)
Q Consensus       127 ~l~~C~H~fH~~Ci~~Wl~~~~~CP~  152 (177)
                      ... |+|+.|.+|...|+...-.||.
T Consensus      1045 Cg~-C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1045 CGT-CGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred             hcc-ccccccHHHHHHHHhcCCcCCC
Confidence            444 9999999999999999999997

>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]

Probab=94.65  E-value=0.011  Score=48.16  Aligned_cols=45  Identities=24%  Similarity=0.698  Sum_probs=30.4

Q ss_pred             cccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCC
Q 037839          109 ATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPL  158 (177)
Q Consensus       109 ~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~  158 (177)
                      ...|.=|=  |...-.-|+.| |.|+||.+|...  ..-+.||.|-..++
T Consensus        90 VHfCd~Cd--~PI~IYGRmIP-CkHvFCl~CAr~--~~dK~Cp~C~d~Vq  134 (389)
T KOG2932|consen   90 VHFCDRCD--FPIAIYGRMIP-CKHVFCLECARS--DSDKICPLCDDRVQ  134 (389)
T ss_pred             eEeecccC--Ccceeeecccc-cchhhhhhhhhc--CccccCcCcccHHH
Confidence            34466552  22223447888 999999999865  44678999976553

>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=94.46  E-value=0.019  Score=44.65  Aligned_cols=40  Identities=33%  Similarity=0.785  Sum_probs=31.2

Q ss_pred             CccccccccCCCceeecCCCCCc-ccHhhHHHHHhcCCCCcCCCCCCCC
Q 037839          112 CSICLADYRSSDMLRLLPDCSHL-FHVKCVDPWLRLHPTCPVCRTSPLP  159 (177)
Q Consensus       112 C~ICl~~f~~~~~v~~l~~C~H~-fH~~Ci~~Wl~~~~~CP~CR~~~~~  159 (177)
                      |-.|-+.   +..|..+| |.|+ +|..|-..    -..||+|+.+...
T Consensus       161 Cr~C~~~---~~~VlllP-CrHl~lC~~C~~~----~~~CPiC~~~~~s  201 (207)
T KOG1100|consen  161 CRKCGER---EATVLLLP-CRHLCLCGICDES----LRICPICRSPKTS  201 (207)
T ss_pred             ceecCcC---CceEEeec-ccceEeccccccc----CccCCCCcChhhc
Confidence            8888766   66788999 9988 88889865    2469999987643

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

Probab=94.42  E-value=0.025  Score=46.39  Aligned_cols=44  Identities=23%  Similarity=0.627  Sum_probs=34.6

Q ss_pred             CCcccCccccccccCCCceeecCCC--CCcccHhhHHHHHhcCCCCcCCCCCCC
Q 037839          107 STATCCSICLADYRSSDMLRLLPDC--SHLFHVKCVDPWLRLHPTCPVCRTSPL  158 (177)
Q Consensus       107 ~~~~~C~ICl~~f~~~~~v~~l~~C--~H~fH~~Ci~~Wl~~~~~CP~CR~~~~  158 (177)
                      .+..+|+||.+.+..+    ... |  ||+.|..|-.   +.+..||.||.++.
T Consensus        46 ~~lleCPvC~~~l~~P----i~Q-C~nGHlaCssC~~---~~~~~CP~Cr~~~g   91 (299)
T KOG3002|consen   46 LDLLDCPVCFNPLSPP----IFQ-CDNGHLACSSCRT---KVSNKCPTCRLPIG   91 (299)
T ss_pred             hhhccCchhhccCccc----cee-cCCCcEehhhhhh---hhcccCCccccccc
Confidence            3556899999999988    333 5  7999999875   34567999999886

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.35  E-value=0.018  Score=45.73  Aligned_cols=51  Identities=27%  Similarity=0.791  Sum_probs=35.9

Q ss_pred             CcccCccccccccCCCc-eeecCCC-----CCcccHhhHHHHHhcCC--------CCcCCCCCCCC
Q 037839          108 TATCCSICLADYRSSDM-LRLLPDC-----SHLFHVKCVDPWLRLHP--------TCPVCRTSPLP  159 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~-v~~l~~C-----~H~fH~~Ci~~Wl~~~~--------~CP~CR~~~~~  159 (177)
                      .+..|-||+..=++... -.+-| |     .|..|..|+..|+..++        .||-|++....
T Consensus        19 ~eR~CWiCF~TdeDn~~a~WV~P-CrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYii   83 (293)
T KOG3053|consen   19 LERCCWICFATDEDNRLAAWVHP-CRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYII   83 (293)
T ss_pred             cceeEEEEeccCcccchhhhccc-ccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhee
Confidence            45679999987443321 12344 4     38899999999995532        59999998764

>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans

Probab=94.01  E-value=0.044  Score=45.94  Aligned_cols=29  Identities=24%  Similarity=0.839  Sum_probs=22.9

Q ss_pred             CCCcccHhhHHHHHhcCC-------------CCcCCCCCCCC
Q 037839          131 CSHLFHVKCVDPWLRLHP-------------TCPVCRTSPLP  159 (177)
Q Consensus       131 C~H~fH~~Ci~~Wl~~~~-------------~CP~CR~~~~~  159 (177)
                      |.-.+|.+|+.+|+..++             .||+||+.+..
T Consensus       311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCi  352 (358)
T PF10272_consen  311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCI  352 (358)
T ss_pred             ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccccee
Confidence            667789999999995432             69999998754

They are purported to be transmembrane protein-precursors but their function is unknown.

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

Probab=93.26  E-value=0.029  Score=50.86  Aligned_cols=48  Identities=29%  Similarity=0.680  Sum_probs=36.7

Q ss_pred             ccCccccccccCCCceeecCCCCCcccHhhHHHHHhc--CCCCcCCCCCCCCCCC
Q 037839          110 TCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL--HPTCPVCRTSPLPTPL  162 (177)
Q Consensus       110 ~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~--~~~CP~CR~~~~~~~~  162 (177)
                      ..|.||++    .+.....+ |+|.||.+|+..-+..  ...||+||..+....+
T Consensus       455 ~~c~ic~~----~~~~~it~-c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l  504 (674)
T KOG1001|consen  455 HWCHICCD----LDSFFITR-CGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKL  504 (674)
T ss_pred             cccccccc----cccceeec-ccchHHHHHHHhccccccCCCCcHHHHHHHHHHH
Confidence            67999999    35555666 9999999999887654  3369999987765443

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

Probab=93.01  E-value=0.032  Score=49.62  Aligned_cols=45  Identities=22%  Similarity=0.539  Sum_probs=31.9

Q ss_pred             cccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCC
Q 037839          109 ATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTS  156 (177)
Q Consensus       109 ~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~  156 (177)
                      ...|.||+..|......-+...|||..|..|...-.+  .+|| |+.+
T Consensus        11 ~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn--~scp-~~~D   55 (861)
T KOG3161|consen   11 LLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYN--ASCP-TKRD   55 (861)
T ss_pred             HhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhh--ccCC-CCcc
Confidence            3469999998876543333334999999999987544  5788 6553

>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=92.60  E-value=0.14  Score=37.88  Aligned_cols=32  Identities=28%  Similarity=0.730  Sum_probs=19.9

Q ss_pred             ccCccccccccCCCceeecC-----------CCCCcc-cHhhHHHHH
Q 037839          110 TCCSICLADYRSSDMLRLLP-----------DCSHLF-HVKCVDPWL  144 (177)
Q Consensus       110 ~~C~ICl~~f~~~~~v~~l~-----------~C~H~f-H~~Ci~~Wl  144 (177)
                      ..|+||||.--+.   .+|-           -|+-.| |..|++++-
T Consensus         3 ~~CpICme~PHNA---VLLlCSS~~kgcRpymc~Ts~rhSNCLdqfk   46 (162)
T PF07800_consen    3 VTCPICMEHPHNA---VLLLCSSHEKGCRPYMCDTSYRHSNCLDQFK   46 (162)
T ss_pred             ccCceeccCCCce---EEEEeccccCCccccccCCccchhHHHHHHH
Confidence            4699999984332   2222           155444 788999864

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.

>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]

Probab=92.53  E-value=0.11  Score=43.73  Aligned_cols=47  Identities=15%  Similarity=0.403  Sum_probs=38.1

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCC---CCcCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHP---TCPVCRT  155 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~---~CP~CR~  155 (177)
                      ....|+|=-+.-.+...-..|. |||+...+-+.+..++..   .||+|=.
T Consensus       333 SvF~CPVlKeqtsdeNPPm~L~-CGHVISkdAlnrLS~ng~~sfKCPYCP~  382 (394)
T KOG2817|consen  333 SVFICPVLKEQTSDENPPMMLI-CGHVISKDALNRLSKNGSQSFKCPYCPV  382 (394)
T ss_pred             ceeecccchhhccCCCCCeeee-ccceecHHHHHHHhhCCCeeeeCCCCCc
Confidence            4567999888877777777888 999999999999776644   6999943

>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.14  E-value=0.069  Score=49.13  Aligned_cols=35  Identities=23%  Similarity=0.557  Sum_probs=27.0

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHH
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWL  144 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl  144 (177)
                      .+..|.+|-..+... .-.+-| |||.||++|+..=.
T Consensus       816 p~d~C~~C~~~ll~~-pF~vf~-CgH~FH~~Cl~~~v  850 (911)
T KOG2034|consen  816 PQDSCDHCGRPLLIK-PFYVFP-CGHCFHRDCLIRHV  850 (911)
T ss_pred             CccchHHhcchhhcC-cceeee-ccchHHHHHHHHHH
Confidence            466799998888754 334666 99999999997654

>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]

Probab=91.98  E-value=0.054  Score=51.64  Aligned_cols=47  Identities=28%  Similarity=0.682  Sum_probs=38.0

Q ss_pred             cccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCC
Q 037839          109 ATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPL  158 (177)
Q Consensus       109 ~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~  158 (177)
                      ...|.||++......-  .. .|||.++..|+..|+..+..||.|+....
T Consensus      1153 ~~~c~ic~dil~~~~~--I~-~cgh~~c~~c~~~~l~~~s~~~~~ksi~~ 1199 (1394)
T KOG0298|consen 1153 HFVCEICLDILRNQGG--IA-GCGHEPCCRCDELWLYASSRCPICKSIKG 1199 (1394)
T ss_pred             ccchHHHHHHHHhcCC--ee-eechhHhhhHHHHHHHHhccCcchhhhhh
Confidence            4479999999884433  23 39999999999999999999999985443

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

Probab=91.58  E-value=0.07  Score=45.30  Aligned_cols=52  Identities=27%  Similarity=0.669  Sum_probs=34.7

Q ss_pred             cccCccccccccCC-CceeecCCCCCcccHhhHHHHHhcC------CCCcC--CCCCCCCCC
Q 037839          109 ATCCSICLADYRSS-DMLRLLPDCSHLFHVKCVDPWLRLH------PTCPV--CRTSPLPTP  161 (177)
Q Consensus       109 ~~~C~ICl~~f~~~-~~v~~l~~C~H~fH~~Ci~~Wl~~~------~~CP~--CR~~~~~~~  161 (177)
                      ...|.||..+.... +.-.... |+|.||.+|....+..+      ..||-  |...+....
T Consensus       146 ~~~C~iC~~e~~~~~~~f~~~~-C~H~fC~~C~k~~iev~~~~~~~~~C~~~~C~~~l~~~~  206 (384)
T KOG1812|consen  146 KEECGICFVEDPEAEDMFSVLK-CGHRFCKDCVKQHIEVKLLSGTVIRCPHDGCESRLTLES  206 (384)
T ss_pred             cccCccCccccccHhhhHHHhc-ccchhhhHHhHHHhhhhhccCCCccCCCCCCCccCCHHH
Confidence            56799999555444 4444454 99999999999887642      25655  555554433

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=91.42  E-value=0.16  Score=42.09  Aligned_cols=54  Identities=17%  Similarity=0.341  Sum_probs=37.0

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhc-CCCCcCCCCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL-HPTCPVCRTSPLPTP  161 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~-~~~CP~CR~~~~~~~  161 (177)
                      +++.|+.|++++...|.-..--+||-..|.-|...--+. +-.||-||+.+-..+
T Consensus        13 eed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~den   67 (480)
T COG5175          13 EEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDEN   67 (480)
T ss_pred             ccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccccc
Confidence            445599999999876654332248988777776553222 347999999876654

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

Probab=91.21  E-value=0.21  Score=35.90  Aligned_cols=54  Identities=26%  Similarity=0.489  Sum_probs=36.6

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHh---cCCCCcCCCCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLR---LHPTCPVCRTSPLPTP  161 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~---~~~~CP~CR~~~~~~~  161 (177)
                      ...+|-||.|...+..-+.=--.||-..|..|....++   .+..||+|+.++-+.+
T Consensus        79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~  135 (140)
T PF05290_consen   79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSS  135 (140)
T ss_pred             CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence            45679999988654321111114999999998766554   3678999999886544

>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=91.00  E-value=0.081  Score=31.08  Aligned_cols=27  Identities=30%  Similarity=0.795  Sum_probs=21.3

Q ss_pred             CC-CcccHhhHHHHHhcCCCCcCCCCCC
Q 037839          131 CS-HLFHVKCVDPWLRLHPTCPVCRTSP  157 (177)
Q Consensus       131 C~-H~fH~~Ci~~Wl~~~~~CP~CR~~~  157 (177)
                      |+ |..|..|+...+..+..||+|..++
T Consensus        18 C~dHYLCl~CLt~ml~~s~~C~iC~~~L   45 (50)
T PF03854_consen   18 CSDHYLCLNCLTLMLSRSDRCPICGKPL   45 (50)
T ss_dssp             -SS-EEEHHHHHHT-SSSSEETTTTEE-
T ss_pred             ecchhHHHHHHHHHhccccCCCcccCcC
Confidence            76 9999999999999999999998876

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 RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.

>PF08693 SKG6: Transmembrane alpha-helix domain; InterPro: IPR014805 SKG6 and AXL2 are membrane proteins that show polarised intracellular localisation [, ]

Probab=90.98  E-value=0.1  Score=29.60  Aligned_cols=21  Identities=19%  Similarity=0.365  Sum_probs=8.0

Q ss_pred             chhhHHHHHHHHHHHHHHHHH
Q 037839           23 YGIGVSVGILILITTITLASY   43 (177)
Q Consensus        23 ~~i~i~l~il~li~~i~l~~~   43 (177)
                      .++++.+.+.++++++.+++|
T Consensus        13 Ia~~VvVPV~vI~~vl~~~l~   33 (40)
T PF08693_consen   13 IAVGVVVPVGVIIIVLGAFLF   33 (40)
T ss_pred             EEEEEEechHHHHHHHHHHhh
Confidence            333444444333333333333

This entry represents the highly conserved transmembrane alpha-helical domain found in these proteins [, ]. The full-length AXL2 protein has a negative regulatory function in cytokinesis [].

>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]

Probab=90.48  E-value=0.18  Score=46.27  Aligned_cols=57  Identities=23%  Similarity=0.557  Sum_probs=41.4

Q ss_pred             CCCcccCccccccccCCCceeecC-CCC---CcccHhhHHHHHhc--CCCCcCCCCCCCCCCCC
Q 037839          106 DSTATCCSICLADYRSSDMLRLLP-DCS---HLFHVKCVDPWLRL--HPTCPVCRTSPLPTPLS  163 (177)
Q Consensus       106 ~~~~~~C~ICl~~f~~~~~v~~l~-~C~---H~fH~~Ci~~Wl~~--~~~CP~CR~~~~~~~~~  163 (177)
                      +.+...|.||..+=..++.+. -| +|.   ...|.+|+.+|+.-  ...|-+|+.++.-+..+
T Consensus         9 N~d~~~CRICr~e~~~d~pLf-hPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~IY   71 (1175)
T COG5183           9 NEDKRSCRICRTEDIRDDPLF-HPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKDIY   71 (1175)
T ss_pred             CccchhceeecCCCCCCCcCc-ccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeeeec
Confidence            345578999999977777663 34 233   33799999999964  45799999988765543

>KOG3899 consensus Uncharacterized conserved protein [Function unknown]

Probab=90.30  E-value=0.14  Score=41.50  Aligned_cols=31  Identities=23%  Similarity=0.521  Sum_probs=24.7

Q ss_pred             CCCcccHhhHHHHHhc-------------CCCCcCCCCCCCCCC
Q 037839          131 CSHLFHVKCVDPWLRL-------------HPTCPVCRTSPLPTP  161 (177)
Q Consensus       131 C~H~fH~~Ci~~Wl~~-------------~~~CP~CR~~~~~~~  161 (177)
                      |...+|.+|+.+|+..             +-+||+||+.+....
T Consensus       325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~d  368 (381)
T KOG3899|consen  325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRD  368 (381)
T ss_pred             cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEee
Confidence            7788999999999843             348999999886543

>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=89.17  E-value=0.17  Score=41.00  Aligned_cols=58  Identities=24%  Similarity=0.548  Sum_probs=39.9

Q ss_pred             cCccccc-cccCCCceeecCCCCCcccHhhHHHHHhc-CCCCcCCCCCCCCCCCCCCccc
Q 037839          111 CCSICLA-DYRSSDMLRLLPDCSHLFHVKCVDPWLRL-HPTCPVCRTSPLPTPLSTPLAE  168 (177)
Q Consensus       111 ~C~ICl~-~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~-~~~CP~CR~~~~~~~~~~~~~~  168 (177)
                      .|++|-. .|.+++...+...|+|-.|..|.+.-+.. ...||-|-..+.-.++-..+-|
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~nfr~q~fE   61 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRKNNFRVQTFE   61 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhhcccchhhcc
Confidence            3777754 34556644433359999999999998854 5589999887776665443333

>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]

Probab=88.68  E-value=0.24  Score=40.31  Aligned_cols=51  Identities=27%  Similarity=0.694  Sum_probs=36.8

Q ss_pred             cccCccccccccCCCc-eeecCCCC-----CcccHhhHHHHHh--cCCCCcCCCCCCCCC
Q 037839          109 ATCCSICLADYRSSDM-LRLLPDCS-----HLFHVKCVDPWLR--LHPTCPVCRTSPLPT  160 (177)
Q Consensus       109 ~~~C~ICl~~f~~~~~-v~~l~~C~-----H~fH~~Ci~~Wl~--~~~~CP~CR~~~~~~  160 (177)
                      +..|-||.++...... ....| |.     +..|..|+..|+.  .+..|.+|.......
T Consensus        78 ~~~cRIc~~~~~~~~~~~l~~p-C~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~  136 (323)
T KOG1609|consen   78 GPICRICHEEDEESNGLLLISP-CSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINV  136 (323)
T ss_pred             CCcEEEEecccccccccccccC-ccccCcHHHHHHHHHHhhhccccCeeeecccccceec
Confidence            4679999998654331 23444 53     5579999999997  456799999877654

>PF04478 Mid2: Mid2 like cell wall stress sensor; InterPro: IPR007567 This family represents a region near the C terminus of Mid2, which contains a transmembrane region

Probab=88.19  E-value=0.27  Score=36.18  Aligned_cols=31  Identities=32%  Similarity=0.518  Sum_probs=16.8

Q ss_pred             ccchhhHHHHHHHHHHHHHHHHHhhccCcch
Q 037839           21 FGYGIGVSVGILILITTITLASYFCTRGQQQ   51 (177)
Q Consensus        21 ~~~~i~i~l~il~li~~i~l~~~~~~r~~~~   51 (177)
                      +.+++++-+|+.+++.++.++|+||.|+++.
T Consensus        50 IVIGvVVGVGg~ill~il~lvf~~c~r~kkt   80 (154)
T PF04478_consen   50 IVIGVVVGVGGPILLGILALVFIFCIRRKKT   80 (154)
T ss_pred             EEEEEEecccHHHHHHHHHhheeEEEecccC
Confidence            3445555555555555555556666665543

The remainder of the protein sequence is serine-rich and of low complexity, and is therefore impossible to align accurately. Mid2 is thought to act as a mechanosensor of cell wall stress. The C-terminal cytoplasmic region of Mid2 is known to interact with Rom2, a guanine nucleotide exchange factor (GEF) for Rho1, which is part of the cell wall integrity signalling pathway [].

>PRK06287 cobalt transport protein CbiN; Validated

Probab=86.78  E-value=1.2  Score=30.91  Aligned_cols=38  Identities=16%  Similarity=0.233  Sum_probs=26.6

Q ss_pred             CCCCCCCCCCCCccchhhHHHHHHHHHHHHHHHHHhhccC
Q 037839            9 SDGFLGSSNIGGFGYGIGVSVGILILITTITLASYFCTRG   48 (177)
Q Consensus         9 ~~~~~~~~~~~~~~~~i~i~l~il~li~~i~l~~~~~~r~   48 (177)
                      .||..++  ...++|++..++|+++++.++..+.+..+|+
T Consensus        67 pDY~i~g--~~~~g~ilsgiiGv~i~l~l~~~~~~~l~r~  104 (107)
T PRK06287         67 PDYSIPG--MGKIGEIIAMVIGTLLVLALAYGVGKIFKKK  104 (107)
T ss_pred             CCCCCCC--CcchhHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            4666665  3357899988888877777777766666554

>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=86.29  E-value=0.8  Score=27.20  Aligned_cols=42  Identities=24%  Similarity=0.596  Sum_probs=18.3

Q ss_pred             cCccccccccCCCceeecCCCCCcccHhhHHHHHhc-----CCCCcCCCCC
Q 037839          111 CCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL-----HPTCPVCRTS  156 (177)
Q Consensus       111 ~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~-----~~~CP~CR~~  156 (177)
                      .|+|....+..+  +|-.. |.|+-+-+ ++.|+..     ...||+|.++
T Consensus         4 ~CPls~~~i~~P--~Rg~~-C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~   50 (50)
T PF02891_consen    4 RCPLSFQRIRIP--VRGKN-CKHLQCFD-LESFLESNQRTPKWKCPICNKP   50 (50)
T ss_dssp             B-TTTSSB-SSE--EEETT---SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred             eCCCCCCEEEeC--ccCCc-CcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence            478887777655  55555 99983222 2344422     3479999864

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.

>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]

Probab=85.81  E-value=0.18  Score=39.85  Aligned_cols=64  Identities=23%  Similarity=0.497  Sum_probs=41.3

Q ss_pred             cccCcccccc-ccCCCcee-ecCCCCCcccHhhHHHHHhc-CCCCc--CCCCCCCCCCCCCCcccccCC
Q 037839          109 ATCCSICLAD-YRSSDMLR-LLPDCSHLFHVKCVDPWLRL-HPTCP--VCRTSPLPTPLSTPLAEVVPL  172 (177)
Q Consensus       109 ~~~C~ICl~~-f~~~~~v~-~l~~C~H~fH~~Ci~~Wl~~-~~~CP--~CR~~~~~~~~~~~~~~~~~~  172 (177)
                      +..|+||..+ |.+|+... +-|.|-|..|.+|.++-+.. ...||  -|-.-+.-..+-...-+..++
T Consensus        10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILRK~kf~~qtFeD~~v   78 (314)
T COG5220          10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILRKIKFIKQTFEDITV   78 (314)
T ss_pred             cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHHHhcccccccchhhh
Confidence            4469999865 45666433 44459999999999999866 45899  575544333333334344433

>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane

Probab=85.70  E-value=1.1  Score=31.84  Aligned_cols=13  Identities=31%  Similarity=0.376  Sum_probs=5.2

Q ss_pred             HHHHHhhccCcch
Q 037839           39 TLASYFCTRGQQQ   51 (177)
Q Consensus        39 ~l~~~~~~r~~~~   51 (177)
                      ++++|+++|++++
T Consensus        82 lli~y~irR~~Kk   94 (122)
T PF01102_consen   82 LLISYCIRRLRKK   94 (122)
T ss_dssp             HHHHHHHHHHS--
T ss_pred             HHHHHHHHHHhcc
Confidence            3444555444443

Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.

>KOG0269 consensus WD40 repeat-containing protein [Function unknown]

Probab=85.29  E-value=0.7  Score=42.16  Aligned_cols=40  Identities=20%  Similarity=0.360  Sum_probs=29.4

Q ss_pred             cCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcC
Q 037839          111 CCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPV  152 (177)
Q Consensus       111 ~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~  152 (177)
                      .|++|-.... +..+..- .|||.-|.+|+.+|+....-||.
T Consensus       781 ~CtVC~~vi~-G~~~~c~-~C~H~gH~sh~~sw~~~~s~ca~  820 (839)
T KOG0269|consen  781 KCTVCDLVIR-GVDVWCQ-VCGHGGHDSHLKSWFFKASPCAK  820 (839)
T ss_pred             Cceeecceee-eeEeecc-cccccccHHHHHHHHhcCCCCcc
Confidence            5888866544 2233333 49999999999999988877765

>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]

Probab=84.72  E-value=0.24  Score=44.69  Aligned_cols=47  Identities=26%  Similarity=0.672  Sum_probs=36.4

Q ss_pred             cccCccccccccCCCceeecCCCCCcccHhhHHHHHhc---CCCCcCCCCCCCC
Q 037839          109 ATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL---HPTCPVCRTSPLP  159 (177)
Q Consensus       109 ~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~---~~~CP~CR~~~~~  159 (177)
                      ..+|.||+..+..+   ..+ +|.|+|+..|+..-+..   ...||+|+..+.-
T Consensus        21 ~lEc~ic~~~~~~p---~~~-kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK   70 (684)
T KOG4362|consen   21 ILECPICLEHVKEP---SLL-KCDHIFLKFCLNKLFESKKGPKQCALCKSDIEK   70 (684)
T ss_pred             hccCCceeEEeecc---chh-hhhHHHHhhhhhceeeccCccccchhhhhhhhh
Confidence            45799999999887   344 49999999998776643   3479999976643

>PF05568 ASFV_J13L: African swine fever virus J13L protein; InterPro: IPR008385 This family consists of several African swine fever virus (ASFV) j13L proteins [, , ]

Probab=84.39  E-value=2  Score=31.50  Aligned_cols=28  Identities=21%  Similarity=0.555  Sum_probs=20.1

Q ss_pred             hhHHHHHHHHHHHHHHHHHhhccCcchh
Q 037839           25 IGVSVGILILITTITLASYFCTRGQQQQ   52 (177)
Q Consensus        25 i~i~l~il~li~~i~l~~~~~~r~~~~~   52 (177)
                      +.|+++|.++++.|++..|+|.++.+..
T Consensus        32 ~tILiaIvVliiiiivli~lcssRKkKa   59 (189)
T PF05568_consen   32 YTILIAIVVLIIIIIVLIYLCSSRKKKA   59 (189)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhHHH
Confidence            3677777777777777777777665554

>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3

Probab=84.10  E-value=0.97  Score=24.35  Aligned_cols=37  Identities=19%  Similarity=0.515  Sum_probs=24.5

Q ss_pred             CccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCC
Q 037839          112 CSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPL  158 (177)
Q Consensus       112 C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~  158 (177)
                      |..|-..+...+.....  =+..||.+|+        .|..|+.+|.
T Consensus         2 C~~C~~~i~~~~~~~~~--~~~~~H~~Cf--------~C~~C~~~L~   38 (39)
T smart00132        2 CAGCGKPIRGGELVLRA--LGKVWHPECF--------KCSKCGKPLG   38 (39)
T ss_pred             ccccCCcccCCcEEEEe--CCccccccCC--------CCcccCCcCc
Confidence            77777777665333222  4788998887        5788877663

Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.

>PF01034 Syndecan: Syndecan domain; InterPro: IPR001050 The syndecans are transmembrane proteoglycans which are involved in the organisation of cytoskeleton and/or actin microfilaments, and have important roles as cell surface receptors during cell-cell and/or cell-matrix interactions [, ]

Probab=83.27  E-value=0.37  Score=30.19  Aligned_cols=26  Identities=27%  Similarity=0.293  Sum_probs=0.5

Q ss_pred             hhhHHHHHHHHHHHHHHHHHhhccCc
Q 037839           24 GIGVSVGILILITTITLASYFCTRGQ   49 (177)
Q Consensus        24 ~i~i~l~il~li~~i~l~~~~~~r~~   49 (177)
                      ..++++|+++.++++++++|.++++.
T Consensus        15 IaG~Vvgll~ailLIlf~iyR~rkkd   40 (64)
T PF01034_consen   15 IAGGVVGLLFAILLILFLIYRMRKKD   40 (64)
T ss_dssp             ----------------------S---
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            33555666666666666666555443

Structurally, these proteins consist of four separate domains: A signal sequence; An extracellular domain (ectodomain) of variable length whose sequence is not evolutionary conserved in the various forms of syndecans. The ectodomain contains the sites of attachment of the heparan sulphate glycosaminoglycan side chains; A transmembrane region; A highly conserved cytoplasmic domain of about 30 to 35 residues, which could interact with cytoskeletal proteins. The proteins known to belong to this family are: Syndecan 1. Syndecan 2 or fibroglycan. Syndecan 3 or neuroglycan or N-syndecan. Syndecan 4 or amphiglycan or ryudocan. Drosophila syndecan. Caenorhabditis elegans probable syndecan (F57C7.3). Syndecan-4, a transmembrane heparan sulphate proteoglycan, is a coreceptor with integrins in cell adhesion. It has been suggested to form a ternary signalling complex with protein kinase Calpha and phosphatidylinositol 4,5-bisphosphate (PIP2). Structural studies have demonstrated that the cytoplasmic domain undergoes a conformational transition and forms a symmetric dimer in the presence of phospholipid activator PIP2, and whose overall structure in solution exhibits a twisted clamp shape having a cavity in the centre of dimeric interface. In addition, it has been observed that the syndecan-4 variable domain interacts, strongly, not only with fatty acyl groups but also the anionic head group of PIP2. These findings indicate that PIP2 promotes oligomerisation of the syndecan-4 cytoplasmic domain for transmembrane signalling and cell-matrix adhesion [, ].; GO: 0008092 cytoskeletal protein binding, 0016020 membrane; PDB: 1EJQ_B 1EJP_B 1YBO_C 1OBY_Q.

>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=83.13  E-value=0.77  Score=27.52  Aligned_cols=43  Identities=21%  Similarity=0.459  Sum_probs=21.7

Q ss_pred             CccccccccCCC------ceeecCCCCCcccHhhHHHHHhcCCCCcCCC
Q 037839          112 CSICLADYRSSD------MLRLLPDCSHLFHVKCVDPWLRLHPTCPVCR  154 (177)
Q Consensus       112 C~ICl~~f~~~~------~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR  154 (177)
                      |--|+..|..+.      ....-+.|++.|+.+|=.---..-.+||-|-
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            455666666542      3456667999999999532123445799883

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.

>PF13901 DUF4206: Domain of unknown function (DUF4206)

Probab=83.00  E-value=0.96  Score=34.96  Aligned_cols=41  Identities=32%  Similarity=0.825  Sum_probs=28.4

Q ss_pred             cccCcccccc-----ccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCC
Q 037839          109 ATCCSICLAD-----YRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRT  155 (177)
Q Consensus       109 ~~~C~ICl~~-----f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~  155 (177)
                      +..|-+|-+.     |+. +.+..-+.|+-+||..|...     ..||-|-+
T Consensus       152 GfiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~~-----~~CpkC~R  197 (202)
T PF13901_consen  152 GFICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFRK-----KSCPKCAR  197 (202)
T ss_pred             CCCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcCC-----CCCCCcHh
Confidence            5678888753     222 24445556999999999973     67999954

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

Probab=82.94  E-value=0.76  Score=42.25  Aligned_cols=53  Identities=8%  Similarity=0.101  Sum_probs=37.2

Q ss_pred             CCcccCccccccccCCCc---eeecCCCCCcccHhhHHHHHhc------CCCCcCCCCCCCC
Q 037839          107 STATCCSICLADYRSSDM---LRLLPDCSHLFHVKCVDPWLRL------HPTCPVCRTSPLP  159 (177)
Q Consensus       107 ~~~~~C~ICl~~f~~~~~---v~~l~~C~H~fH~~Ci~~Wl~~------~~~CP~CR~~~~~  159 (177)
                      .+...|.+|.-++..++.   +.-+.+|+|.||..||..|..+      +-.|+.|...+..
T Consensus        94 a~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~s  155 (1134)
T KOG0825|consen   94 AESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGS  155 (1134)
T ss_pred             ccccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhh
Confidence            345668888888887432   2222359999999999999854      2358889876654

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

Probab=82.60  E-value=0.76  Score=39.48  Aligned_cols=35  Identities=31%  Similarity=0.611  Sum_probs=29.0

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhc
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL  146 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~  146 (177)
                      ++..|+||..-|.++   ++|| |+|..|..|...-+.+
T Consensus         3 eelkc~vc~~f~~ep---iil~-c~h~lc~~ca~~~~~~   37 (699)
T KOG4367|consen    3 EELKCPVCGSFYREP---IILP-CSHNLCQACARNILVQ   37 (699)
T ss_pred             ccccCceehhhccCc---eEee-cccHHHHHHHHhhccc
Confidence            345799999999988   6888 9999999999775543

>PTZ00370 STEVOR; Provisional

Probab=82.03  E-value=1.5  Score=35.64  Aligned_cols=29  Identities=24%  Similarity=0.411  Sum_probs=14.6

Q ss_pred             CccchhhHHHHHHHHHHHHHHHHHhhccC
Q 037839           20 GFGYGIGVSVGILILITTITLASYFCTRG   48 (177)
Q Consensus        20 ~~~~~i~i~l~il~li~~i~l~~~~~~r~   48 (177)
                      ...|+|+.++.+++.+++|++.+|+.+||
T Consensus       254 F~Pygiaalvllil~vvliilYiwlyrrR  282 (296)
T PTZ00370        254 FYPYGIAALVLLILAVVLIILYIWLYRRR  282 (296)
T ss_pred             hcccHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            34577765555555555544444433333

>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins

Probab=81.62  E-value=3.7  Score=28.69  Aligned_cols=20  Identities=20%  Similarity=0.341  Sum_probs=14.3

Q ss_pred             HHHhcCCCCcCCCCCCCCCC
Q 037839          142 PWLRLHPTCPVCRTSPLPTP  161 (177)
Q Consensus       142 ~Wl~~~~~CP~CR~~~~~~~  161 (177)
                      ..+.+...|+.|++++..++
T Consensus        80 KmLGr~D~CM~C~~pLTLd~   99 (114)
T PF11023_consen   80 KMLGRVDACMHCKEPLTLDP   99 (114)
T ss_pred             hhhchhhccCcCCCcCccCc
Confidence            33445557999999998654

; GO: 0005887 integral to plasma membrane

>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane

Probab=80.69  E-value=2.3  Score=30.25  Aligned_cols=32  Identities=19%  Similarity=0.261  Sum_probs=20.1

Q ss_pred             ccchhhHHHHHHHHHHHHHHHHHhhccCcchh
Q 037839           21 FGYGIGVSVGILILITTITLASYFCTRGQQQQ   52 (177)
Q Consensus        21 ~~~~i~i~l~il~li~~i~l~~~~~~r~~~~~   52 (177)
                      .++.++++.|++++|+++++.+...+++....
T Consensus        67 ~~Ii~gv~aGvIg~Illi~y~irR~~Kk~~~~   98 (122)
T PF01102_consen   67 IGIIFGVMAGVIGIILLISYCIRRLRKKSSSD   98 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHS------
T ss_pred             eehhHHHHHHHHHHHHHHHHHHHHHhccCCCC
Confidence            44556788888888888888888777777665

Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	177
1x4j_A	75	Solution Structure Of Ring Finger In Ring Finger Pr		3e-10
1iym_A	55	Ring-H2 Finger Domain Of El5 Length = 55		1e-08
2ect_A	78	Solution Structure Of The Zinc Finger, C3hc4 Type (		1e-07
2kiz_A	69	Solution Structure Of Arkadia Ring-H2 Finger Domain		1e-05
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		1e-05
2ep4_A	74	Solution Structure Of Ring Finger From Human Ring F		4e-05

>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein 38 Length = 75

Iteration: 1
 Score = 61.2 bits (147), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 28/64 (43%), Positives = 38/64 (59%), Gaps = 1/64 (1%)
Query: 91  SYPKLPYSEARLQKKDSTATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTC 150
           S  +LP          S  T C +C+ D+ S  +LR+LP C+H FH KCVD WL+ + TC
Sbjct: 5   SSGQLPSYRFNPNNHQSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTC 63
Query: 151 PVCR 154
           P+CR
Sbjct: 64  PICR 67

>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5 Length = 55

Iteration: 1
 Score = 55.8 bits (133), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 22/43 (51%), Positives = 28/43 (65%)
Query: 112 CSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCR 154
           C++CLA+    +  R LP C H FH +CVD WL  H TCP+CR
Sbjct: 8   CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCR 50

>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring Finger) Domain Of Ring Finger Protein 126 Length = 78

Iteration: 1
 Score = 52.8 bits (125), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 22/43 (51%), Positives = 28/43 (65%), Gaps = 1/43 (2%)
Query: 112 CSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCR 154
           C +C  DY   + +R LP C+HLFH  C+ PWL  H +CPVCR
Sbjct: 18  CPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCR 59

>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain Length = 69

Iteration: 1
 Score = 45.8 bits (107), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 21/43 (48%), Positives = 27/43 (62%), Gaps = 1/43 (2%)
Query: 112 CSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCR 154
           C+ICL+     + +R LP C HLFH  CVD WL  +  CP+CR
Sbjct: 17  CTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICR 58

>pdb|2L0B|A Chain A, Solution Nmr Structure Of Zinc Finger Domain Of E3 Ubiquitin-Protein Ligase Praja-1 From Homo Sapiens, Northeast Structural Genomics Consortium (Nesg) Target Hr4710b Length = 91

Iteration: 1
 Score = 45.4 bits (106), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 22/44 (50%), Positives = 26/44 (59%), Gaps = 1/44 (2%)
Query: 111 CCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCR 154
           CC IC ++Y   D+   LP C H FH  CV  WL+   TCPVCR
Sbjct: 42  CCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGTCPVCR 84

>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger Protein 24 Length = 74

Iteration: 1
 Score = 44.3 bits (103), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 18/42 (42%), Positives = 26/42 (61%), Gaps = 1/42 (2%)
Query: 112 CSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVC 153
           C++CL D++  D L + P C H FH KC+  WL +   CP+C
Sbjct: 18  CAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLC 58

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	177
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	2e-30
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	2e-30
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	2e-26
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	7e-24
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	2e-23
2ect_A	78	Ring finger protein 126; metal binding protein, st	8e-22
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	6e-21
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	2e-18
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	2e-15
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	4e-15
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	1e-11
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	3e-10
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	4e-10
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	5e-10
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	1e-09
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	2e-09
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	1e-08
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	2e-08
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	1e-07
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	5e-07
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	7e-07
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	7e-07
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	8e-07
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	1e-06
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	2e-06
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	9e-06
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	4e-06
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	4e-06
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	3e-05
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	4e-05
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	6e-05
3nw0_A	238	Non-structural maintenance of chromosomes element	6e-05
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	8e-05
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	1e-04
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	2e-04
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	3e-04
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	4e-04
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	4e-04
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	5e-04

>2l0b_A E3 ubiquitin-protein ligase praja-1; zinc finger, NESG, structural genomics, PSI-2, protein struc initiative; NMR {Homo sapiens} Length = 91

 Score =  105 bits (265), Expect = 2e-30
 Identities = 31/90 (34%), Positives = 44/90 (48%), Gaps = 4/90 (4%)

Query: 73  HNQSSIVIDVGLDESTIKSYPKLPYSEARLQKKDSTATCCSICLADYRSSDMLRLLPDCS 132
           H+ S +V +    + +I + P++  +E           CC IC ++Y   D+   LP C 
Sbjct: 6   HHHSHMVANPPASKESIDALPEILVTEDHGAVGQ--EMCCPICCSEYVKGDVATELP-CH 62

Query: 133 HLFHVKCVDPWLRLHPTCPVCRTSPLPTPL 162
           H FH  CV  WL+   TCPVCR    P PL
Sbjct: 63  HYFHKPCVSIWLQKSGTCPVCRCM-FPPPL 91

>1x4j_A Ring finger protein 38; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 75

 Score =  105 bits (263), Expect = 2e-30
 Identities = 27/75 (36%), Positives = 41/75 (54%), Gaps = 4/75 (5%)

Query: 87  STIKSYPKLPYSEARLQKKDSTATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL 146
            +    P   ++    Q +    T C +C+ D+ S  +LR+LP C+H FH KCVD WL+ 
Sbjct: 4   GSSGQLPSYRFNPNNHQSEQ---TLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKA 59

Query: 147 HPTCPVCRTSPLPTP 161
           + TCP+CR    P+ 
Sbjct: 60  NRTCPICRADSGPSS 74

>1iym_A EL5; ring-H2 finger, ubiquitin ligase, DNA binding protein; NMR {Oryza sativa} SCOP: g.44.1.1 Length = 55

 Score = 94.2 bits (235), Expect = 2e-26
 Identities = 22/50 (44%), Positives = 30/50 (60%)

Query: 109 ATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPL 158
              C++CLA+    +  R LP C H FH +CVD WL  H TCP+CR + +
Sbjct: 5   GVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV 54

>2ep4_A Ring finger protein 24; zinc binding, ubiquitin, E3 enzyme, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 74

 Score = 88.3 bits (219), Expect = 7e-24
 Identities = 20/63 (31%), Positives = 31/63 (49%), Gaps = 1/63 (1%)

Query: 103 QKKDSTATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTPL 162
            K+ +    C++CL D++  D L + P C H FH KC+  WL +   CP+C    L    
Sbjct: 9   VKELNLHELCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPVLQLAQ 67

Query: 163 STP 165
            + 
Sbjct: 68  LSG 70

>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} Length = 69

 Score = 87.4 bits (217), Expect = 2e-23
 Identities = 22/56 (39%), Positives = 29/56 (51%), Gaps = 1/56 (1%)

Query: 106 DSTATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTP 161
           + T   C+ICL+     + +R LP C HLFH  CVD WL  +  CP+CR       
Sbjct: 11  EDTEEKCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDIEAQL 65

>2ect_A Ring finger protein 126; metal binding protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} Length = 78

 Score = 83.2 bits (206), Expect = 8e-22
 Identities = 24/59 (40%), Positives = 33/59 (55%), Gaps = 2/59 (3%)

Query: 103 QKKDSTATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTP 161
           ++   +   C +C  DY   + +R LP C+HLFH  C+ PWL  H +CPVCR S L   
Sbjct: 9   EEHVGSGLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKS-LTGQ 65

>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 Length = 55

 Score = 80.0 bits (198), Expect = 6e-21
 Identities = 16/50 (32%), Positives = 25/50 (50%)

Query: 107 STATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTS 156
           S ++ C ICL D  +S ++  +  C HL H  C +  L+    CP+C   
Sbjct: 3   SGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGP 52

>2ecl_A Ring-box protein 2; RNF7, ring domian, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 81

 Score = 74.2 bits (182), Expect = 2e-18
 Identities = 13/50 (26%), Positives = 26/50 (52%)

Query: 105 KDSTATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCR 154
           +      C  C A+ +  D + +  +C+H FH  C+  W++ +  CP+C+
Sbjct: 22  RVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQ 71

>2ecn_A Ring finger protein 141; RNF141, ring domain, zinc-binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 70

 Score = 66.6 bits (163), Expect = 2e-15
 Identities = 20/59 (33%), Positives = 28/59 (47%), Gaps = 6/59 (10%)

Query: 98  SEARLQKKDSTATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTS 156
           S  R+++      CC IC+          +LP C+H F  KC+D W   H  CP+CR  
Sbjct: 5   SSGRVKQLTDEEECC-ICMDGRA----DLILP-CAHSFCQKCIDKWSDRHRNCPICRLQ 57

>1chc_A Equine herpes virus-1 ring domain; viral protein; NMR {Equid herpesvirus 1} SCOP: g.44.1.1 Length = 68

 Score = 65.5 bits (160), Expect = 4e-15
 Identities = 20/51 (39%), Positives = 27/51 (52%), Gaps = 3/51 (5%)

Query: 106 DSTATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTS 156
            + A  C ICL D   S+    LP C H F   C+  W+R +PTCP+C+  
Sbjct: 2   ATVAERCPICLEDP--SNYSMALP-CLHAFCYVCITRWIRQNPTCPLCKVP 49

>2ea6_A Ring finger protein 4; RNF4, RES4-26, ring domain, zinc- binding domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 69

 Score = 56.5 bits (136), Expect = 1e-11
 Identities = 16/55 (29%), Positives = 23/55 (41%), Gaps = 3/55 (5%)

Query: 105 KDSTATCCSICLADYRSSDMLRLLP---DCSHLFHVKCVDPWLRLHPTCPVCRTS 156
           + S    C IC+  Y        L    +C H+F  +C+   L+   TCP CR  
Sbjct: 11  RPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKK 65

>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 1u6g_B 2hye_D* 4a0c_D 4a0l_F* 1ldj_B 1ldk_C 2lgv_A Length = 106

 Score = 54.1 bits (129), Expect = 3e-10
 Identities = 12/51 (23%), Positives = 17/51 (33%)

Query: 104 KKDSTATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCR 154
                   C    A   S +       C+H FH  C+  WL+    CP+  
Sbjct: 46  HIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 96

>2xeu_A Ring finger protein 4; transcription, zinc-finger, metal-binding; HET: SUC; 1.50A {Homo sapiens} Length = 64

 Score = 52.5 bits (126), Expect = 4e-10
 Identities = 15/48 (31%), Positives = 21/48 (43%), Gaps = 3/48 (6%)

Query: 112 CSICLADYRSSDMLRLLP---DCSHLFHVKCVDPWLRLHPTCPVCRTS 156
           C IC+  Y        L    +C H+F  +C+   L+   TCP CR  
Sbjct: 6   CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKK 53

>4a0k_B E3 ubiquitin-protein ligase RBX1; ligase-DNA-binding protein-DNA complex, DNA-binding protein- complex; HET: DNA 3DR; 5.93A {Mus musculus} Length = 117

 Score = 53.7 bits (128), Expect = 5e-10
 Identities = 12/44 (27%), Positives = 17/44 (38%)

Query: 111 CCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCR 154
            C    A   S +       C+H FH  C+  WL+    CP+  
Sbjct: 64  ECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 107

>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 = 51.4 bits (123), Expect = 1e-09
 Identities = 16/55 (29%), Positives = 23/55 (41%), Gaps = 3/55 (5%)

Query: 105 KDSTATCCSICLADYRSSDMLRLLP---DCSHLFHVKCVDPWLRLHPTCPVCRTS 156
           + S    C IC+  Y        L    +C H+F  +C+   L+   TCP CR  
Sbjct: 6   RPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKK 60

>3k1l_B Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A {Drosophila melanogaster} Length = 381

 Score = 54.5 bits (130), Expect = 2e-09
 Identities = 17/94 (18%), Positives = 29/94 (30%), Gaps = 20/94 (21%)

Query: 93  PKLPYSEARLQKKDSTATCCSICLA----DYRSSDMLRLLPDCSHLFHVKCVDPWLR--- 145
                   +L ++D+    C+IC A          +      C    H  C++ W +   
Sbjct: 292 MPDWSDGPKLDEEDNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLM 351

Query: 146 --------LHPTCPVCRTSPLPTPLSTPLAEVVP 171
                       CP C+       LST  A ++ 
Sbjct: 352 DGKTFLEVSFGQCPFCK-----AKLSTSFAALLN 380

>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 = 49.5 bits (118), Expect = 1e-08
 Identities = 17/46 (36%), Positives = 20/46 (43%), Gaps = 4/46 (8%)

Query: 112 CSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL-HPTCPVCRTS 156
           C IC+   R +   RL P CS L    C+  WL      CP CR  
Sbjct: 25  CFICMEKLRDA---RLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAP 67

>2csy_A Zinc finger protein 183-like 1; ring finger protein 161, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 81

 Score = 48.3 bits (115), Expect = 2e-08
 Identities = 11/44 (25%), Positives = 17/44 (38%), Gaps = 4/44 (9%)

Query: 112 CSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRT 155
           C IC   +++  + +    C H F   C     R  P C +C  
Sbjct: 18  CFICRQAFQNPVVTK----CRHYFCESCALEHFRATPRCYICDQ 57

>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* Length = 389

 Score = 49.4 bits (117), Expect = 1e-07
 Identities = 15/70 (21%), Positives = 25/70 (35%), Gaps = 8/70 (11%)

Query: 91  SYPKLPYSEARLQK---KDSTATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLH 147
               +  ++ + +      ST   C IC  + +     ++ P C HL    C+  W    
Sbjct: 311 PQDHIKVTQEQYELYCEMGSTFQLCKICAENDKDV---KIEP-CGHLMCTSCLTSWQESE 366

Query: 148 P-TCPVCRTS 156
              CP CR  
Sbjct: 367 GQGCPFCRCE 376

>2y43_A E3 ubiquitin-protein ligase RAD18; DNA repair, metal-binding, translesion synthesis, UB conjugation pathway; 1.80A {Homo sapiens} Length = 99

 Score = 45.1 bits (107), Expect = 5e-07
 Identities = 12/49 (24%), Positives = 19/49 (38%), Gaps = 9/49 (18%)

Query: 111 CCSICLADYRSSDMLR---LLPDCSHLFHVKCVDPWLRLHPTCPVCRTS 156
            C IC       +      ++P CSH +   C+  +L     CP C  +
Sbjct: 24  RCGICF------EYFNIAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVT 66

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

 Score = 44.0 bits (104), Expect = 7e-07
 Identities = 14/45 (31%), Positives = 17/45 (37%), Gaps = 4/45 (8%)

Query: 112 CSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTS 156
           C+ICL        L     C H+F   CV     L   C +CR  
Sbjct: 18  CAICLQTCVHPVSLP----CKHVFCYLCVKGASWLGKRCALCRQE 58

>2djb_A Polycomb group ring finger protein 6; PCGF6, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 72

 Score = 44.0 bits (104), Expect = 7e-07
 Identities = 18/71 (25%), Positives = 23/71 (32%), Gaps = 9/71 (12%)

Query: 98  SEARLQKKDSTATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCR--- 154
           S   L +      C SIC      +  +    +C H F   C+         CP C    
Sbjct: 5   SSGNLSELTPYILC-SICKGYLIDATTI---TECLHTFCKSCIVRHFYYSNRCPKCNIVV 60

Query: 155 --TSPLPTPLS 163
             T PL  P S
Sbjct: 61  HQTQPLSGPSS 71

>2ct0_A Non-SMC element 1 homolog; ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 74

 Score = 43.8 bits (103), Expect = 8e-07
 Identities = 15/59 (25%), Positives = 23/59 (38%), Gaps = 6/59 (10%)

Query: 112 CSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLH--PTCPVCRTS-PLPTPLSTPLA 167
           C+IC +        +    C    H+ CV  + + +  P CP C    P   P S P +
Sbjct: 18  CNICHSLLIQG---QSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEIPKSGPSS 73

>4epo_C E3 ubiquitin-protein ligase RNF8; coiled-coil, E3 ubiquitin ligase, protein binding complex; 4.80A {Homo sapiens} Length = 149

 Score = 45.0 bits (106), Expect = 1e-06
 Identities = 14/60 (23%), Positives = 25/60 (41%), Gaps = 4/60 (6%)

Query: 111 CCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTPLSTPLAEVV 170
            C IC   +  +    +  +C+H F   C++ W++    CP+CR        S  L   +
Sbjct: 66  QCIICSEYFIEA----VTLNCAHSFCSYCINEWMKRKIECPICRKDIKSKTYSLVLDNCI 121

>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex, chimera; 2.21A {Rattus norvegicus} Length = 133

 Score = 44.4 bits (104), Expect = 2e-06
 Identities = 15/46 (32%), Positives = 21/46 (45%), Gaps = 3/46 (6%)

Query: 112 CSICLADYRSSDMLRLLP---DCSHLFHVKCVDPWLRLHPTCPVCR 154
           C IC+  Y        L    +C H+F  +C+   L+   TCP CR
Sbjct: 10  CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 55

>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex, chimera; 2.21A {Rattus norvegicus} Length = 133

 Score = 42.5 bits (99), Expect = 9e-06
 Identities = 12/48 (25%), Positives = 21/48 (43%)

Query: 109 ATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTS 156
              C    ++   +  L +  +C H+F  +C+   L+   TCP CR  
Sbjct: 75  CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKK 122

>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 Length = 108

 Score = 42.9 bits (101), Expect = 4e-06
 Identities = 10/46 (21%), Positives = 18/46 (39%), Gaps = 3/46 (6%)

Query: 111 CCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTS 156
            C +C   +  +  +    +C H F   C+  +L     CP+C   
Sbjct: 17  MCVLCGGYFIDATTI---IECLHSFCKTCIVRYLETSKYCPICDVQ 59

>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 Length = 114

 Score = 42.9 bits (100), Expect = 4e-06
 Identities = 14/63 (22%), Positives = 20/63 (31%), Gaps = 19/63 (30%)

Query: 112 CSICLADYRS--------------SDMLRLLPDCSHLFHVKCVDPWLR-----LHPTCPV 152
           C IC+                     ++  L  CSH FH+ C+              CP 
Sbjct: 28  CIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPS 87

Query: 153 CRT 155
           C+T
Sbjct: 88  CKT 90

>2yur_A Retinoblastoma-binding protein 6; P53-associated cellular protein of testis, proliferation potential-related protein, protein P2P-R; NMR {Homo sapiens} Length = 74

 Score = 39.7 bits (93), Expect = 3e-05
 Identities = 15/61 (24%), Positives = 25/61 (40%), Gaps = 12/61 (19%)

Query: 111 CCSICLADYRSSDMLR---LLPDCSHLFHVKCVDPWLRL--HPTCPVCRTSPLPTP-LST 164
            C IC       D++    ++P C + +  +C+   L      TCP C  + +    LS 
Sbjct: 17  LCLICK------DIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDALSG 70

Query: 165 P 165
           P
Sbjct: 71  P 71

>3ztg_A E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mRNA processing, mRNA splicing; NMR {Homo sapiens} Length = 92

 Score = 39.7 bits (93), Expect = 4e-05
 Identities = 14/68 (20%), Positives = 26/68 (38%), Gaps = 14/68 (20%)

Query: 111 CCSICLADYRSSDMLR---LLPDCSHLFHVKCVDPWLR--LHPTCPVCRTSPLPTPL--- 162
            C IC       D++    ++P C + +  +C+   L      TCP C  + +       
Sbjct: 15  LCLICK------DIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDALIA 68

Query: 163 STPLAEVV 170
           +  L + V
Sbjct: 69  NKFLRQAV 76

>3fl2_A E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA damage, DNA repair, ring finger domain, metal binding, DNA replication; 1.75A {Homo sapiens} Length = 124

 Score = 40.0 bits (93), Expect = 6e-05
 Identities = 17/88 (19%), Positives = 26/88 (29%), Gaps = 8/88 (9%)

Query: 87  STIKSYPKLPYSEARLQKKDSTATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL 146
           +++K  P           K      C  C               C H     C+D   R 
Sbjct: 30  ASLKDRPASGSPFQLFLSKVEETFQCICCQELVFRPITT----VCQHNVCKDCLDRSFRA 85

Query: 147 HP-TCPVCRTSPLPTP---LSTPLAEVV 170
              +CP CR     +    ++ PL  V+
Sbjct: 86  QVFSCPACRYDLGRSYAMQVNQPLQTVL 113

>3nw0_A Non-structural maintenance of chromosomes element homolog; E3 ligase, Zn, metal binding protein; 2.92A {Homo sapiens} Length = 238

 Score = 40.9 bits (95), Expect = 6e-05
 Identities = 11/52 (21%), Positives = 18/52 (34%), Gaps = 5/52 (9%)

Query: 106 DSTATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLH--PTCPVCRT 155
                 C+IC   +      +    C    H+ CV  + + +  P CP C  
Sbjct: 177 PDAVKICNIC---HSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCND 225

>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 Length = 116

 Score = 39.5 bits (92), Expect = 8e-05
 Identities = 17/56 (30%), Positives = 22/56 (39%), Gaps = 5/56 (8%)

Query: 111 CCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLH-PTCPVCRTSPLPTPLSTP 165
            C IC           +   C HLF   C+   L++    CP CR    PT L +P
Sbjct: 25  SCQICEHILADP----VETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESP 76

>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 = 39.1 bits (91), Expect = 1e-04
 Identities = 20/80 (25%), Positives = 27/80 (33%), Gaps = 8/80 (10%)

Query: 93  PKLPYSEARLQKKDSTATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPV 152
               +S A L + +    C S C    R    L     C H+F   CV   +     CPV
Sbjct: 7   GAWAHSRAALDRLEKLLRC-SRCTNILREPVCL---GGCEHIFCSNCVSDCIG--TGCPV 60

Query: 153 CRTSPLPTPLS--TPLAEVV 170
           C T      L     L  ++
Sbjct: 61  CYTPAWIQDLKINRQLDSMI 80

>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 Length = 94

 Score = 37.9 bits (88), Expect = 2e-04
 Identities = 12/55 (21%), Positives = 22/55 (40%), Gaps = 9/55 (16%)

Query: 107 STATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLH--------PTCPVC 153
           S ++ C +CL +Y    M   +  C  +F   C+  ++ L          +CP  
Sbjct: 3   SGSSGCKLCLGEYPVEQMTT-IAQCQCIFCTLCLKQYVELLIKEGLETAISCPDA 56

>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 Length = 165

 Score = 38.4 bits (89), Expect = 3e-04
 Identities = 18/67 (26%), Positives = 24/67 (35%), Gaps = 13/67 (19%)

Query: 111 CCSICLADYRSSDMLR---LLPDCSHLFHVKCVDPWLRLHP-TCPVCRTSPLPTPLSTP- 165
            C ICL      DML+      +C H F   C+   LR     CP CR   +      P 
Sbjct: 56  MCPICL------DMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLRPD 109

Query: 166 --LAEVV 170
                ++
Sbjct: 110 PNFDALI 116

>1e4u_A Transcriptional repressor NOT4; gene regulation, transcriptional control; NMR {Homo sapiens} SCOP: g.44.1.1 PDB: 1ur6_B Length = 78

 Score = 36.6 bits (84), Expect = 4e-04
 Identities = 10/58 (17%), Positives = 16/58 (27%), Gaps = 1/58 (1%)

Query: 100 ARLQKKDSTATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLR-LHPTCPVCRTS 156
           +R          C +C+      D+      C +     C        +  CP CR  
Sbjct: 2   SRSPDAKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKP 59

>1bor_A Transcription factor PML; proto-oncogene, nuclear bodies (PODS), leukemia, transcription regulation; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 56

 Score = 36.2 bits (84), Expect = 4e-04
 Identities = 14/50 (28%), Positives = 21/50 (42%), Gaps = 8/50 (16%)

Query: 111 CCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTS-PLP 159
            C  C A+ +     +LLP C H     C++        CP+C+   PL 
Sbjct: 8   RCQQCQAEAKCP---KLLP-CLHTLCSGCLE---ASGMQCPICQAPWPLG 50

>1g25_A CDK-activating kinase assembly factor MAT1; ring finger (C3HC4), metal binding protein; NMR {Homo sapiens} SCOP: g.44.1.1 Length = 65

 Score = 36.1 bits (83), Expect = 5e-04
 Identities = 13/46 (28%), Positives = 17/46 (36%), Gaps = 2/46 (4%)

Query: 112 CSICLAD-YRSSDMLRLLPDCSHLFHVKCVDPWLRLHP-TCPVCRT 155
           C  C    YR+  +  ++  C H     CVD         CP C T
Sbjct: 6   CPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGT 51

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	177
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.76
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.7
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.67
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.66
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.64
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.64
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.61
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.57
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.57
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.56
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.53
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.53
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.53
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.53
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.48
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.48
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.47
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.46
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.44
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.44
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.43
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.4
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.4
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.4
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.37
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.37
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.37
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.36
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.36
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.36
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.34
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.33
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	99.32
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.31
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.3
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.28
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.26
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.26
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.25
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.25
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.25
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.21
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.21
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.18
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.17
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	99.14
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.14
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	99.14
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	99.12
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	99.11
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.1
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	99.09
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.08
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	99.06
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.05
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	99.05
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	99.01
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.99
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.89
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.88
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.87
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.86
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.84
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.83
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.8
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.74
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.71
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.55
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.54
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.51
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	98.36
3nw0_A	238	Non-structural maintenance of chromosomes element	98.0
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	96.67
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	96.01
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	95.42
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	95.27
2l2t_A	44	Receptor tyrosine-protein kinase ERBB-4; transmemb	94.43
2ks1_B	44	Epidermal growth factor receptor; ERBB1, ERBB2, tr	94.05
1we9_A	64	PHD finger family protein; structural genomics, PH	92.61
3lqh_A	183	Histone-lysine N-methyltransferase MLL; PHD finger	92.36
2jwa_A	44	Receptor tyrosine-protein kinase ERBB-2; transmemb	91.55
1wep_A	79	PHF8; structural genomics, PHD domain, riken struc	89.97
2lbm_A	142	Transcriptional regulator ATRX; metal binding prot	89.65
1f62_A	51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	89.37
2ysm_A	111	Myeloid/lymphoid or mixed-lineage leukemia protein	89.32
1wem_A	76	Death associated transcription factor 1; structura	89.22
2k16_A	75	Transcription initiation factor TFIID subunit 3; p	88.85
3o36_A	184	Transcription intermediary factor 1-alpha; TRIM24,	88.4
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	88.32
3v43_A	112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	88.13
3u5n_A	207	E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, b	87.94
1mm2_A	61	MI2-beta; PHD, zinc finger, protein scaffold, DNA	87.8
2k1k_A	38	Ephrin type-A receptor 1; EPHA1, receptor tyrosine	87.27
2kgg_A	52	Histone demethylase jarid1A; PHD finger, histone m	86.25
2lv9_A	98	Histone-lysine N-methyltransferase MLL5; zinc fing	86.24
3ql9_A	129	Transcriptional regulator ATRX; zinc finger, trans	85.29
2vpb_A	65	Hpygo1, pygopus homolog 1; gene regulation, WNT si	83.01
1z2q_A	84	LM5-1; membrane protein, FYVE domain, zinc-finger;	83.01
2ri7_A	174	Nucleosome-remodeling factor subunit BPTF; zinc fi	82.8
3v43_A	112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	82.47
2yw8_A	82	RUN and FYVE domain-containing protein 1; structur	82.31
2l8s_A	54	Integrin alpha-1; transmembrane region, detergent	82.27
2ro1_A	189	Transcription intermediary factor 1-beta; KAP, TIF	82.07
3o70_A	68	PHD finger protein 13; PHF13, structural genomics	81.87
2knc_A	54	Integrin alpha-IIB; transmembrane signaling, prote	81.86
1x4u_A	84	Zinc finger, FYVE domain containing 27 isoform B;	81.57
1joc_A	125	EEA1, early endosomal autoantigen 1; FYVE domain,	81.3
2yql_A	56	PHD finger protein 21A; PHD domain, structural gen	81.24
3t7l_A	90	Zinc finger FYVE domain-containing protein 16; str	81.17
1wew_A	78	DNA-binding family protein; structural genomics, P	81.15
2k9y_A	41	Ephrin type-A receptor 2; receptor tyrosine kinase	80.45
1fp0_A	88	KAP-1 corepressor; PHD domain, C3HC4 type zinc bin	80.21

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

Probab=99.76  E-value=7e-19  Score=118.56  Aligned_cols=78  Identities=35%  Similarity=0.741  Sum_probs=65.9

Q ss_pred             eecCCCCHHHHhhCCCccchhhhhccCCCCcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCC
Q 037839           79 VIDVGLDESTIKSYPKLPYSEARLQKKDSTATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPL  158 (177)
Q Consensus        79 ~~~~~l~~~~~~~~p~~~~~~~~~~~~~~~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~  158 (177)
                      ....+++++.++.+|...+.....  .......|+||+++|..++.++.++ |||.||..||..|+..+.+||+||+++.
T Consensus        12 ~~~~~~s~~~i~~lp~~~~~~~~~--~~~~~~~C~IC~~~~~~~~~~~~l~-C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~   88 (91)
T 2l0b_A           12 VANPPASKESIDALPEILVTEDHG--AVGQEMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGTCPVCRCMFP   88 (91)
T ss_dssp             SCCCCCCHHHHHTSCEEECCTTCS--SSSSCSEETTTTEECCTTCEEEEET-TTEEEEHHHHHHHHTTTCBCTTTCCBSS
T ss_pred             cCCCCCCHHHHHhCCCeeeccccc--ccCCCCCCcccChhhcCCCcEEecC-CCChHHHHHHHHHHHcCCcCcCcCccCC
Confidence            344689999999999887765432  2335668999999999999899999 9999999999999999999999999885


Q ss_pred             C
Q 037839          159 P  159 (177)
Q Consensus       159 ~  159 (177)
                      +
T Consensus        89 ~   89 (91)
T 2l0b_A           89 P   89 (91)
T ss_dssp             C
T ss_pred             C
Confidence            4

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

Probab=99.70  E-value=3.5e-18  Score=110.90  Aligned_cols=68  Identities=40%  Similarity=0.972  Sum_probs=55.1

Q ss_pred             HhhCCCccchhhhhccCCCCcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCCC
Q 037839           89 IKSYPKLPYSEARLQKKDSTATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPT  160 (177)
Q Consensus        89 ~~~~p~~~~~~~~~~~~~~~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~~  160 (177)
                      ++.+|...+....   ...+...|+||++.|..++.++.++ |||+||..||..|++.+.+||+||+++.+.
T Consensus         6 i~~lp~~~~~~~~---~~~~~~~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~   73 (75)
T 1x4j_A            6 SGQLPSYRFNPNN---HQSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICRADSGPS   73 (75)
T ss_dssp             CSSCCCEEBCSSS---CSSSCCEETTTTEECCBTCEEEEET-TTEEEETTHHHHHHHHCSSCTTTCCCCCCC
T ss_pred             HhhCCcEEecCcc---ccCCCCCCeECCcccCCCCeEEEEC-CCCHhHHHHHHHHHHcCCcCcCcCCcCCCC
Confidence            3455665554322   2234568999999999999999999 999999999999999999999999998764

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

Probab=99.67  E-value=8.7e-17  Score=104.90  Aligned_cols=59  Identities=41%  Similarity=0.904  Sum_probs=51.7

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCCCCCCCCcc
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTPLSTPLA  167 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~~~~~~~~~  167 (177)
                      ....|+||++.|..++.+..++ |||.||..||..|++.+.+||+||+.+......+.-.
T Consensus        14 ~~~~C~IC~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~   72 (78)
T 2ect_A           14 SGLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNTATNPP   72 (78)
T ss_dssp             SSCCCTTTTSCCCTTSCEEECT-TSCEEETTTTHHHHTTTCSCTTTCCCCCCSCSCCCCS
T ss_pred             CCCCCeeCCccccCCCCEEEeC-CCCeecHHHHHHHHHcCCcCcCcCCccCCcccCCCCC
Confidence            4567999999999998888898 9999999999999999999999999998776554433

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

Probab=99.66  E-value=4.8e-17  Score=99.14  Aligned_cols=51  Identities=43%  Similarity=1.038  Sum_probs=46.0

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPL  158 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~  158 (177)
                      +...|+||++.|..++.+..++.|||.||..|+..|++++.+||+||+++.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~~   54 (55)
T 1iym_A            4 DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcCCcCcCCCCEeE
Confidence            456799999999998888888679999999999999999999999999874

>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=99.64  E-value=2.4e-16  Score=100.46  Aligned_cols=53  Identities=42%  Similarity=0.910  Sum_probs=47.7

Q ss_pred             CCcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCCC
Q 037839          107 STATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPT  160 (177)
Q Consensus       107 ~~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~~  160 (177)
                      .....|+||++.|..++.++.++ |||.||..||..|+..+.+||+||+.+...
T Consensus        12 ~~~~~C~IC~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~   64 (69)
T 2kiz_A           12 DTEEKCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDIEAQ   64 (69)
T ss_dssp             TCCCSBTTTTBCCCSSSCEEECT-TSCEEEHHHHHHHHHHCSBCTTTCSBSCSC
T ss_pred             CCCCCCeeCCccccCCCcEEEeC-CCCHHHHHHHHHHHHcCCCCcCcCccccCc
Confidence            34567999999999888888998 999999999999999999999999998654

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

Probab=99.64  E-value=2.6e-16  Score=101.64  Aligned_cols=52  Identities=37%  Similarity=0.947  Sum_probs=47.5

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPT  160 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~~  160 (177)
                      ....|+||++.|..++.+..++ |||.||..||..|++.+.+||+||+++...
T Consensus        14 ~~~~C~IC~~~~~~~~~~~~~~-C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~~   65 (74)
T 2ep4_A           14 LHELCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPVLQL   65 (74)
T ss_dssp             CSCBCSSSCCBCCSSSCEEEET-TTEEEEHHHHHHHHHHCSBCTTTCCBCSSC
T ss_pred             CCCCCcCCCcccCCCCcEEEcC-CCCEecHHHHHHHHHcCCcCCCcCcccccc
Confidence            4567999999999999998998 999999999999999989999999998653

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

Probab=99.61  E-value=3.1e-16  Score=103.29  Aligned_cols=52  Identities=25%  Similarity=0.722  Sum_probs=42.1

Q ss_pred             CcccCccccccccC-----------CCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCC
Q 037839          108 TATCCSICLADYRS-----------SDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLP  159 (177)
Q Consensus       108 ~~~~C~ICl~~f~~-----------~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~  159 (177)
                      ++..|+||+++|..           ++.++.++.|||.||.+||..|+..+.+||+||+++..
T Consensus        14 ~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~   76 (81)
T 2ecl_A           14 ECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVV   76 (81)
T ss_dssp             CCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCCE
T ss_pred             CCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcch
Confidence            45568888888754           44455665699999999999999999999999999854

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

Probab=99.57  E-value=1.7e-15  Score=96.77  Aligned_cols=55  Identities=25%  Similarity=0.620  Sum_probs=46.9

Q ss_pred             CcccCccccccccCC----CceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCCCCCC
Q 037839          108 TATCCSICLADYRSS----DMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTPLS  163 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~----~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~~~~~  163 (177)
                      +...|+||++.|..+    +.+..++ |||.||..||..|+..+.+||+||+++....+.
T Consensus         9 ~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~   67 (71)
T 3ng2_A            9 GTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHKRYH   67 (71)
T ss_dssp             TCCBCTTTCCBHHHHHTTTCCEEECT-TSCEEEHHHHHHHHHHCSBCTTTCCBCCCCSCC
T ss_pred             CCCCCcccChhhhccccccCCeEeCC-CCChHhHHHHHHHHHcCCCCCCCCCccChhhee
Confidence            456799999999764    4556777 999999999999999999999999999876544

>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=99.57  E-value=2.4e-15  Score=91.42  Aligned_cols=50  Identities=34%  Similarity=0.812  Sum_probs=43.1

Q ss_pred             CcccCccccccccCCC-ceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCC
Q 037839          108 TATCCSICLADYRSSD-MLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPL  158 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~-~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~  158 (177)
                      +...|+||++.|..++ .+..++ |||.||..|+..|+..+.+||+||+++.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~   54 (55)
T 2ecm_A            4 GSSGCPICLEDIHTSRVVAHVLP-CGHLLHRTCYEEMLKEGYRCPLCSGPSS   54 (55)
T ss_dssp             CCCSCTTTCCCCCTTTSCEEECT-TSCEEETTHHHHHHHHTCCCTTSCCSSC
T ss_pred             CCCcCcccChhhcCCCcCeEecC-CCCcccHHHHHHHHHcCCcCCCCCCcCC
Confidence            4567999999997644 566777 9999999999999999999999999874

>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=99.56  E-value=3e-15  Score=104.40  Aligned_cols=54  Identities=28%  Similarity=0.511  Sum_probs=43.1

Q ss_pred             CcccCccccccccCCC---------------ceeecCCCCCcccHhhHHHHH-----hcCCCCcCCCCCCCCCCC
Q 037839          108 TATCCSICLADYRSSD---------------MLRLLPDCSHLFHVKCVDPWL-----RLHPTCPVCRTSPLPTPL  162 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~---------------~v~~l~~C~H~fH~~Ci~~Wl-----~~~~~CP~CR~~~~~~~~  162 (177)
                      ....|+||++.|..+.               .++.++ |+|+||..||..|+     ..+.+||+||+.+.....
T Consensus        24 ~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~-C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~~~g   97 (114)
T 1v87_A           24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTK-CSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEKTG   97 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESS-SCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSCSS
T ss_pred             CCCcCccCChhhcCcccccccccccccCcccceecCC-CCCcccHHHHHHHHHcccCCCCCcCCCCCCccCCCCC
Confidence            3457999999997653               344676 99999999999999     446689999999876533

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

Probab=99.53  E-value=4.4e-15  Score=94.20  Aligned_cols=51  Identities=27%  Similarity=0.675  Sum_probs=43.6

Q ss_pred             CcccCccccccccCC----CceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCC
Q 037839          108 TATCCSICLADYRSS----DMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLP  159 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~----~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~  159 (177)
                      +...|+||++.|..+    +.+..++ |||.||..||..|+..+..||+||+++..
T Consensus        14 ~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   68 (69)
T 2ea6_A           14 GTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINH   68 (69)
T ss_dssp             CCCCCTTTCCCHHHHTTTTCCEEECS-SSCEEEHHHHHHHHHHCSSCTTTCCCCCC
T ss_pred             CCCCCcccCccccccccccCCeEeCC-CCChhcHHHHHHHHHcCCCCCCCCCccCc
Confidence            456799999999864    3446777 99999999999999999999999998753

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

Probab=99.53  E-value=8.5e-15  Score=96.14  Aligned_cols=58  Identities=21%  Similarity=0.608  Sum_probs=47.7

Q ss_pred             CcccCccccccccCCCceeecCCCC-----CcccHhhHHHHHhcC--CCCcCCCCCCCCCCCCCCcc
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCS-----HLFHVKCVDPWLRLH--PTCPVCRTSPLPTPLSTPLA  167 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~-----H~fH~~Ci~~Wl~~~--~~CP~CR~~~~~~~~~~~~~  167 (177)
                      +...|+||+++|..++.+ ++| |+     |.||.+||+.|+..+  .+||+||+++.......|++
T Consensus        14 ~~~~C~IC~~~~~~~~~l-~~p-C~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~~~~~P~~   78 (80)
T 2d8s_A           14 SQDICRICHCEGDDESPL-ITP-CHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIMETKLSGPS   78 (80)
T ss_dssp             TSCCCSSSCCCCCSSSCE-ECS-SSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCCCCSCCCC
T ss_pred             CCCCCeEcCccccCCCee-Eec-cccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecCcccCCCC
Confidence            456799999999877776 588 86     999999999999765  48999999998766555543

>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=99.53  E-value=1.8e-15  Score=104.47  Aligned_cols=53  Identities=25%  Similarity=0.538  Sum_probs=44.2

Q ss_pred             CCCCcccCccccccccCCC---------------ceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCC
Q 037839          105 KDSTATCCSICLADYRSSD---------------MLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPL  158 (177)
Q Consensus       105 ~~~~~~~C~ICl~~f~~~~---------------~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~  158 (177)
                      ....+..|+||++.|..+-               .++.++ |+|.||..||..|+..+.+||+||+++.
T Consensus        33 ~d~~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~-C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~~  100 (106)
T 3dpl_R           33 WDIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREWE  100 (106)
T ss_dssp             ESSCSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEET-TSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             cCCCCCCCccCChhHhCcCchhhccccccCCccceEeecc-cCcEECHHHHHHHHHcCCcCcCCCCcce
Confidence            3445678999999998651               356677 9999999999999999999999999864

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

Probab=99.53  E-value=2.6e-15  Score=93.88  Aligned_cols=52  Identities=27%  Similarity=0.655  Sum_probs=44.8

Q ss_pred             cccCccccccccCC----CceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCCCC
Q 037839          109 ATCCSICLADYRSS----DMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTP  161 (177)
Q Consensus       109 ~~~C~ICl~~f~~~----~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~~~  161 (177)
                      ...|+||++.|..+    +.+..++ |||.||..|+..|+.++..||+||+++....
T Consensus         3 ~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   58 (64)
T 2xeu_A            3 MVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHKR   58 (64)
T ss_dssp             CCBCTTTCCBHHHHHHTTCCEEEET-TSCEEEHHHHHHHHHHCSBCTTTCCBCTTTC
T ss_pred             CCCCCccChhhhCccccCCCEEeCC-CCCchhHHHHHHHHHcCCCCCCCCccCCccc
Confidence            45799999999764    4556777 9999999999999999999999999987654

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

Probab=99.48  E-value=5.9e-14  Score=93.13  Aligned_cols=59  Identities=24%  Similarity=0.571  Sum_probs=47.8

Q ss_pred             CcccCccccccccCCCc-eeecCCCCCcccHhhHHHHHhcC---CCCcCCCCCCCCCCCCCCcc
Q 037839          108 TATCCSICLADYRSSDM-LRLLPDCSHLFHVKCVDPWLRLH---PTCPVCRTSPLPTPLSTPLA  167 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~-v~~l~~C~H~fH~~Ci~~Wl~~~---~~CP~CR~~~~~~~~~~~~~  167 (177)
                      +...|+||++.|...+. ...++ |||.||..|+..|+..+   ..||+||+++....+.....
T Consensus        14 ~~~~C~IC~~~~~~~~~~~~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~i~~l~~   76 (88)
T 2ct2_A           14 EVLECPICMESFTEEQLRPKLLH-CGHTICRQCLEKLLASSINGVRCPFCSKITRITSLTQLTD   76 (88)
T ss_dssp             SCCBCTTTCCBCCTTSSCEEECS-SSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCCSSTTTSEE
T ss_pred             CCCCCccCCccccccCCCeEECC-CCChhhHHHHHHHHHcCCCCcCCCCCCCcccchhHHHHHH
Confidence            45679999999988664 56777 99999999999999875   78999999987765444333

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

Probab=99.48  E-value=5.3e-14  Score=90.28  Aligned_cols=53  Identities=23%  Similarity=0.429  Sum_probs=44.2

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTPLS  163 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~~~~~  163 (177)
                      +...|+||++.|.++  +..++ |||.||..||..|+..+..||+||+++......
T Consensus        14 ~~~~C~IC~~~~~~p--~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~   66 (72)
T 2djb_A           14 PYILCSICKGYLIDA--TTITE-CLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQPL   66 (72)
T ss_dssp             GGGSCTTTSSCCSSC--EECSS-SCCEECHHHHHHHHHHCSSCTTTCCCCCSSCSC
T ss_pred             CCCCCCCCChHHHCc--CEECC-CCCHHHHHHHHHHHHcCCcCCCcCcccCccccc
Confidence            456799999998864  33346 999999999999999889999999999765544

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

Probab=99.47  E-value=3.4e-14  Score=89.99  Aligned_cols=49  Identities=39%  Similarity=0.897  Sum_probs=42.4

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLP  159 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~  159 (177)
                      ....|+||++.+..+  +..++ |||.||..|+..|+..+.+||+||+++..
T Consensus         4 ~~~~C~IC~~~~~~~--~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~   52 (68)
T 1chc_A            4 VAERCPICLEDPSNY--SMALP-CLHAFCYVCITRWIRQNPTCPLCKVPVES   52 (68)
T ss_dssp             CCCCCSSCCSCCCSC--EEETT-TTEEESTTHHHHHHHHSCSTTTTCCCCCC
T ss_pred             CCCCCeeCCccccCC--cEecC-CCCeeHHHHHHHHHhCcCcCcCCChhhHh
Confidence            355799999998753  46787 99999999999999999999999999864

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

Probab=99.46  E-value=9.1e-15  Score=93.66  Aligned_cols=51  Identities=33%  Similarity=0.600  Sum_probs=43.4

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTPL  162 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~~~~  162 (177)
                      +...|+||++.+..+   ..++ |||.||..||..|+..+..||+||+.+....+
T Consensus        14 ~~~~C~IC~~~~~~~---~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~   64 (71)
T 2d8t_A           14 TVPECAICLQTCVHP---VSLP-CKHVFCYLCVKGASWLGKRCALCRQEIPEDFL   64 (71)
T ss_dssp             SCCBCSSSSSBCSSE---EEET-TTEEEEHHHHHHCTTCSSBCSSSCCBCCHHHH
T ss_pred             CCCCCccCCcccCCC---EEcc-CCCHHHHHHHHHHHHCCCcCcCcCchhCHhhc
Confidence            456799999998765   5667 99999999999999998999999999875443

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

Probab=99.44  E-value=1.2e-13  Score=87.05  Aligned_cols=51  Identities=24%  Similarity=0.493  Sum_probs=42.4

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHh-cCCCCcCCCCCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLR-LHPTCPVCRTSPLPTPL  162 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~-~~~~CP~CR~~~~~~~~  162 (177)
                      +...|+||++.+.++.   .++ |||.||..||..|+. ....||+||+++....+
T Consensus        14 ~~~~C~IC~~~~~~p~---~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~i   65 (66)
T 2ecy_A           14 DKYKCEKCHLVLCSPK---QTE-CGHRFCESCMAALLSSSSPKCTACQESIVKDKV   65 (66)
T ss_dssp             CCEECTTTCCEESSCC---CCS-SSCCCCHHHHHHHHTTSSCCCTTTCCCCCTTTC
T ss_pred             cCCCCCCCChHhcCee---ECC-CCCHHHHHHHHHHHHhCcCCCCCCCcCCChhhc
Confidence            4567999999998763   356 999999999999994 56789999999876553

>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=99.44  E-value=2.9e-15  Score=105.03  Aligned_cols=55  Identities=24%  Similarity=0.529  Sum_probs=3.0

Q ss_pred             cCCCCcccCccccccccCC-------------C--ceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCC
Q 037839          104 KKDSTATCCSICLADYRSS-------------D--MLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLP  159 (177)
Q Consensus       104 ~~~~~~~~C~ICl~~f~~~-------------~--~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~  159 (177)
                      ........|+||+++|..+             +  .+..++ |+|.||..||..|+..+.+||+||+++..
T Consensus        43 ~wd~~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~-C~H~FH~~CI~~Wl~~~~~CP~Cr~~~~~  112 (117)
T 4a0k_B           43 AWDIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREWEF  112 (117)
T ss_dssp             EECCCC-----------------------------------------------------------------
T ss_pred             eecCCCCcCeECChhhcCcChhhhcccccccccccccccCC-cCceEcHHHHHHHHHcCCcCCCCCCeeee
Confidence            3444567899999999753             2  222345 99999999999999999999999998653

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

Probab=99.43  E-value=2.2e-14  Score=91.44  Aligned_cols=49  Identities=35%  Similarity=0.859  Sum_probs=43.0

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTP  161 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~~~  161 (177)
                      +...|+||++.+..    ..++ |||.||..|+..|+..+..||+||+++....
T Consensus        14 ~~~~C~IC~~~~~~----~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   62 (70)
T 2ecn_A           14 DEEECCICMDGRAD----LILP-CAHSFCQKCIDKWSDRHRNCPICRLQMTGAN   62 (70)
T ss_dssp             CCCCCSSSCCSCCS----EEET-TTEEECHHHHHHSSCCCSSCHHHHHCTTCCC
T ss_pred             CCCCCeeCCcCccC----cccC-CCCcccHHHHHHHHHCcCcCCCcCCcccCCC
Confidence            45679999999876    5777 9999999999999999999999999987654

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

Probab=99.40  E-value=1.7e-13  Score=89.84  Aligned_cols=47  Identities=23%  Similarity=0.578  Sum_probs=41.4

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPL  158 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~  158 (177)
                      ....|+||++.|..+   ..++ |||.||..||..|+.....||+||+++.
T Consensus        14 ~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (81)
T 2csy_A           14 IPFRCFICRQAFQNP---VVTK-CRHYFCESCALEHFRATPRCYICDQPTG   60 (81)
T ss_dssp             CCSBCSSSCSBCCSE---EECT-TSCEEEHHHHHHHHHHCSBCSSSCCBCC
T ss_pred             CCCCCcCCCchhcCe---eEcc-CCCHhHHHHHHHHHHCCCcCCCcCcccc
Confidence            456799999999765   4577 9999999999999998899999999985

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

Probab=99.40  E-value=2.9e-13  Score=87.31  Aligned_cols=50  Identities=22%  Similarity=0.547  Sum_probs=41.0

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcC--CCCcCCCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLH--PTCPVCRTSPLPT  160 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~--~~CP~CR~~~~~~  160 (177)
                      +...|+||++.|..+   ..++.|||.||..||..|+..+  ..||+||+++...
T Consensus        14 ~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~   65 (74)
T 2yur_A           14 DELLCLICKDIMTDA---VVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSP   65 (74)
T ss_dssp             GGGSCSSSCCCCTTC---EECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCCT
T ss_pred             CCCCCcCCChHHhCC---eEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCCc
Confidence            456799999999876   3455599999999999999865  6899999986543

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

Probab=99.40  E-value=2.6e-13  Score=87.03  Aligned_cols=50  Identities=28%  Similarity=0.593  Sum_probs=41.5

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHh---cCCCCcCCCCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLR---LHPTCPVCRTSPLPTP  161 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~---~~~~CP~CR~~~~~~~  161 (177)
                      +...|+||++.|..+   ..++ |||.||..|+..|+.   ....||+||+++....
T Consensus        19 ~~~~C~IC~~~~~~~---~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   71 (73)
T 2ysl_A           19 EEVICPICLDILQKP---VTID-CGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNA   71 (73)
T ss_dssp             CCCBCTTTCSBCSSE---EECT-TCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCCCC
T ss_pred             cCCEeccCCcccCCe---EEcC-CCChhhHHHHHHHHHcCCCCCCCCCCCCcCCccc
Confidence            456799999998854   4567 999999999999996   4568999999987543

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

Probab=99.37  E-value=1.7e-13  Score=98.71  Aligned_cols=48  Identities=27%  Similarity=0.736  Sum_probs=42.0

Q ss_pred             cccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCCC
Q 037839          109 ATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPT  160 (177)
Q Consensus       109 ~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~~  160 (177)
                      ...|+||++.|..+   ..++ |||.||..||..|+..+.+||+||+++...
T Consensus        53 ~~~C~iC~~~~~~~---~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~  100 (138)
T 4ayc_A           53 ELQCIICSEYFIEA---VTLN-CAHSFCSYCINEWMKRKIECPICRKDIKSK  100 (138)
T ss_dssp             HSBCTTTCSBCSSE---EEET-TSCEEEHHHHHHHTTTCSBCTTTCCBCCCE
T ss_pred             cCCCcccCcccCCc---eECC-CCCCccHHHHHHHHHcCCcCCCCCCcCCCC
Confidence            34699999999765   5677 999999999999999999999999998654

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

Probab=99.37  E-value=2.2e-13  Score=96.75  Aligned_cols=54  Identities=26%  Similarity=0.632  Sum_probs=46.4

Q ss_pred             CcccCccccccccCC----CceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCCCCC
Q 037839          108 TATCCSICLADYRSS----DMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTPL  162 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~----~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~~~~  162 (177)
                      +...|+||++.|..+    +.+..++ |||.||..||..|++.+.+||+||+.+.....
T Consensus         6 ~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~l   63 (133)
T 4ap4_A            6 GTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHKRY   63 (133)
T ss_dssp             CSCBCTTTCCBHHHHHHTTCCEEEET-TCCEEEHHHHHHHHTTCSBCTTTCCBCTTTCE
T ss_pred             CCCCCcccChhhhCccccccCeEecC-CCChhhHHHHHHHHHhCCCCCCCCCcCccccc
Confidence            456799999999765    5556777 99999999999999999999999999976654

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

Probab=99.37  E-value=9.3e-13  Score=86.50  Aligned_cols=50  Identities=26%  Similarity=0.521  Sum_probs=42.6

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhc------CCCCcCCCCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL------HPTCPVCRTSPLPTP  161 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~------~~~CP~CR~~~~~~~  161 (177)
                      +...|+||++.|..+   ..++ |||.||..|+..|+..      ...||+||+++....
T Consensus        18 ~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~   73 (85)
T 2ecw_A           18 EEVTCPICLELLKEP---VSAD-CNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGN   73 (85)
T ss_dssp             TTTSCTTTCSCCSSC---EECT-TSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTTC
T ss_pred             cCCCCcCCChhhCcc---eeCC-CCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHHh
Confidence            456799999999876   3677 9999999999999987      668999999987654

>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=99.36  E-value=1.7e-13  Score=93.52  Aligned_cols=51  Identities=27%  Similarity=0.615  Sum_probs=42.2

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcC-CCCcCCCCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLH-PTCPVCRTSPLPTP  161 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~-~~CP~CR~~~~~~~  161 (177)
                      +...|+||++.|..+  +..++ |||.||..||..|+..+ ..||+||+++....
T Consensus        21 ~~~~C~IC~~~~~~p--~~~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   72 (100)
T 3lrq_A           21 EVFRCFICMEKLRDA--RLCPH-CSKLCCFSCIRRWLTEQRAQCPHCRAPLQLRE   72 (100)
T ss_dssp             HHTBCTTTCSBCSSE--EECTT-TCCEEEHHHHHHHHHHTCSBCTTTCCBCCGGG
T ss_pred             CCCCCccCCccccCc--cccCC-CCChhhHHHHHHHHHHCcCCCCCCCCcCCHHH
Confidence            345799999999864  33366 99999999999999887 69999999986544

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

Probab=99.36  E-value=4.2e-13  Score=84.28  Aligned_cols=54  Identities=24%  Similarity=0.519  Sum_probs=43.2

Q ss_pred             cccCccccc-cccCCCce-eecCCCCCcccHhhHHHHHhc-CCCCcCCCCCCCCCCCC
Q 037839          109 ATCCSICLA-DYRSSDML-RLLPDCSHLFHVKCVDPWLRL-HPTCPVCRTSPLPTPLS  163 (177)
Q Consensus       109 ~~~C~ICl~-~f~~~~~v-~~l~~C~H~fH~~Ci~~Wl~~-~~~CP~CR~~~~~~~~~  163 (177)
                      +..|+||++ .|.++... ..++ |||.||..|+..|+.+ ...||+||+++....+.
T Consensus         3 ~~~C~IC~~~~~~~~~~~~~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~   59 (65)
T 1g25_A            3 DQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGAGNCPECGTPLRKSNFR   59 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECT-TCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCCCE
T ss_pred             CCcCCcCCCCccCCCccCeecCC-CCCHhHHHHHHHHHHcCCCcCCCCCCccccccce
Confidence            457999999 78777543 3466 9999999999999765 46799999999776543

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

Probab=99.36  E-value=1.1e-12  Score=86.24  Aligned_cols=50  Identities=32%  Similarity=0.660  Sum_probs=42.6

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhc------CCCCcCCCCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL------HPTCPVCRTSPLPTP  161 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~------~~~CP~CR~~~~~~~  161 (177)
                      +...|+||++.|..+   ..++ |||.||..|+..|+..      ...||+||..+....
T Consensus        18 ~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~   73 (85)
T 2ecv_A           18 EEVTCPICLELLTQP---LSLD-CGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPEN   73 (85)
T ss_dssp             CCCCCTTTCSCCSSC---BCCS-SSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSSS
T ss_pred             CCCCCCCCCcccCCc---eeCC-CCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHHh
Confidence            456799999999875   4567 9999999999999977      778999999998654

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

Probab=99.34  E-value=6.1e-13  Score=86.42  Aligned_cols=50  Identities=20%  Similarity=0.449  Sum_probs=42.7

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhc-CCCCcCCCCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL-HPTCPVCRTSPLPTP  161 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~-~~~CP~CR~~~~~~~  161 (177)
                      +...|+||++.|.++   ..++ |||.||..||..|+.. +..||+||+++....
T Consensus         7 ~~~~C~IC~~~~~~P---v~~~-CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~~~   57 (78)
T 1t1h_A            7 EYFRCPISLELMKDP---VIVS-TGQTYERSSIQKWLDAGHKTCPKSQETLLHAG   57 (78)
T ss_dssp             SSSSCTTTSCCCSSE---EEET-TTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCC
T ss_pred             ccCCCCCccccccCC---EEcC-CCCeecHHHHHHHHHHCcCCCCCCcCCCChhh
Confidence            456799999999876   4567 9999999999999987 778999999987554

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

Probab=99.33  E-value=2.6e-13  Score=88.23  Aligned_cols=49  Identities=27%  Similarity=0.509  Sum_probs=41.7

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhc-------CCCCcCCCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL-------HPTCPVCRTSPLPT  160 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~-------~~~CP~CR~~~~~~  160 (177)
                      +...|+||++.|..+   ..++ |||.||..|+..|+..       ...||+||.++...
T Consensus        11 ~~~~C~IC~~~~~~p---~~l~-CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~~   66 (79)
T 2egp_A           11 EEVTCPICLELLTEP---LSLD-CGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFE   66 (79)
T ss_dssp             CCCEETTTTEECSSC---CCCS-SSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCSS
T ss_pred             cCCCCcCCCcccCCe---eECC-CCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCHh
Confidence            456799999999876   3467 9999999999999976       56899999998764

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

Probab=99.32  E-value=8.1e-13  Score=85.18  Aligned_cols=49  Identities=22%  Similarity=0.572  Sum_probs=41.5

Q ss_pred             CCcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcC--CCCcCCCCCCC
Q 037839          107 STATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLH--PTCPVCRTSPL  158 (177)
Q Consensus       107 ~~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~--~~CP~CR~~~~  158 (177)
                      ....+|+||.+.+..++.+.   .|+|.||..||.+||+++  .+||+||++..
T Consensus        13 ~~i~~C~IC~~~i~~g~~C~---~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~   63 (74)
T 2ct0_A           13 DAVKICNICHSLLIQGQSCE---TCGIRMHLPCVAKYFQSNAEPRCPHCNDYWP   63 (74)
T ss_dssp             SSSCBCSSSCCBCSSSEECS---SSCCEECHHHHHHHSTTCSSCCCTTTCSCCC
T ss_pred             CCCCcCcchhhHcccCCccC---CCCchhhHHHHHHHHHhcCCCCCCCCcCcCC
Confidence            34578999999998765443   499999999999999887  78999998875

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

Probab=99.31  E-value=2.3e-12  Score=80.36  Aligned_cols=42  Identities=29%  Similarity=0.677  Sum_probs=35.8

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHh---cCCCCcCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLR---LHPTCPVC  153 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~---~~~~CP~C  153 (177)
                      +...|+||++.|.++   ..++ |||.||..||..|++   ....||+|
T Consensus        19 ~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           19 EEVICPICLDILQKP---VTID-CGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCBCTTTCSBCSSC---EECT-TSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             cCCCCCcCCchhCCe---EEeC-CCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            456799999999865   4567 999999999999998   45689998

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

Probab=99.30  E-value=1e-12  Score=89.23  Aligned_cols=49  Identities=22%  Similarity=0.632  Sum_probs=41.5

Q ss_pred             cccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCCC
Q 037839          109 ATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPT  160 (177)
Q Consensus       109 ~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~~  160 (177)
                      ...|+||++.|..+  +..++ |||.||..||..|+..+..||+||+++...
T Consensus        22 ~~~C~IC~~~~~~p--~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   70 (99)
T 2y43_A           22 LLRCGICFEYFNIA--MIIPQ-CSHNYCSLCIRKFLSYKTQCPTCCVTVTEP   70 (99)
T ss_dssp             HTBCTTTCSBCSSE--EECTT-TCCEEEHHHHHHHHTTCCBCTTTCCBCCGG
T ss_pred             CCCcccCChhhCCc--CEECC-CCCHhhHHHHHHHHHCCCCCCCCCCcCChh
Confidence            45799999999864  33336 999999999999999889999999998753

>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=99.28  E-value=1.9e-12  Score=89.38  Aligned_cols=50  Identities=22%  Similarity=0.584  Sum_probs=42.4

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPT  160 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~~  160 (177)
                      +...|+||++.|..+  +..++ |||.||..||..|+..+..||+||..+...
T Consensus        14 ~~~~C~IC~~~~~~p--~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~   63 (108)
T 2ckl_A           14 PHLMCVLCGGYFIDA--TTIIE-CLHSFCKTCIVRYLETSKYCPICDVQVHKT   63 (108)
T ss_dssp             GGTBCTTTSSBCSSE--EEETT-TCCEEEHHHHHHHHTSCSBCTTTCCBSCSS
T ss_pred             CcCCCccCChHHhCc--CEeCC-CCChhhHHHHHHHHHhCCcCcCCCcccccc
Confidence            355799999999764  44447 999999999999999989999999998754

>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=99.26  E-value=3.9e-12  Score=89.84  Aligned_cols=47  Identities=23%  Similarity=0.416  Sum_probs=40.4

Q ss_pred             cccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCC-CCcCCCCCCCC
Q 037839          109 ATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHP-TCPVCRTSPLP  159 (177)
Q Consensus       109 ~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~-~CP~CR~~~~~  159 (177)
                      ...|+||++.|..+   ..++ |||.||..||..|+..+. .||+||+++..
T Consensus        52 ~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   99 (124)
T 3fl2_A           52 TFQCICCQELVFRP---ITTV-CQHNVCKDCLDRSFRAQVFSCPACRYDLGR   99 (124)
T ss_dssp             HTBCTTTSSBCSSE---EECT-TSCEEEHHHHHHHHHTTCCBCTTTCCBCCT
T ss_pred             CCCCCcCChHHcCc---EEee-CCCcccHHHHHHHHhHCcCCCCCCCccCCC
Confidence            45799999999865   4567 999999999999998544 89999999976

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

Probab=99.26  E-value=1.1e-12  Score=93.13  Aligned_cols=54  Identities=28%  Similarity=0.646  Sum_probs=45.4

Q ss_pred             CCcccCccccccccCC----CceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCCCC
Q 037839          107 STATCCSICLADYRSS----DMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTP  161 (177)
Q Consensus       107 ~~~~~C~ICl~~f~~~----~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~~~  161 (177)
                      .+...|+||++.|..+    .....++ |||.||..||..|+..+++||+||+++....
T Consensus        70 ~~~~~C~iC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~  127 (133)
T 4ap4_A           70 SGTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHKR  127 (133)
T ss_dssp             SSSCBCTTTCCBHHHHHHTTCCEEEET-TSBEEEHHHHHHHHHHCSBCTTTCCBCCGGG
T ss_pred             CCCCCCCCCCCccccccccCcceEeCC-CCChhhHHHHHHHHHcCCCCCCCCCcCChhc
Confidence            3566799999999763    3445677 9999999999999999999999999997654

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

Probab=99.25  E-value=3.6e-12  Score=77.88  Aligned_cols=42  Identities=31%  Similarity=0.882  Sum_probs=35.2

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHh---cCCCCcCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLR---LHPTCPVC  153 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~---~~~~CP~C  153 (177)
                      +...|+||++.+..+   ..++ |||.||..||..|+.   .+..||+|
T Consensus        14 ~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           14 VEASCSVCLEYLKEP---VIIE-CGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CCCBCSSSCCBCSSC---CCCS-SCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             cCCCCccCCcccCcc---EeCC-CCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            456799999999876   4567 999999999999954   46689998

>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=99.25  E-value=5.1e-12  Score=87.41  Aligned_cols=50  Identities=26%  Similarity=0.578  Sum_probs=41.6

Q ss_pred             cccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCC---CCcCCCCCCCCCCC
Q 037839          109 ATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHP---TCPVCRTSPLPTPL  162 (177)
Q Consensus       109 ~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~---~CP~CR~~~~~~~~  162 (177)
                      ...|+||++.|..+   ..++ |||.||..||..|+..+.   .||+||.++....+
T Consensus        21 ~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~   73 (112)
T 1jm7_A           21 ILECPICLELIKEP---VSTK-CDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSL   73 (112)
T ss_dssp             HTSCSSSCCCCSSC---CBCT-TSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTC
T ss_pred             CCCCcccChhhcCe---EECC-CCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCHhhc
Confidence            34799999999866   3467 999999999999998654   89999999876544

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

Probab=99.25  E-value=6.8e-12  Score=83.94  Aligned_cols=48  Identities=23%  Similarity=0.566  Sum_probs=40.0

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcC--CCCcCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLH--PTCPVCRTSPL  158 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~--~~CP~CR~~~~  158 (177)
                      +...|+||++.|..+   ..++.|||.||..||..|+...  ..||+||.++.
T Consensus        12 ~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   61 (92)
T 3ztg_A           12 DELLCLICKDIMTDA---VVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   61 (92)
T ss_dssp             TTTEETTTTEECSSC---EECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSC
T ss_pred             cCCCCCCCChhhcCc---eECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCC
Confidence            456799999999876   3555599999999999999653  58999999974

>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=99.21  E-value=6.3e-12  Score=93.00  Aligned_cols=48  Identities=29%  Similarity=0.688  Sum_probs=40.8

Q ss_pred             cccCccccccccCCCceeecCCCCCcccHhhHHHHHhc-CCCCcCCCCCCCC
Q 037839          109 ATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL-HPTCPVCRTSPLP  159 (177)
Q Consensus       109 ~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~-~~~CP~CR~~~~~  159 (177)
                      ...|+||++.|..+  +..++ |||.||..||..|+.. +..||+||.++..
T Consensus        54 ~~~C~IC~~~~~~p--~~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~  102 (165)
T 2ckl_B           54 ELMCPICLDMLKNT--MTTKE-CLHRFCADCIITALRSGNKECPTCRKKLVS  102 (165)
T ss_dssp             HHBCTTTSSBCSSE--EEETT-TCCEEEHHHHHHHHHTTCCBCTTTCCBCCS
T ss_pred             CCCCcccChHhhCc--CEeCC-CCChhHHHHHHHHHHhCcCCCCCCCCcCCC
Confidence            45799999999864  44457 9999999999999987 7789999999854

>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=99.21  E-value=4.9e-12  Score=88.27  Aligned_cols=54  Identities=31%  Similarity=0.671  Sum_probs=44.3

Q ss_pred             cccCccccccccCCCceeecCCCCCcccHhhHHHHHhc-CCCCcCCCCCCCCCCCCCCc
Q 037839          109 ATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL-HPTCPVCRTSPLPTPLSTPL  166 (177)
Q Consensus       109 ~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~-~~~CP~CR~~~~~~~~~~~~  166 (177)
                      ...|+||++.|..+   ..++ |||.||..||..|+.. +..||+||+++....+..+.
T Consensus        23 ~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~   77 (116)
T 1rmd_A           23 SISCQICEHILADP---VETS-CKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESPV   77 (116)
T ss_dssp             HTBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCBCCC
T ss_pred             CCCCCCCCcHhcCc---EEcC-CCCcccHHHHHHHHhHCcCcCCCCCCCCCHhhccccH
Confidence            35699999998765   3467 9999999999999987 67899999999876554443

>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=99.18  E-value=1.8e-11  Score=89.38  Aligned_cols=48  Identities=19%  Similarity=0.409  Sum_probs=41.3

Q ss_pred             cccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCC-CCcCCCCCCCCC
Q 037839          109 ATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHP-TCPVCRTSPLPT  160 (177)
Q Consensus       109 ~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~-~CP~CR~~~~~~  160 (177)
                      ...|+||++.|..+   ..++ |||.||..||..|+.... .||+||.++...
T Consensus        78 ~~~C~IC~~~~~~p---v~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  126 (150)
T 1z6u_A           78 SFMCVCCQELVYQP---VTTE-CFHNVCKDCLQRSFKAQVFSCPACRHDLGQN  126 (150)
T ss_dssp             HTBCTTTSSBCSSE---EECT-TSCEEEHHHHHHHHHTTCCBCTTTCCBCCTT
T ss_pred             CCEeecCChhhcCC---EEcC-CCCchhHHHHHHHHHhCCCcCCCCCccCCCC
Confidence            45799999998865   4577 999999999999998654 899999999876

>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=99.17  E-value=9.8e-12  Score=87.12  Aligned_cols=50  Identities=30%  Similarity=0.547  Sum_probs=42.4

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCC-CCcCCCCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHP-TCPVCRTSPLPTP  161 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~-~CP~CR~~~~~~~  161 (177)
                      +...|+||++.|..+   ..++ |||.||..||..|+.... .||+||.++....
T Consensus        17 ~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   67 (118)
T 3hct_A           17 SKYECPICLMALREA---VQTP-CGHRFCKACIIKSIRDAGHKCPVDNEILLENQ   67 (118)
T ss_dssp             GGGBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGG
T ss_pred             CCCCCCcCChhhcCe---EECC-cCChhhHHHHHHHHhhCCCCCCCCCCCcCHHh
Confidence            456799999999876   4567 999999999999998755 9999999987644

>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=99.14  E-value=1.5e-11  Score=77.14  Aligned_cols=47  Identities=23%  Similarity=0.534  Sum_probs=39.3

Q ss_pred             CcccCccccccccCCCceeec--CCCCCc-ccHhhHHHHHhcCCCCcCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLL--PDCSHL-FHVKCVDPWLRLHPTCPVCRTSPL  158 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l--~~C~H~-fH~~Ci~~Wl~~~~~CP~CR~~~~  158 (177)
                      +...|+||++.+.+.   ..+  | |||. |+.+|+..|...+..||+||+++.
T Consensus         7 ~~~~C~IC~~~~~~~---~~~~~p-CgH~~~C~~C~~~~~~~~~~CPiCR~~i~   56 (64)
T 2vje_A            7 AIEPCVICQGRPKNG---CIVHGK-TGHLMACFTCAKKLKKRNKPCPVCRQPIQ   56 (64)
T ss_dssp             GGSCCTTTSSSCSCE---EEEETT-EEEEEECHHHHHHHHHTTCCCTTTCCCCC
T ss_pred             CcCCCCcCCCCCCCE---EEECCC-CCChhhHHHHHHHHHHcCCcCCCcCcchh
Confidence            345799999986543   343  8 9999 899999999998889999999884

>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=99.14  E-value=7.1e-12  Score=87.32  Aligned_cols=47  Identities=26%  Similarity=0.596  Sum_probs=40.1

Q ss_pred             cccCccccccccCCCceeecCCCCCcccHhhHHHHHhc-CCCCcCCCCCCCC
Q 037839          109 ATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL-HPTCPVCRTSPLP  159 (177)
Q Consensus       109 ~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~-~~~CP~CR~~~~~  159 (177)
                      ...|+||++.|..+   ..++ |||.||..||..|+.. +..||+||..+..
T Consensus        15 ~~~C~iC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (115)
T 3l11_A           15 ECQCGICMEILVEP---VTLP-CNHTLCKPCFQSTVEKASLCCPFCRRRVSS   62 (115)
T ss_dssp             HHBCTTTCSBCSSC---EECT-TSCEECHHHHCCCCCTTTSBCTTTCCBCHH
T ss_pred             CCCCccCCcccCce---eEcC-CCCHHhHHHHHHHHhHCcCCCCCCCcccCc
Confidence            45799999999876   4567 9999999999999976 6689999998853

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

Probab=99.14  E-value=2.2e-11  Score=74.25  Aligned_cols=48  Identities=25%  Similarity=0.578  Sum_probs=39.5

Q ss_pred             CCcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCCCC
Q 037839          107 STATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTP  161 (177)
Q Consensus       107 ~~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~~~  161 (177)
                      .+...|+||++.|..+   +.++ |||.||..|+..|   ...||+||+++....
T Consensus         4 ~~~~~C~IC~~~~~~p---~~l~-CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~   51 (56)
T 1bor_A            4 FQFLRCQQCQAEAKCP---KLLP-CLHTLCSGCLEAS---GMQCPICQAPWPLGA   51 (56)
T ss_dssp             CCCSSCSSSCSSCBCC---SCST-TSCCSBTTTCSSS---SSSCSSCCSSSSCCS
T ss_pred             ccCCCceEeCCccCCe---EEcC-CCCcccHHHHccC---CCCCCcCCcEeecCC
Confidence            3456799999999876   5677 9999999999874   568999999986543

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

Probab=99.12  E-value=1.2e-10  Score=75.90  Aligned_cols=56  Identities=18%  Similarity=0.350  Sum_probs=42.6

Q ss_pred             CCcccCccccccccCCCce-eecCCCCCcccHhhHHHHHhc-CCCCcCCCCCCCCCCCC
Q 037839          107 STATCCSICLADYRSSDML-RLLPDCSHLFHVKCVDPWLRL-HPTCPVCRTSPLPTPLS  163 (177)
Q Consensus       107 ~~~~~C~ICl~~f~~~~~v-~~l~~C~H~fH~~Ci~~Wl~~-~~~CP~CR~~~~~~~~~  163 (177)
                      .++..|+||++.+...+.. .-++ |||.||..|+..|+.. ...||.||+++...++.
T Consensus         9 ~~~~~CpICle~~~~~d~~~~p~~-CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~~~   66 (78)
T 1e4u_A            9 EDPVECPLCMEPLEIDDINFFPCT-CGYQICRFCWHRIRTDENGLCPACRKPYPEDPAV   66 (78)
T ss_dssp             CCCCBCTTTCCBCCTTTTTCCSST-TSCCCCHHHHHHHTTSSCSBCTTTCCBCSSCSSC
T ss_pred             ccCCcCCccCccCccccccccccC-CCCCcCHHHHHHHHhcCCCCCCCCCCccCCCchh
Confidence            3556799999998654432 2234 9999999999998743 56899999999876543

>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=99.11  E-value=2.2e-11  Score=76.13  Aligned_cols=49  Identities=20%  Similarity=0.420  Sum_probs=39.1

Q ss_pred             CcccCccccccccCCCceeecCCCCCc-ccHhhHHHHHhcCCCCcCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHL-FHVKCVDPWLRLHPTCPVCRTSPL  158 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~-fH~~Ci~~Wl~~~~~CP~CR~~~~  158 (177)
                      ....|+||++.+.+. .+..+| |||. |+..|+..|.+.+..||+||+++.
T Consensus         6 ~~~~C~IC~~~~~~~-~~~~~p-CgH~~~C~~C~~~~~~~~~~CPiCR~~i~   55 (63)
T 2vje_B            6 LLKPCSLCEKRPRDG-NIIHGR-TGHLVTCFHCARRLKKAGASCPICKKEIQ   55 (63)
T ss_dssp             GGSBCTTTSSSBSCE-EEEETT-EEEEEECHHHHHHHHHTTCBCTTTCCBCC
T ss_pred             cCCCCcccCCcCCCe-EEEecC-CCCHhHHHHHHHHHHHhCCcCCCcCchhh
Confidence            345799999986543 122348 9999 999999999988889999999884

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

Probab=99.10  E-value=4.4e-11  Score=79.14  Aligned_cols=49  Identities=14%  Similarity=0.041  Sum_probs=43.2

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPT  160 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~~  160 (177)
                      +...|+||++-|.++   ..++ |||.|+..||..|+..+.+||+||.++...
T Consensus        13 ~~~~CpI~~~~m~dP---V~~~-cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~   61 (85)
T 2kr4_A           13 DEFRDPLMDTLMTDP---VRLP-SGTVMDRSIILRHLLNSPTDPFNRQMLTES   61 (85)
T ss_dssp             TTTBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             hheECcccCchhcCC---eECC-CCCEECHHHHHHHHhcCCCCCCCcCCCChH
Confidence            456799999999987   5677 999999999999999888999999988654

>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=99.09  E-value=9.3e-11  Score=97.21  Aligned_cols=49  Identities=31%  Similarity=0.757  Sum_probs=41.8

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHh-cCCCCcCCCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLR-LHPTCPVCRTSPLPT  160 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~-~~~~CP~CR~~~~~~  160 (177)
                      ....|+||++.+..+   ..+| |||.||..|+..|+. .+..||+||+++...
T Consensus       331 ~~~~C~ICle~~~~p---v~lp-CGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~~  380 (389)
T 2y1n_A          331 TFQLCKICAENDKDV---KIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKGT  380 (389)
T ss_dssp             SSSBCTTTSSSBCCE---EEET-TCCEECHHHHHHHHHHTCSBCTTTCCBCCEE
T ss_pred             CCCCCCccCcCCCCe---EEeC-CCChhhHHHHHHHHhcCCCCCCCCCCccCCc
Confidence            346899999998653   6777 999999999999998 678999999998754

>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=99.08  E-value=5.8e-11  Score=80.96  Aligned_cols=50  Identities=14%  Similarity=0.050  Sum_probs=43.9

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTP  161 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~~~  161 (177)
                      +...|+||++-|.+|   ..++ |||.|+..||..|+..+.+||+||.++....
T Consensus        28 ~~~~CpI~~~~m~dP---V~~~-cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~~   77 (100)
T 2kre_A           28 DEFRDPLMDTLMTDP---VRLP-SGTIMDRSIILRHLLNSPTDPFNRQTLTESM   77 (100)
T ss_dssp             TTTBCTTTCSBCSSE---EEET-TTEEEEHHHHHHHTTSCSBCSSSCCBCCTTS
T ss_pred             HhhCCcCccCcccCC---eECC-CCCEEchHHHHHHHHcCCCCCCCCCCCChhh
Confidence            466899999999987   5677 9999999999999998889999999987543

>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=99.06  E-value=3.6e-11  Score=86.91  Aligned_cols=50  Identities=22%  Similarity=0.462  Sum_probs=42.0

Q ss_pred             CCcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCC-CCcCCCCCCCCC
Q 037839          107 STATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHP-TCPVCRTSPLPT  160 (177)
Q Consensus       107 ~~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~-~CP~CR~~~~~~  160 (177)
                      .+...|+||++.|..+   ..++ |||.||..||..|+.... .||+||.++...
T Consensus        29 ~~~~~C~IC~~~~~~p---v~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~   79 (141)
T 3knv_A           29 EAKYLCSACRNVLRRP---FQAQ-CGHRYCSFCLASILSSGPQNCAACVHEGIYE   79 (141)
T ss_dssp             CGGGBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHGGGSCEECHHHHHTTCCC
T ss_pred             CcCcCCCCCChhhcCc---EECC-CCCccCHHHHHHHHhcCCCCCCCCCCccccc
Confidence            4566899999999877   4466 999999999999998654 899999987544

>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=99.05  E-value=1.1e-10  Score=79.27  Aligned_cols=50  Identities=16%  Similarity=0.034  Sum_probs=43.6

Q ss_pred             CcccCccccccccCCCceeecCCCC-CcccHhhHHHHHhcCCCCcCCCCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCS-HLFHVKCVDPWLRLHPTCPVCRTSPLPTP  161 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~-H~fH~~Ci~~Wl~~~~~CP~CR~~~~~~~  161 (177)
                      +...|+||++-|.++   ..++ || |.|+..||..|+..+.+||+||.++....
T Consensus        21 ~~~~CpI~~~~m~dP---V~~~-cG~htf~r~cI~~~l~~~~~cP~~~~~l~~~~   71 (98)
T 1wgm_A           21 DEFLDPIMSTLMCDP---VVLP-SSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQ   71 (98)
T ss_dssp             TTTBCTTTCSBCSSE---EECT-TTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTT
T ss_pred             HhcCCcCccccccCC---eECC-CCCeEECHHHHHHHHHhCCCCCCCCCCCChhh
Confidence            456799999999987   4677 99 99999999999998889999999987543

>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=99.05  E-value=5.1e-11  Score=83.29  Aligned_cols=46  Identities=33%  Similarity=0.649  Sum_probs=39.3

Q ss_pred             cccCccccccccCCCceeec-CCCCCcccHhhHHHHHhcCCCCcCCCCCCCCC
Q 037839          109 ATCCSICLADYRSSDMLRLL-PDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPT  160 (177)
Q Consensus       109 ~~~C~ICl~~f~~~~~v~~l-~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~~  160 (177)
                      ...|+||++.|..+   ..+ + |||.||..||..|+.  ..||+||.++...
T Consensus        22 ~~~C~IC~~~~~~p---v~~~~-CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~   68 (117)
T 1jm7_B           22 LLRCSRCTNILREP---VCLGG-CEHIFCSNCVSDCIG--TGCPVCYTPAWIQ   68 (117)
T ss_dssp             TTSCSSSCSCCSSC---BCCCS-SSCCBCTTTGGGGTT--TBCSSSCCBCSCS
T ss_pred             CCCCCCCChHhhCc---cEeCC-CCCHHHHHHHHHHhc--CCCcCCCCcCccc
Confidence            45799999999876   445 6 999999999999987  7899999998544

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

Probab=99.01  E-value=7.7e-11  Score=95.70  Aligned_cols=53  Identities=23%  Similarity=0.560  Sum_probs=40.4

Q ss_pred             CCCcccCccccccccCCC----ceeecCCCCCcccHhhHHHHHhcC-----------CCCcCCCCCCC
Q 037839          106 DSTATCCSICLADYRSSD----MLRLLPDCSHLFHVKCVDPWLRLH-----------PTCPVCRTSPL  158 (177)
Q Consensus       106 ~~~~~~C~ICl~~f~~~~----~v~~l~~C~H~fH~~Ci~~Wl~~~-----------~~CP~CR~~~~  158 (177)
                      +....+|+||++.+..+.    .+...+.|||.||..|+..|+++.           ..||+||+++.
T Consensus       305 ee~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs  372 (381)
T 3k1l_B          305 DNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLS  372 (381)
T ss_dssp             CCSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEE
T ss_pred             ccCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCC
Confidence            346778999999998732    222333499999999999999752           36999999774

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

Probab=98.99  E-value=7.8e-11  Score=75.87  Aligned_cols=43  Identities=28%  Similarity=0.671  Sum_probs=36.5

Q ss_pred             cccCccccccccCCCceeecCCCCCc-ccHhhHHHHHhcCCCCcCCCCCCCC
Q 037839          109 ATCCSICLADYRSSDMLRLLPDCSHL-FHVKCVDPWLRLHPTCPVCRTSPLP  159 (177)
Q Consensus       109 ~~~C~ICl~~f~~~~~v~~l~~C~H~-fH~~Ci~~Wl~~~~~CP~CR~~~~~  159 (177)
                      ...|+||++.+.++   ..+| |||. ||..|+..|    ..||+||+++..
T Consensus        24 ~~~C~iC~~~~~~~---~~~p-CgH~~~C~~C~~~~----~~CP~Cr~~i~~   67 (74)
T 4ic3_A           24 EKLCKICMDRNIAI---VFVP-CGHLVTCKQCAEAV----DKCPMCYTVITF   67 (74)
T ss_dssp             HTBCTTTSSSBCCE---EEET-TCCBCCCHHHHTTC----SBCTTTCCBCSE
T ss_pred             CCCCCCCCCCCCCE---EEcC-CCChhHHHHhhhcC----ccCCCcCcCccC
Confidence            45799999997653   5678 9999 999999998    789999998854

>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=98.89  E-value=5.9e-10  Score=82.64  Aligned_cols=51  Identities=29%  Similarity=0.540  Sum_probs=42.5

Q ss_pred             CCcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcC-CCCcCCCCCCCCCC
Q 037839          107 STATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLH-PTCPVCRTSPLPTP  161 (177)
Q Consensus       107 ~~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~-~~CP~CR~~~~~~~  161 (177)
                      .+...|+||++.|..+   ..++ |||.||..||..|+... ..||+||.++....
T Consensus        16 ~~~~~C~IC~~~~~~p---v~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   67 (170)
T 3hcs_A           16 ESKYECPICLMALREA---VQTP-CGHRFCKACIIKSIRDAGHKCPVDNEILLENQ   67 (170)
T ss_dssp             CGGGBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGG
T ss_pred             CCCCCCCCCChhhcCc---EECC-CCCHHHHHHHHHHHHhCCCCCCCCccCcchhh
Confidence            3456799999999876   4567 99999999999999764 48999999987654

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

Probab=98.88  E-value=1.8e-09  Score=66.68  Aligned_cols=49  Identities=20%  Similarity=0.602  Sum_probs=37.6

Q ss_pred             CCcccCccccccccCCCceeecCCCC--C---cccHhhHHHHHhc--CCCCcCCCCCCCC
Q 037839          107 STATCCSICLADYRSSDMLRLLPDCS--H---LFHVKCVDPWLRL--HPTCPVCRTSPLP  159 (177)
Q Consensus       107 ~~~~~C~ICl~~f~~~~~v~~l~~C~--H---~fH~~Ci~~Wl~~--~~~CP~CR~~~~~  159 (177)
                      .+...|.||+++.  ++.+ ++| |.  |   .||..|+..|+..  +.+||+||.++..
T Consensus         4 ~~~~~CrIC~~~~--~~~l-~~P-C~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~~   59 (60)
T 1vyx_A            4 EDVPVCWICNEEL--GNER-FRA-CGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             CSCCEETTTTEEC--SCCC-CCS-CCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCCEeEEeecCC--CCce-ecC-cCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeeec
Confidence            3566899999984  3333 577 65  4   8999999999964  5689999998753

>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=98.87  E-value=1.1e-09  Score=86.58  Aligned_cols=51  Identities=18%  Similarity=0.229  Sum_probs=42.6

Q ss_pred             CCcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcC-CCCcCCCCCCCCCC
Q 037839          107 STATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLH-PTCPVCRTSPLPTP  161 (177)
Q Consensus       107 ~~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~-~~CP~CR~~~~~~~  161 (177)
                      .....|+||++-|.+|   .+++ |||.||..||..|+..+ .+||+||.++....
T Consensus       206 ~~~~~c~i~~~~~~dP---v~~~-~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~~~  257 (281)
T 2c2l_A          206 PDYLCGKISFELMREP---CITP-SGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQ  257 (281)
T ss_dssp             CSTTBCTTTCSBCSSE---EECS-SCCEEETTHHHHHHHHTCSSCTTTCCCCCGGG
T ss_pred             CcccCCcCcCCHhcCC---eECC-CCCEECHHHHHHHHHHCCCCCcCCCCCCchhc
Confidence            3567899999999987   4677 99999999999999764 45999999986543

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

Probab=98.86  E-value=1.8e-09  Score=68.40  Aligned_cols=45  Identities=29%  Similarity=0.620  Sum_probs=37.0

Q ss_pred             CCcccCccccccccCCCceeecCCCCCc-ccHhhHHHHHhcCCCCcCCCCCCCC
Q 037839          107 STATCCSICLADYRSSDMLRLLPDCSHL-FHVKCVDPWLRLHPTCPVCRTSPLP  159 (177)
Q Consensus       107 ~~~~~C~ICl~~f~~~~~v~~l~~C~H~-fH~~Ci~~Wl~~~~~CP~CR~~~~~  159 (177)
                      .+...|.||++.+.   .+..+| |||. ||..|+..    ...||+||+++..
T Consensus        13 ~~~~~C~IC~~~~~---~~v~~p-CgH~~~C~~C~~~----~~~CP~CR~~i~~   58 (68)
T 2ea5_A           13 ENSKDCVVCQNGTV---NWVLLP-CRHTCLCDGCVKY----FQQCPMCRQFVQE   58 (68)
T ss_dssp             CCSSCCSSSSSSCC---CCEETT-TTBCCSCTTHHHH----CSSCTTTCCCCCC
T ss_pred             CCCCCCCCcCcCCC---CEEEEC-CCChhhhHHHHhc----CCCCCCCCcchhc
Confidence            34567999999854   357888 9999 99999984    4789999999865

>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=98.84  E-value=9.5e-10  Score=73.97  Aligned_cols=49  Identities=14%  Similarity=0.381  Sum_probs=39.0

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcC------CCCcC--CCCC-CCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLH------PTCPV--CRTS-PLP  159 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~------~~CP~--CR~~-~~~  159 (177)
                      ....|+||++.|.+|  | .++.|||.|+..||..|+..+      .+||+  |+.. +..
T Consensus         6 ~~~~CPI~~~~~~dP--V-~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~~   63 (94)
T 2yu4_A            6 SGFTCPITKEEMKKP--V-KNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRK   63 (94)
T ss_dssp             SCCBCTTTCSBCSSE--E-EESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBCG
T ss_pred             cEeECcCcCchhcCC--E-EcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccCH
Confidence            456799999999976  3 443499999999999999753      48999  9876 543

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

Probab=98.83  E-value=1.6e-09  Score=69.70  Aligned_cols=43  Identities=28%  Similarity=0.676  Sum_probs=35.3

Q ss_pred             cccCccccccccCCCceeecCCCCCc-ccHhhHHHHHhcCCCCcCCCCCCCC
Q 037839          109 ATCCSICLADYRSSDMLRLLPDCSHL-FHVKCVDPWLRLHPTCPVCRTSPLP  159 (177)
Q Consensus       109 ~~~C~ICl~~f~~~~~v~~l~~C~H~-fH~~Ci~~Wl~~~~~CP~CR~~~~~  159 (177)
                      ...|+||++.+..+   ..+| |||. ||..|+..    ...||+||+++..
T Consensus        25 ~~~C~IC~~~~~~~---~~~p-CgH~~~C~~C~~~----~~~CP~Cr~~i~~   68 (75)
T 2ecg_A           25 EKLCKICMDRNIAI---VFVP-CGHLVTCKQCAEA----VDKCPMCYTVITF   68 (75)
T ss_dssp             HHSCSSSCSSCCCB---CCSS-SCCCCBCHHHHHH----CSBCTTTCCBCCC
T ss_pred             CCCCCcCCCCCCCE---EEec-CCCHHHHHHHhhC----CCCCccCCceecC
Confidence            34699999997654   5677 9999 99999964    3789999999865

>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=98.80  E-value=1.7e-09  Score=72.53  Aligned_cols=48  Identities=25%  Similarity=0.762  Sum_probs=39.8

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhc--------CCCCcC--CCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL--------HPTCPV--CRTS  156 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~--------~~~CP~--CR~~  156 (177)
                      ....|+||++++..++.+...+ |||.||.+|+..++..        ...||.  |+..
T Consensus         4 ~~~~C~IC~~~~~~~~~~~l~~-CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            4 GSSGCKLCLGEYPVEQMTTIAQ-CQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETT-TTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CCcCCcccCcccccccceEcCC-CCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            3557999999998877666667 9999999999999853        136999  9988

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

Probab=98.74  E-value=6.7e-09  Score=77.66  Aligned_cols=50  Identities=18%  Similarity=0.226  Sum_probs=42.2

Q ss_pred             CCcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcC-CCCcCCCCCCCCC
Q 037839          107 STATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLH-PTCPVCRTSPLPT  160 (177)
Q Consensus       107 ~~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~-~~CP~CR~~~~~~  160 (177)
                      .+...|+||++-|.+|   ..++ |||.|+..||..|+..+ .+||+||.++...
T Consensus       104 p~~f~CPI~~elm~DP---V~~~-~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~~  154 (179)
T 2f42_A          104 PDYLCGKISFELMREP---CITP-SGITYDRKDIEEHLQRVGHFDPVTRSPLTQD  154 (179)
T ss_dssp             CGGGBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCGG
T ss_pred             cHhhcccCccccCCCC---eECC-CCCEECHHHHHHHHHhCCCCCCCCcCCCChh
Confidence            4567899999999977   4567 99999999999999764 4799999988654

>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=98.71  E-value=3.2e-09  Score=69.16  Aligned_cols=44  Identities=27%  Similarity=0.656  Sum_probs=36.4

Q ss_pred             cccCccccccccCCCceeecCCCCCc-ccHhhHHHHHhcCCCCcCCCCCCCCC
Q 037839          109 ATCCSICLADYRSSDMLRLLPDCSHL-FHVKCVDPWLRLHPTCPVCRTSPLPT  160 (177)
Q Consensus       109 ~~~C~ICl~~f~~~~~v~~l~~C~H~-fH~~Ci~~Wl~~~~~CP~CR~~~~~~  160 (177)
                      ...|+||++.+..   ...+| |||. |+..|+..|    ..||+||+++...
T Consensus        18 ~~~C~IC~~~~~~---~v~~p-CgH~~~C~~C~~~~----~~CP~Cr~~i~~~   62 (79)
T 2yho_A           18 AMLCMVCCEEEIN---STFCP-CGHTVCCESCAAQL----QSCPVCRSRVEHV   62 (79)
T ss_dssp             HTBCTTTSSSBCC---EEEET-TCBCCBCHHHHTTC----SBCTTTCCBCCEE
T ss_pred             CCEeEEeCcccCc---EEEEC-CCCHHHHHHHHHhc----CcCCCCCchhhCe
Confidence            3479999998654   46788 9999 999999877    4899999998753

>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=98.55  E-value=1.2e-08  Score=83.63  Aligned_cols=43  Identities=28%  Similarity=0.735  Sum_probs=36.7

Q ss_pred             cccCccccccccCCCceeecCCCCCc-ccHhhHHHHHhcCCCCcCCCCCCCC
Q 037839          109 ATCCSICLADYRSSDMLRLLPDCSHL-FHVKCVDPWLRLHPTCPVCRTSPLP  159 (177)
Q Consensus       109 ~~~C~ICl~~f~~~~~v~~l~~C~H~-fH~~Ci~~Wl~~~~~CP~CR~~~~~  159 (177)
                      ...|+||++.+..+   ..+| |||. ||..|+..|    ..||+||+++..
T Consensus       295 ~~~C~IC~~~~~~~---v~lp-CgH~~fC~~C~~~~----~~CP~CR~~i~~  338 (345)
T 3t6p_A          295 ERTCKVCMDKEVSV---VFIP-CGHLVVCQECAPSL----RKCPICRGIIKG  338 (345)
T ss_dssp             TCBCTTTSSSBCCE---EEET-TCCEEECTTTGGGC----SBCTTTCCBCCE
T ss_pred             CCCCCccCCcCCce---EEcC-CCChhHhHHHHhcC----CcCCCCCCCccC
Confidence            46799999997654   5678 9999 999999988    689999998853

>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=98.54  E-value=1.6e-08  Score=79.51  Aligned_cols=51  Identities=22%  Similarity=0.438  Sum_probs=41.0

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcC--CCCcC--CCCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLH--PTCPV--CRTSPLPTP  161 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~--~~CP~--CR~~~~~~~  161 (177)
                      ....|+||++.|..|  |+... |||.|+..||..|+..+  ..||+  ||..+....
T Consensus       180 ~el~CPIcl~~f~DP--Vts~~-CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~~d  234 (267)
T 3htk_C          180 IELTCPITCKPYEAP--LISRK-CNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMRD  234 (267)
T ss_dssp             CCSBCTTTSSBCSSE--EEESS-SCCEEEHHHHHHHSTTCSCEECSGGGCSCEECGGG
T ss_pred             eeeECcCccCcccCC--eeeCC-CCCcccHHHHHHHHHhCCCCCCCcccccCcCchhh
Confidence            345799999999876  44445 99999999999999764  47999  999876543

>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=98.51  E-value=2.9e-08  Score=61.37  Aligned_cols=48  Identities=13%  Similarity=0.182  Sum_probs=41.0

Q ss_pred             ccCccccccccCCCceeec-CCCCCcccHhhHHHHHhcCCCCcCCCCCCCCCC
Q 037839          110 TCCSICLADYRSSDMLRLL-PDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTP  161 (177)
Q Consensus       110 ~~C~ICl~~f~~~~~v~~l-~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~~~  161 (177)
                      ..|+||++-+.++  | .+ + +||+|...||.+|+.++.+||+.+.++....
T Consensus         4 ~~CpIs~~~m~dP--V-~~~~-sG~~yer~~I~~~l~~~~~cP~t~~~L~~~~   52 (61)
T 2bay_A            4 MLCAISGKVPRRP--V-LSPK-SRTIFEKSLLEQYVKDTGNDPITNEPLSIEE   52 (61)
T ss_dssp             CCCTTTCSCCSSE--E-EETT-TTEEEEHHHHHHHHHHHSBCTTTCCBCCGGG
T ss_pred             EEecCCCCCCCCC--E-EeCC-CCcEEcHHHHHHHHHhCCCCcCCcCCCChhh
Confidence            4699999999976  3 45 5 9999999999999988888999999886543

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

Probab=98.36  E-value=2.7e-07  Score=61.89  Aligned_cols=46  Identities=24%  Similarity=0.535  Sum_probs=36.6

Q ss_pred             cCccccccccCCCceeecCCCCCcccHhhHHHHHh-cCCCCcCCCCCCCC
Q 037839          111 CCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLR-LHPTCPVCRTSPLP  159 (177)
Q Consensus       111 ~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~-~~~~CP~CR~~~~~  159 (177)
                      .|.+|--.+.  ...|+.| |+|+||.+|+..|.+ +.++||.|+.++..
T Consensus         3 fC~~C~~Pi~--iygRmIP-CkHvFCydCa~~~~~~~~k~Cp~C~~~V~r   49 (101)
T 3vk6_A            3 FCDKCGLPIK--VYGRMIP-CKHVFCYDCAILHEKKGDKMCPGCSDPVQR   49 (101)
T ss_dssp             BCTTTCSBCS--EEEEEET-TCCEEEHHHHHHHHHTTCCBCTTTCCBCSE
T ss_pred             ecCccCCCeE--EEeeecc-ccccHHHHHHHHHHhccCCCCcCcCCeeee
Confidence            3677755543  4568898 999999999999985 46789999998864

>3nw0_A Non-structural maintenance of chromosomes element homolog; E3 ligase, Zn, metal binding protein; 2.92A {Homo sapiens}

Probab=98.00  E-value=4.7e-06  Score=64.93  Aligned_cols=48  Identities=21%  Similarity=0.543  Sum_probs=38.9

Q ss_pred             CCcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCC--CCcCCCCCC
Q 037839          107 STATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHP--TCPVCRTSP  157 (177)
Q Consensus       107 ~~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~--~CP~CR~~~  157 (177)
                      .....|.||.+-...+..+   +.|+|.||..|+..|++.+.  .||.|+.+.
T Consensus       178 ~~i~~C~iC~~iv~~g~~C---~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W  227 (238)
T 3nw0_A          178 DAVKICNICHSLLIQGQSC---ETCGIRMHLPCVAKYFQSNAEPRCPHCNDYW  227 (238)
T ss_dssp             TTCCBCTTTCSBCSSCEEC---SSSCCEECHHHHHHHTTTCSSCBCTTTCCBC
T ss_pred             CCCCcCcchhhHHhCCccc---CccChHHHHHHHHHHHHhCCCCCCCCCCCCC
Confidence            3577899999998876332   24999999999999997654  899999874

>2lri_C Autoimmune regulator; Zn binding protein domain, apeced, transcription; NMR {Homo sapiens}

Probab=96.67  E-value=0.0017  Score=40.26  Aligned_cols=51  Identities=27%  Similarity=0.601  Sum_probs=36.9

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhc----CCCCcCCCCCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL----HPTCPVCRTSPLPTPL  162 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~----~~~CP~CR~~~~~~~~  162 (177)
                      ....|.||.+.   ++.+.-- .|...||..|+...+..    ...||.|++...+.+.
T Consensus        11 ~~~~C~vC~~~---~~ll~Cd-~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~~~p~P~   65 (66)
T 2lri_C           11 PGARCGVCGDG---TDVLRCT-HCAAAFHWRCHFPAGTSRPGTGLRCRSCSGDVTPAPV   65 (66)
T ss_dssp             TTCCCTTTSCC---TTCEECS-SSCCEECHHHHCTTTCCCCSSSCCCTTTTTCCCCCCC
T ss_pred             CCCCcCCCCCC---CeEEECC-CCCCceecccCCCccCcCCCCCEECccccCCCccCCC
Confidence            34569999754   4444433 49999999999887754    3479999987766654

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

Probab=95.42  E-value=0.011  Score=39.25  Aligned_cols=34  Identities=15%  Similarity=0.388  Sum_probs=26.0

Q ss_pred             cccCccccccccCCCceeecCCCCCcccHhhHHHH
Q 037839          109 ATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPW  143 (177)
Q Consensus       109 ~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~W  143 (177)
                      +..|.||++.+..+....-+. |+|.|+..|+..+
T Consensus         3 e~~C~~C~~~~~~~av~~C~~-C~~~~C~~Cl~~~   36 (101)
T 2jun_A            3 KVLCQFCDQDPAQDAVKTCVT-CEVSYCDECLKAT   36 (101)
T ss_dssp             CCBCTTCCSSSCCBCCEEETT-TTEEECHHHHHHH
T ss_pred             CCCCcCCCCCCCCCceEECCc-CChHHhHHHCHHH
Confidence            456999998754444444576 9999999999984

>1wil_A KIAA1045 protein; ring finger domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: g.50.1.3

Probab=95.27  E-value=0.031  Score=36.00  Aligned_cols=34  Identities=18%  Similarity=0.575  Sum_probs=22.7

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHH
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPW  143 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~W  143 (177)
                      .+..|.||- .|..++....- .|+-+||..|+.+.
T Consensus        14 ~D~~C~VC~-~~t~~~l~pCR-vC~RvfH~~CL~r~   47 (89)
T 1wil_A           14 NDEMCDVCE-VWTAESLFPCR-VCTRVFHDGCLRRM   47 (89)
T ss_dssp             CSCCCTTTC-CCCSSCCSSCS-SSSSCCCHHHHHHH
T ss_pred             CCcccCccc-cccccceeccc-cccccccHhhcccc
Confidence            345699994 33334332222 39999999999986

>2l2t_A Receptor tyrosine-protein kinase ERBB-4; transmembrane dimer, membrane domain, membrane protei; NMR {Homo sapiens}

Probab=94.43  E-value=0.05  Score=30.76  Aligned_cols=30  Identities=20%  Similarity=0.293  Sum_probs=18.2

Q ss_pred             chhhHHHHHHHHHHHHHHHHHhhccCcchh
Q 037839           23 YGIGVSVGILILITTITLASYFCTRGQQQQ   52 (177)
Q Consensus        23 ~~i~i~l~il~li~~i~l~~~~~~r~~~~~   52 (177)
                      +..+++.|+++++++...+++|.+|+++++
T Consensus        12 IA~gVVgGv~~v~ii~~~~~~~~RRRr~~~   41 (44)
T 2l2t_A           12 IAAGVIGGLFILVIVGLTFAVYVRRKSIKK   41 (44)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTTCSSC
T ss_pred             EEEeehHHHHHHHHHHHHHHHHhhhhhhhh
Confidence            444566666666666666666666665443

>2ks1_B Epidermal growth factor receptor; ERBB1, ERBB2, transmembrane, heterodimer, complex, tyrosine receptor, bicelles, transferase; NMR {Homo sapiens}

Probab=94.05  E-value=0.061  Score=30.42  Aligned_cols=34  Identities=18%  Similarity=0.242  Sum_probs=19.5

Q ss_pred             CCCCCccchhhHHHHHHHHHHHHHHHHHhhccCcch
Q 037839           16 SNIGGFGYGIGVSVGILILITTITLASYFCTRGQQQ   51 (177)
Q Consensus        16 ~~~~~~~~~i~i~l~il~li~~i~l~~~~~~r~~~~   51 (177)
                      |+.+.  ++.+++.|+++++++..++++|.+|++++
T Consensus         8 s~~~~--IA~gVVgGv~~~~ii~~~~~~~~RRr~~~   41 (44)
T 2ks1_B            8 PKIPS--IATGMVGALLLLLVVALGIGLFMRRRHIV   41 (44)
T ss_dssp             SCSSS--STHHHHHHHHHHHHHHHHHHHHHHTTTCC
T ss_pred             CCcce--EEeehhHHHHHHHHHHHHHHHHhhhhHhh
Confidence            44444  44455666666666666666666666543

>1we9_A PHD finger family protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: g.50.1.2

Probab=92.61  E-value=0.022  Score=34.68  Aligned_cols=48  Identities=25%  Similarity=0.518  Sum_probs=32.8

Q ss_pred             CcccCccccccccCCC-ceeecCCCCCcccHhhHHHHHh-----cCCCCcCCCCC
Q 037839          108 TATCCSICLADYRSSD-MLRLLPDCSHLFHVKCVDPWLR-----LHPTCPVCRTS  156 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~-~v~~l~~C~H~fH~~Ci~~Wl~-----~~~~CP~CR~~  156 (177)
                      +...|+||...+..+. .|.-- .|...||..|+..-..     ....||.|+..
T Consensus         5 e~~~C~~C~~~~~~~~~mI~Cd-~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~k   58 (64)
T 1we9_A            5 SSGQCGACGESYAADEFWICCD-LCEMWFHGKCVKITPARAEHIKQYKCPSCSNK   58 (64)
T ss_dssp             SCCCCSSSCCCCCSSSCEEECS-SSCCEEETTTTTCCTTGGGGCSSCCCHHHHTT
T ss_pred             CCCCCCCCCCccCCCCCEEEcc-CCCCCCCccccCcChhHhcCCCcEECCCCcCc
Confidence            4567999998875433 44444 4999999999854321     34679999754

>3lqh_A Histone-lysine N-methyltransferase MLL; PHD finger, bromodomain, leukemia, apoptosis, chromati regulator, DNA-binding, isopeptide bond; 1.72A {Homo sapiens} PDB: 3lqi_A* 3lqj_A* 2kyu_A

Probab=92.36  E-value=0.05  Score=40.42  Aligned_cols=48  Identities=27%  Similarity=0.589  Sum_probs=34.3

Q ss_pred             cccCccccccccCCC----ceeecCCCCCcccHhhHHH------HHh-----cCCCCcCCCCCC
Q 037839          109 ATCCSICLADYRSSD----MLRLLPDCSHLFHVKCVDP------WLR-----LHPTCPVCRTSP  157 (177)
Q Consensus       109 ~~~C~ICl~~f~~~~----~v~~l~~C~H~fH~~Ci~~------Wl~-----~~~~CP~CR~~~  157 (177)
                      +..|+||...|..++    .|..- .|...||..|...      -+.     ....||.|+..-
T Consensus         2 G~~CpiC~k~Y~~~~~~~~MIqCd-~C~~W~H~~Cvgi~~~~~e~~~~~pe~~~y~Cp~C~~~~   64 (183)
T 3lqh_A            2 GNFCPLCDKCYDDDDYESKMMQCG-KCDRWVHSKCENLSDEMYEILSNLPESVAYTCVNCTERH   64 (183)
T ss_dssp             CCBCTTTCCBCTTCCTTCCEEECT-TTCCEEEGGGSSCCHHHHHHHHHSHHHHCCCCTTTCCSS
T ss_pred             cCcCCCCcCccCCcccCCCeEECC-CCCcccchhccccCHHHHHHhhcCCCCCeeECcCCCCCC
Confidence            346999999998876    34444 4999999999732      111     167999998754

>2jwa_A Receptor tyrosine-protein kinase ERBB-2; transmembrane helix dimer, protein kinase receptor membrane domain, ATP-binding, glycoprotein; NMR {Homo sapiens} PDB: 2ks1_A

Probab=91.55  E-value=0.12  Score=29.10  Aligned_cols=28  Identities=29%  Similarity=0.355  Sum_probs=14.6

Q ss_pred             hhhHHHHHHHHHHHHHHHHHhhccCcch
Q 037839           24 GIGVSVGILILITTITLASYFCTRGQQQ   51 (177)
Q Consensus        24 ~i~i~l~il~li~~i~l~~~~~~r~~~~   51 (177)
                      ..+.++|+++++++.+.+++|.+|++++
T Consensus        14 Ia~~vVGvll~vi~~l~~~~~~RRR~~~   41 (44)
T 2jwa_A           14 IISAVVGILLVVVLGVVFGILIKRRQQK   41 (44)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHCSC
T ss_pred             hHHHHHHHHHHHHHHHHHHhheehhhhh
Confidence            4456666555544444445555555433

>1wep_A PHF8; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Mus musculus} SCOP: g.50.1.2

Probab=89.97  E-value=0.34  Score=30.62  Aligned_cols=50  Identities=26%  Similarity=0.452  Sum_probs=32.8

Q ss_pred             CcccCcccccccc-CCCceeecCCCCCcccHhhHHHHH-----hcCCCCcCCCCCCCC
Q 037839          108 TATCCSICLADYR-SSDMLRLLPDCSHLFHVKCVDPWL-----RLHPTCPVCRTSPLP  159 (177)
Q Consensus       108 ~~~~C~ICl~~f~-~~~~v~~l~~C~H~fH~~Ci~~Wl-----~~~~~CP~CR~~~~~  159 (177)
                      ....| ||...+. .+..|..-. |...||..|+..--     .....||.|+....+
T Consensus        11 ~~~~C-~C~~~~d~~~~MIqCd~-C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~~~~~   66 (79)
T 1wep_A           11 VPVYC-LCRQPYNVNHFMIECGL-CQDWFHGSCVGIEEENAVDIDIYHCPDCEAVFGP   66 (79)
T ss_dssp             CCCCS-TTSCSCCSSSCEEEBTT-TCCEEEHHHHTCCHHHHTTCSBBCCTTTTTTSCS
T ss_pred             CccEE-EcCCccCCCCceEEcCC-CCCcEEeeecCcccccccCCCeEECCCcccccCC
Confidence            34557 8988775 334454444 99999999984321     135689999876543

>2lbm_A Transcriptional regulator ATRX; metal binding protein-structural protein compl; HET: M3L; NMR {Homo sapiens} PDB: 2ld1_A

Probab=89.65  E-value=0.35  Score=34.30  Aligned_cols=45  Identities=20%  Similarity=0.442  Sum_probs=32.3

Q ss_pred             CCcccCccccccccCCCceeecCCCCCcccHhhHHHHHh-----------cCCCCcCCCC
Q 037839          107 STATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLR-----------LHPTCPVCRT  155 (177)
Q Consensus       107 ~~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~-----------~~~~CP~CR~  155 (177)
                      ..+..|.+|-+.   ++.+ .-..|-..||..|+..-+.           ....||+|+.
T Consensus        61 g~~d~C~vC~~G---G~Ll-cCD~Cpr~Fh~~Cl~p~l~~~~l~~i~~p~~~W~C~~C~~  116 (142)
T 2lbm_A           61 GMDEQCRWCAEG---GNLI-CCDFCHNAFCKKCILRNLGRKELSTIMDENNQWYCYICHP  116 (142)
T ss_dssp             SCBCSCSSSCCC---SSEE-ECSSSCCEEEHHHHHHHTCHHHHHHHHTSTTCCCCTTTCC
T ss_pred             CCCCeecccCCC---CcEE-eCCCCCCeeeHhhcCCCCChhhhhhcccCCCCCEeecccC
Confidence            346779999876   4433 3335999999999986541           2458999974

>1f62_A Transcription factor WSTF; Zn-finger; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=89.37  E-value=0.17  Score=29.12  Aligned_cols=44  Identities=25%  Similarity=0.665  Sum_probs=29.0

Q ss_pred             cCccccccccCCCceeecCCCCCcccHhhHHHHHhc----CCCCcCCCC
Q 037839          111 CCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL----HPTCPVCRT  155 (177)
Q Consensus       111 ~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~----~~~CP~CR~  155 (177)
                      .|.||...-..++.+.-- .|...||..|+..=+..    ...||.|+.
T Consensus         2 ~C~vC~~~~~~~~ll~Cd-~C~~~~H~~Cl~p~l~~~P~g~W~C~~C~~   49 (51)
T 1f62_A            2 RCKVCRKKGEDDKLILCD-ECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCCSCCEECT-TTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCCCCCCCCCCCCEEECC-CCChhhCcccCCCCcCCCCCCcEECcCccc
Confidence            488888764333444433 49999999999653322    346999965

>2ysm_A Myeloid/lymphoid or mixed-lineage leukemia protein 3 homolog; PHD domain, histone-lysine N-methyltransferase, H3 lysine-4 specific MLL3; NMR {Homo sapiens}

Probab=89.32  E-value=0.12  Score=34.93  Aligned_cols=46  Identities=22%  Similarity=0.503  Sum_probs=30.5

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhc----CCCCcCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL----HPTCPVCR  154 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~----~~~CP~CR  154 (177)
                      .+..|.||.+.-...+.+.-- .|+..||..|+...+..    ...||.|+
T Consensus         6 ~~~~C~~C~~~g~~~~ll~C~-~C~~~~H~~Cl~~~~~~~~~~~W~C~~C~   55 (111)
T 2ysm_A            6 SGANCAVCDSPGDLLDQFFCT-TCGQHYHGMCLDIAVTPLKRAGWQCPECK   55 (111)
T ss_dssp             CCSCBTTTCCCCCTTTSEECS-SSCCEECTTTTTCCCCTTTSTTCCCTTTC
T ss_pred             CCCCCcCCCCCCCCcCCeECC-CCCCCcChHHhCCccccccccCccCCcCC
Confidence            456799998874333334444 49999999999876532    34566654

>1wem_A Death associated transcription factor 1; structural genomics, PHD domain, death inducer- obliterator 1(DIO-1); NMR {Mus musculus} SCOP: g.50.1.2

Probab=89.22  E-value=0.065  Score=33.75  Aligned_cols=49  Identities=29%  Similarity=0.457  Sum_probs=32.8

Q ss_pred             cccCccccccccCCCceeecCCCCCcccHhhHHHH---------HhcCCCCcCCCCCCCC
Q 037839          109 ATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPW---------LRLHPTCPVCRTSPLP  159 (177)
Q Consensus       109 ~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~W---------l~~~~~CP~CR~~~~~  159 (177)
                      ...| ||...+..+..|.--. |...||..|+..-         ......||.|+..-.+
T Consensus        16 ~~~C-~C~~~~~~~~MI~Cd~-C~~WfH~~Cvgl~~~~~~~l~~~~~~~~C~~C~~~~~p   73 (76)
T 1wem_A           16 ALYC-ICRQPHNNRFMICCDR-CEEWFHGDCVGISEARGRLLERNGEDYICPNCTILSGP   73 (76)
T ss_dssp             CCCS-TTCCCCCSSCEEECSS-SCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHHHSCS
T ss_pred             CCEE-ECCCccCCCCEEEeCC-CCCcEeCeEEccchhhhhhccCCCCeEECcCCcCccCc
Confidence            4557 8988765444554444 9999999998421         1246789999865544

>2k16_A Transcription initiation factor TFIID subunit 3; protein, alternative splicing, metal-binding, nucleus, phosphoprotein, transcription regulation; NMR {Mus musculus} PDB: 2k17_A*

Probab=88.85  E-value=0.098  Score=32.76  Aligned_cols=49  Identities=24%  Similarity=0.449  Sum_probs=32.4

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHh----cCCCCcCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLR----LHPTCPVCRTSP  157 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~----~~~~CP~CR~~~  157 (177)
                      ....|.||.........+..- .|...||..|+..-..    ....||.|+..+
T Consensus        17 ~~~~C~~C~~~~~~~~mi~CD-~C~~wfH~~Cv~~~~~~~~~~~w~C~~C~~~~   69 (75)
T 2k16_A           17 QIWICPGCNKPDDGSPMIGCD-DCDDWYHWPCVGIMAAPPEEMQWFCPKCANKI   69 (75)
T ss_dssp             EEECBTTTTBCCSSCCEEECS-SSSSEEEHHHHTCSSCCCSSSCCCCTTTHHHH
T ss_pred             CCcCCCCCCCCCCCCCEEEcC-CCCcccccccCCCCccCCCCCCEEChhccCch
Confidence            445699998775432334333 4899999999965432    245799997654

>3o36_A Transcription intermediary factor 1-alpha; TRIM24, PHD finger, bromodomain, H4K16 acetylation, breast C transcription-protein binding complex; HET: ALY; 1.70A {Homo sapiens} PDB: 3o33_A* 3o34_A* 3o35_A* 3o37_A

Probab=88.40  E-value=0.12  Score=38.18  Aligned_cols=46  Identities=26%  Similarity=0.659  Sum_probs=32.4

Q ss_pred             cccCccccccccCCCceeecCCCCCcccHhhHHHHHhc----CCCCcCCCCCCC
Q 037839          109 ATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL----HPTCPVCRTSPL  158 (177)
Q Consensus       109 ~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~----~~~CP~CR~~~~  158 (177)
                      +..|.+|...   ++.+ .-..|...||..|+..-+..    ...||.|+..-.
T Consensus         4 ~~~C~~C~~~---g~ll-~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~~   53 (184)
T 3o36_A            4 EDWCAVCQNG---GELL-CCEKCPKVFHLSCHVPTLTNFPSGEWICTFCRDLSK   53 (184)
T ss_dssp             CSSCTTTCCC---SSCE-ECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCSSS
T ss_pred             CCccccCCCC---Ceee-ecCCCCcccCccccCCCCCCCCCCCEECccccCccc
Confidence            4569999855   4444 33349999999998765543    357999987554

>2l5u_A Chromodomain-helicase-DNA-binding protein 4; CHD4, MI2B, MI2-beta, PHD, protein binding, peptide binding metal binding protein; NMR {Homo sapiens}

Probab=88.32  E-value=0.2  Score=30.18  Aligned_cols=44  Identities=25%  Similarity=0.786  Sum_probs=30.4

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhc----CCCCcCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL----HPTCPVCRT  155 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~----~~~CP~CR~  155 (177)
                      ....|.+|...   ++.+ .-..|...||..|+..-+..    ...||.|+.
T Consensus        10 ~~~~C~vC~~~---g~ll-~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~   57 (61)
T 2l5u_A           10 HQDYCEVCQQG---GEII-LCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEK   57 (61)
T ss_dssp             CCSSCTTTSCC---SSEE-ECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGG
T ss_pred             CCCCCccCCCC---CcEE-ECCCCChhhhhhccCCCCCCCCCCceECccccc
Confidence            45579999874   3433 33358899999999874432    347999965

>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A

Probab=88.13  E-value=0.84  Score=30.75  Aligned_cols=46  Identities=26%  Similarity=0.522  Sum_probs=28.2

Q ss_pred             cccCcccccccc-----CCCceeecCCCCCcccHhhHHH------HH-hcCCCCcCCC
Q 037839          109 ATCCSICLADYR-----SSDMLRLLPDCSHLFHVKCVDP------WL-RLHPTCPVCR  154 (177)
Q Consensus       109 ~~~C~ICl~~f~-----~~~~v~~l~~C~H~fH~~Ci~~------Wl-~~~~~CP~CR  154 (177)
                      ...|.+|+..-.     .++++..-..|+..||..|+..      .+ .....||.|+
T Consensus         5 ~~~C~~C~~~~~~~~~g~~~~Ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   62 (112)
T 3v43_A            5 IPICSFCLGTKEQNREKKPEELISCADCGNSGHPSCLKFSPELTVRVKALRWQCIECK   62 (112)
T ss_dssp             CSSBTTTCCCTTCCTTSCCCCCEECTTTCCEECHHHHTCCHHHHHHHHTSCCCCTTTC
T ss_pred             CccccccCCchhhCcCCCchhceEhhhcCCCCCCchhcCCHHHHHHhhccccccccCC
Confidence            346999987631     2233333345999999999953      12 2345677764

>3u5n_A E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, bromodomain, TGF-beta, epigenetics, methylation, K9ME3, K14AC, transcription; HET: M3L ALY; 1.95A {Homo sapiens} PDB: 3u5m_A* 3u5o_A* 3u5p_A*

Probab=87.94  E-value=0.079  Score=39.88  Aligned_cols=47  Identities=28%  Similarity=0.607  Sum_probs=33.0

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhc----CCCCcCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL----HPTCPVCRTSPL  158 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~----~~~CP~CR~~~~  158 (177)
                      ....|.+|...   ++ +..-..|...||..|+...+..    ...||.|+..-.
T Consensus         6 ~~~~C~~C~~~---g~-ll~Cd~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~~   56 (207)
T 3u5n_A            6 NEDWCAVCQNG---GD-LLCCEKCPKVFHLTCHVPTLLSFPSGDWICTFCRDIGK   56 (207)
T ss_dssp             SCSSBTTTCCC---EE-EEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCSSS
T ss_pred             CCCCCCCCCCC---Cc-eEEcCCCCCccCCccCCCCCCCCCCCCEEeCceeCccc
Confidence            45679999754   33 4444459999999999765533    357999987543

>1mm2_A MI2-beta; PHD, zinc finger, protein scaffold, DNA binding protein; NMR {Homo sapiens} SCOP: g.50.1.2 PDB: 2l75_A* 1mm3_A

Probab=87.80  E-value=0.15  Score=30.74  Aligned_cols=46  Identities=24%  Similarity=0.648  Sum_probs=31.0

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhc----CCCCcCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL----HPTCPVCRTSP  157 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~----~~~CP~CR~~~  157 (177)
                      ....|.+|-+.   ++.+.-- .|...||..|+..-+..    ...||.|+...
T Consensus         8 ~~~~C~vC~~~---g~ll~Cd-~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~~   57 (61)
T 1mm2_A            8 HMEFCRVCKDG---GELLCCD-TCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPA   57 (61)
T ss_dssp             SCSSCTTTCCC---SSCBCCS-SSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTC
T ss_pred             CCCcCCCCCCC---CCEEEcC-CCCHHHcccccCCCcCcCCCCccCChhhcCch
Confidence            45569999863   3433333 48899999999753332    34799997654

>2k1k_A Ephrin type-A receptor 1; EPHA1, receptor tyrosine kinase, dimeric transmembrane domain, ATP-binding, glycoprotein, nucleotide-binding; NMR {Homo sapiens} PDB: 2k1l_A

Probab=87.27  E-value=0.95  Score=24.54  Aligned_cols=23  Identities=22%  Similarity=0.287  Sum_probs=10.6

Q ss_pred             hhHHHHHHHHHHHHHHHHHhhcc
Q 037839           25 IGVSVGILILITTITLASYFCTR   47 (177)
Q Consensus        25 i~i~l~il~li~~i~l~~~~~~r   47 (177)
                      .+++++.++.+.++..+.+|+.|
T Consensus        14 AGiVvG~v~gv~li~~l~~~~~r   36 (38)
T 2k1k_A           14 VAVIFGLLLGAALLLGILVFRSR   36 (38)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             eeeehHHHHHHHHHHHHHHHHee
Confidence            35555555444444444344433

>2kgg_A Histone demethylase jarid1A; PHD finger, histone modification, leukemia, alternative splicing, chromatin regulator, developmental protein; NMR {Homo sapiens} PDB: 2kgi_A* 3gl6_A*

Probab=86.25  E-value=0.32  Score=28.18  Aligned_cols=44  Identities=18%  Similarity=0.289  Sum_probs=27.5

Q ss_pred             cCccccccccCCCceeecC-CCCCcccHhhHHHH----HhcCCCCcCCC
Q 037839          111 CCSICLADYRSSDMLRLLP-DCSHLFHVKCVDPW----LRLHPTCPVCR  154 (177)
Q Consensus       111 ~C~ICl~~f~~~~~v~~l~-~C~H~fH~~Ci~~W----l~~~~~CP~CR  154 (177)
                      .|.+|...+..++.-+.-- .|...||..|+..-    ...+..||.|+
T Consensus         4 ~cc~C~~p~~~~~~mI~Cd~~C~~WfH~~Cvgl~~~~~~~~~~~C~~C~   52 (52)
T 2kgg_A            4 AAQNCQRPCKDKVDWVQCDGGCDEWFHQVCVGVSPEMAENEDYICINCA   52 (52)
T ss_dssp             SCTTCCCCCCTTCCEEECTTTTCCEEETTTTTCCHHHHHHSCCCCSCC-
T ss_pred             cCCCCcCccCCCCcEEEeCCCCCccCcccccCCCccccCCCCEECCCCC
Confidence            3678888775443322222 38889999997432    13567899985

>2lv9_A Histone-lysine N-methyltransferase MLL5; zinc finger, transcription, protein binding, NESG, northeast structural genomics consortium, SGC; NMR {Homo sapiens}

Probab=86.24  E-value=0.2  Score=33.19  Aligned_cols=46  Identities=24%  Similarity=0.372  Sum_probs=31.1

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHh---cCCCCcCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLR---LHPTCPVCRT  155 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~---~~~~CP~CR~  155 (177)
                      +...| ||-.....+..|.--. |.-.||..|+..=..   ....||.|+.
T Consensus        27 d~vrC-iC~~~~~~~~mi~Cd~-C~~w~H~~C~~~~~~~~p~~w~C~~C~~   75 (98)
T 2lv9_A           27 DVTRC-ICGFTHDDGYMICCDK-CSVWQHIDCMGIDRQHIPDTYLCERCQP   75 (98)
T ss_dssp             CBCCC-TTSCCSCSSCEEEBTT-TCBEEETTTTTCCTTSCCSSBCCTTTSS
T ss_pred             CCEEe-ECCCccCCCcEEEcCC-CCCcCcCcCCCCCccCCCCCEECCCCcC
Confidence            34567 7877766565555444 999999999864222   2357999974

>3ql9_A Transcriptional regulator ATRX; zinc finger, transcription, lysine trimethylation, protein, histone-binding protein, transcription-structural complex; HET: M3L; 0.93A {Homo sapiens} PDB: 3qla_A* 3qlc_A 3qln_A 2jm1_A

Probab=85.29  E-value=0.81  Score=31.87  Aligned_cols=46  Identities=22%  Similarity=0.414  Sum_probs=31.5

Q ss_pred             CCcccCccccccccCCCceeecCCCCCcccHhhHHHHH-----------hcCCCCcCCCCC
Q 037839          107 STATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWL-----------RLHPTCPVCRTS  156 (177)
Q Consensus       107 ~~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl-----------~~~~~CP~CR~~  156 (177)
                      ..+..|.||-+.   ++ +..-..|-..||..|+..-+           .....|++|+..
T Consensus        55 g~~~~C~vC~dG---G~-LlcCd~Cpr~Fc~~Cl~~~lg~~~l~~i~~~~~~W~C~~C~~~  111 (129)
T 3ql9_A           55 GMDEQCRWCAEG---GN-LICCDFCHNAFCKKCILRNLGRRELSTIMDENNQWYCYICHPE  111 (129)
T ss_dssp             SCBSSCTTTCCC---SE-EEECSSSSCEEEHHHHHHHTCHHHHHHHTCTTSCCCCTTTCCG
T ss_pred             CCCCcCeecCCC---Ce-eEecCCCchhhhHHHhCCCcchhHHHHhccCCCCeEcCCcCCH
Confidence            345679999876   33 33333588999999998642           124689999653

>2vpb_A Hpygo1, pygopus homolog 1; gene regulation, WNT signaling pathway, WNT signaling complex, chromosomal rearrangement, signaling protein; 1.59A {Homo sapiens} PDB: 2vpd_A 2yyr_A* 2dx8_A* 2vp7_A 2vpg_A* 2vpe_A*

Probab=83.01  E-value=1.1  Score=27.30  Aligned_cols=33  Identities=24%  Similarity=0.533  Sum_probs=23.5

Q ss_pred             CcccCccccccccCCCceeecC-CCCCcccHhhH
Q 037839          108 TATCCSICLADYRSSDMLRLLP-DCSHLFHVKCV  140 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~-~C~H~fH~~Ci  140 (177)
                      ....|.+|...+..++.-+.-- .|.-.||..|.
T Consensus         7 ~~~~C~~C~~p~~~~~~mI~CD~~C~~WfH~~Cv   40 (65)
T 2vpb_A            7 PVYPCGICTNEVNDDQDAILCEASCQKWFHRICT   40 (65)
T ss_dssp             --CBCTTTCSBCCTTSCEEEBTTTTCCEEEHHHH
T ss_pred             CcCcCccCCCccCCCCCeEecccCccccCchhcc
Confidence            3456999999987655444433 49999999997

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

Probab=83.01  E-value=1.1  Score=28.52  Aligned_cols=37  Identities=14%  Similarity=0.293  Sum_probs=26.0

Q ss_pred             CCcccCccccccccCCCceeecCCCCCcccHhhHHHH
Q 037839          107 STATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPW  143 (177)
Q Consensus       107 ~~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~W  143 (177)
                      .+...|.+|...|..-..--.-..||++||..|....
T Consensus        19 ~~~~~C~~C~~~Fs~~~RrHHCR~CG~v~C~~Cs~~~   55 (84)
T 1z2q_A           19 EDAPACNGCGCVFTTTVRRHHCRNCGYVLCGDCSRHR   55 (84)
T ss_dssp             TTCCBCTTTCCBCCTTSCCEECTTTCCEECTGGGCCE
T ss_pred             CCCCCCcCcCCccccchhcccccCCCcEEChHHhCCe
Confidence            3456799999999754322222359999999997553

>2ri7_A Nucleosome-remodeling factor subunit BPTF; zinc finger, alpha-helical bundle, dimethyl-lysine, bromodom chromatin regulator, metal-binding, nucleus; HET: MLY; 1.45A {Homo sapiens} PDB: 2fsa_A* 2f6n_A 2f6j_A* 3qzv_A* 3uv2_A* 3qzt_A* 3qzs_A* 2fui_A 2fuu_A*

Probab=82.80  E-value=0.26  Score=35.80  Aligned_cols=47  Identities=26%  Similarity=0.555  Sum_probs=31.1

Q ss_pred             CcccCccccccccCCC-ceeecCCCCCcccHhhHHHHH-----hcCCCCcCCCCC
Q 037839          108 TATCCSICLADYRSSD-MLRLLPDCSHLFHVKCVDPWL-----RLHPTCPVCRTS  156 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~-~v~~l~~C~H~fH~~Ci~~Wl-----~~~~~CP~CR~~  156 (177)
                      ....| +|......+. .+..- .|...||..|+..--     .....||.|+..
T Consensus         7 ~~~~C-~C~~~~~~~~~mi~Cd-~C~~WfH~~Cv~~~~~~~~~~~~~~C~~C~~~   59 (174)
T 2ri7_A            7 TKLYC-ICKTPEDESKFYIGCD-RCQNWYHGRCVGILQSEAELIDEYVCPQCQST   59 (174)
T ss_dssp             CCEET-TTTEECCTTSCEEECT-TTCCEEEHHHHTCCHHHHTTCSSCCCHHHHHH
T ss_pred             CCcEe-eCCCCCCCCCCEeECC-CCCchhChhhcCCchhhccCccCeecCCCcch
Confidence            34568 9988765333 34433 499999999984321     235689999763

>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A

Probab=82.47  E-value=0.39  Score=32.46  Aligned_cols=45  Identities=31%  Similarity=0.693  Sum_probs=30.0

Q ss_pred             cCccccccccCCCceeecCCCCCcccHhhHHHHHhc----CCCCcCCCC
Q 037839          111 CCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL----HPTCPVCRT  155 (177)
Q Consensus       111 ~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~----~~~CP~CR~  155 (177)
                      .|.||...-.+++.+..-..|...||..|+..-+..    ...||.|+.
T Consensus        63 ~C~vC~~~~~~~~~ll~Cd~C~~~yH~~Cl~p~l~~~P~~~W~C~~C~~  111 (112)
T 3v43_A           63 TCSSCRDQGKNADNMLFCDSCDRGFHMECCDPPLTRMPKGMWICQICRP  111 (112)
T ss_dssp             CBTTTCCCCCTTCCCEECTTTCCEECGGGCSSCCSSCCSSCCCCTTTSC
T ss_pred             ccccccCcCCCccceEEcCCCCCeeecccCCCCCCCCCCCCeECCCCCC
Confidence            588888653333344444459999999999754433    347999974

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

Probab=82.31  E-value=1  Score=28.53  Aligned_cols=36  Identities=25%  Similarity=0.542  Sum_probs=25.5

Q ss_pred             CCcccCccccccccCCCceeecCCCCCcccHhhHHH
Q 037839          107 STATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDP  142 (177)
Q Consensus       107 ~~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~  142 (177)
                      .+...|.+|...|..-..--.-..||++|+..|...
T Consensus        17 ~~~~~C~~C~~~Fs~~~RrHHCR~CG~v~C~~Cs~~   52 (82)
T 2yw8_A           17 DEATHCRQCEKEFSISRRKHHCRNCGHIFCNTCSSN   52 (82)
T ss_dssp             CCCCBCTTTCCBCBTTBCCEECTTTCCEECSGGGCE
T ss_pred             ccCCcccCcCCcccCccccccCCCCCCEEChHHhCC
Confidence            345679999999975432222235999999999754

>2l8s_A Integrin alpha-1; transmembrane region, detergent micelle, CE adhesion; NMR {Homo sapiens}

Probab=82.27  E-value=2.1  Score=25.01  Aligned_cols=24  Identities=17%  Similarity=0.187  Sum_probs=12.8

Q ss_pred             CCCccchhhHHHHHHHHHHHHHHH
Q 037839           18 IGGFGYGIGVSVGILILITTITLA   41 (177)
Q Consensus        18 ~~~~~~~i~i~l~il~li~~i~l~   41 (177)
                      ++-+.+.++++.|++++.+++++.
T Consensus         7 vp~WiIi~svl~GLLLL~Lii~~L   30 (54)
T 2l8s_A            7 VPLWVILLSAFAGLLLLMLLILAL   30 (54)
T ss_dssp             CCTHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CchHHHHHHHHHHHHHHHHHHHHH
Confidence            444555556666666655444433

>2ro1_A Transcription intermediary factor 1-beta; KAP, TIF, PHD finger, bromodomain, SUMO, acetylation, alternative splicing, metal-binding, nucleus; NMR {Homo sapiens}

Probab=82.07  E-value=0.33  Score=36.03  Aligned_cols=45  Identities=29%  Similarity=0.664  Sum_probs=30.9

Q ss_pred             ccCccccccccCCCceeecCCCCCcccHhhHHHHHhc----CCCCcCCCCCCC
Q 037839          110 TCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL----HPTCPVCRTSPL  158 (177)
Q Consensus       110 ~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~----~~~CP~CR~~~~  158 (177)
                      ..|.+|...   ++.+..- .|...||..|+..=+..    ...||.|+..-.
T Consensus         3 ~~C~~C~~~---g~ll~Cd-~C~~~~H~~Cl~p~l~~~p~g~W~C~~C~~~~~   51 (189)
T 2ro1_A            3 TICRVCQKP---GDLVMCN-QCEFCFHLDCHLPALQDVPGEEWSCSLCHVLPD   51 (189)
T ss_dssp             CCBTTTCCC---SSCCCCT-TTCCBCCSTTSTTCCSSCCCTTCCTTTTSCSCC
T ss_pred             CcCccCCCC---CceeECC-CCCchhccccCCCCcccCCCCCCCCcCccCCCC
Confidence            469999865   4444333 48899999999653322    347999987643

>3o70_A PHD finger protein 13; PHF13, structural genomics consortium, SGC, structural genom type zinc finger, protein binding, zinc ION binding; 1.85A {Homo sapiens}

Probab=81.87  E-value=0.22  Score=30.72  Aligned_cols=46  Identities=20%  Similarity=0.513  Sum_probs=29.9

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHH---hcCCCCcCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWL---RLHPTCPVCRT  155 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl---~~~~~CP~CR~  155 (177)
                      +...| ||-.....+..|.--. |...||..|+..--   .....||.|+.
T Consensus        18 ~~~~C-iC~~~~~~~~MIqCd~-C~~WfH~~Cvgi~~~~~~~~~~C~~C~~   66 (68)
T 3o70_A           18 GLVTC-FCMKPFAGRPMIECNE-CHTWIHLSCAKIRKSNVPEVFVCQKCRD   66 (68)
T ss_dssp             TCCCS-TTCCCCTTCCEEECTT-TCCEEETTTTTCCTTSCCSSCCCHHHHT
T ss_pred             CceEe-ECCCcCCCCCEEECCC-CCccccccccCcCcccCCCcEECCCCCC
Confidence            45568 9987765333555444 99999999985421   12457888864

>2knc_A Integrin alpha-IIB; transmembrane signaling, protein structure, cell A cleavage on PAIR of basic residues, disease mutation, disul bond, glycoprotein; NMR {Homo sapiens}

Probab=81.86  E-value=1.8  Score=25.33  Aligned_cols=24  Identities=25%  Similarity=0.242  Sum_probs=12.5

Q ss_pred             CCCccchhhHHHHHHHHHHHHHHH
Q 037839           18 IGGFGYGIGVSVGILILITTITLA   41 (177)
Q Consensus        18 ~~~~~~~i~i~l~il~li~~i~l~   41 (177)
                      ++-+.+.++++.|++++.+++++.
T Consensus        10 vp~wiIi~svl~GLllL~li~~~L   33 (54)
T 2knc_A           10 IPIWWVLVGVLGGLLLLTILVLAM   33 (54)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHHHHHHHH
Confidence            444555556666666555444333

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

Probab=81.57  E-value=1.3  Score=28.27  Aligned_cols=36  Identities=19%  Similarity=0.422  Sum_probs=24.6

Q ss_pred             CCcccCccccccccCCCceeecCCCCCcccHhhHHH
Q 037839          107 STATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDP  142 (177)
Q Consensus       107 ~~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~  142 (177)
                      .+...|.+|...|..-..--.-..||++||..|...
T Consensus        12 ~~~~~C~~C~~~F~~~~RrHHCR~CG~vfC~~Cs~~   47 (84)
T 1x4u_A           12 NNFGNCTGCSATFSVLKKRRSCSNCGNSFCSRCCSF   47 (84)
T ss_dssp             CCCSSCSSSCCCCCSSSCCEECSSSCCEECTTTSCE
T ss_pred             CCCCcCcCcCCccccchhhhhhcCCCcEEChhhcCC
Confidence            345679999999965432122224999999999643

>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=81.30  E-value=0.93  Score=31.26  Aligned_cols=35  Identities=14%  Similarity=0.407  Sum_probs=24.7

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHH
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDP  142 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~  142 (177)
                      +...|.+|...|..-..--.-..||++||..|...
T Consensus        68 ~~~~C~~C~~~Fs~~~RrHHCR~CG~vfC~~Cs~~  102 (125)
T 1joc_A           68 EVQNCMACGKGFSVTVRRHHCRQCGNIFCAECSAK  102 (125)
T ss_dssp             GCCBCTTTCCBCCSSSCCEECTTTCCEECGGGSCE
T ss_pred             CCCCCcCcCCccccccccccCCCCCeEEChHHhCC
Confidence            34579999999975432222234999999999754

>2yql_A PHD finger protein 21A; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=81.24  E-value=0.14  Score=30.25  Aligned_cols=44  Identities=32%  Similarity=0.793  Sum_probs=29.3

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhc----CCCCcCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL----HPTCPVCRT  155 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~----~~~CP~CR~  155 (177)
                      ....|.+|...   ++.+.-- .|...||..|+..-+..    ...||.|+.
T Consensus         8 ~~~~C~vC~~~---g~ll~Cd-~C~~~~H~~Cl~ppl~~~p~g~W~C~~C~~   55 (56)
T 2yql_A            8 HEDFCSVCRKS---GQLLMCD-TCSRVYHLDCLDPPLKTIPKGMWICPRCQD   55 (56)
T ss_dssp             SCCSCSSSCCS---SCCEECS-SSSCEECSSSSSSCCCSCCCSSCCCHHHHC
T ss_pred             CCCCCccCCCC---CeEEEcC-CCCcceECccCCCCcCCCCCCceEChhhhC
Confidence            45569999875   4444433 49999999999753322    336887753

>3t7l_A Zinc finger FYVE domain-containing protein 16; structural genomics consortium, SGC, lipid BIND protein, transport protein; 1.09A {Homo sapiens}

Probab=81.17  E-value=1.1  Score=29.11  Aligned_cols=36  Identities=17%  Similarity=0.362  Sum_probs=25.5

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHH
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPW  143 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~W  143 (177)
                      +...|.+|...|..-..-..-..||++||..|...+
T Consensus        19 ~~~~C~~C~~~F~~~~RrhhCr~CG~v~C~~Cs~~~   54 (90)
T 3t7l_A           19 EAPNCMNCQVKFTFTKRRHHCRACGKVFCGVCCNRK   54 (90)
T ss_dssp             GCCBCTTTCCBCCSSSCCEECTTTCCEECGGGSCEE
T ss_pred             cCCcCcCCCCcccchhhCccccCCCCEECCcccCCe
Confidence            345799999999754322233359999999997654

>1wew_A DNA-binding family protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: g.50.1.2

Probab=81.15  E-value=0.29  Score=30.89  Aligned_cols=49  Identities=24%  Similarity=0.442  Sum_probs=31.0

Q ss_pred             cccCccccccccCCCceeec-CCCCCcccHhhHHHHH---------hcCCCCcCCCCCCC
Q 037839          109 ATCCSICLADYRSSDMLRLL-PDCSHLFHVKCVDPWL---------RLHPTCPVCRTSPL  158 (177)
Q Consensus       109 ~~~C~ICl~~f~~~~~v~~l-~~C~H~fH~~Ci~~Wl---------~~~~~CP~CR~~~~  158 (177)
                      ...| ||-.....+..|.-- +.|...||..|+.---         ..+..||.|+..-.
T Consensus        16 ~~~C-iC~~~~~~g~MI~CD~~~C~~W~H~~CVgi~~~~~~~~~~~~~~~~C~~C~~~~~   74 (78)
T 1wew_A           16 KVRC-VCGNSLETDSMIQCEDPRCHVWQHVGCVILPDKPMDGNPPLPESFYCEICRLTSG   74 (78)
T ss_dssp             CCCC-SSCCCCCCSCEEECSSTTTCCEEEHHHHSCCCTTTCSCSCSCSSCCCHHHHHCCS
T ss_pred             CEEe-ECCCcCCCCCEEEECCccCCccccCEEEccccccccccccCCCCEECCCCCcccC
Confidence            4457 787765455444433 0399999999985321         13567999976543

>2k9y_A Ephrin type-A receptor 2; receptor tyrosine kinase, membrane protein, dimeric transmembrane domain, ephrin receptor, ATP-binding, glycoprotein; NMR {Homo sapiens}

Probab=80.45  E-value=1.4  Score=23.95  Aligned_cols=23  Identities=22%  Similarity=0.400  Sum_probs=9.7

Q ss_pred             hhhHHHHHHHHHHHHHHHHHhhc
Q 037839           24 GIGVSVGILILITTITLASYFCT   46 (177)
Q Consensus        24 ~i~i~l~il~li~~i~l~~~~~~   46 (177)
                      .++++.|+.+++.++.+++++++
T Consensus        16 ~~~vv~Gv~ll~~iv~~~~~~~r   38 (41)
T 2k9y_A           16 IGGVAVGVVLLLVLAGVGFFIHR   38 (41)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSSS
T ss_pred             EeehhHHHHHHHHHHHHheeEee
Confidence            34455555544323333333333

>1fp0_A KAP-1 corepressor; PHD domain, C3HC4 type zinc binding domain, -structure, transcription; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=80.21  E-value=1.1  Score=29.04  Aligned_cols=45  Identities=29%  Similarity=0.666  Sum_probs=31.4

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhc----CCCCcCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL----HPTCPVCRTS  156 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~----~~~CP~CR~~  156 (177)
                      ....|.+|...   ++.+..- .|.-.||..|+..=+..    ...||.|+..
T Consensus        24 n~~~C~vC~~~---g~LL~CD-~C~~~fH~~Cl~PpL~~~P~g~W~C~~C~~~   72 (88)
T 1fp0_A           24 SATICRVCQKP---GDLVMCN-QCEFCFHLDCHLPALQDVPGEEWSCSLCHVL   72 (88)
T ss_dssp             SSSCCSSSCSS---SCCEECT-TSSCEECTTSSSTTCCCCCSSSCCCCSCCCC
T ss_pred             CCCcCcCcCCC---CCEEECC-CCCCceecccCCCCCCCCcCCCcCCccccCC
Confidence            45579999875   4444333 48899999999764433    3479999754

---

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	177
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	4e-18
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	1e-11
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	8e-11
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	5e-10
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	1e-09
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	4e-09
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	1e-08
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	1e-07
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	4e-07
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	2e-06
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	1e-05
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	2e-05
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	2e-04

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]} Length = 55

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]

 Score = 71.8 bits (176), Expect = 4e-18
 Identities = 22/45 (48%), Positives = 29/45 (64%)

Query: 112 CSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTS 156
           C++CLA+    +  R LP C H FH +CVD WL  H TCP+CR +
Sbjct: 8   CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLT 52

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]} Length = 68

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]

 Score = 55.7 bits (134), Expect = 1e-11
 Identities = 19/50 (38%), Positives = 26/50 (52%), Gaps = 3/50 (6%)

Query: 107 STATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTS 156
           + A  C ICL D    +    LP C H F   C+  W+R +PTCP+C+  
Sbjct: 3   TVAERCPICLEDPS--NYSMALP-CLHAFCYVCITRWIRQNPTCPLCKVP 49

>d3dplr1 g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase complex {Human (Homo sapiens) [TaxId: 9606]} Length = 88

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]

 Score = 53.6 bits (128), Expect = 8e-11
 Identities = 12/54 (22%), Positives = 17/54 (31%)

Query: 102 LQKKDSTATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRT 155
                     C    A   S +       C+H FH  C+  WL+    CP+   
Sbjct: 28  RNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNR 81

>d1fbva4 g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [TaxId: 9606]} Length = 79

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

 Score = 51.5 bits (123), Expect = 5e-10
 Identities = 15/52 (28%), Positives = 21/52 (40%), Gaps = 5/52 (9%)

Query: 106 DSTATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL-HPTCPVCRTS 156
            ST   C IC  + +    +++ P C HL    C+  W       CP CR  
Sbjct: 20  GSTFQLCKICAENDKD---VKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCE 67

>d1ur6b_ g.44.1.1 (B:) Not-4 N-terminal RING finger domain {Human (Homo sapiens) [TaxId: 9606]} Length = 52

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]

 Score = 49.7 bits (118), Expect = 1e-09
 Identities = 9/46 (19%), Positives = 14/46 (30%), Gaps = 1/46 (2%)

Query: 112 CSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL-HPTCPVCRTS 156
           C +C+      D+      C +     C        +  CP CR  
Sbjct: 3   CPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKP 48

>d1g25a_ g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 65

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]

 Score = 48.6 bits (115), Expect = 4e-09
 Identities = 13/47 (27%), Positives = 16/47 (34%), Gaps = 2/47 (4%)

Query: 112 CSICLADYRSSDMLRLLP-DCSHLFHVKCVDPWLRL-HPTCPVCRTS 156
           C  C      +  L+L+   C H     CVD         CP C T 
Sbjct: 6   CPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTP 52

>d1vyxa_ g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal domain {Kaposi's sarcoma-associated herpesvirus, KSHV, HHV8 [TaxId: 37296]} Length = 60

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]

 Score = 47.5 bits (112), Expect = 1e-08
 Identities = 10/54 (18%), Positives = 16/54 (29%), Gaps = 3/54 (5%)

Query: 105 KDSTATCCSICLADYRSSDMLRLLP-DCSHLFHVKCVDPWLRLHP--TCPVCRT 155
           +D     C IC  +  +               H  C+  WL +     C +C  
Sbjct: 2   EDEDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGV 55

>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 = 44.5 bits (105), Expect = 1e-07
 Identities = 16/54 (29%), Positives = 24/54 (44%), Gaps = 8/54 (14%)

Query: 112 CSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTPLSTP 165
           C  C A+ +     +LLP C H     C++        CP+C+ +P P    TP
Sbjct: 9   CQQCQAEAKC---PKLLP-CLHTLCSGCLEAS---GMQCPICQ-APWPLGADTP 54

>d1v87a_ g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 114

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]

 Score = 44.6 bits (104), Expect = 4e-07
 Identities = 12/59 (20%), Positives = 22/59 (37%), Gaps = 5/59 (8%)

Query: 102 LQKKDSTATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLR-----LHPTCPVCRT 155
           ++K    +    +  +      ++  L  CSH FH+ C+              CP C+T
Sbjct: 32  MEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKT 90

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

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]

 Score = 41.8 bits (98), Expect = 2e-06
 Identities = 17/57 (29%), Positives = 22/57 (38%), Gaps = 5/57 (8%)

Query: 111 CCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLH-PTCPVCRTSPLPTPLSTPL 166
            C IC               C HLF   C+   L++    CP CR    PT L +P+
Sbjct: 25  SCQICEHILADPVETS----CKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESPV 77

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]} Length = 94

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]

 Score = 40.1 bits (93), Expect = 1e-05
 Identities = 12/56 (21%), Positives = 22/56 (39%), Gaps = 9/56 (16%)

Query: 107 STATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHP--------TCPVCR 154
           S ++ C +CL +Y    M  +   C  +F   C+  ++ L          +CP   
Sbjct: 3   SGSSGCKLCLGEYPVEQMTTIAQ-CQCIFCTLCLKQYVELLIKEGLETAISCPDAA 57

>d1jm7a_ g.44.1.1 (A:) brca1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 103

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]

 Score = 39.3 bits (91), Expect = 2e-05
 Identities = 16/64 (25%), Positives = 26/64 (40%), Gaps = 9/64 (14%)

Query: 112 CSICLADYRSSDMLRLLPDCSHLFHVKCVDPWL---RLHPTCPVCRTSPLPTPL--STPL 166
           C ICL   +     +    C H+F   C+   L   +    CP+C+       L  ST  
Sbjct: 24  CPICLELIKEPVSTK----CDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQESTRF 79

Query: 167 AEVV 170
           +++V
Sbjct: 80  SQLV 83

>d1jm7b_ g.44.1.1 (B:) bard1 RING domain {Human (Homo sapiens) [TaxId: 9606]} Length = 97

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]

 Score = 36.7 bits (84), Expect = 2e-04
 Identities = 16/52 (30%), Positives = 18/52 (34%), Gaps = 5/52 (9%)

Query: 111 CCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTPL 162
            CS C    R       L  C H+F   CV     +   CPVC T      L
Sbjct: 24  RCSRCTNILR---EPVCLGGCEHIFCSNCVSDC--IGTGCPVCYTPAWIQDL 70

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	177
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.79
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.62
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.59
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.57
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.55
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.54
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.52
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.45
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.44
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.41
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.35
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	99.31
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.19
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.11
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.08
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.96
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.76
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	94.52
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	94.32
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	92.88
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	92.5
d1fp0a1	70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	91.23
d1wepa_	79	PHD finger protein 8 {Mouse (Mus musculus) [TaxId:	89.87
d1rutx3	31	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	88.44
d1wema_	76	Death associated transcription factor 1, Datf1 (DI	88.1
d1z60a1	59	TFIIH p44 subunit cysteine-rich domain {Human (Hom	86.58
d1y02a2	51	Rififylin (FYVE-RING finger protein Sakura) {Human	86.23
d2cs3a1	80	Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [	84.32
d1weva_	88	PHD finger protein 22 {Mouse (Mus musculus) [TaxId	82.59
d1joca1	64	Eea1 {Human (Homo sapiens) [TaxId: 9606]}	81.17

>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=99.79  E-value=2.8e-20  Score=112.50  Aligned_cols=51  Identities=43%  Similarity=1.038  Sum_probs=46.6

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPL  158 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~  158 (177)
                      +..+|+||+++|..++.++.++.|||.||..||..|++++.+||+||+++.
T Consensus         4 d~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i~   54 (55)
T d1iyma_           4 DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV   54 (55)
T ss_dssp             CSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCSC
T ss_pred             CCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEeE
Confidence            445799999999999999888679999999999999999999999999875

>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=99.62  E-value=1.3e-16  Score=100.19  Aligned_cols=49  Identities=39%  Similarity=0.909  Sum_probs=42.3

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLP  159 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~  159 (177)
                      ..++|+||++.|..  .++.++ |||.||..||..|++++.+||+||+++..
T Consensus         4 ~~d~C~IC~~~~~~--~~~~~~-C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~~   52 (68)
T d1chca_           4 VAERCPICLEDPSN--YSMALP-CLHAFCYVCITRWIRQNPTCPLCKVPVES   52 (68)
T ss_dssp             CCCCCSSCCSCCCS--CEEETT-TTEEESTTHHHHHHHHSCSTTTTCCCCCC
T ss_pred             CCCCCccCCcCccC--CcEEeC-CCCcCcHHHHHHHHHhCCcCCCCCcchHh
Confidence            34579999999864  356777 99999999999999999999999998753

>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=99.59  E-value=2.2e-16  Score=94.01  Aligned_cols=48  Identities=19%  Similarity=0.367  Sum_probs=40.1

Q ss_pred             cCccccccccCCCce-eecCCCCCcccHhhHHHHHhc-CCCCcCCCCCCCC
Q 037839          111 CCSICLADYRSSDML-RLLPDCSHLFHVKCVDPWLRL-HPTCPVCRTSPLP  159 (177)
Q Consensus       111 ~C~ICl~~f~~~~~v-~~l~~C~H~fH~~Ci~~Wl~~-~~~CP~CR~~~~~  159 (177)
                      +|+||+++|..++.+ ..++ |||.||.+|+..|++. +..||+||+++..
T Consensus         2 eCpICl~~~~~~~~~~~~~~-CgH~~c~~C~~~w~~~~~~~CP~CR~~~~~   51 (52)
T d1ur6b_           2 ECPLCMEPLEIDDINFFPCT-CGYQICRFCWHRIRTDENGLCPACRKPYPE   51 (52)
T ss_dssp             EETTTTEECCGGGTTCCSSS-SSCCCCHHHHHHHTTTSCCBCTTTCCBCSC
T ss_pred             CCcCCChhhhCCCceEEecC-CCCccchHHHHHHHhhcCCCCCccCCcCCC
Confidence            699999999877654 4455 9999999999999986 4469999998854

>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=99.57  E-value=8.4e-16  Score=101.20  Aligned_cols=53  Identities=25%  Similarity=0.537  Sum_probs=43.5

Q ss_pred             CCCcccCccccccccCCC---------------ceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCC
Q 037839          106 DSTATCCSICLADYRSSD---------------MLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLP  159 (177)
Q Consensus       106 ~~~~~~C~ICl~~f~~~~---------------~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~  159 (177)
                      +.....|+||++.+..+.               .+..++ |||+||.+||..|++.+.+||+||++..-
T Consensus        18 d~~~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~   85 (88)
T d3dplr1          18 DIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREWEF   85 (88)
T ss_dssp             SSCSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEET-TSCEEEHHHHHHHHTTCSBCSSSCSBCCE
T ss_pred             cCCCCcCEEccchhhCccccccccccccccccCCeEEcc-ccCcccHHHHHHHHHHCCcCCCCCCcccc
Confidence            345567999999886533               356677 99999999999999999999999998753

>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=99.55  E-value=2.3e-15  Score=103.55  Aligned_cols=60  Identities=27%  Similarity=0.488  Sum_probs=45.1

Q ss_pred             CcccCccccccccCC---------------CceeecCCCCCcccHhhHHHHHhcC-----CCCcCCCCCCCCCCCCCCcc
Q 037839          108 TATCCSICLADYRSS---------------DMLRLLPDCSHLFHVKCVDPWLRLH-----PTCPVCRTSPLPTPLSTPLA  167 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~---------------~~v~~l~~C~H~fH~~Ci~~Wl~~~-----~~CP~CR~~~~~~~~~~~~~  167 (177)
                      ....|+||+++|..+               ..+.+++ |||+||..||..|++.+     .+||+||+.+......+|=.
T Consensus        24 ~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~-CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~~~~~qP~~  102 (114)
T d1v87a_          24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTK-CSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEKTGTQPWG  102 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESS-SCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSCSSSCTTS
T ss_pred             ccccccchhheecccccccccccccccccccceEECC-CCChhhHHHHHHHHHhcCcCCCCccccccchhccCcCCCCCC
Confidence            345799999998642               2355666 99999999999999753     37999999887765554433


Q ss_pred             c
Q 037839          168 E  168 (177)
Q Consensus       168 ~  168 (177)
                      +
T Consensus       103 ~  103 (114)
T d1v87a_         103 K  103 (114)
T ss_dssp             S
T ss_pred             c
Confidence            3

>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=99.54  E-value=4.8e-15  Score=95.58  Aligned_cols=50  Identities=30%  Similarity=0.762  Sum_probs=41.6

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhc-CCCCcCCCCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL-HPTCPVCRTSPLPTP  161 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~-~~~CP~CR~~~~~~~  161 (177)
                      ....|+||++.+..   .+.++ |||.||..||..|+.. ++.||+||.++....
T Consensus        22 ~~~~C~IC~~~~~~---~~~~~-CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~~   72 (79)
T d1fbva4          22 TFQLCKICAENDKD---VKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKGTE   72 (79)
T ss_dssp             CTTBCTTTSSSBCC---EECSS-SCCEECHHHHHHHHHTTCCSCTTTCCCCCCCC
T ss_pred             CCCCCccCCCcCCC---eEEeC-CCCeeeHHHHHHHHHHCcCcCCCCCcCccCCc
Confidence            34569999998765   46787 9999999999999975 568999999997543

>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=99.52  E-value=4.4e-15  Score=92.24  Aligned_cols=54  Identities=22%  Similarity=0.424  Sum_probs=41.6

Q ss_pred             CcccCccccccccCC-C-ceeecCCCCCcccHhhHHHHHhc-CCCCcCCCCCCCCCCC
Q 037839          108 TATCCSICLADYRSS-D-MLRLLPDCSHLFHVKCVDPWLRL-HPTCPVCRTSPLPTPL  162 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~-~-~v~~l~~C~H~fH~~Ci~~Wl~~-~~~CP~CR~~~~~~~~  162 (177)
                      ++..|+||++.+..+ + .+..++ |||.||.+||..|+.+ +.+||+||+++....+
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~~~~   58 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGAGNCPECGTPLRKSNF   58 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECT-TCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCCC
T ss_pred             CCCCCCcCCceeecCCceEEEeCc-cChHhhHHHHHHHhCcCcCCCCCCCcCcccccc
Confidence            356799999986443 3 344556 9999999999999965 5579999999865543

>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=99.45  E-value=1e-14  Score=87.78  Aligned_cols=51  Identities=24%  Similarity=0.549  Sum_probs=41.8

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTPLSTP  165 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~~~~~~~  165 (177)
                      ....|+||++.|.++   +.++ |||.||..||..|   +.+||+||+++....-.++
T Consensus         5 ~~l~C~IC~~~~~~p---~~lp-CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~~~~a   55 (56)
T d1bora_           5 QFLRCQQCQAEAKCP---KLLP-CLHTLCSGCLEAS---GMQCPICQAPWPLGADTPA   55 (56)
T ss_dssp             CCSSCSSSCSSCBCC---SCST-TSCCSBTTTCSSS---SSSCSSCCSSSSCCSSCCC
T ss_pred             CCCCCcccCcccCCC---EEec-CCCHHhHHHHHcC---CCcCcCCCCcccCCCCCCC
Confidence            345799999999876   5677 9999999999876   5689999999987665544

>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=99.44  E-value=9.1e-15  Score=88.13  Aligned_cols=49  Identities=14%  Similarity=0.261  Sum_probs=42.0

Q ss_pred             cCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCCCCC
Q 037839          111 CCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTPL  162 (177)
Q Consensus       111 ~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~~~~  162 (177)
                      .|+||++.|+++  + .++.|||+||.+||.+|++++.+||+||+++....+
T Consensus         2 ~C~Ic~~~~~~P--v-~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~~dL   50 (56)
T d2baya1           2 LCAISGKVPRRP--V-LSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEEI   50 (56)
T ss_dssp             CCTTTCSCCSSE--E-EETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGGC
T ss_pred             CCccCCchHHhc--C-ccCCCCCcccHHHHHHHHhhccCCCccCCcCCHHhc
Confidence            599999999866  3 444599999999999999999999999999876553

>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=99.41  E-value=4.9e-14  Score=91.98  Aligned_cols=53  Identities=32%  Similarity=0.677  Sum_probs=44.3

Q ss_pred             ccCccccccccCCCceeecCCCCCcccHhhHHHHHhc-CCCCcCCCCCCCCCCCCCCc
Q 037839          110 TCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL-HPTCPVCRTSPLPTPLSTPL  166 (177)
Q Consensus       110 ~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~-~~~CP~CR~~~~~~~~~~~~  166 (177)
                      ..|+||++.|.++   ..++ |||.||..||..|++. +..||+||.++.+..+.+|.
T Consensus        24 l~C~IC~~~~~~p---v~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~~l~~P~   77 (86)
T d1rmda2          24 ISCQICEHILADP---VETS-CKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESPV   77 (86)
T ss_dssp             TBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCBCCC
T ss_pred             cCCccCCcchhcc---eecC-CCChhhHHHHHHHHhhCCCcCcccCCCCChhhccCHH
Confidence            4699999998765   5677 9999999999999975 46899999999877666554

>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=99.35  E-value=3.1e-13  Score=91.08  Aligned_cols=49  Identities=27%  Similarity=0.596  Sum_probs=41.1

Q ss_pred             ccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCC---CCcCCCCCCCCCCC
Q 037839          110 TCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHP---TCPVCRTSPLPTPL  162 (177)
Q Consensus       110 ~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~---~CP~CR~~~~~~~~  162 (177)
                      ..|+||++.|.++   ..++ |||.||..||..|+....   .||+||.++....+
T Consensus        22 l~CpIC~~~~~~p---v~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~l   73 (103)
T d1jm7a_          22 LECPICLELIKEP---VSTK-CDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSL   73 (103)
T ss_dssp             TSCSSSCCCCSSC---CBCT-TSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTC
T ss_pred             cCCCccCchhCCe---EEcC-CCCchhhHHHHHHHHHCCCCCcCcCCCCcCChhhC
Confidence            4699999999876   4567 999999999999997643   79999999876553

>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=99.31  E-value=6e-13  Score=81.05  Aligned_cols=52  Identities=17%  Similarity=0.420  Sum_probs=38.5

Q ss_pred             CCcccCccccccccCCCce--eecCCCCCcccHhhHHHHHh--cCCCCcCCCCCCCC
Q 037839          107 STATCCSICLADYRSSDML--RLLPDCSHLFHVKCVDPWLR--LHPTCPVCRTSPLP  159 (177)
Q Consensus       107 ~~~~~C~ICl~~f~~~~~v--~~l~~C~H~fH~~Ci~~Wl~--~~~~CP~CR~~~~~  159 (177)
                      .+...|.||++++..+...  ... .|+|.||..|+..|+.  .+.+||+||+++..
T Consensus         4 ed~~~C~IC~~~~~~~~~~~c~c~-~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~~   59 (60)
T d1vyxa_           4 EDVPVCWICNEELGNERFRACGCT-GELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             CSCCEETTTTEECSCCCCCSCCCS-SGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCCCCccCCccCCCceeEecccC-CCCCEEcHHHHHHHHhhCCCCCCcccCCeeec
Confidence            3566799999998755322  112 2569999999999995  35689999998753

>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=99.19  E-value=2.5e-12  Score=85.62  Aligned_cols=49  Identities=33%  Similarity=0.623  Sum_probs=39.6

Q ss_pred             cccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCCCCC
Q 037839          109 ATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTPL  162 (177)
Q Consensus       109 ~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~~~~  162 (177)
                      ...|+||++.|..+  +...+ |||.||..||..|+.  ..||.||.++....+
T Consensus        22 ~l~C~IC~~~~~~p--v~~~~-CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~~~l   70 (97)
T d1jm7b_          22 LLRCSRCTNILREP--VCLGG-CEHIFCSNCVSDCIG--TGCPVCYTPAWIQDL   70 (97)
T ss_dssp             TTSCSSSCSCCSSC--BCCCS-SSCCBCTTTGGGGTT--TBCSSSCCBCSCSSC
T ss_pred             cCCCccCCchhhcC--ceeCC-CCCchhHHHHHHHHh--ccccccCCcCchhhC
Confidence            34699999999876  33345 999999999999985  459999998876544

>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=99.11  E-value=2.7e-11  Score=77.66  Aligned_cols=50  Identities=18%  Similarity=0.235  Sum_probs=42.0

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhc-CCCCcCCCCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL-HPTCPVCRTSPLPTP  161 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~-~~~CP~CR~~~~~~~  161 (177)
                      +...|+||++-|.++   ..++ |||.|+..||..|+.+ +..||.||.++....
T Consensus         6 ~~l~CpIc~~l~~dP---v~~~-cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~~~   56 (80)
T d2c2la2           6 DYLCGKISFELMREP---CITP-SGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQ   56 (80)
T ss_dssp             STTBCTTTCSBCSSE---EECS-SCCEEETTHHHHHHHHTCSSCTTTCCCCCGGG
T ss_pred             ccccCcCcCchhhhh---cccC-CcCeecHHHHHHHHhcCCccCCCccccccccc
Confidence            566799999999887   4677 9999999999999975 557999999876543

>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=99.08  E-value=4.2e-11  Score=76.39  Aligned_cols=50  Identities=18%  Similarity=0.400  Sum_probs=42.4

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcC-CCCcCCCCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLH-PTCPVCRTSPLPTP  161 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~-~~CP~CR~~~~~~~  161 (177)
                      +...|+||++-|.++   ..++ |||.|+..||..|+..+ ..||.|+.++....
T Consensus         7 ~~l~CpIc~~~m~dP---V~~~-cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~~   57 (78)
T d1t1ha_           7 EYFRCPISLELMKDP---VIVS-TGQTYERSSIQKWLDAGHKTCPKSQETLLHAG   57 (78)
T ss_dssp             SSSSCTTTSCCCSSE---EEET-TTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCC
T ss_pred             ccCCCcCcCchhhCc---eEcc-CCCcchHHHHHHHHHHCCCCCCcccccCCccc
Confidence            456799999999877   4667 99999999999999764 57999999987654

>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=98.96  E-value=2.6e-10  Score=75.76  Aligned_cols=52  Identities=13%  Similarity=0.038  Sum_probs=43.9

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCCCCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCRTSPLPTPL  162 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR~~~~~~~~  162 (177)
                      +...|+||++-|.++   .+++.|||.|+..||..|+..+..||+||.++....+
T Consensus        21 ~~f~CPI~~~lm~dP---V~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~~~L   72 (98)
T d1wgma_          21 DEFLDPIMSTLMCDP---VVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMDQI   72 (98)
T ss_dssp             TTTBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTTTS
T ss_pred             HHhCCcCchhHHHHH---HhcccccchhhHHHHHHHHHhcCCcccccccccchhh
Confidence            467899999999987   5676455689999999999999999999999876553

>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=98.76  E-value=1.5e-09  Score=71.24  Aligned_cols=47  Identities=23%  Similarity=0.689  Sum_probs=37.6

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhcC--------CCCcCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLH--------PTCPVCRT  155 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~--------~~CP~CR~  155 (177)
                      ...+|+||++++...+.+..++ |+|.||.+|+..|++.+        -.||.|+.
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~-C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C   58 (94)
T d1wima_           4 GSSGCKLCLGEYPVEQMTTIAQ-CQCIFCTLCLKQYVELLIKEGLETAISCPDAAC   58 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETT-TTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTC
T ss_pred             CCCcCccCCCcccCCceEEECC-CCCEeCCcCHHHHHHHHHhcCCccccCCcCCCC
Confidence            4567999999998777676676 99999999999999531        15998654

>d1f62a_ g.50.1.2 (A:) Williams-Beuren syndrome transcription factor, WSTF {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Williams-Beuren syndrome transcription factor, WSTF
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.52  E-value=0.0074  Score=33.71  Aligned_cols=44  Identities=25%  Similarity=0.690  Sum_probs=30.4

Q ss_pred             cCccccccccCCCceeecCCCCCcccHhhHHHHHhc----CCCCcCCCC
Q 037839          111 CCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL----HPTCPVCRT  155 (177)
Q Consensus       111 ~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~----~~~CP~CR~  155 (177)
                      .|.||-..-..++.+. -..|...||..|+..-+..    ...||.||.
T Consensus         2 ~C~vC~~~~~~~~~i~-Cd~C~~~~H~~C~~p~~~~~p~~~W~C~~C~~   49 (51)
T d1f62a_           2 RCKVCRKKGEDDKLIL-CDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCCSCCEE-CTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCcCcCCCCCCCCEEE-cCCCCCCCCCCCCCCCCCcCCCCCEECcCCcC
Confidence            4888876644444443 3359999999999876533    346999975

>d1we9a_ g.50.1.2 (A:) PHD finger protein At5g26210 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein At5g26210
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=94.32  E-value=0.0047  Score=36.31  Aligned_cols=52  Identities=25%  Similarity=0.519  Sum_probs=35.3

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHH---Hh--cCCCCcCCCCCCCC
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPW---LR--LHPTCPVCRTSPLP  159 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~W---l~--~~~~CP~CR~~~~~  159 (177)
                      ....|.+|......++..+.-..|+..||..|+..-   ..  .+..||.|+..-.|
T Consensus         5 ~~~~C~~C~~~~~~~~~~I~Cd~C~~w~H~~C~~~~~~~~~~~~~w~C~~C~~~~~p   61 (64)
T d1we9a_           5 SSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNKSGP   61 (64)
T ss_dssp             SCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTTTCS
T ss_pred             CCCcCcCcCCCCCCCCCEEEcCCCCccCCcccCCcChHHCCCCCeEECcCCcCcCCC
Confidence            345799999887666553334459999999998531   11  24589999865433

>d1wila_ g.50.1.3 (A:) Hypothetical protein KIAA1045 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: variant PHD-like domain
domain: Hypothetical protein KIAA1045
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.88  E-value=0.037  Score=33.93  Aligned_cols=34  Identities=18%  Similarity=0.602  Sum_probs=24.4

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHH
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPW  143 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~W  143 (177)
                      .+..|.|| +.|...+..-.. .|+.+||..|+.+.
T Consensus        14 ~D~mC~vC-~v~t~~~l~pCR-vCtRv~H~~CL~r~   47 (89)
T d1wila_          14 NDEMCDVC-EVWTAESLFPCR-VCTRVFHDGCLRRM   47 (89)
T ss_dssp             CSCCCTTT-CCCCSSCCSSCS-SSSSCCCHHHHHHH
T ss_pred             cCcccccc-Ccccccceecce-eecchhhHHHHHHh
Confidence            34569999 666655433222 38999999999986

>d1mm2a_ g.50.1.2 (A:) Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Mi2-beta (CHD4)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.50  E-value=0.015  Score=33.76  Aligned_cols=45  Identities=24%  Similarity=0.665  Sum_probs=30.9

Q ss_pred             cccCccccccccCCCceeecCCCCCcccHhhHHHHHhc----CCCCcCCCCCC
Q 037839          109 ATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL----HPTCPVCRTSP  157 (177)
Q Consensus       109 ~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~----~~~CP~CR~~~  157 (177)
                      ...|.+|.+.   ++.+.-- .|.-.||..|+...+..    ...||.|+...
T Consensus         9 ~~~C~~C~~~---g~lv~Cd-~C~~~~H~~C~~~~~~~~~~~~W~C~~C~~~~   57 (61)
T d1mm2a_           9 MEFCRVCKDG---GELLCCD-TCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPA   57 (61)
T ss_dssp             CSSCTTTCCC---SSCBCCS-SSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTC
T ss_pred             cCCCcCCCCC---CeEEEeC-CCCccCchhhcCCCcCcCCCCcEECCCCcCcc
Confidence            3469999754   4444333 49999999998765432    44799997654

>d1fp0a1 g.50.1.2 (A:19-88) Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Nuclear corepressor KAP-1 (TIF-1beta)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.23  E-value=0.069  Score=31.62  Aligned_cols=45  Identities=31%  Similarity=0.711  Sum_probs=30.5

Q ss_pred             cccCccccccccCCCceeecCCCCCcccHhhHHHHHhc----CCCCcCCCCCC
Q 037839          109 ATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL----HPTCPVCRTSP  157 (177)
Q Consensus       109 ~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~----~~~CP~CR~~~  157 (177)
                      ...|.+|.+.   ++.+.-- .|...||..|+...+..    ...||.|+..-
T Consensus         7 c~~C~~C~~~---~~ll~Cd-~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~   55 (70)
T d1fp0a1           7 ATICRVCQKP---GDLVMCN-QCEFCFHLDCHLPALQDVPGEEWSCSLCHVLP   55 (70)
T ss_dssp             SSCCSSSCSS---SCCEECT-TSSCEECTTSSSTTCCCCCSSSCCCCSCCCCC
T ss_pred             CCCCCCCCCc---CEEEECC-CCChhhccccCCCCcCcCCCCCEECcCCcCcC
Confidence            3457777543   5544444 49999999999876633    34799997544

>d1wepa_ g.50.1.2 (A:) PHD finger protein 8 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein 8
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=89.87  E-value=0.47  Score=28.41  Aligned_cols=49  Identities=24%  Similarity=0.466  Sum_probs=31.4

Q ss_pred             ccCccccccccCCCceeecCCCCCcccHhhHH--HH-Hh--cCCCCcCCCCCCCC
Q 037839          110 TCCSICLADYRSSDMLRLLPDCSHLFHVKCVD--PW-LR--LHPTCPVCRTSPLP  159 (177)
Q Consensus       110 ~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~--~W-l~--~~~~CP~CR~~~~~  159 (177)
                      ..| ||...+...+..+.--.|.-.||..|+.  .. ..  .+..||.|+....+
T Consensus        13 v~C-iC~~~~~~~~~mI~Cd~C~~W~H~~C~g~~~~~~~~~~~~~C~~C~~~~gp   66 (79)
T d1wepa_          13 VYC-LCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVFGP   66 (79)
T ss_dssp             CCS-TTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTTSCS
T ss_pred             eEe-ECCCccCCCCcEEECCCCCCcEeccccCcchhcCCCCCEEECccCcCCcCC
Confidence            346 8987765444333333599999999984  21 22  24689999876544

>d1rutx3 g.39.1.3 (X:83-113) LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: LIM only 4 (Lmo4)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=88.44  E-value=0.092  Score=25.99  Aligned_cols=28  Identities=25%  Similarity=0.636  Sum_probs=23.8

Q ss_pred             cCccccccccCCCceeecCCCCCcccHhhH
Q 037839          111 CCSICLADYRSSDMLRLLPDCSHLFHVKCV  140 (177)
Q Consensus       111 ~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci  140 (177)
                      .|+-|...+...|.|+.-  =+++||..|+
T Consensus         4 ~Ca~C~~~I~~~e~VmRA--~~~VyHl~CF   31 (31)
T d1rutx3           4 ACSACGQSIPASELVMRA--QGNVYHLKCF   31 (31)
T ss_dssp             ECTTTCCEECTTSEEEEE--TTEEECGGGC
T ss_pred             ccccccCcCChhHhheec--ccceeeeccC
Confidence            599999999988888776  4899999984

>d1wema_ g.50.1.2 (A:) Death associated transcription factor 1, Datf1 (DIO-1) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Death associated transcription factor 1, Datf1 (DIO-1)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=88.10  E-value=0.14  Score=30.39  Aligned_cols=49  Identities=29%  Similarity=0.490  Sum_probs=30.7

Q ss_pred             cccCccccccccCCCceeecCCCCCcccHhhHH------HH---HhcCCCCcCCCCCCCC
Q 037839          109 ATCCSICLADYRSSDMLRLLPDCSHLFHVKCVD------PW---LRLHPTCPVCRTSPLP  159 (177)
Q Consensus       109 ~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~------~W---l~~~~~CP~CR~~~~~  159 (177)
                      ...| ||-.....+..|.-- .|.-.||..|+.      ..   ......||.|+..-.|
T Consensus        16 ~~~C-iC~~~~~~~~mi~Cd-~C~~w~H~~Cvg~~~~~~~~~~~~~~~w~C~~C~~~~~p   73 (76)
T d1wema_          16 ALYC-ICRQPHNNRFMICCD-RCEEWFHGDCVGISEARGRLLERNGEDYICPNCTILSGP   73 (76)
T ss_dssp             CCCS-TTCCCCCSSCEEECS-SSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHHHSCS
T ss_pred             cCEE-ECCCccCCCeEEEEC-CCCCcCCccccCCCcccccccCCCCCcEECCCCcCcCCC
Confidence            3457 787665544444444 489999999982      11   1235789999655433

>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=86.58  E-value=0.094  Score=29.98  Aligned_cols=44  Identities=20%  Similarity=0.477  Sum_probs=30.9

Q ss_pred             cccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCC
Q 037839          109 ATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVC  153 (177)
Q Consensus       109 ~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~C  153 (177)
                      ...|--|...+.. ..+..-+.|+++|+.+|=.---..-.+||-|
T Consensus        15 ~~~C~gC~~~l~~-~~~y~C~~C~~~FC~dCD~fiHe~lh~CpgC   58 (59)
T d1z60a1          15 ERFCYGCQGELKD-QHVYVCAVCQNVFCVDCDVFVHDSLHSCPGC   58 (59)
T ss_dssp             CCEETTTTEECTT-SEEECCTTTTCCBCHHHHHTTTTTSCSSSTT
T ss_pred             CCCccCCCCcCCC-CceEECcCCCCccccccchhhhhhhcCCCCC
Confidence            4569999988864 3445566799999999953322344579987

>d1y02a2 g.50.1.1 (A:20-70) Rififylin (FYVE-RING finger protein Sakura) {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: Rififylin (FYVE-RING finger protein Sakura)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.23  E-value=0.032  Score=31.17  Aligned_cols=44  Identities=20%  Similarity=0.461  Sum_probs=27.1

Q ss_pred             cCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCcCCC
Q 037839          111 CCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRLHPTCPVCR  154 (177)
Q Consensus       111 ~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~~~~CP~CR  154 (177)
                      .|.+|-..|..-..-..-..||++|+..|....-.....|..|.
T Consensus         2 ~C~~C~~~F~~~~rkhhCr~CG~~fC~~Cs~~~~~~~RvC~~C~   45 (51)
T d1y02a2           2 SCKSCGAHFANTARKQTCLDCKKNFCMTCSSQVGNGPRLCLLCQ   45 (51)
T ss_dssp             CCTTTCCCCSSGGGCEECTTTCCEECGGGEEC----CCEEHHHH
T ss_pred             CccccCCcccCCccCcccccCCcccCccccCCCCCCCeECHhHh
Confidence            48888888875443223335999999999765444445566653

>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=84.32  E-value=0.99  Score=26.49  Aligned_cols=39  Identities=21%  Similarity=0.479  Sum_probs=29.5

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHHHHhc
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDPWLRL  146 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~Wl~~  146 (177)
                      ....|.+|.+.+++.--|..-..=+|-||-.|-...+++
T Consensus         7 ~~l~CtlC~erLEdtHFVQCPsv~~HkFCFpCsr~sik~   45 (80)
T d2cs3a1           7 GPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIKA   45 (80)
T ss_dssp             CSCCCSSSCSCCSSTTSEECSSCSSCEECHHHHHHHHHH
T ss_pred             CceeeeeehhhhcCCceEeCCCCcCCceeccccHHHHHh
Confidence            345799999999877666433234799999999998865

>d1weva_ g.50.1.2 (A:) PHD finger protein 22 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD finger protein 22
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=82.59  E-value=0.25  Score=30.24  Aligned_cols=47  Identities=21%  Similarity=0.495  Sum_probs=30.2

Q ss_pred             ccCccccccccC-CCceeecCCCCCcccHhhHHHHH-----hc---CCCCcCCCCC
Q 037839          110 TCCSICLADYRS-SDMLRLLPDCSHLFHVKCVDPWL-----RL---HPTCPVCRTS  156 (177)
Q Consensus       110 ~~C~ICl~~f~~-~~~v~~l~~C~H~fH~~Ci~~Wl-----~~---~~~CP~CR~~  156 (177)
                      ..|.||...... +..+..-..|+..||..|+...+     ..   ...||.|...
T Consensus        17 ~~C~iC~~~~~~~~~~~v~Cd~C~~~~H~~C~~p~~~~~~~~~~~~~W~C~~C~~~   72 (88)
T d1weva_          17 LACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTRQ   72 (88)
T ss_dssp             CSCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHHHH
T ss_pred             CCccCCCCccCCCCCeEEEcCCCCCccccccCCCcccccccccCCCeEECcccCch
Confidence            359999865432 23344344599999999976322     21   4579999653

>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=81.17  E-value=0.53  Score=27.01  Aligned_cols=35  Identities=14%  Similarity=0.407  Sum_probs=24.3

Q ss_pred             CcccCccccccccCCCceeecCCCCCcccHhhHHH
Q 037839          108 TATCCSICLADYRSSDMLRLLPDCSHLFHVKCVDP  142 (177)
Q Consensus       108 ~~~~C~ICl~~f~~~~~v~~l~~C~H~fH~~Ci~~  142 (177)
                      +...|.+|-..|..-..--.-..||++|+..|...
T Consensus         7 ~~~~C~~C~~~F~~~~rrHHCR~CG~v~C~~Cs~~   41 (64)
T d1joca1           7 EVQNCMACGKGFSVTVRRHHCRQCGNIFCAECSAK   41 (64)
T ss_dssp             GCCBCTTTCCBCCSSSCCEECTTTCCEECGGGSCE
T ss_pred             cCCcCcCcCCcccCCccccchhhhCCeecccccCC
Confidence            34579999999975432222235999999999644