Citrus Sinensis ID: 043554

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190--
Protein Sequence
MHRRLLETELSVSPPTASGNRTHDSFVNEANFDTNMVIILAALLCALICALGLNSIVRCALRCSHRLAIETPEQAAARLAVTGLKKRDLRRIPVAVYGEGVDIPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNERSTASSSAAEEPAGAPAPGNDATEQTTVVVVSSC
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHccccccHHHHHcccEEEEccccccccccccEEccccccccccccccccccccccccHHHHHccccccccccccccccccccccccccccccccccccccccccccEEEEEccc
Secondary Structure Prediction (SSPRO)
cccEEccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccHHHHccccHHHHHHccEEEEcccccccccccEEEEcccccccEEEEcccccccccHHHHHHHHHccccccHHHHHccccccccccccccccccccccccccccccccccEEcccc
Coil and Loop (DISEMBL)
MHRRLLETelsvspptasgnrthdsfvneanfdTNMVIILAALLCALICALGLNSIVRCALRCSHRLAIETPEQAAARLAVTGlkkrdlrripvavygegvdipatecpiclgefvdgekvrvlpkcnhgfhvrcIDTWllshsscpncrhsllnnnerstasssaaeepagapapgndateqTTVVVVSSC
Flexible Loop (DISEMBL)
mhrrlletelsvspptasgnrthDSFVNEANFDTNMVIILAALLCALICALGLNSIVRCALRCSHRLAIETPEQAAARLAvtglkkrdlrripvavygegvdipatECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNERSTASSSAAEepagapapgndateqTTVVVVSSC
Low Complexity Region (SEG)
MHRRLLETELSVSPPTASGNRTHDSFVNEANFDTNMViilaallcalicalGLNSIVRCALRCSHRLAIETPEQAAARLAVTGLKKRDLRRIPVAVYGEGVDIPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNERSTasssaaeepagapapgNDATEQTTVVVVSSC
Disordered region (IsUnstruct)
*************************FVNEANFDTNMVIILAALLCALICALGLNSIVRCALRCSHRLAIETPEQAAARLAVTGLKKRDLRRIPVAVYGEGVDIPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCR******************************************
Disordered Region (DISOPRED)
*HRRL**************************FDTNMVIILAALLCALICALGLNSIVRCALR**************************LRRIPVAVYGEGVDIPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHS*********************************VVVVSSC
Disordered Region (DISEMBL)
********************RTHDSFVNEANFDTNMVIILAALLCALICALGLNSIVRCALRCSHRLAIETPEQAAARLAVTGLKKRDLRRIPVAVYGEGVDIPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNN********************NDATEQTTVVVVSSC
Disordered Region (DISPRO)
*****************************ANFDTNMVIILAALLCALICALGLNSIVRCALRCSH****************TGLKKRDLRRIPVAVYGEGVDIPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNN************************************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MHRRLLETELSVSPPTASGNRTHDSFVNEANFDTNMVIILAALLCALICALGLNSIVRCALRCSHRLAIETPEQAAARLAVTGLKKRDLRRIPVAVYGEGVDIPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNERSTASSSAAEEPAGAPAPGNDATEQTTVVVVSSC
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	192	2.2.26 [Sep-21-2011]
Q9SG96	181	RING-H2 finger protein AT	yes	no	0.864	0.917	0.561	3e-45
Q9FLC6	176	RING-H2 finger protein AT	no	no	0.843	0.920	0.562	5e-43
Q9LZV8	159	RING-H2 finger protein AT	no	no	0.781	0.943	0.619	4e-38
Q6NQG7	219	RING-H2 finger protein AT	no	no	0.755	0.662	0.493	4e-36
Q6NML0	225	E3 ubiquitin-protein liga	no	no	0.765	0.653	0.434	2e-32
P0C034	251	RING-H2 finger protein AT	no	no	0.848	0.649	0.406	2e-31
Q9LS99	220	RING-H2 finger protein AT	no	no	0.776	0.677	0.397	2e-30
Q94BY6	226	RING-H2 finger protein AT	no	no	0.765	0.650	0.407	3e-30
Q8LC69	185	RING-H2 finger protein AT	no	no	0.718	0.745	0.445	3e-25
O22755	185	RING-H2 finger protein AT	no	no	0.598	0.621	0.441	4e-24

>sp|Q9SG96|ATL72_ARATH RING-H2 finger protein ATL72 OS=Arabidopsis thaliana GN=ATL72 PE=2 SV=1

 Score =  181 bits (458), Expect = 3e-45,   Method: Compositional matrix adjust.
 Identities = 100/178 (56%), Positives = 116/178 (65%), Gaps = 12/178 (6%)

Query: 1   MHRRLLETELSVSPPTASGNRTHDSFVNEANFDTNMVIILAALLCALICALGLNSIVRCA 60
           M R LLE + +     A+ N      +N+  FDTNMVIILAALLCALICAL LNS +RC 
Sbjct: 1   MGRLLLEPQANAP---ANANPKPKGGINDTYFDTNMVIILAALLCALICALSLNSALRCV 57

Query: 61  LRCSHRLA----IETPEQAAARL----AVTGLKKRDLRRIPVAVYGEGV-DIPATECPIC 111
           LR + R      +     A A L    A TGLKK+ L++IPV +YG G+ D+ ATEC IC
Sbjct: 58  LRITRRFTSDDQVSNASNANANLGRLAAATGLKKQALKQIPVGLYGSGIIDMKATECLIC 117

Query: 112 LGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNERSTASSSAAEE 169
           LG+F DGEKVRVLPKCNHGFHVRCIDTWLLS SSCP CR SLL       A S   E+
Sbjct: 118 LGDFEDGEKVRVLPKCNHGFHVRCIDTWLLSRSSCPTCRQSLLLEQPSPMAVSRRDED 175

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FLC6|ATL73_ARATH RING-H2 finger protein ATL73 OS=Arabidopsis thaliana GN=ATL73 PE=2 SV=1

 Score =  174 bits (440), Expect = 5e-43,   Method: Compositional matrix adjust.
 Identities = 95/169 (56%), Positives = 114/169 (67%), Gaps = 7/169 (4%)

Query: 1   MHRRLLETELS--VSPPTASGNRTHDSFVNEAN---FDTNMVIILAALLCALICALGLNS 55
           M R LL T+ +  +S   A+     DS  N  N    DT+MVIILAALLCALICALG+NS
Sbjct: 1   MARFLLATQATPTISATDANPRTLGDSVSNNKNIASMDTHMVIILAALLCALICALGINS 60

Query: 56  IVRCALRCSHRLAI-ETPEQAAARLAVTGLKKRDLRRIPVAVYGEGVDIPATECPICLGE 114
           ++RC LRC+ R    E P    A +A  G+KKR L+ IPV  Y   + + ATEC ICLG+
Sbjct: 61  VLRCVLRCTRRFTPNEDPVDTNANVA-KGIKKRALKVIPVDSYSPELKMKATECLICLGD 119

Query: 115 FVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNERSTAS 163
           FV+GE VRVLPKCNHGFHV+CIDTWLLSHSSCP CR SLL +   +  S
Sbjct: 120 FVEGETVRVLPKCNHGFHVKCIDTWLLSHSSCPTCRQSLLEHQTPANGS 168

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LZV8|ATL74_ARATH RING-H2 finger protein ATL74 OS=Arabidopsis thaliana GN=ATL74 PE=2 SV=1

 Score =  157 bits (397), Expect = 4e-38,   Method: Compositional matrix adjust.
 Identities = 96/155 (61%), Positives = 111/155 (71%), Gaps = 5/155 (3%)

Query: 1   MHRRLLETELSVSPPTASGNRTHDSFVNEANFDTNMVIILAALLCALICALGLNSIVRCA 60
           MHR LLE+    +  + SG    D +  + NFD NMVIILAALLCALI ALGLNSI+RCA
Sbjct: 1   MHRLLLESHGGGNETSGSGGG--DGYTRDMNFDANMVIILAALLCALILALGLNSILRCA 58

Query: 61  LRCSHRLAIETPEQAAARLAVTGLKKRDLRRIPVAVYGEG-VDIPATECPICLGEFVDGE 119
           +RC   L+        A  A  GLKKR+L++ PVA YG G V I ATEC ICLGEF DGE
Sbjct: 59  MRCGFGLSSSAAAGTVADRA--GLKKRELKKFPVAEYGSGEVKIAATECAICLGEFADGE 116

Query: 120 KVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLL 154
           +VRVLP CNH FH+ CIDTWL+SHSSCPNCRHSL+
Sbjct: 117 RVRVLPPCNHSFHMSCIDTWLVSHSSCPNCRHSLI 151

Arabidopsis thaliana (taxid: 3702)

>sp|Q6NQG7|ATL78_ARATH RING-H2 finger protein ATL78 OS=Arabidopsis thaliana GN=ATL78 PE=2 SV=1

 Score =  150 bits (380), Expect = 4e-36,   Method: Compositional matrix adjust.
 Identities = 75/152 (49%), Positives = 102/152 (67%), Gaps = 7/152 (4%)

Query: 26  FVNEANFDTNMVIILAALLCALICALGLNSIVRCALRCSHRLAIETP-EQAAARLAVTGL 84
           +V + NFD N+V++L+ LLCAL+C+LGLNSI+RCALRCS+ +  E   +    RL  TG+
Sbjct: 46  YVGDNNFDANVVMVLSVLLCALVCSLGLNSIIRCALRCSNLVPSEAGGDNYPVRLTNTGV 105

Query: 85  KKRDLRRIPVAVYGEGVDIPA--TECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS 142
           K++ L+      Y   +++P   TEC ICL EFV  E+V++LP C+HGFHVRCID WL S
Sbjct: 106 KRKALKSFQTVSYSTELNLPGLDTECAICLSEFVAEERVKLLPTCHHGFHVRCIDKWLSS 165

Query: 143 HSSCPNCRHSLLNNNER----STASSSAAEEP 170
           HSSCP CRH L+   E+    S  SS  + +P
Sbjct: 166 HSSCPTCRHCLIQTCEKIADCSQTSSLNSTQP 197

Arabidopsis thaliana (taxid: 3702)

>sp|Q6NML0|ATL76_ARATH E3 ubiquitin-protein ligase ATL76 OS=Arabidopsis thaliana GN=ATL76 PE=1 SV=1

 Score =  138 bits (348), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 66/152 (43%), Positives = 92/152 (60%), Gaps = 5/152 (3%)

Query: 28  NEANFDTNMVIILAALLCALICALGLNSIVRCALRCSHRLAIETPEQAAARLAV---TGL 84
           +E N   N++++L+ L+C +IC LGL+ I+RCA R S R  I  P  + +        G+
Sbjct: 50  HENNLKGNVLMLLSVLICGIICCLGLHYIIRCAFRRSSRFMISEPISSLSTPRSSSNKGI 109

Query: 85  KKRDLRRIPVAVYGEGVDIPAT--ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS 142
           KK+ LR  PV  Y   +++P    EC ICL +FV GE++R+LPKCNHGFHVRCID WL  
Sbjct: 110 KKKALRMFPVVSYSREMNLPGIGEECVICLSDFVSGEQLRLLPKCNHGFHVRCIDKWLQH 169

Query: 143 HSSCPNCRHSLLNNNERSTASSSAAEEPAGAP 174
           H +CP CRH L+   ++     S A+  A  P
Sbjct: 170 HLTCPKCRHCLVETCQKILGDFSQADSMASTP 201

E3 ubiquitin-protein ligase able to catalyze polyubiquitination with ubiquitin-conjugating enzyme E2 UBC8 in vitro.

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|P0C034|ATL10_ARATH RING-H2 finger protein ATL10 OS=Arabidopsis thaliana GN=ATL10 PE=2 SV=1

 Score =  135 bits (339), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 70/172 (40%), Positives = 101/172 (58%), Gaps = 9/172 (5%)

Query: 28  NEANFDTNMVIILAALLCALICALGLNSIVRCALRCSHRLAIETPEQAAARL---AVTGL 84
           +E N   N++++L+ L+C +IC LGL+ I+RCALR S R  I  P  + +     +  G+
Sbjct: 50  HENNLSGNVMMLLSILICGIICCLGLHYIIRCALRRSTRFMISEPVPSLSSTRGSSNKGI 109

Query: 85  KKRDLRRIPVAVYGEGVDIPAT--ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS 142
           KK+ LR  PV  Y   +++P    EC ICL +FV GE++R+LPKCNHGFHVRCID WL  
Sbjct: 110 KKKALRMFPVVSYSPEMNLPGLDEECVICLSDFVSGEQLRLLPKCNHGFHVRCIDKWLQQ 169

Query: 143 HSSCPNCRHSLLNNNERSTASSSAAEEPAGAPAPGNDAT----EQTTVVVVS 190
           H +CP CR+ L+   ++     S A+     P      T    E T +V+V+
Sbjct: 170 HLTCPKCRNCLVETCQKILGDFSQADSVTAEPTEIVIVTIVPLEPTEIVIVT 221

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LS99|ATL77_ARATH RING-H2 finger protein ATL77 OS=Arabidopsis thaliana GN=ATL77 PE=2 SV=1

 Score =  132 bits (331), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 64/161 (39%), Positives = 96/161 (59%), Gaps = 12/161 (7%)

Query: 28  NEANFDTNMVIILAALLCALICALGLNSIVRCALRCSHRLAIE-------TPEQAAARLA 80
           ++ N   N++++L+ LLC +IC+LGL+ I+RCA   S    I        TP  ++    
Sbjct: 44  DKNNLSGNVLMLLSILLCGIICSLGLHYIIRCAFIRSRSFMISDPISIPSTPRDSSVN-- 101

Query: 81  VTGLKKRDLRRIPVAVYGEGVDIPAT--ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDT 138
             G+KK+ L+ +PV  Y   +++P    EC ICL +FV GE++RVLPKCNHGFH+RCID 
Sbjct: 102 -KGIKKKALKMLPVVNYSPEINLPGVGEECVICLSDFVAGEQLRVLPKCNHGFHLRCIDK 160

Query: 139 WLLSHSSCPNCRHSLLNNNERSTASSSAAEEPAGAPAPGND 179
           WL  H +CP CRH L++  ++  +   AA++ A       D
Sbjct: 161 WLTQHMTCPKCRHCLVDTCQKVLSDCDAADQVAATATESID 201

Arabidopsis thaliana (taxid: 3702)

>sp|Q94BY6|ATL75_ARATH RING-H2 finger protein ATL75 OS=Arabidopsis thaliana GN=ATL75 PE=2 SV=1

 Score =  131 bits (330), Expect = 3e-30,   Method: Compositional matrix adjust.
 Identities = 62/152 (40%), Positives = 91/152 (59%), Gaps = 5/152 (3%)

Query: 28  NEANFDTNMVIILAALLCALICALGLNSIVRCALRCSHRLAIETPEQAAAR---LAVTGL 84
           +E N   N++++L+ L+C +IC LGL+ I+RCA R +    I  P    +     +  G+
Sbjct: 51  HENNLSGNVLMLLSVLICGIICCLGLHYIIRCAFRRTSSFMISEPIAGLSTPCGSSNKGI 110

Query: 85  KKRDLRRIPVAVYGEGVDIPAT--ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS 142
            K+ LR  PV  Y   +++P    EC ICL +FV GE++R+LPKC+HGFHVRCID WL  
Sbjct: 111 NKKALRMFPVVSYSPEMNLPGLGEECVICLSDFVSGEQIRMLPKCHHGFHVRCIDKWLQQ 170

Query: 143 HSSCPNCRHSLLNNNERSTASSSAAEEPAGAP 174
           H +CP CRH L+   ++     S A++ A  P
Sbjct: 171 HLTCPKCRHCLVETCQKILGDFSQADQVAATP 202

Arabidopsis thaliana (taxid: 3702)

>sp|Q8LC69|ATL8_ARATH RING-H2 finger protein ATL8 OS=Arabidopsis thaliana GN=ATL8 PE=2 SV=2

 Score =  114 bits (286), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 70/157 (44%), Positives = 89/157 (56%), Gaps = 19/157 (12%)

Query: 4   RLLETELSVSPPTASGNRTHDSFVNEANFDTNMVIILAALLCALICALGLNSIVRCAL-- 61
           RLL+   S SP  AS             F++++V+ILA LLCAL C +GL ++ RCA   
Sbjct: 7   RLLQEANSTSPAEAS-----------PPFNSDLVLILAVLLCALTCIIGLIAVSRCAWLR 55

Query: 62  RCSHRLAIETPEQAAARLAVTGLKKRDLRRIPVAVYGEGVDIPA----TECPICLGEFVD 117
           R + R   +         A  GLKK+ LR +P   Y    D P      EC ICL EF  
Sbjct: 56  RIASRNRSDQTHPPPVAAANKGLKKKVLRSLPKLTYSP--DSPPAEKLVECAICLTEFAA 113

Query: 118 GEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLL 154
           G+++RVLP+C HGFHV CIDTWL SHSSCP+CR  L+
Sbjct: 114 GDELRVLPQCGHGFHVSCIDTWLGSHSSCPSCRQILV 150

Arabidopsis thaliana (taxid: 3702)

>sp|O22755|ATL44_ARATH RING-H2 finger protein ATL44 OS=Arabidopsis thaliana GN=ATL44 PE=2 SV=1

 Score =  110 bits (276), Expect = 4e-24,   Method: Compositional matrix adjust.
 Identities = 57/129 (44%), Positives = 78/129 (60%), Gaps = 14/129 (10%)

Query: 33  DTNMVIILAALLCALICALGLNSIVRCALRCSHRLAIETPEQAAARLAVTGLKKRDLRRI 92
           +++MV+IL+ALLCALIC  GL ++VRCA         ++P          GLKK+ L+ +
Sbjct: 25  ESDMVVILSALLCALICVAGLAAVVRCAWLRRFTAGGDSPSPN------KGLKKKALQSL 78

Query: 93  PVAVY--------GEGVDIPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHS 144
           P + +            +  +TEC ICL +F DGE++RVLP C H FHV CID WL+S S
Sbjct: 79  PRSTFTAAESTSGAAAEEGDSTECAICLTDFADGEEIRVLPLCGHSFHVECIDKWLVSRS 138

Query: 145 SCPNCRHSL 153
           SCP+CR  L
Sbjct: 139 SCPSCRRIL 147

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	192
224139358	186	predicted protein [Populus trichocarpa]	0.953	0.983	0.748	3e-72
356530175	185	PREDICTED: RING-H2 finger protein ATL73-	0.864	0.897	0.719	3e-63
356568234	180	PREDICTED: RING-H2 finger protein ATL72-	0.854	0.911	0.694	4e-63
225439685	195	PREDICTED: RING-H2 finger protein ATL72-	0.848	0.835	0.720	6e-63
255575568	186	RING-H2 finger protein ATL5A, putative [	0.942	0.973	0.714	3e-62
225448677	197	PREDICTED: RING-H2 finger protein ATL72	0.953	0.928	0.663	2e-61
356518700	198	PREDICTED: RING-H2 finger protein ATL72-	0.864	0.838	0.724	3e-61
356509076	216	PREDICTED: RING-H2 finger protein ATL72-	0.973	0.865	0.657	7e-61
357506657	179	RING-H2 finger protein ATL5H [Medicago t	0.812	0.871	0.729	1e-60
255559693	208	RING-H2 finger protein ATL3C, putative [	0.937	0.865	0.682	1e-59

>gi|224139358|ref|XP_002323073.1| predicted protein [Populus trichocarpa] gi|222867703|gb|EEF04834.1| predicted protein [Populus trichocarpa]

 Score =  276 bits (706), Expect = 3e-72,   Method: Compositional matrix adjust.
 Identities = 143/191 (74%), Positives = 155/191 (81%), Gaps = 8/191 (4%)

Query: 1   MHRRLLET-ELSVSPPTASGNRTHDSFVNEANFDTNMVIILAALLCALICALGLNSIVRC 59
           MHRR+L+T  L V+P  A+GNRTHDS++NE NFDTNMVIILAALLCALI ALGLNSIVRC
Sbjct: 1   MHRRMLDTVPLDVAP--ANGNRTHDSYINETNFDTNMVIILAALLCALIGALGLNSIVRC 58

Query: 60  ALRCSHRLAIETPEQAAARLAVTGLKKRDLRRIPVAVYGEGVDIPATECPICLGEFVDGE 119
            LRCS R A+ET E+AAARLA TGLKKRDLR+IPVA+YG G  I ATECPICLGEFVDGE
Sbjct: 59  LLRCSSRFALETTEEAAARLAATGLKKRDLRQIPVAIYGAGGSISATECPICLGEFVDGE 118

Query: 120 KVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNERSTASSSAAEEPAGAPAPG-N 178
           KVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLL +    T  S AA+E  GA  PG N
Sbjct: 119 KVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLEH----TTDSGAAQEVTGAARPGEN 174

Query: 179 DATEQTTVVVV 189
           D   Q  V  V
Sbjct: 175 DPGRQGNVSTV 185

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356530175|ref|XP_003533659.1| PREDICTED: RING-H2 finger protein ATL73-like [Glycine max]

 Score =  246 bits (629), Expect = 3e-63,   Method: Compositional matrix adjust.
 Identities = 123/171 (71%), Positives = 135/171 (78%), Gaps = 5/171 (2%)

Query: 1   MHRRLLETELSVSPPT--ASGNRTHDSFVNEANFDTNMVIILAALLCALICALGLNSIVR 58
           + RRLLETELS+ P    + GN T D+F+++ANFDTNMVIILAALLCALICALGLNSI R
Sbjct: 2   LQRRLLETELSMPPSYGGSGGNNTRDTFISDANFDTNMVIILAALLCALICALGLNSIAR 61

Query: 59  CALRCSHRLAIETPEQAAARLAVTGLKKRDLRRIPVAVYGEGVD---IPATECPICLGEF 115
           CALRC  R   ET EQAAARLA TGLK+R+L RIPVAVYG       IPATECPICLGEF
Sbjct: 62  CALRCGRRFGDETAEQAAARLAGTGLKRRELSRIPVAVYGAAGGENTIPATECPICLGEF 121

Query: 116 VDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNERSTASSSA 166
             G+KVR+LPKCNHGFHVRCIDTWLLSHSSCPNCRHSLL     +  S S 
Sbjct: 122 EKGDKVRMLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLEKTSAAPESGSG 172

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356568234|ref|XP_003552318.1| PREDICTED: RING-H2 finger protein ATL72-like [Glycine max]

 Score =  246 bits (628), Expect = 4e-63,   Method: Compositional matrix adjust.
 Identities = 125/180 (69%), Positives = 139/180 (77%), Gaps = 16/180 (8%)

Query: 1   MHRRLLETELSVSPPTASGNRTHDSFVNEANFDTNMVIILAALLCALICALGLNSIVRCA 60
           M RR LETELS+ PP+  G  T D+F+++ANFDTNMVIILAALLCALICALGLNSI RCA
Sbjct: 1   MQRRFLETELSM-PPSYGGGNTSDTFISDANFDTNMVIILAALLCALICALGLNSIARCA 59

Query: 61  LRCSHRLAIETPEQAAARLAVTGLKKRDLRRIPVAVYGEGVD--IPATECPICLGEFVDG 118
           LRC      ET EQAAARLA TGLK+R+L RIPVAVYG   +  IPATECPICLGEF  G
Sbjct: 60  LRCGRPFGNETAEQAAARLAGTGLKRRELSRIPVAVYGAAGENTIPATECPICLGEFEKG 119

Query: 119 EKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNERSTASSSAAEEPAGAPAPGN 178
           ++VR+LPKCNHGFHVRCIDTWLLSHSSCPNCRHSLL             E+PA AP  G+
Sbjct: 120 DRVRMLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLL-------------EKPAAAPESGS 166

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225439685|ref|XP_002271473.1| PREDICTED: RING-H2 finger protein ATL72-like [Vitis vinifera]

 Score =  245 bits (626), Expect = 6e-63,   Method: Compositional matrix adjust.
 Identities = 124/172 (72%), Positives = 140/172 (81%), Gaps = 9/172 (5%)

Query: 17  ASGNRTHDSFVNEANFDTNMVIILAALLCALICALGLNSIVRCALRCSHRLAIETPEQAA 76
           ++GN TH+++VNE NFDTNMVIILAALLCALI ALGLNSIVRCA+RCS RL+ E+  QAA
Sbjct: 27  SNGNSTHEAYVNETNFDTNMVIILAALLCALIGALGLNSIVRCAMRCSRRLSPESQGQAA 86

Query: 77  ARLAVTGLKKRDLRRIPVAVYGEGVDIPATECPICLGEFVDGEKVRVLPKCNHGFHVRCI 136
                TGLKKR LR+IPVAVYG GV+IPATECPICLGEFV GEKVRVLPKCNHGFHVRCI
Sbjct: 87  -----TGLKKRALRQIPVAVYGPGVEIPATECPICLGEFVQGEKVRVLPKCNHGFHVRCI 141

Query: 137 DTWLLSHSSCPNCRHSLLNNNERSTASSSAAEEPAGAPAPGNDATEQTTVVV 188
           DTWL+SHSSCPNCRHSLL   ER T S +A E     P P N +T Q ++V+
Sbjct: 142 DTWLVSHSSCPNCRHSLL---ERPTTSDAAGEVAPEQPQP-NGSTHQGSIVI 189

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255575568|ref|XP_002528684.1| RING-H2 finger protein ATL5A, putative [Ricinus communis] gi|223531856|gb|EEF33673.1| RING-H2 finger protein ATL5A, putative [Ricinus communis]

 Score =  243 bits (619), Expect = 3e-62,   Method: Compositional matrix adjust.
 Identities = 135/189 (71%), Positives = 149/189 (78%), Gaps = 8/189 (4%)

Query: 1   MHRRLLETELSVSPPTASGNRTHDSFVNEANFDTNMVIILAALLCALICALGLNSIVRCA 60
           MHRRLLETEL+V  P+  G RT DS++  ANFDTNMVIILAALLCAL+ ALGLNSIVRCA
Sbjct: 1   MHRRLLETELTVPQPSPDGTRTRDSYIIGANFDTNMVIILAALLCALLGALGLNSIVRCA 60

Query: 61  LRCSHRLAIETPEQAAARLAVTGLKKRDLRRIPVAVYGEGVDIPATECPICLGEFVDGEK 120
           LRCS R ++ETPEQ AARLA  GLKKR+LR+IPVAVYG  V IPATECPICLGEF+DGEK
Sbjct: 61  LRCSSRFSLETPEQTAARLAAKGLKKRELRQIPVAVYGTEVSIPATECPICLGEFLDGEK 120

Query: 121 VRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNERSTASSSAAEEPAGAPAPGNDA 180
           VR+LPKCNHGFHVRCIDTWLLSHSSCPNCR SLL         S AA+E +G     N  
Sbjct: 121 VRLLPKCNHGFHVRCIDTWLLSHSSCPNCRLSLL--------XSGAAQEESGRRQGENSP 172

Query: 181 TEQTTVVVV 189
             Q  V+VV
Sbjct: 173 GRQRNVIVV 181

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225448677|ref|XP_002275084.1| PREDICTED: RING-H2 finger protein ATL72 [Vitis vinifera] gi|147769463|emb|CAN70348.1| hypothetical protein VITISV_012580 [Vitis vinifera] gi|297736494|emb|CBI25365.3| unnamed protein product [Vitis vinifera]

 Score =  240 bits (613), Expect = 2e-61,   Method: Compositional matrix adjust.
 Identities = 124/187 (66%), Positives = 140/187 (74%), Gaps = 4/187 (2%)

Query: 2   HRRLLETELSVSPPTASGNRTHDSFVNEANFDTNMVIILAALLCALICALGLNSIVRCAL 61
           HR LL+T+   SP    G+R   S+ NEANFDTNMVIILAALLCALICALGLNSIVRCAL
Sbjct: 9   HRLLLDTDPGASPNV--GSRMRSSYTNEANFDTNMVIILAALLCALICALGLNSIVRCAL 66

Query: 62  RCSHRLAIETPEQAAARLAVTGLKKRDLRRIPVAVYGEGVDIPATECPICLGEFVDGEKV 121
           RCS RLA ET ++ AARLA TGLKK  LR+IPVAVYG G +IPAT+CPICLGEF  G+KV
Sbjct: 67  RCSRRLAFETADETAARLAATGLKKSALRQIPVAVYGSGTNIPATDCPICLGEFEQGDKV 126

Query: 122 RVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNERSTASSSAAEEPAGAPAPGNDAT 181
           RVLPKC+HGFH++CIDTWL+SHSSCP CRHSLL +   S A     +   G   PGN   
Sbjct: 127 RVLPKCHHGFHMKCIDTWLVSHSSCPTCRHSLLEHPPASDAVDVHVD--TGIRHPGNAPG 184

Query: 182 EQTTVVV 188
            Q  V V
Sbjct: 185 GQPDVSV 191

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356518700|ref|XP_003528016.1| PREDICTED: RING-H2 finger protein ATL72-like [Glycine max]

 Score =  239 bits (611), Expect = 3e-61,   Method: Compositional matrix adjust.
 Identities = 121/167 (72%), Positives = 131/167 (78%), Gaps = 1/167 (0%)

Query: 2   HRRLLETELSVSPPTASGNRTHDSFVNEANFDTNMVIILAALLCALICALGLNSIVRCAL 61
           HR LL    S SP  +S NRT ++F  +ANFDTNMVIILAALLCALICALGLNSIVRCAL
Sbjct: 5   HRLLLVDTNSSSPAPSSMNRTRETFTGDANFDTNMVIILAALLCALICALGLNSIVRCAL 64

Query: 62  RCSHRLAIETPEQAAARLAVTGLKKRDLRRIPVAVYGEG-VDIPATECPICLGEFVDGEK 120
           RCS R A ETPE+ AARL   GLKK  L +IP+ VYG G   I AT+CPICLGEFVDGEK
Sbjct: 65  RCSRRFAFETPEETAARLVAKGLKKSALHQIPIVVYGSGSASIAATDCPICLGEFVDGEK 124

Query: 121 VRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNERSTASSSAA 167
           VRVLPKCNHGFHVRCIDTWLLSHSSCPNCR SLL +   S A + AA
Sbjct: 125 VRVLPKCNHGFHVRCIDTWLLSHSSCPNCRQSLLEHPTISGAVAVAA 171

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356509076|ref|XP_003523278.1| PREDICTED: RING-H2 finger protein ATL72-like [Glycine max]

 Score =  238 bits (608), Expect = 7e-61,   Method: Compositional matrix adjust.
 Identities = 125/190 (65%), Positives = 137/190 (72%), Gaps = 3/190 (1%)

Query: 2   HRRLLETELSVSPPTASGNRTHDSFVNEANFDTNMVIILAALLCALICALGLNSIVRCAL 61
           HR LL    S SP  +S N+T ++F  +ANFDTNMVIILAALLCALICALGLNSIVRCAL
Sbjct: 5   HRLLLVDTNSSSPAPSSMNKTRETFTGDANFDTNMVIILAALLCALICALGLNSIVRCAL 64

Query: 62  RCSHRLAIETPEQAAARLAVTGLKKRDLRRIPVAVYGEG-VDIPATECPICLGEFVDGEK 120
           RCS R A ETPE+ AARL   GLKK  L +IP+ VYG G   I AT+CPICLGEFVDGEK
Sbjct: 65  RCSRRFAFETPEETAARLVAKGLKKSALHQIPIVVYGSGSASIAATDCPICLGEFVDGEK 124

Query: 121 VRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNERSTASSSAA--EEPAGAPAPGN 178
           VRVLPKCNH FHVRCIDTWLLSHSSCPNCR SLL +   S A + AA     AG    G 
Sbjct: 125 VRVLPKCNHRFHVRCIDTWLLSHSSCPNCRQSLLEHTTISGAVAVAAGTSHHAGNALGGR 184

Query: 179 DATEQTTVVV 188
              E  +V V
Sbjct: 185 HEHESLSVAV 194

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357506657|ref|XP_003623617.1| RING-H2 finger protein ATL5H [Medicago truncatula] gi|355498632|gb|AES79835.1| RING-H2 finger protein ATL5H [Medicago truncatula]

 Score =  237 bits (605), Expect = 1e-60,   Method: Compositional matrix adjust.
 Identities = 116/159 (72%), Positives = 130/159 (81%), Gaps = 3/159 (1%)

Query: 1   MHRRLLETELSVSPPTASGNRTHDSFVNEANFDTNMVIILAALLCALICALGLNSIVRCA 60
           M RR L+TE+S+ P  +  N T DSF+N  NFDTNMVIILAALLCALICALGLN+I RCA
Sbjct: 1   MKRRFLDTEMSMPP--SYENNTSDSFINVENFDTNMVIILAALLCALICALGLNTIARCA 58

Query: 61  LRCSHRLAIETPEQAAARLAVTGLKKRDLRRIPVAVY-GEGVDIPATECPICLGEFVDGE 119
           +RCS RL+ ETPEQA  RL  TGLKKR+L +IPV VY G G DIP TECPICLGEF  G+
Sbjct: 59  MRCSRRLSEETPEQATVRLNKTGLKKRELSQIPVTVYGGAGEDIPVTECPICLGEFEKGD 118

Query: 120 KVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNE 158
           KVR+LPKCNHGFHVRCIDTWL+SHSSCPNCR+SLL   E
Sbjct: 119 KVRMLPKCNHGFHVRCIDTWLVSHSSCPNCRNSLLVEGE 157

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255559693|ref|XP_002520866.1| RING-H2 finger protein ATL3C, putative [Ricinus communis] gi|223539997|gb|EEF41575.1| RING-H2 finger protein ATL3C, putative [Ricinus communis]

 Score =  234 bits (597), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 127/186 (68%), Positives = 141/186 (75%), Gaps = 6/186 (3%)

Query: 2   HRRLLETELSVSPPTASGNRTHDSFVNEANFDTNMVIILAALLCALICALGLNSIVRCAL 61
           HR LL TE S +PP  +G+R   S+ NEANFDTNMVIILAALLCALICALGLNSIVRCAL
Sbjct: 12  HRLLLNTE-SNTPPI-NGSRIR-SYTNEANFDTNMVIILAALLCALICALGLNSIVRCAL 68

Query: 62  RCSHRLAIETPEQAAARLAVTGLKKRDLRRIPVAVYG-EGVDIPATECPICLGEFVDGEK 120
           RCS R A ETP++AAARLA TGLKK  LR+IPV +YG  G+ I AT+C ICLGEF DGEK
Sbjct: 69  RCSRRFAFETPDEAAARLAATGLKKSALRQIPVVIYGAAGIQIIATDCAICLGEFSDGEK 128

Query: 121 VRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNERSTASSSAAEEPAGAPAPGNDA 180
           VRVLPKCNHGFHVRCIDTWL SHSSCP CR SLL   + +  +S A E      + GN A
Sbjct: 129 VRVLPKCNHGFHVRCIDTWLGSHSSCPTCRQSLL--EQPAPGNSDATEPDVEIRSHGNGA 186

Query: 181 TEQTTV 186
             QT V
Sbjct: 187 VLQTDV 192

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

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	192
TAIR|locus:2181032	159	DAFL2 "DAF-Like gene 2" [Arabi	0.781	0.943	0.535	1.3e-38
TAIR|locus:2103162	181	DAFL1 "DAF-Like gene 1" [Arabi	0.786	0.834	0.515	2.4e-35
TAIR|locus:2153554	176	DAF "DEFECTIVE IN ANTHER DEHIS	0.807	0.880	0.493	5.8e-34
TAIR|locus:2028436	219	AT1G49230 [Arabidopsis thalian	0.697	0.611	0.459	2.1e-29
TAIR|locus:2028406	225	AT1G49210 [Arabidopsis thalian	0.562	0.48	0.477	1.6e-24
TAIR|locus:2028506	251	AT1G49220 [Arabidopsis thalian	0.562	0.430	0.477	3.3e-24
TAIR|locus:2830088	220	AT3G18773 [Arabidopsis thalian	0.562	0.490	0.447	6.1e-23
TAIR|locus:2028411	226	AT1G49200 [Arabidopsis thalian	0.562	0.477	0.433	2.1e-22
TAIR|locus:2011686	185	ATL8 [Arabidopsis thaliana (ta	0.625	0.648	0.446	3.5e-20
TAIR|locus:2193992	324	ATL3 [Arabidopsis thaliana (ta	0.510	0.302	0.44	2.8e-18

TAIR|locus:2181032 DAFL2 "DAF-Like gene 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 413 (150.4 bits), Expect = 1.3e-38, P = 1.3e-38
 Identities = 83/155 (53%), Positives = 98/155 (63%)

Query:     1 MHRRLLETELSVSPPTASGNRTHDSFVNEANFDTNMVXXXXXXXXXXXXXXGLNSIVRCA 60
             MHR LLE+    +  + SG    D +  + NFD NMV              GLNSI+RCA
Sbjct:     1 MHRLLLESHGGGNETSGSGGG--DGYTRDMNFDANMVIILAALLCALILALGLNSILRCA 58

Query:    61 LRCSHRLAIETPEQAAARLAVTGLKKRDLRRIPVAVYGEG-VDIPATECPICLGEFVDGE 119
             +RC   L+        A  A  GLKKR+L++ PVA YG G V I ATEC ICLGEF DGE
Sbjct:    59 MRCGFGLSSSAAAGTVADRA--GLKKRELKKFPVAEYGSGEVKIAATECAICLGEFADGE 116

Query:   120 KVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLL 154
             +VRVLP CNH FH+ CIDTWL+SHSSCPNCRHSL+
Sbjct:   117 RVRVLPPCNHSFHMSCIDTWLVSHSSCPNCRHSLI 151

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

TAIR|locus:2103162 DAFL1 "DAF-Like gene 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 382 (139.5 bits), Expect = 2.4e-35, P = 2.4e-35
 Identities = 84/163 (51%), Positives = 100/163 (61%)

Query:     1 MHRRLLETELSVSPPTASGNRTHDSFVNEANFDTNMVXXXXXXXXXXXXXXGLNSIVRCA 60
             M R LLE + + +P  A+ N      +N+  FDTNMV               LNS +RC 
Sbjct:     1 MGRLLLEPQAN-AP--ANANPKPKGGINDTYFDTNMVIILAALLCALICALSLNSALRCV 57

Query:    61 LRCSHRLA----IETPEQAAARL----AVTGLKKRDLRRIPVAVYGEGV-DIPATECPIC 111
             LR + R      +     A A L    A TGLKK+ L++IPV +YG G+ D+ ATEC IC
Sbjct:    58 LRITRRFTSDDQVSNASNANANLGRLAAATGLKKQALKQIPVGLYGSGIIDMKATECLIC 117

Query:   112 LGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLL 154
             LG+F DGEKVRVLPKCNHGFHVRCIDTWLLS SSCP CR SLL
Sbjct:   118 LGDFEDGEKVRVLPKCNHGFHVRCIDTWLLSRSSCPTCRQSLL 160

GO:0005634 "nucleus" evidence=ISM

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

GO:0010413 "glucuronoxylan metabolic process" evidence=RCA

GO:0045492 "xylan biosynthetic process" evidence=RCA

TAIR|locus:2153554 DAF "DEFECTIVE IN ANTHER DEHISCENCE1- ( DAD1-) Activating Factor" [Arabidopsis thaliana (taxid:3702)]

 Score = 369 (135.0 bits), Expect = 5.8e-34, P = 5.8e-34
 Identities = 80/162 (49%), Positives = 98/162 (60%)

Query:     1 MHRRLLETELS--VSPPTASGNRTHDSFVNEANF---DTNMVXXXXXXXXXXXXXXGLNS 55
             M R LL T+ +  +S   A+     DS  N  N    DT+MV              G+NS
Sbjct:     1 MARFLLATQATPTISATDANPRTLGDSVSNNKNIASMDTHMVIILAALLCALICALGINS 60

Query:    56 IVRCALRCSHRLAI-ETPEQAAARLAVTGLKKRDLRRIPVAVYGEGVDIPATECPICLGE 114
             ++RC LRC+ R    E P    A +A  G+KKR L+ IPV  Y   + + ATEC ICLG+
Sbjct:    61 VLRCVLRCTRRFTPNEDPVDTNANVA-KGIKKRALKVIPVDSYSPELKMKATECLICLGD 119

Query:   115 FVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNN 156
             FV+GE VRVLPKCNHGFHV+CIDTWLLSHSSCP CR SLL +
Sbjct:   120 FVEGETVRVLPKCNHGFHVKCIDTWLLSHSSCPTCRQSLLEH 161

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

TAIR|locus:2028436 AT1G49230 [Arabidopsis thaliana (taxid:3702)]

 Score = 326 (119.8 bits), Expect = 2.1e-29, P = 2.1e-29
 Identities = 63/137 (45%), Positives = 83/137 (60%)

Query:    26 FVNEANFDTNMVXXXXXXXXXXXXXXGLNSIVRCALRCSHRLAIETP-EQAAARLAVTGL 84
             +V + NFD N+V              GLNSI+RCALRCS+ +  E   +    RL  TG+
Sbjct:    46 YVGDNNFDANVVMVLSVLLCALVCSLGLNSIIRCALRCSNLVPSEAGGDNYPVRLTNTGV 105

Query:    85 KKRDLRRIPVAVYGEGVDIPA--TECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS 142
             K++ L+      Y   +++P   TEC ICL EFV  E+V++LP C+HGFHVRCID WL S
Sbjct:   106 KRKALKSFQTVSYSTELNLPGLDTECAICLSEFVAEERVKLLPTCHHGFHVRCIDKWLSS 165

Query:   143 HSSCPNCRHSLLNNNER 159
             HSSCP CRH L+   E+
Sbjct:   166 HSSCPTCRHCLIQTCEK 182

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

TAIR|locus:2028406 AT1G49210 [Arabidopsis thaliana (taxid:3702)]

 Score = 280 (103.6 bits), Expect = 1.6e-24, P = 1.6e-24
 Identities = 54/113 (47%), Positives = 72/113 (63%)

Query:    52 GLNSIVRCALRCSHRLAIETPEQAAA--RLAVT-GLKKRDLRRIPVAVYGEGVDIPAT-- 106
             GL+ I+RCA R S R  I  P  + +  R +   G+KK+ LR  PV  Y   +++P    
Sbjct:    74 GLHYIIRCAFRRSSRFMISEPISSLSTPRSSSNKGIKKKALRMFPVVSYSREMNLPGIGE 133

Query:   107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNER 159
             EC ICL +FV GE++R+LPKCNHGFHVRCID WL  H +CP CRH L+   ++
Sbjct:   134 ECVICLSDFVSGEQLRLLPKCNHGFHVRCIDKWLQHHLTCPKCRHCLVETCQK 186

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

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

GO:0016567 "protein ubiquitination" evidence=IDA

TAIR|locus:2028506 AT1G49220 [Arabidopsis thaliana (taxid:3702)]

 Score = 277 (102.6 bits), Expect = 3.3e-24, P = 3.3e-24
 Identities = 54/113 (47%), Positives = 73/113 (64%)

Query:    52 GLNSIVRCALRCSHRLAIE--TPEQAAARLAVT-GLKKRDLRRIPVAVYGEGVDIPAT-- 106
             GL+ I+RCALR S R  I    P  ++ R +   G+KK+ LR  PV  Y   +++P    
Sbjct:    74 GLHYIIRCALRRSTRFMISEPVPSLSSTRGSSNKGIKKKALRMFPVVSYSPEMNLPGLDE 133

Query:   107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNER 159
             EC ICL +FV GE++R+LPKCNHGFHVRCID WL  H +CP CR+ L+   ++
Sbjct:   134 ECVICLSDFVSGEQLRLLPKCNHGFHVRCIDKWLQQHLTCPKCRNCLVETCQK 186

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

TAIR|locus:2830088 AT3G18773 [Arabidopsis thaliana (taxid:3702)]

 Score = 265 (98.3 bits), Expect = 6.1e-23, P = 6.1e-23
 Identities = 51/114 (44%), Positives = 71/114 (62%)

Query:    52 GLNSIVRCALRCSHRLAIETPEQAAAR---LAVT-GLKKRDLRRIPVAVYGEGVDIPAT- 106
             GL+ I+RCA   S    I  P    +     +V  G+KK+ L+ +PV  Y   +++P   
Sbjct:    68 GLHYIIRCAFIRSRSFMISDPISIPSTPRDSSVNKGIKKKALKMLPVVNYSPEINLPGVG 127

Query:   107 -ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNER 159
              EC ICL +FV GE++RVLPKCNHGFH+RCID WL  H +CP CRH L++  ++
Sbjct:   128 EECVICLSDFVAGEQLRVLPKCNHGFHLRCIDKWLTQHMTCPKCRHCLVDTCQK 181

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

TAIR|locus:2028411 AT1G49200 [Arabidopsis thaliana (taxid:3702)]

 Score = 260 (96.6 bits), Expect = 2.1e-22, P = 2.1e-22
 Identities = 49/113 (43%), Positives = 68/113 (60%)

Query:    52 GLNSIVRCALRCSHRLAIETPEQAAARLAVT---GLKKRDLRRIPVAVYGEGVDIPAT-- 106
             GL+ I+RCA R +    I  P    +    +   G+ K+ LR  PV  Y   +++P    
Sbjct:    75 GLHYIIRCAFRRTSSFMISEPIAGLSTPCGSSNKGINKKALRMFPVVSYSPEMNLPGLGE 134

Query:   107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNER 159
             EC ICL +FV GE++R+LPKC+HGFHVRCID WL  H +CP CRH L+   ++
Sbjct:   135 ECVICLSDFVSGEQIRMLPKCHHGFHVRCIDKWLQQHLTCPKCRHCLVETCQK 187

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

TAIR|locus:2011686 ATL8 [Arabidopsis thaliana (taxid:3702)]

 Score = 239 (89.2 bits), Expect = 3.5e-20, P = 3.5e-20
 Identities = 58/130 (44%), Positives = 74/130 (56%)

Query:    32 FDTNMVXXXXXXXXXXXXXXGLNSIVRCA-LR--CSHRLAIET-PEQAAARLAVTGLKKR 87
             F++++V              GL ++ RCA LR   S   + +T P   AA  A  GLKK+
Sbjct:    24 FNSDLVLILAVLLCALTCIIGLIAVSRCAWLRRIASRNRSDQTHPPPVAA--ANKGLKKK 81

Query:    88 DLRRIPVAVYGEGVDIPA---TECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHS 144
              LR +P   Y      PA    EC ICL EF  G+++RVLP+C HGFHV CIDTWL SHS
Sbjct:    82 VLRSLPKLTYSPDSP-PAEKLVECAICLTEFAAGDELRVLPQCGHGFHVSCIDTWLGSHS 140

Query:   145 SCPNCRHSLL 154
             SCP+CR  L+
Sbjct:   141 SCPSCRQILV 150

GO:0005634 "nucleus" evidence=ISM

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

GO:0009744 "response to sucrose stimulus" evidence=RCA

GO:0009750 "response to fructose stimulus" evidence=RCA

GO:0009855 "determination of bilateral symmetry" evidence=RCA

GO:0009944 "polarity specification of adaxial/abaxial axis" evidence=RCA

GO:0010014 "meristem initiation" evidence=RCA

GO:0010075 "regulation of meristem growth" evidence=RCA

TAIR|locus:2193992 ATL3 [Arabidopsis thaliana (taxid:3702)]

 Score = 221 (82.9 bits), Expect = 2.8e-18, P = 2.8e-18
 Identities = 44/100 (44%), Positives = 58/100 (58%)

Query:    62 RCSHRLAIETPEQAAARLAVTGLKKRDLRRIPVAVYGEGVDIPATECPICLGEFVDGEKV 121
             R   R  I  P Q A  L+ TGL   +L  +P+  + +       EC ICL E V G+K 
Sbjct:    83 RRQRRRFIFVPGQDA--LSNTGLTSFELSSLPIVFFRQDSCKDGLECSICLSELVKGDKA 140

Query:   122 RVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNERST 161
             R+LPKCNH FHV CID W  SHS+CP CR+++L   + S+
Sbjct:   141 RLLPKCNHSFHVECIDMWFQSHSTCPICRNTVLGPEQASS 180

GO:0005634 "nucleus" evidence=ISM

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

---

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)
Q9SG96	ATL72_ARATH	No assigned EC number	0.5617	0.8645	0.9171	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

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

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: fgenesh4_kg.C_LG_XVI000048 hypothetical protein (187 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	192
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	5e-15
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	5e-12
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	2e-10
PHA02929	238	PHA02929, PHA02929, N1R/p28-like protein; Provisio	1e-08
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	3e-08
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	1e-06
smart00184	40	smart00184, RING, Ring finger	8e-06
COG5194	88	COG5194, APC11, Component of SCF ubiquitin ligase	2e-05
pfam12861	85	pfam12861, zf-Apc11, Anaphase-promoting complex su	5e-05
COG5219	1525	COG5219, COG5219, Uncharacterized conserved protei	9e-05
pfam11793	70	pfam11793, FANCL_C, FANCL C-terminal domain	4e-04
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	6e-04
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	7e-04
COG5432	391	COG5432, RAD18, RING-finger-containing E3 ubiquiti	0.004

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

 Score = 65.5 bits (160), Expect = 5e-15
 Identities = 27/46 (58%), Positives = 31/46 (67%), Gaps = 1/46 (2%)

Query: 107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHS 152
           ECPICL EF  GE+V VLP C H FH  C+D WL S ++CP CR  
Sbjct: 2   ECPICLDEFEPGEEVVVLP-CGHVFHKECLDKWLRSSNTCPLCRAP 46

Length = 46

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

 Score = 63.1 bits (153), Expect = 5e-12
 Identities = 24/48 (50%), Positives = 34/48 (70%), Gaps = 2/48 (4%)

Query: 107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHS-SCPNCRHSL 153
           EC IC+  F+  +++RVLP C+H FHV C+D WLL +S  CP CR ++
Sbjct: 325 ECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAI 371

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 = 53.2 bits (128), Expect = 2e-10
 Identities = 23/48 (47%), Positives = 27/48 (56%), Gaps = 4/48 (8%)

Query: 107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS-HSSCPNCRHSL 153
           ECPICL EF    +  VL  C H F   CID WL S  ++CP CR  +
Sbjct: 1   ECPICLEEF---REPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

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

 Score = 52.5 bits (126), Expect = 1e-08
 Identities = 19/49 (38%), Positives = 28/49 (57%), Gaps = 6/49 (12%)

Query: 107 ECPICLGEFVDGEKVR-----VLPKCNHGFHVRCIDTWLLSHSSCPNCR 150
           EC IC+ E V  ++++     +L  CNH F + CID W    ++CP CR
Sbjct: 176 ECAICM-EKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCR 223

Length = 238

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

 Score = 48.6 bits (116), Expect = 3e-08
 Identities = 21/65 (32%), Positives = 27/65 (41%), Gaps = 9/65 (13%)

Query: 95  AVYGEGVDIPATECPICLGEFVD---------GEKVRVLPKCNHGFHVRCIDTWLLSHSS 145
           AV     DI    C IC   F            +   V  +C H FH+ CI  WL + ++
Sbjct: 9   AVALWSWDIEDDVCAICRNHFDGTCPECKSPGDDCPVVWGECGHAFHLHCISRWLKTRNT 68

Query: 146 CPNCR 150
           CP CR
Sbjct: 69  CPLCR 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|206094 pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RING finger)

 Score = 43.3 bits (102), Expect = 1e-06
 Identities = 20/45 (44%), Positives = 21/45 (46%), Gaps = 3/45 (6%)

Query: 107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRH 151
           ECPICL    D     VL  C H F   CI  +L   S CP CR 
Sbjct: 4   ECPICLDLLRD---PVVLTPCGHVFCRECILRYLKKKSKCPICRT 45

Length = 45

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

 Score = 41.0 bits (96), Expect = 8e-06
 Identities = 19/43 (44%), Positives = 25/43 (58%), Gaps = 4/43 (9%)

Query: 108 CPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHS-SCPNC 149
           CPICL E++  +   +LP C H F   CI  WL S + +CP C
Sbjct: 1   CPICLEEYL--KDPVILP-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|227521 COG5194, APC11, Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]

 Score = 41.4 bits (97), Expect = 2e-05
 Identities = 20/61 (32%), Positives = 22/61 (36%), Gaps = 12/61 (19%)

Query: 102 DIPATECPICLGEFVD------------GEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNC 149
           DIP   C IC    +              E   V   CNH FH  CI  WL +   CP  
Sbjct: 17  DIPIDVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLD 76

Query: 150 R 150
           R
Sbjct: 77  R 77

Length = 88

>gnl|CDD|193335 pfam12861, zf-Apc11, Anaphase-promoting complex subunit 11 RING-H2 finger

 Score = 39.8 bits (93), Expect = 5e-05
 Identities = 18/52 (34%), Positives = 24/52 (46%), Gaps = 15/52 (28%)

Query: 104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSS---CPNCRHS 152
           P  +CP+  G            KC H FH+ CI  WL + +S   CP CR +
Sbjct: 41  PGDDCPLVWG------------KCKHNFHMHCILKWLATETSKGLCPMCRQT 80

Apc11 is one of the subunits of the anaphase-promoting complex or cyclosome. The APC subunits are cullin family proteins with ubiquitin ligase activity. Polyubiquitination marks proteins for degradation by the 26S proteasome and is carried out by a cascade of enzymes that includes ubiquitin-activating enzymes (E1s), ubiquitin-conjugating enzymes (E2s), and ubiquitin ligases (E3s). Apc11 acts as an E3 enzyme and is responsible for recruiting E2s to the APC and for mediating the subsequent transfer of ubiquitin to APC substrates in vivo. In Saccharomyces cerevisiae this RING-H2 finger protein defines the minimal ubiquitin ligase activity of the APC, and the integrity of the RING-H2 finger is essential for budding yeast cell viability. Length = 85

>gnl|CDD|227544 COG5219, COG5219, Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]

 Score = 42.0 bits (98), Expect = 9e-05
 Identities = 20/54 (37%), Positives = 24/54 (44%), Gaps = 9/54 (16%)

Query: 107  ECPICLGEFVDGEKVRVLPK-----CNHGFHVRCIDTWLLS--HSSCPNCRHSL 153
            EC IC    V     R LP      C + FH RC+  W  S   S+CP CR  +
Sbjct: 1471 ECAICY--SVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEI 1522

Length = 1525

>gnl|CDD|204746 pfam11793, FANCL_C, FANCL C-terminal domain

 Score = 37.0 bits (86), Expect = 4e-04
 Identities = 17/62 (27%), Positives = 26/62 (41%), Gaps = 15/62 (24%)

Query: 107 ECPICLGEFVDGEKVRVL----PKCNHGFHVRCIDTWLLSHSS-----------CPNCRH 151
           EC IC    +DG ++  +    PKC   FH+ C+  WL +              CP C+ 
Sbjct: 4   ECGICYAYRLDGGEIPDISCDNPKCGLPFHIACLYEWLRTLRDSRQSFNVSFGTCPYCKA 63

Query: 152 SL 153
            +
Sbjct: 64  KI 65

This domain is found at the C-terminus of the Fancl protein in humans which is the putative E3 ubiquitin ligase subunit of the FA complex (Fanconi anaemia). Eight subunits of the Fanconi anaemia gene products form a multisubunit nuclear complex which is required for mono-ubiquitination of a downstream FA protein, FANCD2. Length = 70

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

 Score = 39.6 bits (92), Expect = 6e-04
 Identities = 25/92 (27%), Positives = 35/92 (38%), Gaps = 14/92 (15%)

Query: 108 CPICLGEFVD----------GEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNN 157
           C IC+ E                 + LP C H  H+ C+  WL    +CP CR  ++ + 
Sbjct: 290 CTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRPVIFDQ 348

Query: 158 ERSTASSS--AAEEPAGAPAPGNDATEQTTVV 187
              T +S      + A    P  D T  TT V
Sbjct: 349 SSPTPASPNVRNTQIATQV-PNPDNTPTTTAV 379

Length = 491

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

 Score = 35.9 bits (83), Expect = 7e-04
 Identities = 21/43 (48%), Positives = 26/43 (60%), Gaps = 4/43 (9%)

Query: 108 CPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS-HSSCPNC 149
           CPICL E  D   V +LP C H F  +CI +WL S + +CP C
Sbjct: 1   CPICLEEPKD--PVTILP-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 = 0.004
 Identities = 15/58 (25%), Positives = 20/58 (34%), Gaps = 4/58 (6%)

Query: 108 CPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNERSTASSS 165
           C IC         +     C H F   CI   L +   CP CR     +  R ++ S 
Sbjct: 28  CRICDCRI----SIPCETTCGHTFCSLCIRRHLGTQPFCPVCREDPCESRLRGSSGSR 81

Length = 391

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	192
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.82
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.64
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.44
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.42
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.41
PHA02929	238	N1R/p28-like protein; Provisional	99.41
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.33
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	99.24
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	99.21
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	99.17
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	99.16
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	99.16
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	99.12
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	99.09
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	99.09
PF14634	44	zf-RING_5: zinc-RING finger domain	99.02
PHA02926	242	zinc finger-like protein; Provisional	99.01
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.95
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.93
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.88
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	98.87
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.87
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.81
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.71
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.7
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.67
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	98.6
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.6
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.52
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	98.48
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.46
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	98.37
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.33
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	98.33
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	98.3
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	98.28
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.24
COG5219	1525	Uncharacterized conserved protein, contains RING Z	98.22
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.15
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	98.12
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.11
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	98.0
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	97.93
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.92
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	97.77
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.77
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	97.77
KOG4445	368	consensus Uncharacterized conserved protein, conta	97.69
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.68
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	97.59
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.54
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.44
KOG0297	391	consensus TNF receptor-associated factor [Signal t	97.4
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	97.31
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.26
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	97.25
KOG1941	518	consensus Acetylcholine receptor-associated protei	97.16
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	96.9
KOG0801	205	consensus Predicted E3 ubiquitin ligase [Posttrans	96.88
PHA02825	162	LAP/PHD finger-like protein; Provisional	96.88
KOG2660	331	consensus Locus-specific chromosome binding protei	96.75
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	96.72
PHA02862	156	5L protein; Provisional	96.69
KOG3039	303	consensus Uncharacterized conserved protein [Funct	96.68
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	96.68
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	96.66
KOG1002	791	consensus Nucleotide excision repair protein RAD16	96.62
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	96.62
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	96.59
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	96.51
COG5152	259	Uncharacterized conserved protein, contains RING a	96.47
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	96.46
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	96.44
PHA03096	284	p28-like protein; Provisional	96.44
COG5222	427	Uncharacterized conserved protein, contains RING Z	96.27
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	96.03
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	95.77
PF04641	260	Rtf2: Rtf2 RING-finger	95.76
KOG4739	233	consensus Uncharacterized protein involved in syna	95.55
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	95.52
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	95.28
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	95.22
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	95.22
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	95.15
COG5175	480	MOT2 Transcriptional repressor [Transcription]	95.11
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	94.53
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	94.49
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	94.39
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	94.34
KOG1001	674	consensus Helicase-like transcription factor HLTF/	93.77
KOG1940	276	consensus Zn-finger protein [General function pred	93.37
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	93.06
COG5236	493	Uncharacterized conserved protein, contains RING Z	93.0
PF01102	122	Glycophorin_A: Glycophorin A; InterPro: IPR001195	92.75
PF12273	130	RCR: Chitin synthesis regulation, resistance to Co	92.7
KOG0309	1081	consensus Conserved WD40 repeat-containing protein	92.49
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	92.45
KOG0298	1394	consensus DEAD box-containing helicase-like transc	92.33
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	92.2
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	91.77
KOG3002	299	consensus Zn finger protein [General function pred	91.08
KOG3053	293	consensus Uncharacterized conserved protein [Funct	90.94
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	90.47
PF13901	202	DUF4206: Domain of unknown function (DUF4206)	89.57
PF02439	38	Adeno_E3_CR2: Adenovirus E3 region protein CR2; In	89.54
KOG3899	381	consensus Uncharacterized conserved protein [Funct	89.52
KOG1609	323	consensus Protein involved in mRNA turnover and st	89.31
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	88.84
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	88.4
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	88.33
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	88.13
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	88.13
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	87.89
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	87.42
PF10571	26	UPF0547: Uncharacterised protein family UPF0547; I	86.03
PF07975	51	C1_4: TFIIH C1-like domain; InterPro: IPR004595 Al	85.98
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	85.74
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	85.46
PF01102	122	Glycophorin_A: Glycophorin A; InterPro: IPR001195	84.86
KOG4367	699	consensus Predicted Zn-finger protein [Function un	84.63
PF15050	133	SCIMP: SCIMP protein	84.13
KOG0269	839	consensus WD40 repeat-containing protein [Function	84.01
smart00249	47	PHD PHD zinc finger. The plant homeodomain (PHD) f	82.96
TIGR00622	112	ssl1 transcription factor ssl1. This family is bas	82.21
PF00628	51	PHD: PHD-finger; InterPro: IPR019787 Zinc finger (	81.39
KOG1829	580	consensus Uncharacterized conserved protein, conta	80.78
PF13908	179	Shisa: Wnt and FGF inhibitory regulator	80.56

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

Probab=99.82  E-value=4.4e-20  Score=155.17  Aligned_cols=84  Identities=38%  Similarity=0.852  Sum_probs=69.3

Q ss_pred             hhcCCCHHHHhcCCceeecCCCCCCC-CCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCC-CCcccCccCcCCC
Q 043554           80 AVTGLKKRDLRRIPVAVYGEGVDIPA-TECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHS-SCPNCRHSLLNNN  157 (192)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~-~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~-~CP~CR~~l~~~~  157 (192)
                      ...++.++.++++|...|....+... ..|+||||+|+++|+++.|| |+|.||..||+.||.+.+ .||+|++++....
T Consensus       203 ~~~r~~k~~l~~~p~~~f~~~~~~~~~~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~  281 (348)
T KOG4628|consen  203 RRNRLIKRLLKKLPVRTFTKGDDEDATDTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDS  281 (348)
T ss_pred             hhhhhHHHHHhhCCcEEeccccccCCCceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCCCCC
Confidence            34466788999999999888655433 49999999999999999999 999999999999997654 5999999887766


Q ss_pred             CCCCCCC
Q 043554          158 ERSTASS  164 (192)
Q Consensus       158 ~~~~~~~  164 (192)
                      .......
T Consensus       282 ~~~~~~e  288 (348)
T KOG4628|consen  282 GSEPVSE  288 (348)
T ss_pred             CCCCccC
Confidence            6554444

>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=99.64  E-value=5.6e-17  Score=98.33  Aligned_cols=44  Identities=64%  Similarity=1.317  Sum_probs=40.3

Q ss_pred             CCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccC
Q 043554          106 TECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCR  150 (192)
Q Consensus       106 ~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR  150 (192)
                      ++|+||+++|..++.+..++ |||.||.+||..|++++.+||+||
T Consensus         1 d~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~~~~~~~~CP~CR   44 (44)
T PF13639_consen    1 DECPICLEEFEDGEKVVKLP-CGHVFHRSCIKEWLKRNNSCPVCR   44 (44)
T ss_dssp             -CETTTTCBHHTTSCEEEET-TSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred             CCCcCCChhhcCCCeEEEcc-CCCeeCHHHHHHHHHhCCcCCccC
Confidence            37999999999999999999 999999999999999999999997

...

>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=8.6e-14  Score=93.29  Aligned_cols=46  Identities=37%  Similarity=0.878  Sum_probs=36.5

Q ss_pred             CCCCCCcccCCcCCC----------CceEEcCCCCCcccHhhHHHHHhCCCCCcccC
Q 043554          104 PATECPICLGEFVDG----------EKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCR  150 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~----------~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR  150 (192)
                      .++.|+||+++|.+.          -.+...+ |||.||..||.+|++.+.+||+||
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            455699999999432          2345555 999999999999999999999997

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 ....

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

Probab=99.42  E-value=1.9e-13  Score=114.75  Aligned_cols=73  Identities=26%  Similarity=0.651  Sum_probs=52.2

Q ss_pred             CHHHHhcCCceeecCCCCCCCCCCCcccCCcCCCC----------ceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCc
Q 043554           85 KKRDLRRIPVAVYGEGVDIPATECPICLGEFVDGE----------KVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLL  154 (192)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~----------~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~  154 (192)
                      .++.-+-+++....+ ...+|..|.||+|++-..+          +.+.+| |||+||-+|+..|++++++||+||.++.
T Consensus       268 ~kdl~~~~~t~t~eq-l~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPICr~p~i  345 (491)
T COG5243         268 TKDLNAMYPTATEEQ-LTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRPVI  345 (491)
T ss_pred             hhHHHhhcchhhhhh-hcCCCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcccCccc
Confidence            333333444433222 2346789999999954332          446788 9999999999999999999999999965


Q ss_pred             CCCCC
Q 043554          155 NNNER  159 (192)
Q Consensus       155 ~~~~~  159 (192)
                      -+...
T Consensus       346 fd~~~  350 (491)
T COG5243         346 FDQSS  350 (491)
T ss_pred             cccCC
Confidence            55444

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

Probab=99.41  E-value=9.8e-14  Score=113.68  Aligned_cols=51  Identities=45%  Similarity=1.181  Sum_probs=47.1

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHh-CCCCCcccCccCcC
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLL-SHSSCPNCRHSLLN  155 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~l~~  155 (192)
                      .+.+|+|||++|.++|+++++| |+|.||..|++.|+. .+..||+||..+++
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            4679999999999999999999 999999999999998 67889999998864

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.41  E-value=2.3e-13  Score=110.05  Aligned_cols=73  Identities=32%  Similarity=0.664  Sum_probs=54.8

Q ss_pred             cCCCHHHHhcCCceeecCC---CCCCCCCCCcccCCcCCCCc----eEEcCCCCCcccHhhHHHHHhCCCCCcccCccCc
Q 043554           82 TGLKKRDLRRIPVAVYGEG---VDIPATECPICLGEFVDGEK----VRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLL  154 (192)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~---~~~~~~~C~ICl~~~~~~~~----v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~  154 (192)
                      .+..+..++.+|.......   ....+.+|+||++.+.+++.    +.+++.|+|.||..||..|++.+.+||+||..+.
T Consensus       148 ~~~~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~  227 (238)
T PHA02929        148 GKNYKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI  227 (238)
T ss_pred             cchhHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence            4456777888887754322   22346799999999876531    2344449999999999999999999999999775

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.33  E-value=2.4e-12  Score=100.46  Aligned_cols=58  Identities=26%  Similarity=0.576  Sum_probs=44.7

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC----------------CCCCcccCccCcCCCCCCCCCCC
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS----------------HSSCPNCRHSLLNNNERSTASSS  165 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~----------------~~~CP~CR~~l~~~~~~~~~~~~  165 (192)
                      ++.+|+||++.++++   .+++ |||.||+.||..|+..                +..||+||..+....-.+-.+..
T Consensus        17 ~~~~CpICld~~~dP---VvT~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvPiygrg   90 (193)
T PLN03208         17 GDFDCNICLDQVRDP---VVTL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVPIYGRG   90 (193)
T ss_pred             CccCCccCCCcCCCc---EEcC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEEeeccC
Confidence            467899999998765   5566 9999999999999842                34699999998776544444433

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

Probab=99.24  E-value=8.3e-12  Score=99.17  Aligned_cols=60  Identities=27%  Similarity=0.502  Sum_probs=46.5

Q ss_pred             CCCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC---CCCCcccCccCcCCCCCCCCCCC
Q 043554          102 DIPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS---HSSCPNCRHSLLNNNERSTASSS  165 (192)
Q Consensus       102 ~~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~---~~~CP~CR~~l~~~~~~~~~~~~  165 (192)
                      +....+|.||||.-+++   +++. |||+||+-||.+|+..   .+.||+|+..+..+.-.+-++..
T Consensus        44 ~~~~FdCNICLd~akdP---VvTl-CGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlYGrG  106 (230)
T KOG0823|consen   44 DGGFFDCNICLDLAKDP---VVTL-CGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLYGRG  106 (230)
T ss_pred             CCCceeeeeeccccCCC---EEee-cccceehHHHHHHHhhcCCCeeCCccccccccceEEeeeccC
Confidence            45678999999986665   4555 9999999999999974   44699999988777655554433

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

Probab=99.21  E-value=3.6e-12  Score=104.09  Aligned_cols=53  Identities=26%  Similarity=0.685  Sum_probs=44.7

Q ss_pred             CCCCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCCC
Q 043554          101 VDIPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNN  157 (192)
Q Consensus       101 ~~~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~  157 (192)
                      .......|.+||+...++   .-+| |||+||+.||..|...+..||+||..+.+..
T Consensus       235 i~~a~~kC~LCLe~~~~p---SaTp-CGHiFCWsCI~~w~~ek~eCPlCR~~~~psk  287 (293)
T KOG0317|consen  235 IPEATRKCSLCLENRSNP---SATP-CGHIFCWSCILEWCSEKAECPLCREKFQPSK  287 (293)
T ss_pred             CCCCCCceEEEecCCCCC---CcCc-CcchHHHHHHHHHHccccCCCcccccCCCcc
Confidence            334568999999998776   5677 9999999999999999999999999886543

>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=99.17  E-value=1.9e-11  Score=75.93  Aligned_cols=46  Identities=39%  Similarity=0.872  Sum_probs=39.0

Q ss_pred             CCCCCcccCCcCCCCceEEcCCCCCc-ccHhhHHHHHhCCCCCcccCccCc
Q 043554          105 ATECPICLGEFVDGEKVRVLPKCNHG-FHVRCIDTWLLSHSSCPNCRHSLL  154 (192)
Q Consensus       105 ~~~C~ICl~~~~~~~~v~~l~~C~H~-FH~~Ci~~Wl~~~~~CP~CR~~l~  154 (192)
                      +..|.||++...+   +..+| |||. |+..|+..|++.+..||+||+++.
T Consensus         2 ~~~C~iC~~~~~~---~~~~p-CgH~~~C~~C~~~~~~~~~~CP~Cr~~i~   48 (50)
T PF13920_consen    2 DEECPICFENPRD---VVLLP-CGHLCFCEECAERLLKRKKKCPICRQPIE   48 (50)
T ss_dssp             HSB-TTTSSSBSS---EEEET-TCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred             cCCCccCCccCCc---eEEeC-CCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence            4689999998654   67888 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=99.16  E-value=2.5e-11  Score=71.45  Aligned_cols=39  Identities=49%  Similarity=1.144  Sum_probs=32.9

Q ss_pred             CCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCccc
Q 043554          108 CPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNC  149 (192)
Q Consensus       108 C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~C  149 (192)
                      |+||++.+.+  .+..++ |||.||.+|+.+|++.+..||+|
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            8999999887  356777 99999999999999988899998

>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=99.16  E-value=3.7e-11  Score=71.81  Aligned_cols=44  Identities=57%  Similarity=1.238  Sum_probs=36.8

Q ss_pred             CCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC-CCCCcccCccC
Q 043554          107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS-HSSCPNCRHSL  153 (192)
Q Consensus       107 ~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l  153 (192)
                      +|+||++.+  .+.+...+ |+|.||..|+..|++. +..||+||..+
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            599999998  33456666 9999999999999987 67799998754

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

Probab=99.12  E-value=4.3e-11  Score=81.43  Aligned_cols=52  Identities=37%  Similarity=0.792  Sum_probs=39.2

Q ss_pred             CCCCCCcccCCcCC--------CCc-eEEcCCCCCcccHhhHHHHHhC---CCCCcccCccCcC
Q 043554          104 PATECPICLGEFVD--------GEK-VRVLPKCNHGFHVRCIDTWLLS---HSSCPNCRHSLLN  155 (192)
Q Consensus       104 ~~~~C~ICl~~~~~--------~~~-v~~l~~C~H~FH~~Ci~~Wl~~---~~~CP~CR~~l~~  155 (192)
                      +++.|.||...|..        ++. ..++..|+|.||..||.+|+..   +..||+||+.+.-
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            36789999988872        121 2233359999999999999974   4679999998753

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

Probab=99.09  E-value=5.8e-11  Score=107.23  Aligned_cols=61  Identities=33%  Similarity=0.743  Sum_probs=50.6

Q ss_pred             CCCCCCcccCCcCCCCc--eEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCCCCCCCCCCC
Q 043554          104 PATECPICLGEFVDGEK--VRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNERSTASSS  165 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~--v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~~~~~~~~~  165 (192)
                      .+..|+||+|++.....  ...++ |+|+||..|+..|++++++||+||..+...+........
T Consensus       290 ~~~~C~IC~e~l~~~~~~~~~rL~-C~Hifh~~CL~~W~er~qtCP~CR~~~~~~~~~~~~~~~  352 (543)
T KOG0802|consen  290 SDELCIICLEELHSGHNITPKRLP-CGHIFHDSCLRSWFERQQTCPTCRTVLYDYVLWQIAALQ  352 (543)
T ss_pred             cCCeeeeechhhccccccccceee-cccchHHHHHHHHHHHhCcCCcchhhhhccccccccCCc
Confidence            47789999999998755  67788 999999999999999999999999966666554444444

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

Probab=99.09  E-value=6.1e-11  Score=90.65  Aligned_cols=52  Identities=33%  Similarity=0.751  Sum_probs=43.7

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCCC
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNN  157 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~  157 (192)
                      +-+.|+|||+.+.+...+ -+ +|||+||+.||...++....||+||..|..+.
T Consensus       130 ~~~~CPiCl~~~sek~~v-sT-kCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~  181 (187)
T KOG0320|consen  130 GTYKCPICLDSVSEKVPV-ST-KCGHVFCSQCIKDALKNTNKCPTCRKKITHKQ  181 (187)
T ss_pred             cccCCCceecchhhcccc-cc-ccchhHHHHHHHHHHHhCCCCCCcccccchhh
Confidence            457899999999886433 24 49999999999999999999999999886654

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=99.02  E-value=3e-10  Score=68.62  Aligned_cols=44  Identities=27%  Similarity=0.769  Sum_probs=38.1

Q ss_pred             CCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCc
Q 043554          107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRH  151 (192)
Q Consensus       107 ~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~  151 (192)
                      .|+||+++|.+.....+++ |||+||..|+..+......||+||+
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            4999999996666778887 9999999999998856678999985

>PHA02926 zinc finger-like protein; Provisional

Probab=99.01  E-value=2.4e-10  Score=90.48  Aligned_cols=51  Identities=31%  Similarity=0.750  Sum_probs=38.9

Q ss_pred             CCCCCCcccCCcCCC-----CceEEcCCCCCcccHhhHHHHHhCC------CCCcccCccCc
Q 043554          104 PATECPICLGEFVDG-----EKVRVLPKCNHGFHVRCIDTWLLSH------SSCPNCRHSLL  154 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~-----~~v~~l~~C~H~FH~~Ci~~Wl~~~------~~CP~CR~~l~  154 (192)
                      .+.+|+||||..-++     ....+|+.|+|.||..||..|.+.+      .+||+||..+.
T Consensus       169 kE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~  230 (242)
T PHA02926        169 KEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR  230 (242)
T ss_pred             CCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence            357899999986432     1234566699999999999999743      35999999764

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

Probab=98.95  E-value=4.9e-10  Score=67.00  Aligned_cols=38  Identities=45%  Similarity=1.034  Sum_probs=29.1

Q ss_pred             CCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCC----CCCccc
Q 043554          108 CPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSH----SSCPNC  149 (192)
Q Consensus       108 C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~----~~CP~C  149 (192)
                      |+||++-|+++   ..++ |||.|+..||..|++..    ..||.|
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            89999999886   6777 99999999999999643    359987

>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=98.93  E-value=5.8e-10  Score=66.14  Aligned_cols=39  Identities=46%  Similarity=1.133  Sum_probs=33.5

Q ss_pred             CCcccCCcCCCCceEEcCCCCCcccHhhHHHHHh--CCCCCccc
Q 043554          108 CPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLL--SHSSCPNC  149 (192)
Q Consensus       108 C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~--~~~~CP~C  149 (192)
                      |+||++.+.++.  ..++ |||.||..|+..|++  ....||+|
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            799999988763  5777 999999999999998  45569988

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=98.88  E-value=2.6e-09  Score=69.03  Aligned_cols=47  Identities=34%  Similarity=0.644  Sum_probs=40.9

Q ss_pred             CCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCC
Q 043554          106 TECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNN  156 (192)
Q Consensus       106 ~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~  156 (192)
                      ..|+||++.++++   .+++ |||+|+..||..|++.+.+||+|+..+...
T Consensus         2 ~~Cpi~~~~~~~P---v~~~-~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~   48 (63)
T smart00504        2 FLCPISLEVMKDP---VILP-SGQTYERRAIEKWLLSHGTDPVTGQPLTHE   48 (63)
T ss_pred             cCCcCCCCcCCCC---EECC-CCCEEeHHHHHHHHHHCCCCCCCcCCCChh
Confidence            4699999999886   5677 999999999999998888999999887443

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

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

Probab=98.87  E-value=2e-09  Score=93.54  Aligned_cols=50  Identities=30%  Similarity=0.717  Sum_probs=39.8

Q ss_pred             CCCCCcccCCcCCC--------------CceEEcCCCCCcccHhhHHHHHh-CCCCCcccCccCcC
Q 043554          105 ATECPICLGEFVDG--------------EKVRVLPKCNHGFHVRCIDTWLL-SHSSCPNCRHSLLN  155 (192)
Q Consensus       105 ~~~C~ICl~~~~~~--------------~~v~~l~~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~l~~  155 (192)
                      ..+|+|||.++.--              .....+| |+|+||..|+.+|+. .+-.||+||.+++.
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            45899999988611              1234568 999999999999998 55589999998863

>smart00184 RING Ring finger

Probab=98.87  E-value=2.2e-09  Score=61.82  Aligned_cols=38  Identities=50%  Similarity=1.225  Sum_probs=32.0

Q ss_pred             CCcccCCcCCCCceEEcCCCCCcccHhhHHHHHh-CCCCCccc
Q 043554          108 CPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLL-SHSSCPNC  149 (192)
Q Consensus       108 C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~-~~~~CP~C  149 (192)
                      |+||++..   .....++ |+|.||..|+..|++ .+..||+|
T Consensus         1 C~iC~~~~---~~~~~~~-C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEEL---KDPVVLP-CGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCC---CCcEEec-CCChHHHHHHHHHHHhCcCCCCCC
Confidence            78999883   3467777 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)

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

Probab=98.81  E-value=3.6e-09  Score=70.49  Aligned_cols=52  Identities=33%  Similarity=0.717  Sum_probs=37.9

Q ss_pred             CCCCCcccCCcC-----------CCCce-EEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCC
Q 043554          105 ATECPICLGEFV-----------DGEKV-RVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNN  156 (192)
Q Consensus       105 ~~~C~ICl~~~~-----------~~~~v-~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~  156 (192)
                      -+.|+||...|.           .+++. .....|+|.||..||.+||..+..||++|+++.-.
T Consensus        20 id~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~   83 (88)
T COG5194          20 IDVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVLA   83 (88)
T ss_pred             cchhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEEe
Confidence            345666665553           33332 23335999999999999999999999999988543

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

Probab=98.71  E-value=2e-09  Score=71.06  Aligned_cols=51  Identities=37%  Similarity=0.812  Sum_probs=38.0

Q ss_pred             CCCCCCcccCCcCC--------CC-ceEEcCCCCCcccHhhHHHHHhC---CCCCcccCccCc
Q 043554          104 PATECPICLGEFVD--------GE-KVRVLPKCNHGFHVRCIDTWLLS---HSSCPNCRHSLL  154 (192)
Q Consensus       104 ~~~~C~ICl~~~~~--------~~-~v~~l~~C~H~FH~~Ci~~Wl~~---~~~CP~CR~~l~  154 (192)
                      ++.+|.||.-.|..        +| -..++..|.|.||..||.+|+..   +..||+||+.+.
T Consensus        19 ~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~   81 (84)
T KOG1493|consen   19 PDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ   81 (84)
T ss_pred             CCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence            45689999888862        22 22233369999999999999964   456999999874

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.70  E-value=1.4e-08  Score=87.89  Aligned_cols=49  Identities=29%  Similarity=0.579  Sum_probs=42.3

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCC
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNN  156 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~  156 (192)
                      ....|+||++.|.+.   .+++ |||.||..||..|+..+..||+||..+...
T Consensus        25 ~~l~C~IC~d~~~~P---vitp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~   73 (397)
T TIGR00599        25 TSLRCHICKDFFDVP---VLTS-CSHTFCSLCIRRCLSNQPKCPLCRAEDQES   73 (397)
T ss_pred             cccCCCcCchhhhCc---cCCC-CCCchhHHHHHHHHhCCCCCCCCCCccccc
Confidence            457899999999775   4677 999999999999998888899999987654

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=98.67  E-value=9.4e-09  Score=83.27  Aligned_cols=50  Identities=28%  Similarity=0.656  Sum_probs=41.8

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHH-HHhCCCC-CcccCccCcCCC
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDT-WLLSHSS-CPNCRHSLLNNN  157 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~-Wl~~~~~-CP~CR~~l~~~~  157 (192)
                      .++.|+||++.....   ..++ |||+||..||.. |-+++.- ||+||+....+.
T Consensus       214 ~d~kC~lC~e~~~~p---s~t~-CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~  265 (271)
T COG5574         214 ADYKCFLCLEEPEVP---SCTP-CGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK  265 (271)
T ss_pred             cccceeeeecccCCc---cccc-ccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence            478999999987665   5666 999999999999 9877665 999999886654

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

Probab=98.60  E-value=8.3e-09  Score=83.73  Aligned_cols=52  Identities=27%  Similarity=0.678  Sum_probs=43.0

Q ss_pred             CCCCCCCcccCCcCCCC-------ceEEcCCCCCcccHhhHHHHHh--CCCCCcccCccCcC
Q 043554          103 IPATECPICLGEFVDGE-------KVRVLPKCNHGFHVRCIDTWLL--SHSSCPNCRHSLLN  155 (192)
Q Consensus       103 ~~~~~C~ICl~~~~~~~-------~v~~l~~C~H~FH~~Ci~~Wl~--~~~~CP~CR~~l~~  155 (192)
                      .++..|+||-..+....       ++..|. |+|+||+.||.-|-.  ++++||.|+..+.-
T Consensus       222 l~d~vCaVCg~~~~~s~~eegvienty~Ls-CnHvFHEfCIrGWcivGKkqtCPYCKekVdl  282 (328)
T KOG1734|consen  222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLS-CNHVFHEFCIRGWCIVGKKQTCPYCKEKVDL  282 (328)
T ss_pred             CCcchhHhhcchheeecchhhhhhhheeee-cccchHHHhhhhheeecCCCCCchHHHHhhH
Confidence            35789999999887554       567787 999999999999984  67899999887643

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

Probab=98.60  E-value=3.6e-08  Score=59.09  Aligned_cols=38  Identities=39%  Similarity=0.845  Sum_probs=22.4

Q ss_pred             CCcccCCcCCCC-ceEEcCCCCCcccHhhHHHHHhCC----CCCc
Q 043554          108 CPICLGEFVDGE-KVRVLPKCNHGFHVRCIDTWLLSH----SSCP  147 (192)
Q Consensus       108 C~ICl~~~~~~~-~v~~l~~C~H~FH~~Ci~~Wl~~~----~~CP  147 (192)
                      |+||.+ |.+.+ ..++|+ |||+|+.+||+.++++.    ..||
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 76644 457798 99999999999999743    3476

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

Probab=98.52  E-value=9.3e-08  Score=58.98  Aligned_cols=42  Identities=29%  Similarity=0.734  Sum_probs=32.6

Q ss_pred             CCCcccCCcCCCCceEEcCCCC-----CcccHhhHHHHHhC--CCCCcccC
Q 043554          107 ECPICLGEFVDGEKVRVLPKCN-----HGFHVRCIDTWLLS--HSSCPNCR  150 (192)
Q Consensus       107 ~C~ICl~~~~~~~~v~~l~~C~-----H~FH~~Ci~~Wl~~--~~~CP~CR  150 (192)
                      .|-||++ ..+++...+.| |.     |.+|..|+.+|+..  +.+||+|+
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            4899998 44445556788 75     89999999999964  44799995

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

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

Probab=98.48  E-value=7.2e-08  Score=67.37  Aligned_cols=54  Identities=31%  Similarity=0.694  Sum_probs=40.2

Q ss_pred             CCCCCCCCcccCCcC-------------CCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcC
Q 043554          102 DIPATECPICLGEFV-------------DGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLN  155 (192)
Q Consensus       102 ~~~~~~C~ICl~~~~-------------~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~  155 (192)
                      +...+.|+||..-+-             .++-+.....|+|.||..||.+|+++++.||+|.+.+.-
T Consensus        43 Di~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~~  109 (114)
T KOG2930|consen   43 DIVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWVF  109 (114)
T ss_pred             eeeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcceeE
Confidence            345668999875542             222333444699999999999999999999999887753

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

Probab=98.46  E-value=9.5e-08  Score=83.78  Aligned_cols=49  Identities=31%  Similarity=0.590  Sum_probs=38.9

Q ss_pred             CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCC-----CCCcccCccCcCCC
Q 043554          105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSH-----SSCPNCRHSLLNNN  157 (192)
Q Consensus       105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~-----~~CP~CR~~l~~~~  157 (192)
                      +..|+|||++...+   ..+ .|||+||..||-+++...     ..||+||..+..++
T Consensus       186 ~~~CPICL~~~~~p---~~t-~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kd  239 (513)
T KOG2164|consen  186 DMQCPICLEPPSVP---VRT-NCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKD  239 (513)
T ss_pred             CCcCCcccCCCCcc---ccc-ccCceeeHHHHHHHHhhhcccCCccCCchhhhccccc
Confidence            77899999987665   334 399999999999988643     46999999887643

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=98.37  E-value=4e-07  Score=76.17  Aligned_cols=54  Identities=31%  Similarity=0.687  Sum_probs=39.7

Q ss_pred             CCCCCcccCC-cCCCC-ceEEcCCCCCcccHhhHHHHHh-CCCCCcccCccCcCCCCC
Q 043554          105 ATECPICLGE-FVDGE-KVRVLPKCNHGFHVRCIDTWLL-SHSSCPNCRHSLLNNNER  159 (192)
Q Consensus       105 ~~~C~ICl~~-~~~~~-~v~~l~~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~l~~~~~~  159 (192)
                      +..|++|..+ |.+++ ++.+.+ |||.||..|++..+. ....||.|+..+-..+..
T Consensus         3 ~~~CP~Ck~~~y~np~~kl~i~~-CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~fr   59 (309)
T TIGR00570         3 DQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGSGSCPECDTPLRKNNFR   59 (309)
T ss_pred             CCCCCcCCCCCccCcccccccCC-CCCcccHHHHHHHhcCCCCCCCCCCCccchhhcc
Confidence            5689999996 44444 233345 999999999999664 456799999988666533

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).

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

Probab=98.33  E-value=1.8e-07  Score=78.31  Aligned_cols=51  Identities=29%  Similarity=0.691  Sum_probs=44.4

Q ss_pred             CCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCCCCCC
Q 043554          106 TECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNERS  160 (192)
Q Consensus       106 ~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~~~~  160 (192)
                      ..|.||.+-|..+   .++| |+|.||.-||..+|..+..||.|+.++.+..-+.
T Consensus        24 LRC~IC~eyf~ip---~itp-CsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr~   74 (442)
T KOG0287|consen   24 LRCGICFEYFNIP---MITP-CSHTFCSLCIRKFLSYKPQCPTCCVTVTESDLRN   74 (442)
T ss_pred             HHHhHHHHHhcCc---eecc-ccchHHHHHHHHHhccCCCCCceecccchhhhhh
Confidence            4699999999886   6788 9999999999999999999999999887764433

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

Probab=98.33  E-value=9.5e-08  Score=63.40  Aligned_cols=50  Identities=34%  Similarity=0.879  Sum_probs=23.5

Q ss_pred             CCCCCcccCCcCCCCce--EEcC--CCCCcccHhhHHHHHhC----CC-------CCcccCccCc
Q 043554          105 ATECPICLGEFVDGEKV--RVLP--KCNHGFHVRCIDTWLLS----HS-------SCPNCRHSLL  154 (192)
Q Consensus       105 ~~~C~ICl~~~~~~~~v--~~l~--~C~H~FH~~Ci~~Wl~~----~~-------~CP~CR~~l~  154 (192)
                      +.+|.||++.+.+++.+  .+.+  .|++.||..||.+||..    +.       +||.|+++|.
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~   66 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS   66 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence            35799999987633322  3332  69999999999999952    11       4999998774

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

Probab=98.30  E-value=2.4e-07  Score=80.08  Aligned_cols=48  Identities=35%  Similarity=0.881  Sum_probs=39.0

Q ss_pred             CCCCCCcccCCcCCCC-ceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCc
Q 043554          104 PATECPICLGEFVDGE-KVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLL  154 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~-~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~  154 (192)
                      +..+|+|||+.+.... .+.... |.|.||..|+..|.  ..+||+||....
T Consensus       174 ELPTCpVCLERMD~s~~gi~t~~-c~Hsfh~~cl~~w~--~~scpvcR~~q~  222 (493)
T KOG0804|consen  174 ELPTCPVCLERMDSSTTGILTIL-CNHSFHCSCLMKWW--DSSCPVCRYCQS  222 (493)
T ss_pred             cCCCcchhHhhcCccccceeeee-cccccchHHHhhcc--cCcChhhhhhcC
Confidence            5679999999998764 344555 99999999999994  568999998654

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

Probab=98.28  E-value=4.2e-07  Score=76.67  Aligned_cols=50  Identities=34%  Similarity=0.691  Sum_probs=41.8

Q ss_pred             CCCCCCCcccCCcCCCCceEEcCCCCCc-ccHhhHHHHHhCCCCCcccCccCcCC
Q 043554          103 IPATECPICLGEFVDGEKVRVLPKCNHG-FHVRCIDTWLLSHSSCPNCRHSLLNN  156 (192)
Q Consensus       103 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~-FH~~Ci~~Wl~~~~~CP~CR~~l~~~  156 (192)
                      ++..+|.|||++-++   +.+|| |.|. .|..|-+.-.-+.+.||+||+++.+-
T Consensus       288 ~~gkeCVIClse~rd---t~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~l  338 (349)
T KOG4265|consen  288 ESGKECVICLSESRD---TVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPIEEL  338 (349)
T ss_pred             cCCCeeEEEecCCcc---eEEec-chhhehhHhHHHHHHHhhcCCCccccchHhh
Confidence            457899999998766   58999 9998 99999988655677899999988654

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

Probab=98.24  E-value=5e-07  Score=60.39  Aligned_cols=48  Identities=27%  Similarity=0.470  Sum_probs=37.3

Q ss_pred             CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC-CCCCcccCccCcCC
Q 043554          105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS-HSSCPNCRHSLLNN  156 (192)
Q Consensus       105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l~~~  156 (192)
                      ...|+|+.+-|.++   .+++ +||.|...||+.|++. ..+||+|+.++...
T Consensus         4 ~f~CpIt~~lM~dP---Vi~~-~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~   52 (73)
T PF04564_consen    4 EFLCPITGELMRDP---VILP-SGHTYERSAIERWLEQNGGTDPFTRQPLSES   52 (73)
T ss_dssp             GGB-TTTSSB-SSE---EEET-TSEEEEHHHHHHHHCTTSSB-TTT-SB-SGG
T ss_pred             ccCCcCcCcHhhCc---eeCC-cCCEEcHHHHHHHHHcCCCCCCCCCCcCCcc
Confidence            46799999999886   5677 9999999999999988 78899999888654

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 ....

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

Probab=98.22  E-value=2.8e-07  Score=85.69  Aligned_cols=51  Identities=31%  Similarity=0.763  Sum_probs=38.1

Q ss_pred             CCCCCCcccCCcCCCC---ceEEcCCCCCcccHhhHHHHHhC--CCCCcccCccCc
Q 043554          104 PATECPICLGEFVDGE---KVRVLPKCNHGFHVRCIDTWLLS--HSSCPNCRHSLL  154 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~---~v~~l~~C~H~FH~~Ci~~Wl~~--~~~CP~CR~~l~  154 (192)
                      +..+|+||+..+..-+   .-..+++|.|.||..|+..|++.  +.+||+||..++
T Consensus      1468 G~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219        1468 GHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred             CcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence            4678999998765211   11234479999999999999974  567999998764

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

Probab=98.15  E-value=7.7e-07  Score=72.90  Aligned_cols=43  Identities=40%  Similarity=0.867  Sum_probs=38.3

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccC
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCR  150 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR  150 (192)
                      +...|+||++.|.++   .+++ |+|.||..|+..++.....||.||
T Consensus        12 ~~~~C~iC~~~~~~p---~~l~-C~H~~c~~C~~~~~~~~~~Cp~cr   54 (386)
T KOG2177|consen   12 EELTCPICLEYFREP---VLLP-CGHNFCRACLTRSWEGPLSCPVCR   54 (386)
T ss_pred             ccccChhhHHHhhcC---cccc-ccchHhHHHHHHhcCCCcCCcccC
Confidence            466899999999998   7788 999999999999988556799999

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

Probab=98.12  E-value=1.1e-06  Score=74.86  Aligned_cols=52  Identities=27%  Similarity=0.763  Sum_probs=37.0

Q ss_pred             CCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC---CCCCcccCccCcCCC
Q 043554          106 TECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS---HSSCPNCRHSLLNNN  157 (192)
Q Consensus       106 ~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~---~~~CP~CR~~l~~~~  157 (192)
                      ..|.||.+-+.....+.-...|||+||..|+.+|+..   +.+||.|+-.+....
T Consensus         5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~~r~   59 (465)
T KOG0827|consen    5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQERH   59 (465)
T ss_pred             ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeeccccee
Confidence            4799994444444455444469999999999999974   457999995554433

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

Probab=98.11  E-value=1.3e-06  Score=71.95  Aligned_cols=52  Identities=27%  Similarity=0.503  Sum_probs=42.9

Q ss_pred             CCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCCCCCCC
Q 043554          106 TECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNERST  161 (192)
Q Consensus       106 ~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~~~~~  161 (192)
                      ..|-||-+-|..+   ..++ |||.||.-||...|..+..||+||.+..+......
T Consensus        26 lrC~IC~~~i~ip---~~Tt-CgHtFCslCIR~hL~~qp~CP~Cr~~~~esrlr~~   77 (391)
T COG5432          26 LRCRICDCRISIP---CETT-CGHTFCSLCIRRHLGTQPFCPVCREDPCESRLRGS   77 (391)
T ss_pred             HHhhhhhheeecc---eecc-cccchhHHHHHHHhcCCCCCccccccHHhhhcccc
Confidence            4799999888775   4555 99999999999999999999999997766544433

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

Probab=98.00  E-value=2e-06  Score=55.42  Aligned_cols=47  Identities=28%  Similarity=0.607  Sum_probs=23.7

Q ss_pred             CCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCCC
Q 043554          106 TECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNN  157 (192)
Q Consensus       106 ~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~  157 (192)
                      ..|++|.+-++++  |.+. .|+|+||..||..-+..  .||+|+.+...++
T Consensus         8 LrCs~C~~~l~~p--v~l~-~CeH~fCs~Ci~~~~~~--~CPvC~~Paw~qD   54 (65)
T PF14835_consen    8 LRCSICFDILKEP--VCLG-GCEHIFCSSCIRDCIGS--ECPVCHTPAWIQD   54 (65)
T ss_dssp             TS-SSS-S--SS---B----SSS--B-TTTGGGGTTT--B-SSS--B-S-SS
T ss_pred             cCCcHHHHHhcCC--ceec-cCccHHHHHHhHHhcCC--CCCCcCChHHHHH
Confidence            4699999998876  3334 59999999999885543  4999988765544

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

Probab=97.93  E-value=4.5e-06  Score=71.16  Aligned_cols=50  Identities=36%  Similarity=0.900  Sum_probs=39.1

Q ss_pred             CCCCCCcccCCcCCCC----ceEEcCCCCCcccHhhHHHHHh--C-----CCCCcccCccC
Q 043554          104 PATECPICLGEFVDGE----KVRVLPKCNHGFHVRCIDTWLL--S-----HSSCPNCRHSL  153 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~----~v~~l~~C~H~FH~~Ci~~Wl~--~-----~~~CP~CR~~l  153 (192)
                      .+.+|.||++...+..    ....+|.|.|.||..||..|-.  +     .+.||.||...
T Consensus       160 ~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s  220 (344)
T KOG1039|consen  160 SEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS  220 (344)
T ss_pred             ccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence            4779999999877653    1345577999999999999984  3     35799999854

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

Probab=97.92  E-value=1.1e-06  Score=74.12  Aligned_cols=57  Identities=28%  Similarity=0.585  Sum_probs=46.4

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHh-CCCCCcccCccCcCCCCCCCCC
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLL-SHSSCPNCRHSLLNNNERSTAS  163 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~l~~~~~~~~~~  163 (192)
                      .+..|+|||+-++..   +.++.|.|.||.+||..-++ .++.||.||+.+..+.+.....
T Consensus        42 ~~v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~SkrsLr~Dp   99 (381)
T KOG0311|consen   42 IQVICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRSLRIDP   99 (381)
T ss_pred             hhhccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccccCCCCc
Confidence            467899999988764   55557999999999999886 4678999999998877665544

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

Probab=97.77  E-value=1.5e-05  Score=68.41  Aligned_cols=48  Identities=35%  Similarity=0.883  Sum_probs=36.9

Q ss_pred             CCCCCCcccCCcCCCCc--eEEcCCCCCcccHhhHHHHHhC--CCCCcccCcc
Q 043554          104 PATECPICLGEFVDGEK--VRVLPKCNHGFHVRCIDTWLLS--HSSCPNCRHS  152 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~--v~~l~~C~H~FH~~Ci~~Wl~~--~~~CP~CR~~  152 (192)
                      ...+|+||++.+...-+  +..+ .|||.|..+||+.|+.+  +..||.|...
T Consensus         3 ~g~tcpiclds~~~~g~hr~vsl-~cghlFgs~cie~wl~k~~~~~cp~c~~k   54 (463)
T KOG1645|consen    3 CGTTCPICLDSYTTAGNHRIVSL-QCGHLFGSQCIEKWLGKKTKMQCPLCSGK   54 (463)
T ss_pred             ccccCceeeeeeeecCceEEeee-cccccccHHHHHHHHhhhhhhhCcccCCh
Confidence            35789999999986543  3344 59999999999999953  3359999653

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

Probab=97.77  E-value=3.6e-06  Score=77.22  Aligned_cols=58  Identities=21%  Similarity=0.406  Sum_probs=44.2

Q ss_pred             CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCCCCCCCCC
Q 043554          105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNERSTAS  163 (192)
Q Consensus       105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~~~~~~~  163 (192)
                      ...|++|+..+.++......+ |+|.||..||+.|-+..++||+||..+.+-.......
T Consensus       123 ~~~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v~V~eS~~  180 (1134)
T KOG0825|consen  123 ENQCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGEFGEVKVLESTG  180 (1134)
T ss_pred             hhhhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhhhheeeeecccc
Confidence            346777777776665555555 9999999999999999999999999776554444333

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

Probab=97.77  E-value=4.3e-06  Score=51.90  Aligned_cols=46  Identities=35%  Similarity=0.642  Sum_probs=33.8

Q ss_pred             CCCCCcccCCcCCCCceEEcCCCCCc-ccHhhHHHHHh-CCCCCcccCccCc
Q 043554          105 ATECPICLGEFVDGEKVRVLPKCNHG-FHVRCIDTWLL-SHSSCPNCRHSLL  154 (192)
Q Consensus       105 ~~~C~ICl~~~~~~~~v~~l~~C~H~-FH~~Ci~~Wl~-~~~~CP~CR~~l~  154 (192)
                      +++|.||+|.-.+.  |  +-.|||. .|.+|-.+-++ .+..||+||+++-
T Consensus         7 ~dECTICye~pvds--V--lYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~   54 (62)
T KOG4172|consen    7 SDECTICYEHPVDS--V--LYTCGHMCMCYACGLRLKKALHGCCPICRAPIK   54 (62)
T ss_pred             ccceeeeccCcchH--H--HHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence            36899999875443  2  2249998 89999655444 6788999999863

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

Probab=97.69  E-value=1.5e-05  Score=66.01  Aligned_cols=58  Identities=28%  Similarity=0.656  Sum_probs=45.9

Q ss_pred             CCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHh-----------------------CCCCCcccCccCcCCCCC
Q 043554          103 IPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLL-----------------------SHSSCPNCRHSLLNNNER  159 (192)
Q Consensus       103 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~-----------------------~~~~CP~CR~~l~~~~~~  159 (192)
                      ....+|.|||--|.+.+...+++ |.|.||..|+.++|.                       .+..||+||..|......
T Consensus       113 ~p~gqCvICLygfa~~~~ft~T~-C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~~s  191 (368)
T KOG4445|consen  113 HPNGQCVICLYGFASSPAFTVTA-CDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEENS  191 (368)
T ss_pred             CCCCceEEEEEeecCCCceeeeh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccccccc
Confidence            35668999999999999999998 999999999987762                       012499999988665444


Q ss_pred             CC
Q 043554          160 ST  161 (192)
Q Consensus       160 ~~  161 (192)
                      --
T Consensus       192 lk  193 (368)
T KOG4445|consen  192 LK  193 (368)
T ss_pred             ee
Confidence            33

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

Probab=97.68  E-value=1.3e-05  Score=73.54  Aligned_cols=50  Identities=26%  Similarity=0.656  Sum_probs=39.0

Q ss_pred             CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHh-CCCCCcccCccCcCCCC
Q 043554          105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLL-SHSSCPNCRHSLLNNNE  158 (192)
Q Consensus       105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~l~~~~~  158 (192)
                      -..|++|-+.+++.   .++ +|+|+||..|+..-+. ++..||.|...+...+.
T Consensus       643 ~LkCs~Cn~R~Kd~---vI~-kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv  693 (698)
T KOG0978|consen  643 LLKCSVCNTRWKDA---VIT-KCGHVFCEECVQTRYETRQRKCPKCNAAFGANDV  693 (698)
T ss_pred             ceeCCCccCchhhH---HHH-hcchHHHHHHHHHHHHHhcCCCCCCCCCCCcccc
Confidence            45899998766553   334 4999999999999885 57789999998866543

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

Probab=97.59  E-value=3.6e-05  Score=63.80  Aligned_cols=54  Identities=24%  Similarity=0.404  Sum_probs=41.6

Q ss_pred             CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC-CCCCcccCccCcCCCCCCCC
Q 043554          105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS-HSSCPNCRHSLLNNNERSTA  162 (192)
Q Consensus       105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l~~~~~~~~~  162 (192)
                      ..+|+||+....-+   ..++ |+|.||..||.--.++ +.+|++||.++...-.....
T Consensus         7 ~~eC~IC~nt~n~P---v~l~-C~HkFCyiCiKGsy~ndk~~CavCR~pids~i~~~ps   61 (324)
T KOG0824|consen    7 KKECLICYNTGNCP---VNLY-CFHKFCYICIKGSYKNDKKTCAVCRFPIDSTIDFEPS   61 (324)
T ss_pred             CCcceeeeccCCcC---cccc-ccchhhhhhhcchhhcCCCCCceecCCCCcchhcchh
Confidence            45899999887665   4566 9999999999776654 56799999999766544433

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

Probab=97.54  E-value=7.5e-05  Score=47.42  Aligned_cols=41  Identities=32%  Similarity=0.665  Sum_probs=28.0

Q ss_pred             CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC--CCCCcc
Q 043554          105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS--HSSCPN  148 (192)
Q Consensus       105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~--~~~CP~  148 (192)
                      ...|+|.+..|+++  |+-.. |+|+|-++.|.+|+++  ...||+
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            56899999999876  55555 9999999999999944  345998

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

Probab=97.44  E-value=4e-05  Score=65.75  Aligned_cols=43  Identities=33%  Similarity=0.867  Sum_probs=35.9

Q ss_pred             CCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC--CCCCcccCccC
Q 043554          107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS--HSSCPNCRHSL  153 (192)
Q Consensus       107 ~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~--~~~CP~CR~~l  153 (192)
                      -|-||-|.   +..|++-| |||..|..|+..|-..  .++||.||..+
T Consensus       371 LCKICaen---dKdvkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEI  415 (563)
T KOG1785|consen  371 LCKICAEN---DKDVKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEI  415 (563)
T ss_pred             HHHHhhcc---CCCccccc-ccchHHHHHHHhhcccCCCCCCCceeeEe
Confidence            59999765   45688899 9999999999999843  57899999865

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

Probab=97.40  E-value=0.0001  Score=64.40  Aligned_cols=55  Identities=31%  Similarity=0.647  Sum_probs=45.6

Q ss_pred             CCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCCCCCC
Q 043554          103 IPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNERS  160 (192)
Q Consensus       103 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~~~~  160 (192)
                      .++..|++|...+.++-..  +. |||.||..|+..|+..+..||.|+..+...+..+
T Consensus        19 ~~~l~C~~C~~vl~~p~~~--~~-cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~~   73 (391)
T KOG0297|consen   19 DENLLCPICMSVLRDPVQT--TT-CGHRFCAGCLLESLSNHQKCPVCRQELTQAEELP   73 (391)
T ss_pred             cccccCccccccccCCCCC--CC-CCCcccccccchhhccCcCCcccccccchhhccC
Confidence            3567899999999887432  34 9999999999999999999999998886666554

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

Probab=97.31  E-value=0.00023  Score=56.81  Aligned_cols=52  Identities=23%  Similarity=0.689  Sum_probs=43.0

Q ss_pred             CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC--------CCCCcccCccCcCCCC
Q 043554          105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS--------HSSCPNCRHSLLNNNE  158 (192)
Q Consensus       105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~--------~~~CP~CR~~l~~~~~  158 (192)
                      +.-|..|-..+..+|.++..  |-|+||++|+++|--+        ...||.|-..+..+..
T Consensus        50 ~pNC~LC~t~La~gdt~RLv--CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~N  109 (299)
T KOG3970|consen   50 NPNCRLCNTPLASGDTTRLV--CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPIN  109 (299)
T ss_pred             CCCCceeCCccccCcceeeh--hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCcc
Confidence            44699999999999988875  9999999999999842        3469999998876643

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

Probab=97.26  E-value=0.00015  Score=63.09  Aligned_cols=49  Identities=33%  Similarity=0.743  Sum_probs=42.4

Q ss_pred             CCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcC
Q 043554          103 IPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLN  155 (192)
Q Consensus       103 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~  155 (192)
                      ..+.+|.||+.-+...   ..+| |||.||..||++-+.....||.||..+.+
T Consensus        82 ~sef~c~vc~~~l~~p---v~tp-cghs~c~~Cl~r~ld~~~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   82 RSEFECCVCSRALYPP---VVTP-CGHSFCLECLDRSLDQETECPLCRDELVE  130 (398)
T ss_pred             cchhhhhhhHhhcCCC---cccc-ccccccHHHHHHHhccCCCCccccccccc
Confidence            4578999998888776   5668 99999999999988877789999999876

>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=97.25  E-value=0.00011  Score=54.24  Aligned_cols=36  Identities=22%  Similarity=0.516  Sum_probs=30.0

Q ss_pred             CCCCCcccCCcCCCCceEEcCCCC------CcccHhhHHHHHh
Q 043554          105 ATECPICLGEFVDGEKVRVLPKCN------HGFHVRCIDTWLL  141 (192)
Q Consensus       105 ~~~C~ICl~~~~~~~~v~~l~~C~------H~FH~~Ci~~Wl~  141 (192)
                      ..+|.||++.+.+++.++.++ ||      |+||.+|+.+|-+
T Consensus        26 ~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~~   67 (134)
T PF05883_consen   26 TVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWRR   67 (134)
T ss_pred             CeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHHh
Confidence            458999999999966676666 65      8999999999943

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.

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

Probab=97.16  E-value=0.00019  Score=61.48  Aligned_cols=46  Identities=39%  Similarity=0.875  Sum_probs=37.6

Q ss_pred             CCCCCcccCCcCCC-CceEEcCCCCCcccHhhHHHHHhCC--CCCcccCc
Q 043554          105 ATECPICLGEFVDG-EKVRVLPKCNHGFHVRCIDTWLLSH--SSCPNCRH  151 (192)
Q Consensus       105 ~~~C~ICl~~~~~~-~~v~~l~~C~H~FH~~Ci~~Wl~~~--~~CP~CR~  151 (192)
                      +.-|..|-+.+-.. +.+.-+| |.|+||..|+...+.++  ++||.||+
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            45799999888644 4567788 99999999999999654  57999983

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

Probab=96.90  E-value=0.00055  Score=66.92  Aligned_cols=51  Identities=29%  Similarity=0.621  Sum_probs=40.8

Q ss_pred             CCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCC----------CCCcccCccCc
Q 043554          103 IPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSH----------SSCPNCRHSLL  154 (192)
Q Consensus       103 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~----------~~CP~CR~~l~  154 (192)
                      +.++.|-||+.+--.....+.|. |+|+||..|...-|.++          -+||+|..++.
T Consensus      3484 D~DDmCmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred             ccCceEEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence            35778999998887777788897 99999999997766432          15999998763

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

Probab=96.88  E-value=0.00027  Score=53.67  Aligned_cols=31  Identities=32%  Similarity=0.684  Sum_probs=27.7

Q ss_pred             CCCCCCCcccCCcCCCCceEEcCCCCCcccHh
Q 043554          103 IPATECPICLGEFVDGEKVRVLPKCNHGFHVR  134 (192)
Q Consensus       103 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~  134 (192)
                      ...-+|.||||+++.++.+..|| |-.+||+.
T Consensus       175 ddkGECvICLEdL~~GdtIARLP-CLCIYHK~  205 (205)
T KOG0801|consen  175 DDKGECVICLEDLEAGDTIARLP-CLCIYHKQ  205 (205)
T ss_pred             ccCCcEEEEhhhccCCCceeccc-eEEEeecC
Confidence            34568999999999999999999 99999973

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=96.88  E-value=0.00098  Score=50.60  Aligned_cols=51  Identities=22%  Similarity=0.505  Sum_probs=36.1

Q ss_pred             CCCCCCCCcccCCcCCCCceEEcC-CCCC---cccHhhHHHHHhC--CCCCcccCccCcCC
Q 043554          102 DIPATECPICLGEFVDGEKVRVLP-KCNH---GFHVRCIDTWLLS--HSSCPNCRHSLLNN  156 (192)
Q Consensus       102 ~~~~~~C~ICl~~~~~~~~v~~l~-~C~H---~FH~~Ci~~Wl~~--~~~CP~CR~~l~~~  156 (192)
                      +..+..|-||.++...  ..  -| .|..   ..|.+|+++|+..  ...|++|+.++.-.
T Consensus         5 s~~~~~CRIC~~~~~~--~~--~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~   61 (162)
T PHA02825          5 SLMDKCCWICKDEYDV--VT--NYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK   61 (162)
T ss_pred             CCCCCeeEecCCCCCC--cc--CCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence            4457799999988542  22  34 2444   5699999999964  45699999877443

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

Probab=96.75  E-value=0.00032  Score=58.91  Aligned_cols=51  Identities=27%  Similarity=0.714  Sum_probs=41.7

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCCC
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNN  157 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~  157 (192)
                      ..-+|.+|-.-|.+...+.   .|-|.||+.||...|.....||+|...+..-.
T Consensus        14 ~~itC~LC~GYliDATTI~---eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t~   64 (331)
T KOG2660|consen   14 PHITCRLCGGYLIDATTIT---ECLHTFCKSCIVKYLEESKYCPTCDIVIHKTH   64 (331)
T ss_pred             cceehhhccceeecchhHH---HHHHHHHHHHHHHHHHHhccCCccceeccCcc
Confidence            3558999998888775443   49999999999999999999999988775543

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

Probab=96.72  E-value=0.00018  Score=61.00  Aligned_cols=44  Identities=27%  Similarity=0.596  Sum_probs=32.0

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCc
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLL  154 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~  154 (192)
                      ....|.||+++..+   ...+| |||+-|  |..-- +...+||+||+.+.
T Consensus       304 ~p~lcVVcl~e~~~---~~fvp-cGh~cc--ct~cs-~~l~~CPvCR~rI~  347 (355)
T KOG1571|consen  304 QPDLCVVCLDEPKS---AVFVP-CGHVCC--CTLCS-KHLPQCPVCRQRIR  347 (355)
T ss_pred             CCCceEEecCCccc---eeeec-CCcEEE--chHHH-hhCCCCchhHHHHH
Confidence            45679999999777   56788 999965  55443 23345999998763

>PHA02862 5L protein; Provisional

Probab=96.69  E-value=0.0012  Score=49.27  Aligned_cols=45  Identities=20%  Similarity=0.512  Sum_probs=33.4

Q ss_pred             CCCCcccCCcCCCCceEEcCCCC-----CcccHhhHHHHHh--CCCCCcccCccCcC
Q 043554          106 TECPICLGEFVDGEKVRVLPKCN-----HGFHVRCIDTWLL--SHSSCPNCRHSLLN  155 (192)
Q Consensus       106 ~~C~ICl~~~~~~~~v~~l~~C~-----H~FH~~Ci~~Wl~--~~~~CP~CR~~l~~  155 (192)
                      +.|=||+++-++.  +  -| |.     -..|.+|+.+|++  ++..|++|+.++.-
T Consensus         3 diCWIC~~~~~e~--~--~P-C~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~I   54 (156)
T PHA02862          3 DICWICNDVCDER--N--NF-CGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNI   54 (156)
T ss_pred             CEEEEecCcCCCC--c--cc-ccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEE
Confidence            5799999985433  3  34 43     4689999999996  35579999987643

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.68  E-value=0.0017  Score=52.61  Aligned_cols=58  Identities=14%  Similarity=0.243  Sum_probs=50.0

Q ss_pred             CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCCCCCCCC
Q 043554          105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNERSTA  162 (192)
Q Consensus       105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~~~~~~  162 (192)
                      -+.|+||.+.+.+...+..|..|||+|+.+|++..++....||+|-.++.+.+-....
T Consensus       221 ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdiI~Lq  278 (303)
T KOG3039|consen  221 RYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDIIGLQ  278 (303)
T ss_pred             ceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccceEeee
Confidence            5679999999999988877777999999999999998899999999988777655443

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

Probab=96.68  E-value=0.0072  Score=49.78  Aligned_cols=51  Identities=27%  Similarity=0.466  Sum_probs=37.4

Q ss_pred             CCCCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC--CCCCcccCccCc
Q 043554          101 VDIPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS--HSSCPNCRHSLL  154 (192)
Q Consensus       101 ~~~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~--~~~CP~CR~~l~  154 (192)
                      ....+.+|++|-+.-..+  ....+ |+|+||--||..=+..  ..+||.|-.+..
T Consensus       235 ~~t~~~~C~~Cg~~PtiP--~~~~~-C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~  287 (298)
T KOG2879|consen  235 TGTSDTECPVCGEPPTIP--HVIGK-CGHIYCYYCIATSRLWDASFTCPLCGENVE  287 (298)
T ss_pred             cccCCceeeccCCCCCCC--eeecc-ccceeehhhhhhhhcchhhcccCccCCCCc
Confidence            344578999998875544  33444 9999999999886653  368999977654

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

Probab=96.66  E-value=0.0016  Score=39.66  Aligned_cols=45  Identities=24%  Similarity=0.608  Sum_probs=22.7

Q ss_pred             CCcccCCcCCCC-ceEEcCCCCCcccHhhHHHHHh-CCCCCcccCccC
Q 043554          108 CPICLGEFVDGE-KVRVLPKCNHGFHVRCIDTWLL-SHSSCPNCRHSL  153 (192)
Q Consensus       108 C~ICl~~~~~~~-~v~~l~~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~l  153 (192)
                      |++|.+++...+ .+.-.+ |++.++..|...-++ ....||-||.+.
T Consensus         1 cp~C~e~~d~~d~~~~PC~-Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPCE-CGFQICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCCTT--SST-TS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCcccccccCCCccccCc-CCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence            789999995443 334444 899999999998775 367899999864

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

Probab=96.62  E-value=0.00087  Score=59.66  Aligned_cols=57  Identities=23%  Similarity=0.463  Sum_probs=42.2

Q ss_pred             CCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHh-----CCCCCcccCccCcCCCCCCCCC
Q 043554          103 IPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLL-----SHSSCPNCRHSLLNNNERSTAS  163 (192)
Q Consensus       103 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~-----~~~~CP~CR~~l~~~~~~~~~~  163 (192)
                      .+..+|.+|.++-++.   .... |.|.||.-||.+++.     .+-+||+|...+.-+...++.+
T Consensus       534 k~~~~C~lc~d~aed~---i~s~-ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDlse~ale  595 (791)
T KOG1002|consen  534 KGEVECGLCHDPAEDY---IESS-CHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLSEPALE  595 (791)
T ss_pred             cCceeecccCChhhhh---Hhhh-hhHHHHHHHHHHHHHhhhcccCCCCccccccccccccchhhh
Confidence            3567899999875543   4454 999999999988874     3567999988887665544443

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

Probab=96.62  E-value=0.0015  Score=39.77  Aligned_cols=41  Identities=29%  Similarity=0.813  Sum_probs=26.2

Q ss_pred             CCcccCCcCCCCceEEcC-CCCC---cccHhhHHHHHh--CCCCCccc
Q 043554          108 CPICLGEFVDGEKVRVLP-KCNH---GFHVRCIDTWLL--SHSSCPNC  149 (192)
Q Consensus       108 C~ICl~~~~~~~~v~~l~-~C~H---~FH~~Ci~~Wl~--~~~~CP~C  149 (192)
                      |-||+++-.+.+ ..+.| .|.=   ..|.+|+.+|+.  .+.+|++|
T Consensus         1 CrIC~~~~~~~~-~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEEDE-PLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC   47 (47)
T ss_dssp             ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred             CeEeCCcCCCCC-ceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence            678998877665 33455 2443   789999999997  45569887

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

Probab=96.59  E-value=0.0013  Score=56.78  Aligned_cols=37  Identities=27%  Similarity=0.695  Sum_probs=33.2

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHh
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLL  141 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~  141 (192)
                      .-..|.||+++..-...+..+| |+|+||+.|+..++.
T Consensus       183 slf~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~~  219 (445)
T KOG1814|consen  183 SLFDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYFT  219 (445)
T ss_pred             hcccceeeehhhcCcceeeecc-cchHHHHHHHHHHHH
Confidence            3568999999988878899999 999999999999984

>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=96.51  E-value=0.0012  Score=46.59  Aligned_cols=32  Identities=31%  Similarity=0.736  Sum_probs=27.0

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHH
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCID  137 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~  137 (192)
                      ++..|++|-..+.. ....+.| |||+||..|+.
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            35679999999987 5677788 99999999975

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 [].

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

Probab=96.47  E-value=0.001  Score=52.20  Aligned_cols=43  Identities=23%  Similarity=0.492  Sum_probs=36.0

Q ss_pred             CCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCcc
Q 043554          106 TECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHS  152 (192)
Q Consensus       106 ~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~  152 (192)
                      ..|.||-.+|+.+   +++. |||.||..|...=++....|-+|...
T Consensus       197 F~C~iCKkdy~sp---vvt~-CGH~FC~~Cai~~y~kg~~C~~Cgk~  239 (259)
T COG5152         197 FLCGICKKDYESP---VVTE-CGHSFCSLCAIRKYQKGDECGVCGKA  239 (259)
T ss_pred             eeehhchhhccch---hhhh-cchhHHHHHHHHHhccCCcceecchh
Confidence            4799999999986   4444 99999999998877878889999653

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

Probab=96.46  E-value=0.01  Score=50.02  Aligned_cols=46  Identities=22%  Similarity=0.476  Sum_probs=36.7

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCcc
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHS  152 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~  152 (192)
                      ....|++|+..-.++..+.+   -|-+||..|+..++.+.+.||+=..+
T Consensus       299 ~~~~CpvClk~r~Nptvl~v---SGyVfCY~Ci~~Yv~~~~~CPVT~~p  344 (357)
T KOG0826|consen  299 DREVCPVCLKKRQNPTVLEV---SGYVFCYPCIFSYVVNYGHCPVTGYP  344 (357)
T ss_pred             ccccChhHHhccCCCceEEe---cceEEeHHHHHHHHHhcCCCCccCCc
Confidence            45689999998777644332   68999999999999999999985443

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

Probab=96.44  E-value=0.0011  Score=61.72  Aligned_cols=49  Identities=33%  Similarity=0.726  Sum_probs=39.5

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCC-C------CCcccCcc
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSH-S------SCPNCRHS  152 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~-~------~CP~CR~~  152 (192)
                      ..++|.||.+.+...+.+--...|-|+||..||..|-++. +      .||.|+..
T Consensus       190 ~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv  245 (950)
T KOG1952|consen  190 RKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV  245 (950)
T ss_pred             CceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence            4679999999998887766555688999999999999631 1      49999843

>PHA03096 p28-like protein; Provisional

Probab=96.44  E-value=0.0015  Score=54.62  Aligned_cols=48  Identities=21%  Similarity=0.495  Sum_probs=35.0

Q ss_pred             CCCCcccCCcCCCC----ceEEcCCCCCcccHhhHHHHHhC---CCC---CcccCccC
Q 043554          106 TECPICLGEFVDGE----KVRVLPKCNHGFHVRCIDTWLLS---HSS---CPNCRHSL  153 (192)
Q Consensus       106 ~~C~ICl~~~~~~~----~v~~l~~C~H~FH~~Ci~~Wl~~---~~~---CP~CR~~l  153 (192)
                      ..|.||++......    .-..|+.|.|.||..|+..|...   +..   ||.|+..+
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~~~~~~  236 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRRLNTVI  236 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccchhhHH
Confidence            57999999887542    23457789999999999999953   223   55555544

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

Probab=96.27  E-value=0.003  Score=52.64  Aligned_cols=43  Identities=40%  Similarity=0.810  Sum_probs=34.6

Q ss_pred             CCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHh-CCCCCcccCc
Q 043554          106 TECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLL-SHSSCPNCRH  151 (192)
Q Consensus       106 ~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~-~~~~CP~CR~  151 (192)
                      ..|+.|..-+.+.   ..++.|+|.||++||...|. ....||.|..
T Consensus       275 LkCplc~~Llrnp---~kT~cC~~~fc~eci~~al~dsDf~CpnC~r  318 (427)
T COG5222         275 LKCPLCHCLLRNP---MKTPCCGHTFCDECIGTALLDSDFKCPNCSR  318 (427)
T ss_pred             ccCcchhhhhhCc---ccCccccchHHHHHHhhhhhhccccCCCccc
Confidence            6799998887776   33456999999999998775 5778999944

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=96.03  E-value=0.011  Score=36.96  Aligned_cols=35  Identities=31%  Similarity=0.880  Sum_probs=31.1

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHH
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDT  138 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~  138 (192)
                      ....|.+|-+.|++++.+.+.|.|+-.+|.+|.+.
T Consensus         4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~   38 (54)
T PF14446_consen    4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK   38 (54)
T ss_pred             cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence            45689999999999999999999999999999544

>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=95.77  E-value=0.0049  Score=36.76  Aligned_cols=41  Identities=29%  Similarity=0.774  Sum_probs=22.2

Q ss_pred             CCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCC--CCccc
Q 043554          108 CPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHS--SCPNC  149 (192)
Q Consensus       108 C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~--~CP~C  149 (192)
                      |.+|.+-...+...... .|+=.+|..|+..+++.+.  .||.|
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            56777666655333222 3888999999999997654  69987

; PDB: 3NW0_A 2CT0_A.

>PF04641 Rtf2: Rtf2 RING-finger

Probab=95.76  E-value=0.014  Score=48.30  Aligned_cols=54  Identities=20%  Similarity=0.408  Sum_probs=41.4

Q ss_pred             CCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCCC
Q 043554          103 IPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNN  157 (192)
Q Consensus       103 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~  157 (192)
                      .....|||...+|........+-.|||+|-..+|..- +....||+|-.++.+.+
T Consensus       111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~~~D  164 (260)
T PF04641_consen  111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFTEED  164 (260)
T ss_pred             CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccccCC
Confidence            4567899999999665555444349999999999995 43557999999887554

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

Probab=95.55  E-value=0.0048  Score=49.87  Aligned_cols=43  Identities=26%  Similarity=0.679  Sum_probs=31.9

Q ss_pred             CCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccC
Q 043554          107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSL  153 (192)
Q Consensus       107 ~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l  153 (192)
                      -|..|.- +..++...++. |+|+||..|...-.  ...||+|+.++
T Consensus         5 hCn~C~~-~~~~~~f~LTa-C~HvfC~~C~k~~~--~~~C~lCkk~i   47 (233)
T KOG4739|consen    5 HCNKCFR-FPSQDPFFLTA-CRHVFCEPCLKASS--PDVCPLCKKSI   47 (233)
T ss_pred             Eeccccc-cCCCCceeeee-chhhhhhhhcccCC--cccccccccee
Confidence            3666654 34477888887 99999999976532  22899999985

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

Probab=95.52  E-value=0.0077  Score=50.06  Aligned_cols=45  Identities=24%  Similarity=0.390  Sum_probs=37.0

Q ss_pred             CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccC
Q 043554          105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSL  153 (192)
Q Consensus       105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l  153 (192)
                      ...|-||...|..+   +++. |+|.||..|...=++....|.+|-+..
T Consensus       241 Pf~c~icr~~f~~p---Vvt~-c~h~fc~~ca~~~~qk~~~c~vC~~~t  285 (313)
T KOG1813|consen  241 PFKCFICRKYFYRP---VVTK-CGHYFCEVCALKPYQKGEKCYVCSQQT  285 (313)
T ss_pred             Cccccccccccccc---hhhc-CCceeehhhhccccccCCcceeccccc
Confidence            45699999999886   4454 999999999888777778899996644

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=95.28  E-value=0.0099  Score=37.16  Aligned_cols=45  Identities=29%  Similarity=0.552  Sum_probs=31.6

Q ss_pred             CCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCCC
Q 043554          107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNN  157 (192)
Q Consensus       107 ~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~  157 (192)
                      .|-.|...   +.+-.++| |+|+.+..|..-+  +-+-||.|..++...+
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            45555433   23346788 9999999998774  4556999988886544

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

Probab=95.22  E-value=0.00079  Score=57.75  Aligned_cols=51  Identities=25%  Similarity=0.640  Sum_probs=44.1

Q ss_pred             CCCCCcccCCcCCC-CceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCC
Q 043554          105 ATECPICLGEFVDG-EKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNN  156 (192)
Q Consensus       105 ~~~C~ICl~~~~~~-~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~  156 (192)
                      ...|+||.+.++.. +++..+- |||.+|..||..|+..+..||.||+.+...
T Consensus       196 v~sl~I~~~slK~~y~k~~~~~-~g~~~~~~kL~k~L~~~~kl~~~~rel~~~  247 (465)
T KOG0827|consen  196 VGSLSICFESLKQNYDKISAIV-CGHIYHHGKLSKWLATKRKLPSCRRELPKN  247 (465)
T ss_pred             HhhhHhhHHHHHHHHHHHHHHh-hcccchhhHHHHHHHHHHHhHHHHhhhhhh
Confidence            45799999999987 6666675 999999999999998888899999988654

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

Probab=95.22  E-value=0.015  Score=49.68  Aligned_cols=49  Identities=24%  Similarity=0.594  Sum_probs=40.7

Q ss_pred             CCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcC
Q 043554          103 IPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLN  155 (192)
Q Consensus       103 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~  155 (192)
                      .++..|+||...-   ......| |+|.-|..||.+-+-+.+.|=.|+..+..
T Consensus       420 sEd~lCpICyA~p---i~Avf~P-C~H~SC~~CI~qHlmN~k~CFfCktTv~~  468 (489)
T KOG4692|consen  420 SEDNLCPICYAGP---INAVFAP-CSHRSCYGCITQHLMNCKRCFFCKTTVID  468 (489)
T ss_pred             cccccCcceeccc---chhhccC-CCCchHHHHHHHHHhcCCeeeEecceeee
Confidence            4688999998653   3346778 99999999999999999999999987753

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

Probab=95.15  E-value=0.0072  Score=56.59  Aligned_cols=41  Identities=24%  Similarity=0.694  Sum_probs=31.6

Q ss_pred             CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCc
Q 043554          105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRH  151 (192)
Q Consensus       105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~  151 (192)
                      ...|..|-..++-+.  .-- .|||.||.+|++   .+...||.|+.
T Consensus       840 ~skCs~C~~~LdlP~--VhF-~CgHsyHqhC~e---~~~~~CP~C~~  880 (933)
T KOG2114|consen  840 VSKCSACEGTLDLPF--VHF-LCGHSYHQHCLE---DKEDKCPKCLP  880 (933)
T ss_pred             eeeecccCCccccce--eee-ecccHHHHHhhc---cCcccCCccch
Confidence            358999988877662  233 399999999998   35567999976

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=95.11  E-value=0.017  Score=49.00  Aligned_cols=55  Identities=24%  Similarity=0.533  Sum_probs=39.9

Q ss_pred             CCCCCCcccCCcCCCCc-eEEcCCCCCcccHhhHHHHHhC-CCCCcccCccCcCCCCC
Q 043554          104 PATECPICLGEFVDGEK-VRVLPKCNHGFHVRCIDTWLLS-HSSCPNCRHSLLNNNER  159 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~-v~~l~~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l~~~~~~  159 (192)
                      +++-|+.|++++...|+ ..-.+ ||-..|.-|...--++ +..||-||+...+.+.+
T Consensus        13 eed~cplcie~mditdknf~pc~-cgy~ic~fc~~~irq~lngrcpacrr~y~denv~   69 (480)
T COG5175          13 EEDYCPLCIEPMDITDKNFFPCP-CGYQICQFCYNNIRQNLNGRCPACRRKYDDENVR   69 (480)
T ss_pred             ccccCcccccccccccCCcccCC-cccHHHHHHHHHHHhhccCCChHhhhhcccccee
Confidence            44559999999987664 45566 9988888887663322 55799999988665543

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

Probab=94.53  E-value=0.027  Score=48.50  Aligned_cols=27  Identities=26%  Similarity=0.805  Sum_probs=20.3

Q ss_pred             CcccHhhHHHHHhCC-------------CCCcccCccCcC
Q 043554          129 HGFHVRCIDTWLLSH-------------SSCPNCRHSLLN  155 (192)
Q Consensus       129 H~FH~~Ci~~Wl~~~-------------~~CP~CR~~l~~  155 (192)
                      =++|.+|+.+|+-.+             -.||+||+.+.-
T Consensus       313 PmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCi  352 (358)
T PF10272_consen  313 PMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCI  352 (358)
T ss_pred             chHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccccee
Confidence            356889999999422             259999998754

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

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

Probab=94.49  E-value=0.029  Score=46.91  Aligned_cols=47  Identities=32%  Similarity=0.710  Sum_probs=37.6

Q ss_pred             CCCCcccCCcCCCCc---eEEcCCCCCcccHhhHHHHHhC-CCCCcccCccC
Q 043554          106 TECPICLGEFVDGEK---VRVLPKCNHGFHVRCIDTWLLS-HSSCPNCRHSL  153 (192)
Q Consensus       106 ~~C~ICl~~~~~~~~---v~~l~~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l  153 (192)
                      .+|-||-++|...+.   .+.|. |||.|+..|+..-+.+ ...||.||...
T Consensus         4 ~~c~~c~~~~s~~~~~~~p~~l~-c~h~~c~~c~~~l~~~~~i~cpfcR~~~   54 (296)
T KOG4185|consen    4 PECEICNEDYSSEDGDHIPRVLK-CGHTICQNCASKLLGNSRILCPFCRETT   54 (296)
T ss_pred             CceeecCccccccCcccCCcccc-cCceehHhHHHHHhcCceeeccCCCCcc
Confidence            579999999997742   35565 9999999999986654 34599999985

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

Probab=94.39  E-value=0.0064  Score=50.50  Aligned_cols=42  Identities=29%  Similarity=0.671  Sum_probs=32.2

Q ss_pred             CCCCCcccCCcCCCCceEEcCCCCCc-ccHhhHHHHHhCCCCCcccCccCc
Q 043554          105 ATECPICLGEFVDGEKVRVLPKCNHG-FHVRCIDTWLLSHSSCPNCRHSLL  154 (192)
Q Consensus       105 ~~~C~ICl~~~~~~~~v~~l~~C~H~-FH~~Ci~~Wl~~~~~CP~CR~~l~  154 (192)
                      +.-|+||++.-.+   ...|+ |||. -|.+|-...    +.||+||+.+.
T Consensus       300 ~~LC~ICmDaP~D---CvfLe-CGHmVtCt~CGkrm----~eCPICRqyi~  342 (350)
T KOG4275|consen  300 RRLCAICMDAPRD---CVFLE-CGHMVTCTKCGKRM----NECPICRQYIV  342 (350)
T ss_pred             HHHHHHHhcCCcc---eEEee-cCcEEeehhhcccc----ccCchHHHHHH
Confidence            5679999987444   67888 9996 788886552    37999998764

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

Probab=94.34  E-value=0.038  Score=42.86  Aligned_cols=31  Identities=29%  Similarity=0.885  Sum_probs=24.5

Q ss_pred             CCCCcccHhhHHHHHhC----CC-------CCcccCccCcCC
Q 043554          126 KCNHGFHVRCIDTWLLS----HS-------SCPNCRHSLLNN  156 (192)
Q Consensus       126 ~C~H~FH~~Ci~~Wl~~----~~-------~CP~CR~~l~~~  156 (192)
                      .||.-||.-|+..||+.    ++       .||.|-.++.-+
T Consensus       189 qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK  230 (234)
T KOG3268|consen  189 QCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK  230 (234)
T ss_pred             ccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence            49999999999999962    22       499998877544

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

Probab=93.77  E-value=0.019  Score=53.57  Aligned_cols=50  Identities=28%  Similarity=0.623  Sum_probs=38.2

Q ss_pred             CCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC--CCCCcccCccCcCCCCCC
Q 043554          106 TECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS--HSSCPNCRHSLLNNNERS  160 (192)
Q Consensus       106 ~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~--~~~CP~CR~~l~~~~~~~  160 (192)
                      ..|.||++    .+.....+ |+|.||.+|+..-+..  ...||.||..+.+..-..
T Consensus       455 ~~c~ic~~----~~~~~it~-c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~s  506 (674)
T KOG1001|consen  455 HWCHICCD----LDSFFITR-CGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKLLS  506 (674)
T ss_pred             cccccccc----cccceeec-ccchHHHHHHHhccccccCCCCcHHHHHHHHHHHhh
Confidence            68999998    44556666 9999999999887753  335999999876654433

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

Probab=93.37  E-value=0.044  Score=45.53  Aligned_cols=44  Identities=32%  Similarity=0.743  Sum_probs=36.2

Q ss_pred             CCCcccCCcCCCC-ceEEcCCCCCcccHhhHHHHHhCCCCCcccCc
Q 043554          107 ECPICLGEFVDGE-KVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRH  151 (192)
Q Consensus       107 ~C~ICl~~~~~~~-~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~  151 (192)
                      .|+||.+.+-... .+..++ |||..|..|++.......+||+|..
T Consensus       160 ncPic~e~l~~s~~~~~~~~-CgH~~h~~cf~e~~~~~y~CP~C~~  204 (276)
T KOG1940|consen  160 NCPICKEYLFLSFEDAGVLK-CGHYMHSRCFEEMICEGYTCPICSK  204 (276)
T ss_pred             CCchhHHHhccccccCCccC-cccchHHHHHHHHhccCCCCCcccc
Confidence            4999998876554 345666 9999999999998877789999977

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

Probab=93.06  E-value=0.043  Score=51.82  Aligned_cols=36  Identities=28%  Similarity=0.617  Sum_probs=28.6

Q ss_pred             CCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHH
Q 043554          103 IPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWL  140 (192)
Q Consensus       103 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl  140 (192)
                      .+++.|.+|.-.+... ...+-| |||.||++||..-.
T Consensus       815 ep~d~C~~C~~~ll~~-pF~vf~-CgH~FH~~Cl~~~v  850 (911)
T KOG2034|consen  815 EPQDSCDHCGRPLLIK-PFYVFP-CGHCFHRDCLIRHV  850 (911)
T ss_pred             cCccchHHhcchhhcC-cceeee-ccchHHHHHHHHHH
Confidence            3577999999887765 445677 99999999997655

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

Probab=93.00  E-value=0.096  Score=44.73  Aligned_cols=49  Identities=29%  Similarity=0.587  Sum_probs=36.2

Q ss_pred             CCCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHH--HhCCCCCcccCccCc
Q 043554          102 DIPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTW--LLSHSSCPNCRHSLL  154 (192)
Q Consensus       102 ~~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~W--l~~~~~CP~CR~~l~  154 (192)
                      +++..-|.||-+.+.-   +.++| |+|..|.-|-.+-  |-.++.||+||..+.
T Consensus        58 DEen~~C~ICA~~~TY---s~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE~e  108 (493)
T COG5236          58 DEENMNCQICAGSTTY---SARYP-CGHQICHACAVRLRALYMQKGCPLCRTETE  108 (493)
T ss_pred             ccccceeEEecCCceE---EEecc-CCchHHHHHHHHHHHHHhccCCCccccccc
Confidence            3455679999876543   57888 9999999997552  235678999998653

>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=92.75  E-value=0.28  Score=35.92  Aligned_cols=31  Identities=13%  Similarity=0.082  Sum_probs=17.4

Q ss_pred             CCCCcchhHHHHHHHHHHHHHHHHHHHHHHH
Q 043554           28 NEANFDTNMVIILAALLCALICALGLNSIVR   58 (192)
Q Consensus        28 ~~~~~~~~~~iil~~ll~~~i~~~~l~~~~~   58 (192)
                      -.++-..+.+|+++++.++++++++|.++++
T Consensus        59 h~fs~~~i~~Ii~gv~aGvIg~Illi~y~ir   89 (122)
T PF01102_consen   59 HRFSEPAIIGIIFGVMAGVIGIILLISYCIR   89 (122)
T ss_dssp             SSSS-TCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCccccceeehhHHHHHHHHHHHHHHHHHHH
Confidence            3444445677777777777665554444443

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.

>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls

Probab=92.70  E-value=0.11  Score=38.34  Aligned_cols=16  Identities=19%  Similarity=0.324  Sum_probs=6.3

Q ss_pred             HHHHHHHHHHHHHHHH
Q 043554           37 VIILAALLCALICALG   52 (192)
Q Consensus        37 ~iil~~ll~~~i~~~~   52 (192)
                      |++++++|++++++|+
T Consensus         2 W~l~~iii~~i~l~~~   17 (130)
T PF12273_consen    2 WVLFAIIIVAILLFLF   17 (130)
T ss_pred             eeeHHHHHHHHHHHHH
Confidence            3344433333333333

Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].

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

Probab=92.49  E-value=0.062  Score=50.10  Aligned_cols=23  Identities=30%  Similarity=0.866  Sum_probs=21.0

Q ss_pred             CCCCcccHhhHHHHHhCCCCCcc
Q 043554          126 KCNHGFHVRCIDTWLLSHSSCPN  148 (192)
Q Consensus       126 ~C~H~FH~~Ci~~Wl~~~~~CP~  148 (192)
                      .|+|+.|.+|...|+...-.||.
T Consensus      1047 ~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1047 TCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred             cccccccHHHHHHHHhcCCcCCC
Confidence            59999999999999999888874

>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=92.45  E-value=0.066  Score=32.41  Aligned_cols=30  Identities=27%  Similarity=0.687  Sum_probs=21.4

Q ss_pred             CC-CcccHhhHHHHHhCCCCCcccCccCcCC
Q 043554          127 CN-HGFHVRCIDTWLLSHSSCPNCRHSLLNN  156 (192)
Q Consensus       127 C~-H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~  156 (192)
                      |+ |..|-.|+...+.+...||+|..+++.+
T Consensus        18 C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk   48 (50)
T PF03854_consen   18 CSDHYLCLNCLTLMLSRSDRCPICGKPLPTK   48 (50)
T ss_dssp             -SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred             ecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence            75 9999999999888888899999988654

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.

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

Probab=92.33  E-value=0.032  Score=54.57  Aligned_cols=45  Identities=31%  Similarity=0.734  Sum_probs=38.0

Q ss_pred             CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCcc
Q 043554          105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHS  152 (192)
Q Consensus       105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~  152 (192)
                      ...|.||++.+.+...+.   .|||.+|..|+..|+..+..||.|+..
T Consensus      1153 ~~~c~ic~dil~~~~~I~---~cgh~~c~~c~~~~l~~~s~~~~~ksi 1197 (1394)
T KOG0298|consen 1153 HFVCEICLDILRNQGGIA---GCGHEPCCRCDELWLYASSRCPICKSI 1197 (1394)
T ss_pred             ccchHHHHHHHHhcCCee---eechhHhhhHHHHHHHHhccCcchhhh
Confidence            448999999988654444   399999999999999999999999743

>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=92.20  E-value=0.14  Score=42.67  Aligned_cols=53  Identities=26%  Similarity=0.674  Sum_probs=37.5

Q ss_pred             CCCcccCC-cCCCCceEEcCCCCCcccHhhHHHHHh-CCCCCcccCccCcCCCCC
Q 043554          107 ECPICLGE-FVDGEKVRVLPKCNHGFHVRCIDTWLL-SHSSCPNCRHSLLNNNER  159 (192)
Q Consensus       107 ~C~ICl~~-~~~~~~v~~l~~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~l~~~~~~  159 (192)
                      .|++|-.+ |.+++...+...|+|..|.+|++.-+. ....||.|...+-..+.+
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~nfr   56 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRKNNFR   56 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhhcccc
Confidence            58888754 445554433334999999999999885 456799998776555443

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

Probab=91.77  E-value=0.067  Score=44.98  Aligned_cols=43  Identities=28%  Similarity=0.561  Sum_probs=28.8

Q ss_pred             CCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccC
Q 043554          106 TECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSL  153 (192)
Q Consensus       106 ~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l  153 (192)
                      ..|--|--.  ..-.-|+.| |+|+||.+|-..  ...+.||.|-..+
T Consensus        91 HfCd~Cd~P--I~IYGRmIP-CkHvFCl~CAr~--~~dK~Cp~C~d~V  133 (389)
T KOG2932|consen   91 HFCDRCDFP--IAIYGRMIP-CKHVFCLECARS--DSDKICPLCDDRV  133 (389)
T ss_pred             EeecccCCc--ceeeecccc-cchhhhhhhhhc--CccccCcCcccHH
Confidence            357666333  222337788 999999999765  4456799986544

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

Probab=91.08  E-value=0.18  Score=42.57  Aligned_cols=45  Identities=20%  Similarity=0.482  Sum_probs=34.5

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCc
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLL  154 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~  154 (192)
                      +-.+|+||.+.+..+  +.+.+ =||+.|..|=.   +..+.||.||.++.
T Consensus        47 ~lleCPvC~~~l~~P--i~QC~-nGHlaCssC~~---~~~~~CP~Cr~~~g   91 (299)
T KOG3002|consen   47 DLLDCPVCFNPLSPP--IFQCD-NGHLACSSCRT---KVSNKCPTCRLPIG   91 (299)
T ss_pred             hhccCchhhccCccc--ceecC-CCcEehhhhhh---hhcccCCccccccc
Confidence            456899999999887  34433 37999999965   34667999999886

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=90.94  E-value=0.086  Score=43.17  Aligned_cols=52  Identities=27%  Similarity=0.646  Sum_probs=34.7

Q ss_pred             CCCCCCCCcccCCcCCCCce-EEcC-CCC---CcccHhhHHHHHhCCC--------CCcccCccC
Q 043554          102 DIPATECPICLGEFVDGEKV-RVLP-KCN---HGFHVRCIDTWLLSHS--------SCPNCRHSL  153 (192)
Q Consensus       102 ~~~~~~C~ICl~~~~~~~~v-~~l~-~C~---H~FH~~Ci~~Wl~~~~--------~CP~CR~~l  153 (192)
                      ...+..|=||+..=+++-.- -+-| .|.   |=.|..|+..|+..++        +||.|+...
T Consensus        17 ~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEY   81 (293)
T KOG3053|consen   17 QELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEY   81 (293)
T ss_pred             cccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchh
Confidence            44567899999875555322 1233 142   6699999999994322        499998754

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

Probab=90.47  E-value=1.3  Score=38.60  Aligned_cols=45  Identities=20%  Similarity=0.411  Sum_probs=38.1

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCC---CCCccc
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSH---SSCPNC  149 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~---~~CP~C  149 (192)
                      +-..|||=.+.-.+....+.|. |||+..++-+.+-.++.   ..||.|
T Consensus       333 SvF~CPVlKeqtsdeNPPm~L~-CGHVISkdAlnrLS~ng~~sfKCPYC  380 (394)
T KOG2817|consen  333 SVFICPVLKEQTSDENPPMMLI-CGHVISKDALNRLSKNGSQSFKCPYC  380 (394)
T ss_pred             ceeecccchhhccCCCCCeeee-ccceecHHHHHHHhhCCCeeeeCCCC
Confidence            5678999988888888888898 99999999999976643   369999

>PF13901 DUF4206: Domain of unknown function (DUF4206)

Probab=89.57  E-value=0.33  Score=38.62  Aligned_cols=40  Identities=35%  Similarity=0.811  Sum_probs=29.8

Q ss_pred             CCCCCcccCC-----cCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccC
Q 043554          105 ATECPICLGE-----FVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCR  150 (192)
Q Consensus       105 ~~~C~ICl~~-----~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR  150 (192)
                      +..|-+|-++     |+. +.+...+.|+-+||..|...     ..||-|.
T Consensus       152 GfiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~~-----~~CpkC~  196 (202)
T PF13901_consen  152 GFICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFRK-----KSCPKCA  196 (202)
T ss_pred             CCCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcCC-----CCCCCcH
Confidence            6789999753     222 35677778999999999662     6799994

>PF02439 Adeno_E3_CR2: Adenovirus E3 region protein CR2; InterPro: IPR003470 Early region 3 (E3) of human adenoviruses (Ads) codes for proteins that appear to control viral interactions with the host []

Probab=89.54  E-value=0.97  Score=26.03  Aligned_cols=28  Identities=18%  Similarity=0.274  Sum_probs=16.4

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 043554           35 NMVIILAALLCALICALGLNSIVRCALR   62 (192)
Q Consensus        35 ~~~iil~~ll~~~i~~~~l~~~~~~~~~   62 (192)
                      ...++.++++++.++++.++.+..|++|
T Consensus         5 ~IaIIv~V~vg~~iiii~~~~YaCcykk   32 (38)
T PF02439_consen    5 TIAIIVAVVVGMAIIIICMFYYACCYKK   32 (38)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence            3456666666666666666555555443

This region called CR1 (conserved region 1) [] is found three times in Human adenovirus 19 (a subgroup D adenovirus) 49 kDa protein in the E3 region. CR1 is also found in the 20.1 Kd protein of subgroup B adenoviruses. The function of this 80 amino acid region is unknown. This region is probably a divergent immunoglobulin domain.

>KOG3899 consensus Uncharacterized conserved protein [Function unknown]

Probab=89.52  E-value=0.24  Score=41.43  Aligned_cols=30  Identities=20%  Similarity=0.669  Sum_probs=22.4

Q ss_pred             CCCcccHhhHHHHHhC-------------CCCCcccCccCcCC
Q 043554          127 CNHGFHVRCIDTWLLS-------------HSSCPNCRHSLLNN  156 (192)
Q Consensus       127 C~H~FH~~Ci~~Wl~~-------------~~~CP~CR~~l~~~  156 (192)
                      |.-.+|.+|+.+|+..             +-+||+||+.+.-.
T Consensus       325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~  367 (381)
T KOG3899|consen  325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIR  367 (381)
T ss_pred             cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEe
Confidence            5567889999999842             33699999987543

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

Probab=89.31  E-value=0.22  Score=41.70  Aligned_cols=52  Identities=23%  Similarity=0.637  Sum_probs=36.7

Q ss_pred             CCCCCcccCCcCCCCc-eEEcC-CCC---CcccHhhHHHHHh--CCCCCcccCccCcCC
Q 043554          105 ATECPICLGEFVDGEK-VRVLP-KCN---HGFHVRCIDTWLL--SHSSCPNCRHSLLNN  156 (192)
Q Consensus       105 ~~~C~ICl~~~~~~~~-v~~l~-~C~---H~FH~~Ci~~Wl~--~~~~CP~CR~~l~~~  156 (192)
                      +..|-||+++...... ..+.| .|+   +..|..|++.|+.  .+..|-+|.......
T Consensus        78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~  136 (323)
T KOG1609|consen   78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINV  136 (323)
T ss_pred             CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccceec
Confidence            4689999998765432 33445 243   5689999999997  456699998766444

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

Probab=88.84  E-value=0.1  Score=47.81  Aligned_cols=39  Identities=33%  Similarity=0.669  Sum_probs=29.5

Q ss_pred             CCCCcccCCcCCCCce-EEcCCCCCcccHhhHHHHHhCCCCCc
Q 043554          106 TECPICLGEFVDGEKV-RVLPKCNHGFHVRCIDTWLLSHSSCP  147 (192)
Q Consensus       106 ~~C~ICl~~~~~~~~v-~~l~~C~H~FH~~Ci~~Wl~~~~~CP  147 (192)
                      ..|.||+..|-..... +.+ .|||..|..|++.-  .+.+||
T Consensus        12 l~c~ic~n~f~~~~~~Pvsl-~cghtic~~c~~~l--yn~scp   51 (861)
T KOG3161|consen   12 LLCDICLNLFVVQRLEPVSL-QCGHTICGHCVQLL--YNASCP   51 (861)
T ss_pred             hhchHHHHHHHHHhcCcccc-cccchHHHHHHHhH--hhccCC
Confidence            3699998888766433 334 59999999999884  456788

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

Probab=88.40  E-value=0.19  Score=43.92  Aligned_cols=38  Identities=34%  Similarity=0.711  Sum_probs=28.3

Q ss_pred             CCCCCCcccCCcCCC-CceEEcCCCCCcccHhhHHHHHhC
Q 043554          104 PATECPICLGEFVDG-EKVRVLPKCNHGFHVRCIDTWLLS  142 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~-~~v~~l~~C~H~FH~~Ci~~Wl~~  142 (192)
                      ...+|.||..++... +...+. .|+|.||.+|+.+.+..
T Consensus       145 ~~~~C~iC~~e~~~~~~~f~~~-~C~H~fC~~C~k~~iev  183 (384)
T KOG1812|consen  145 PKEECGICFVEDPEAEDMFSVL-KCGHRFCKDCVKQHIEV  183 (384)
T ss_pred             ccccCccCccccccHhhhHHHh-cccchhhhHHhHHHhhh
Confidence            456899999555554 444444 59999999999988863

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

Probab=88.33  E-value=0.24  Score=39.58  Aligned_cols=38  Identities=32%  Similarity=0.662  Sum_probs=28.4

Q ss_pred             CCcccCCcCCCCceEEcCCCCCc-ccHhhHHHHHhCCCCCcccCccC
Q 043554          108 CPICLGEFVDGEKVRVLPKCNHG-FHVRCIDTWLLSHSSCPNCRHSL  153 (192)
Q Consensus       108 C~ICl~~~~~~~~v~~l~~C~H~-FH~~Ci~~Wl~~~~~CP~CR~~l  153 (192)
                      |-.|-+   .+..|..+| |.|+ +|..|=+.    -..||+|+...
T Consensus       161 Cr~C~~---~~~~VlllP-CrHl~lC~~C~~~----~~~CPiC~~~~  199 (207)
T KOG1100|consen  161 CRKCGE---REATVLLLP-CRHLCLCGICDES----LRICPICRSPK  199 (207)
T ss_pred             ceecCc---CCceEEeec-ccceEeccccccc----CccCCCCcChh
Confidence            666654   456688999 9986 99999654    34699998754

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

Probab=88.13  E-value=0.37  Score=35.67  Aligned_cols=52  Identities=19%  Similarity=0.380  Sum_probs=35.3

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHh---CCCCCcccCccCcC
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLL---SHSSCPNCRHSLLN  155 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~---~~~~CP~CR~~l~~  155 (192)
                      .-++|.||.|.-.+..-+.--.-||-..|.-|-..-++   ....||+|+.++-.
T Consensus        79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKs  133 (140)
T PF05290_consen   79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKS  133 (140)
T ss_pred             CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccc
Confidence            46789999987554422211114899999988766554   35679999988743

>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=88.13  E-value=0.24  Score=40.29  Aligned_cols=48  Identities=25%  Similarity=0.822  Sum_probs=35.3

Q ss_pred             CCCCCCcccCC-cCCCC-ceEEcCCCCCcccHhhHHHHHhC-CCCCc--ccCc
Q 043554          104 PATECPICLGE-FVDGE-KVRVLPKCNHGFHVRCIDTWLLS-HSSCP--NCRH  151 (192)
Q Consensus       104 ~~~~C~ICl~~-~~~~~-~v~~l~~C~H~FH~~Ci~~Wl~~-~~~CP--~CR~  151 (192)
                      .+..|+||..+ |-+++ ++.+-|.|-|..|.+|+++-|.. ...||  -|..
T Consensus         9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~k   61 (314)
T COG5220           9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGK   61 (314)
T ss_pred             hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHH
Confidence            45689999876 34444 34455679999999999999865 45699  7744

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

Probab=87.89  E-value=0.27  Score=44.87  Aligned_cols=57  Identities=32%  Similarity=0.764  Sum_probs=45.6

Q ss_pred             CCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCCCCCCCCCCCCC
Q 043554          103 IPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNERSTASSSAA  167 (192)
Q Consensus       103 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~~~~~~~~~~~  167 (192)
                      .....|.||+.++    ..+..+ |.   |..|+..|+-.+..||+|+..+..+......+.++.
T Consensus       477 ~~~~~~~~~~~~~----~~~~~~-~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~~~~~~~~~~  533 (543)
T KOG0802|consen  477 EPNDVCAICYQEM----SARITP-CS---HALCLRKWLYVQEVCPLCHTYMKEDDFLSKNSSEST  533 (543)
T ss_pred             cccCcchHHHHHH----Hhcccc-cc---chhHHHhhhhhccccCCCchhhhcccccCccccccc
Confidence            3567899999988    345555 77   999999999999999999998877777666665555

>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=87.42  E-value=0.71  Score=35.23  Aligned_cols=35  Identities=26%  Similarity=0.603  Sum_probs=22.2

Q ss_pred             CCCCCCcccCCcCCCCceEEcC------C-----CCC-cccHhhHHHHHh
Q 043554          104 PATECPICLGEFVDGEKVRVLP------K-----CNH-GFHVRCIDTWLL  141 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~------~-----C~H-~FH~~Ci~~Wl~  141 (192)
                      ++..|+||||--.+.   ++|-      +     |+- .-|..|++++-+
T Consensus         1 ed~~CpICme~PHNA---VLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk   47 (162)
T PF07800_consen    1 EDVTCPICMEHPHNA---VLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK   47 (162)
T ss_pred             CCccCceeccCCCce---EEEEeccccCCccccccCCccchhHHHHHHHH
Confidence            356899999865543   2221      1     443 358899999754

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.

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

Probab=86.03  E-value=0.53  Score=24.84  Aligned_cols=23  Identities=30%  Similarity=0.801  Sum_probs=14.5

Q ss_pred             CCCcccCCcCCCCceEEcCCCCCcc
Q 043554          107 ECPICLGEFVDGEKVRVLPKCNHGF  131 (192)
Q Consensus       107 ~C~ICl~~~~~~~~v~~l~~C~H~F  131 (192)
                      .|+-|-.++...  .+..|.|||.|
T Consensus         2 ~CP~C~~~V~~~--~~~Cp~CG~~F   24 (26)
T PF10571_consen    2 TCPECGAEVPES--AKFCPHCGYDF   24 (26)
T ss_pred             cCCCCcCCchhh--cCcCCCCCCCC
Confidence            577777665443  44556677777

Several members are annotated as putative helicases.

>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=85.98  E-value=0.51  Score=29.14  Aligned_cols=43  Identities=30%  Similarity=0.622  Sum_probs=21.3

Q ss_pred             CCcccCCcCCC------CceEEcCCCCCcccHhhHHHHHhCCCCCcccC
Q 043554          108 CPICLGEFVDG------EKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCR  150 (192)
Q Consensus       108 C~ICl~~~~~~------~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR  150 (192)
                      |--|+..|...      ......+.|++.|+.+|=.--=..=.+||-|.
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            44566666654      24556678999999999332112345799884

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.

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

Probab=85.74  E-value=0.66  Score=43.90  Aligned_cols=50  Identities=24%  Similarity=0.596  Sum_probs=36.4

Q ss_pred             CCCCCCcccCCcCCCCceEEcC-CCC---CcccHhhHHHHHh--CCCCCcccCccCc
Q 043554          104 PATECPICLGEFVDGEKVRVLP-KCN---HGFHVRCIDTWLL--SHSSCPNCRHSLL  154 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~-~C~---H~FH~~Ci~~Wl~--~~~~CP~CR~~l~  154 (192)
                      ++..|-||..+-..++.+- -| +|.   -..|.+|+.+|+.  .+..|-+|+.++.
T Consensus        11 d~~~CRICr~e~~~d~pLf-hPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~   66 (1175)
T COG5183          11 DKRSCRICRTEDIRDDPLF-HPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYK   66 (1175)
T ss_pred             cchhceeecCCCCCCCcCc-ccccccchhHHHHHHHHHHHHhcCCCcceeeecceee
Confidence            4578999998876665542 23 243   3489999999996  3556999998763

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

Probab=85.46  E-value=0.22  Score=46.24  Aligned_cols=51  Identities=31%  Similarity=0.700  Sum_probs=37.9

Q ss_pred             CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC---CCCCcccCccCcCCCCC
Q 043554          105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS---HSSCPNCRHSLLNNNER  159 (192)
Q Consensus       105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~---~~~CP~CR~~l~~~~~~  159 (192)
                      ..+|+||...+.++   ..+ +|.|.|+..|+..-|..   ...||+|+..+......
T Consensus        21 ~lEc~ic~~~~~~p---~~~-kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s~~   74 (684)
T KOG4362|consen   21 ILECPICLEHVKEP---SLL-KCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRSLR   74 (684)
T ss_pred             hccCCceeEEeecc---chh-hhhHHHHhhhhhceeeccCccccchhhhhhhhhhhcc
Confidence            35799999999887   344 49999999998776643   34699998766544333

>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=84.86  E-value=1.6  Score=31.98  Aligned_cols=34  Identities=9%  Similarity=0.225  Sum_probs=21.2

Q ss_pred             chhHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 043554           33 DTNMVIILAALLCALICALGLNSIVRCALRCSHR   66 (192)
Q Consensus        33 ~~~~~iil~~ll~~~i~~~~l~~~~~~~~~~~~r   66 (192)
                      ++.--.+++++++++..++++++++.|++||+++
T Consensus        60 ~fs~~~i~~Ii~gv~aGvIg~Illi~y~irR~~K   93 (122)
T PF01102_consen   60 RFSEPAIIGIIFGVMAGVIGIILLISYCIRRLRK   93 (122)
T ss_dssp             SSS-TCHHHHHHHHHHHHHHHHHHHHHHHHHHS-
T ss_pred             CccccceeehhHHHHHHHHHHHHHHHHHHHHHhc
Confidence            3334466777777777777777777766665544

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.

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

Probab=84.63  E-value=0.83  Score=40.34  Aligned_cols=33  Identities=27%  Similarity=0.729  Sum_probs=27.8

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHH
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWL  140 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl  140 (192)
                      ++..|+||..-|+++   ++|+ |+|.+|..|-..-+
T Consensus         3 eelkc~vc~~f~~ep---iil~-c~h~lc~~ca~~~~   35 (699)
T KOG4367|consen    3 EELKCPVCGSFYREP---IILP-CSHNLCQACARNIL   35 (699)
T ss_pred             ccccCceehhhccCc---eEee-cccHHHHHHHHhhc
Confidence            456899999999886   7888 99999999987644

>PF15050 SCIMP: SCIMP protein

Probab=84.13  E-value=3.1  Score=30.24  Aligned_cols=9  Identities=56%  Similarity=0.597  Sum_probs=5.0

Q ss_pred             hHHHHHHHH
Q 043554           35 NMVIILAAL   43 (192)
Q Consensus        35 ~~~iil~~l   43 (192)
                      +|||||++-
T Consensus         7 nFWiiLAVa   15 (133)
T PF15050_consen    7 NFWIILAVA   15 (133)
T ss_pred             chHHHHHHH
Confidence            456666643

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

Probab=84.01  E-value=0.95  Score=42.47  Aligned_cols=41  Identities=22%  Similarity=0.510  Sum_probs=30.3

Q ss_pred             CCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcc
Q 043554          106 TECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPN  148 (192)
Q Consensus       106 ~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~  148 (192)
                      ..|.+|-..+..  .....+.|+|.-|.+|+..|+.....||.
T Consensus       780 ~~CtVC~~vi~G--~~~~c~~C~H~gH~sh~~sw~~~~s~ca~  820 (839)
T KOG0269|consen  780 AKCTVCDLVIRG--VDVWCQVCGHGGHDSHLKSWFFKASPCAK  820 (839)
T ss_pred             cCceeecceeee--eEeecccccccccHHHHHHHHhcCCCCcc
Confidence            368888655433  23345579999999999999987777765

>smart00249 PHD PHD zinc finger

Probab=82.96  E-value=1.2  Score=25.62  Aligned_cols=31  Identities=23%  Similarity=0.581  Sum_probs=22.0

Q ss_pred             CCCcccCCcCCCCceEEcCCCCCcccHhhHHH
Q 043554          107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDT  138 (192)
Q Consensus       107 ~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~  138 (192)
                      .|.+|.... ..+.+.....|+..||..|+..
T Consensus         1 ~C~~C~~~~-~~~~~i~C~~C~~~~H~~C~~~   31 (47)
T smart00249        1 YCSVCGKPD-DGGELLQCDGCDRWYHQTCLGP   31 (47)
T ss_pred             CcccCCCcC-CCCCEEECCCCCchhhhhhCCC
Confidence            378888776 3444555556999999999744

The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the

>TIGR00622 ssl1 transcription factor ssl1

Probab=82.21  E-value=2.2  Score=30.77  Aligned_cols=46  Identities=28%  Similarity=0.437  Sum_probs=34.1

Q ss_pred             CCCCCcccCCcCCCC----------ceEEcCCCCCcccHhhHHHHHhCCCCCcccC
Q 043554          105 ATECPICLGEFVDGE----------KVRVLPKCNHGFHVRCIDTWLLSHSSCPNCR  150 (192)
Q Consensus       105 ~~~C~ICl~~~~~~~----------~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR  150 (192)
                      ...|--|+..|.+..          .....+.|++.|+.+|=.-+-..=.+||-|.
T Consensus        55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~  110 (112)
T TIGR00622        55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI  110 (112)
T ss_pred             CCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence            356999999887531          1234567999999999777666667799995

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

>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=81.39  E-value=1.2  Score=26.81  Aligned_cols=43  Identities=30%  Similarity=0.644  Sum_probs=29.2

Q ss_pred             CCcccCCcCCCCceEEcCCCCCcccHhhHHHHHh------CCCCCcccCc
Q 043554          108 CPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLL------SHSSCPNCRH  151 (192)
Q Consensus       108 C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~------~~~~CP~CR~  151 (192)
                      |.||.. ..+.+.+..-..|+..||..|+..=..      ..-.||.|+.
T Consensus         2 C~vC~~-~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~   50 (51)
T PF00628_consen    2 CPVCGQ-SDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP   50 (51)
T ss_dssp             BTTTTS-SCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred             CcCCCC-cCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence            889988 444455666667999999999854321      2346888853

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 the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....

>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]

Probab=80.78  E-value=0.56  Score=42.98  Aligned_cols=42  Identities=26%  Similarity=0.703  Sum_probs=26.8

Q ss_pred             CCCCCCcccCC-----cCCCCceEEcCCCCCcccHhhHHHHHhCCCCCccc
Q 043554          104 PATECPICLGE-----FVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNC  149 (192)
Q Consensus       104 ~~~~C~ICl~~-----~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~C  149 (192)
                      ....|.+|...     |+ .+.++....|+++||+.|+..   ....||.|
T Consensus       510 ~gfiCe~Cq~~~iiyPF~-~~~~~rC~~C~avfH~~C~~r---~s~~CPrC  556 (580)
T KOG1829|consen  510 KGFICELCQHNDIIYPFE-TRNTRRCSTCLAVFHKKCLRR---KSPCCPRC  556 (580)
T ss_pred             CeeeeeeccCCCcccccc-cccceeHHHHHHHHHHHHHhc---cCCCCCch
Confidence            35678888321     22 233444446999999999655   33449999

>PF13908 Shisa: Wnt and FGF inhibitory regulator

Probab=80.56  E-value=1.6  Score=33.84  Aligned_cols=23  Identities=9%  Similarity=0.049  Sum_probs=10.4

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHH
Q 043554           35 NMVIILAALLCALICALGLNSIV   57 (192)
Q Consensus        35 ~~~iil~~ll~~~i~~~~l~~~~   57 (192)
                      .++|+++++++++++++++.++.
T Consensus        77 ~~~iivgvi~~Vi~Iv~~Iv~~~   99 (179)
T PF13908_consen   77 ITGIIVGVICGVIAIVVLIVCFC   99 (179)
T ss_pred             eeeeeeehhhHHHHHHHhHhhhe
Confidence            44455555444444444443344

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	192
1iym_A	55	Ring-H2 Finger Domain Of El5 Length = 55		1e-12
2ect_A	78	Solution Structure Of The Zinc Finger, C3hc4 Type (		3e-09
1x4j_A	75	Solution Structure Of Ring Finger In Ring Finger Pr		1e-06
2kiz_A	69	Solution Structure Of Arkadia Ring-H2 Finger Domain		2e-06
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		2e-05
2ecn_A	70	Solution Structure Of The Ring Domain Of The Human		3e-04

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

Iteration: 1
 Score = 69.7 bits (169), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 27/46 (58%), Positives = 32/46 (69%)
Query: 105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCR 150
             EC +CL E  DGE+ R LP+C HGFH  C+D WL SHS+CP CR
Sbjct: 5   GVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCR 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 = 58.2 bits (139), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 28/51 (54%), Positives = 31/51 (60%), Gaps = 1/51 (1%)
Query: 107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNN 157
           ECP+C  ++  GE VR LP CNH FH  CI  WL  H SCP CR SL   N
Sbjct: 17  ECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSLTGQN 66

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

Iteration: 1
 Score = 49.7 bits (117), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 21/45 (46%), Positives = 31/45 (68%), Gaps = 1/45 (2%)
Query: 106 TECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCR 150
           T C +C+ +F   + +RVLP CNH FH +C+D WL ++ +CP CR
Sbjct: 24  TLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICR 67

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

Iteration: 1
 Score = 48.5 bits (114), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 22/44 (50%), Positives = 28/44 (63%), Gaps = 1/44 (2%)
Query: 107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCR 150
           +C ICL    +GE VR LP C H FH  C+D WL+++  CP CR
Sbjct: 16  KCTICLSILEEGEDVRRLP-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 = 2e-05,   Method: Compositional matrix adjust.
 Identities = 20/43 (46%), Positives = 25/43 (58%), Gaps = 1/43 (2%)
Query: 108 CPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCR 150
           CPIC  E+V G+    LP C+H FH  C+  WL    +CP CR
Sbjct: 43  CPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGTCPVCR 84

>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring Finger Protein 141 Length = 70

Iteration: 1
 Score = 41.6 bits (96), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 23/54 (42%), Positives = 28/54 (51%), Gaps = 5/54 (9%)
Query: 107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNERS 160
           EC IC+    DG    +LP C H F  +CID W   H +CP CR  +   NE S
Sbjct: 17  ECCICM----DGRADLILP-CAHSFCQKCIDKWSDRHRNCPICRLQMTGANESS 65

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	192
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	6e-29
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	2e-26
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	9e-26
2ect_A	78	Ring finger protein 126; metal binding protein, st	9e-24
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	2e-23
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	2e-23
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	1e-19
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	6e-19
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	6e-17
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	1e-13
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	3e-12
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	6e-12
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	1e-11
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	3e-11
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	6e-11
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	7e-10
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	1e-09
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	7e-09
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	2e-08
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	3e-08
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	4e-08
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	1e-07
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	2e-07
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	3e-07
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	4e-07
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	5e-07
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	2e-06
3nw0_A	238	Non-structural maintenance of chromosomes element	2e-06
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	4e-06
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	9e-06
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	4e-05
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	6e-05
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	6e-05
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	8e-05
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	3e-04
1z6u_A	150	NP95-like ring finger protein isoform B; structura	6e-04
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	8e-04

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

 Score =  101 bits (253), Expect = 6e-29
 Identities = 27/50 (54%), Positives = 35/50 (70%)

Query: 105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLL 154
             EC +CL E  DGE+ R LP+C HGFH  C+D WL SHS+CP CR +++
Sbjct: 5   GVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV 54

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

 Score = 95.5 bits (238), Expect = 2e-26
 Identities = 22/70 (31%), Positives = 35/70 (50%), Gaps = 2/70 (2%)

Query: 86  KRDLRRIPVAVYGEGVDIP-ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHS 144
                ++P   +         T C +C+ +F   + +RVLP CNH FH +C+D WL ++ 
Sbjct: 3   SGSSGQLPSYRFNPNNHQSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANR 61

Query: 145 SCPNCRHSLL 154
           +CP CR    
Sbjct: 62  TCPICRADSG 71

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

 Score = 93.9 bits (234), Expect = 9e-26
 Identities = 24/83 (28%), Positives = 34/83 (40%), Gaps = 3/83 (3%)

Query: 73  EQAAARLAVTGLKKRDLRRIPVAVYGEGVDIPA--TECPICLGEFVDGEKVRVLPKCNHG 130
              +  +A     K  +  +P  +  E          CPIC  E+V G+    LP C+H 
Sbjct: 6   HHHSHMVANPPASKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELP-CHHY 64

Query: 131 FHVRCIDTWLLSHSSCPNCRHSL 153
           FH  C+  WL    +CP CR   
Sbjct: 65  FHKPCVSIWLQKSGTCPVCRCMF 87

>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 = 88.6 bits (220), Expect = 9e-24
 Identities = 30/68 (44%), Positives = 37/68 (54%), Gaps = 4/68 (5%)

Query: 105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNERSTASS 164
             ECP+C  ++  GE VR LP CNH FH  CI  WL  H SCP CR SL     ++TA++
Sbjct: 15  GLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSL---TGQNTATN 70

Query: 165 SAAEEPAG 172
                  G
Sbjct: 71  PPGLTGVG 78

>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 = 87.8 bits (218), Expect = 2e-23
 Identities = 22/56 (39%), Positives = 30/56 (53%), Gaps = 1/56 (1%)

Query: 106 TECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNERST 161
            +C ICL    +GE VR LP C H FH  C+D WL+++  CP CR  +       +
Sbjct: 15  EKCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDIEAQLPSES 69

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

 Score = 87.1 bits (216), Expect = 2e-23
 Identities = 19/59 (32%), Positives = 29/59 (49%), Gaps = 1/59 (1%)

Query: 106 TECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNERSTASS 164
             C +CL +F   +++ + P C H FH +C+  WL     CP C   +L   + S  SS
Sbjct: 16  ELCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPVLQLAQLSGPSS 73

>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 = 77.3 bits (191), Expect = 1e-19
 Identities = 14/48 (29%), Positives = 18/48 (37%)

Query: 106 TECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSL 153
           + CPICL +      V  +  C H  H  C +  L     CP C    
Sbjct: 6   SGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPS 53

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

 Score = 75.9 bits (187), Expect = 6e-19
 Identities = 25/59 (42%), Positives = 30/59 (50%), Gaps = 5/59 (8%)

Query: 106 TECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNERSTASS 164
            EC IC+    DG    +LP C H F  +CID W   H +CP CR  +   NE S  SS
Sbjct: 16  EECCICM----DGRADLILP-CAHSFCQKCIDKWSDRHRNCPICRLQMTGANESSGPSS 69

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

 Score = 71.1 bits (174), Expect = 6e-17
 Identities = 15/43 (34%), Positives = 22/43 (51%)

Query: 108 CPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCR 150
           C  C  E    + V V  +CNH FH  C+  W+  ++ CP C+
Sbjct: 29  CLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQ 71

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

 Score = 62.0 bits (151), Expect = 1e-13
 Identities = 17/53 (32%), Positives = 25/53 (47%), Gaps = 3/53 (5%)

Query: 101 VDIPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSL 153
           +   A  CPICL +  +      LP C H F   CI  W+  + +CP C+  +
Sbjct: 1   MATVAERCPICLEDPSN--YSMALP-CLHAFCYVCITRWIRQNPTCPLCKVPV 50

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

 Score = 58.4 bits (141), Expect = 3e-12
 Identities = 14/53 (26%), Positives = 25/53 (47%), Gaps = 3/53 (5%)

Query: 104 PATECPICLGEFVDGEKVR---VLPKCNHGFHVRCIDTWLLSHSSCPNCRHSL 153
               CPIC+  + +  +     V  +C H F  +C+   L + ++CP CR  +
Sbjct: 14  GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 66

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

 Score = 57.5 bits (139), Expect = 6e-12
 Identities = 14/55 (25%), Positives = 27/55 (49%), Gaps = 3/55 (5%)

Query: 106 TECPICLGEFVD---GEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNN 157
             CPIC+  + +     ++ V  +C H F  +C+   L + ++CP CR  + +  
Sbjct: 4   VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR 58

>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 = 57.2 bits (138), Expect = 1e-11
 Identities = 14/57 (24%), Positives = 26/57 (45%), Gaps = 3/57 (5%)

Query: 104 PATECPICLGEFVDGEKVRVLP---KCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNN 157
               CPIC+  + +  +   L    +C H F  +C+   L + ++CP CR  + +  
Sbjct: 9   GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR 65

>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 = 56.4 bits (136), Expect = 3e-11
 Identities = 16/48 (33%), Positives = 22/48 (45%), Gaps = 4/48 (8%)

Query: 107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLL-SHSSCPNCRHSL 153
            C IC+ +  D    R+ P C+      CI  WL    + CP+CR  L
Sbjct: 24  RCFICMEKLRD---ARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPL 68

>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 = 56.0 bits (134), Expect = 6e-11
 Identities = 21/83 (25%), Positives = 27/83 (32%), Gaps = 15/83 (18%)

Query: 82  TGLKKRDLRRIPVAVYGEGVDIPATECPIC--------------LGEFVDGEKVRVLPKC 127
            G K+ ++++   AV     DI    C IC                     E       C
Sbjct: 15  AGKKRFEVKKWN-AVALWAWDIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVC 73

Query: 128 NHGFHVRCIDTWLLSHSSCPNCR 150
           NH FH  CI  WL +   CP   
Sbjct: 74  NHAFHFHCISRWLKTRQVCPLDN 96

>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 = 7e-10
 Identities = 22/104 (21%), Positives = 26/104 (25%), Gaps = 18/104 (17%)

Query: 65  HRLAIETPEQAAARLAVTGLKKRDLRRIPV----AVYGEGVDIPATECPIC--------- 111
           H   ++                   +R  V    AV     DI    C IC         
Sbjct: 4   HHHHVDEENLYFQGGGRGTNSGAGKKRFEVKKWNAVALWAWDIVVDNCAICRNHIMDLCI 63

Query: 112 -----LGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCR 150
                       E       CNH FH  CI  WL +   CP   
Sbjct: 64  ECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDN 107

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

 Score = 51.7 bits (124), Expect = 1e-09
 Identities = 16/58 (27%), Positives = 21/58 (36%), Gaps = 3/58 (5%)

Query: 107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNERSTASS 164
            C IC G  +D      + +C H F   CI       + CP C   +      S  SS
Sbjct: 17  LCSICKGYLID---ATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQPLSGPSS 71

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

 Score = 53.3 bits (127), Expect = 7e-09
 Identities = 15/64 (23%), Positives = 23/64 (35%), Gaps = 15/64 (23%)

Query: 105 ATECPICLGEFVDGEKVRVL----PKCNHGFHVRCIDTWLLS-----------HSSCPNC 149
              C IC    +DG +V ++     KC    H  C++ W  +              CP C
Sbjct: 308 ELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFC 367

Query: 150 RHSL 153
           +  L
Sbjct: 368 KAKL 371

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

 Score = 50.0 bits (119), Expect = 2e-08
 Identities = 15/47 (31%), Positives = 21/47 (44%), Gaps = 4/47 (8%)

Query: 107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSL 153
           +C IC   F++     V   C H F   CI+ W+     CP CR  +
Sbjct: 66  QCIICSEYFIEA----VTLNCAHSFCSYCINEWMKRKIECPICRKDI 108

>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 = 47.6 bits (113), Expect = 3e-08
 Identities = 11/46 (23%), Positives = 18/46 (39%), Gaps = 5/46 (10%)

Query: 107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSH--SSCPNCR 150
            C IC    + G+       C    H+ C+  +  S+    CP+C 
Sbjct: 17  ICNICHSLLIQGQS---CETCGIRMHLPCVAKYFQSNAEPRCPHCN 59

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

 Score = 47.9 bits (114), Expect = 4e-08
 Identities = 12/44 (27%), Positives = 15/44 (34%), Gaps = 4/44 (9%)

Query: 107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCR 150
            C IC   F +     V+ KC H F   C      +   C  C 
Sbjct: 17  RCFICRQAFQNP----VVTKCRHYFCESCALEHFRATPRCYICD 56

>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 = 47.5 bits (112), Expect = 1e-07
 Identities = 15/67 (22%), Positives = 25/67 (37%), Gaps = 19/67 (28%)

Query: 104 PATECPICLGEFVDG--------------EKVRVLPKCNHGFHVRCIDTWLLSHS----- 144
           P  +C IC+ +                    V  L KC+H FH+ C+     + +     
Sbjct: 24  PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSL 83

Query: 145 SCPNCRH 151
            CP+C+ 
Sbjct: 84  QCPSCKT 90

>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 = 46.4 bits (110), Expect = 2e-07
 Identities = 14/51 (27%), Positives = 21/51 (41%), Gaps = 3/51 (5%)

Query: 107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNN 157
            C +C G F+D      + +C H F   CI  +L +   CP C   +    
Sbjct: 17  MCVLCGGYFID---ATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTR 64

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

 Score = 45.9 bits (109), Expect = 3e-07
 Identities = 13/46 (28%), Positives = 22/46 (47%), Gaps = 3/46 (6%)

Query: 108 CPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSL 153
           C IC   F       ++P+C+H +   CI  +L   + CP C  ++
Sbjct: 25  CGICFEYFNIA---MIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTV 67

>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 = 48.2 bits (114), Expect = 4e-07
 Identities = 15/52 (28%), Positives = 20/52 (38%), Gaps = 5/52 (9%)

Query: 107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHS-SCPNCRHSLLNNN 157
            C IC     D   V++ P C H     C+ +W  S    CP CR  +    
Sbjct: 334 LCKICAENDKD---VKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKGTE 381

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

 Score = 44.4 bits (105), Expect = 5e-07
 Identities = 14/47 (29%), Positives = 16/47 (34%), Gaps = 4/47 (8%)

Query: 107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSL 153
           EC ICL   V      V   C H F   C+         C  CR  +
Sbjct: 17  ECAICLQTCVH----PVSLPCKHVFCYLCVKGASWLGKRCALCRQEI 59

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

 Score = 44.8 bits (105), Expect = 2e-06
 Identities = 14/50 (28%), Positives = 25/50 (50%), Gaps = 3/50 (6%)

Query: 107 ECPICLGEFVDGEKVRVLP---KCNHGFHVRCIDTWLLSHSSCPNCRHSL 153
            CPIC+  + +  +   L    +C H F  +C+   L + ++CP CR  +
Sbjct: 9   SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 58

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

 Score = 45.5 bits (107), Expect = 2e-06
 Identities = 13/66 (19%), Positives = 25/66 (37%), Gaps = 9/66 (13%)

Query: 88  DLRRIPVAVYGEGVDIPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSS-- 145
           ++ +     Y + V      C IC    + G+       C    H+ C+  +  S++   
Sbjct: 167 EMEQYIRETYPDAVK----ICNICHSLLIQGQSC---ETCGIRMHLPCVAKYFQSNAEPR 219

Query: 146 CPNCRH 151
           CP+C  
Sbjct: 220 CPHCND 225

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

 Score = 42.8 bits (101), Expect = 4e-06
 Identities = 15/47 (31%), Positives = 20/47 (42%), Gaps = 5/47 (10%)

Query: 108 CPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSH--SSCPNCRHS 152
           C IC     D     V+P C + +   CI T LL     +CP C  +
Sbjct: 16  CLICKDIMTD---AVVIPCCGNSYCDECIRTALLESDEHTCPTCHQN 59

>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 = 41.3 bits (97), Expect = 9e-06
 Identities = 15/48 (31%), Positives = 20/48 (41%), Gaps = 5/48 (10%)

Query: 108 CPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS--HSSCPNCRHSL 153
           C IC     D     V+P C + +   CI T LL     +CP C  + 
Sbjct: 18  CLICKDIMTD---AVVIPCCGNSYCDECIRTALLESDEHTCPTCHQND 62

>2ecy_A TNF receptor-associated factor 3; metal binding protein, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 66

 Score = 39.4 bits (92), Expect = 4e-05
 Identities = 12/48 (25%), Positives = 17/48 (35%), Gaps = 5/48 (10%)

Query: 107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHS-SCPNCRHSL 153
           +C  C              +C H F   C+   L S S  C  C+ S+
Sbjct: 17  KCEKCHLVLCS----PKQTECGHRFCESCMAALLSSSSPKCTACQESI 60

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

 Score = 39.3 bits (91), Expect = 6e-05
 Identities = 10/47 (21%), Positives = 15/47 (31%), Gaps = 1/47 (2%)

Query: 107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS-HSSCPNCRHS 152
           ECP+C+      +       C +     C        +  CP CR  
Sbjct: 13  ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKP 59

>2ct2_A Tripartite motif protein 32; zinc-finger protein HT2A, TAT- interacting protein, ring domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 88

 Score = 39.3 bits (92), Expect = 6e-05
 Identities = 15/48 (31%), Positives = 21/48 (43%), Gaps = 3/48 (6%)

Query: 107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHS---SCPNCRH 151
           ECPIC+  F + +    L  C H    +C++  L S      CP C  
Sbjct: 17  ECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSK 64

>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 = 39.6 bits (92), Expect = 8e-05
 Identities = 12/48 (25%), Positives = 17/48 (35%), Gaps = 5/48 (10%)

Query: 107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHS-SCPNCRHSL 153
           +C  C           +   C H     C+D    +   SCP CR+ L
Sbjct: 54  QCICCQELVFRP----ITTVCQHNVCKDCLDRSFRAQVFSCPACRYDL 97

>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 = 38.8 bits (90), Expect = 3e-04
 Identities = 23/82 (28%), Positives = 32/82 (39%), Gaps = 12/82 (14%)

Query: 81  VTGLKKRDLRRIPVAVYGEGVDIPAT--------ECPICLGEFVDGEKVRVLPKCNHGFH 132
              L   +L+R P     +G++I  +         CPICL    +        +C H F 
Sbjct: 22  TWELSLYELQRTPQEAITDGLEIVVSPRSLHSELMCPICLDMLKN---TMTTKECLHRFC 78

Query: 133 VRCIDTWL-LSHSSCPNCRHSL 153
             CI T L   +  CP CR  L
Sbjct: 79  ADCIITALRSGNKECPTCRKKL 100

>1z6u_A NP95-like ring finger protein isoform B; structural genomics consortium, ligase, ubiquitin-protein ligase, cell cycle regulation, SGC; 2.10A {Homo sapiens} Length = 150

 Score = 37.7 bits (87), Expect = 6e-04
 Identities = 13/48 (27%), Positives = 15/48 (31%), Gaps = 5/48 (10%)

Query: 107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWL-LSHSSCPNCRHSL 153
            C  C           V  +C H     C+         SCP CRH L
Sbjct: 80  MCVCCQELVYQP----VTTECFHNVCKDCLQRSFKAQVFSCPACRHDL 123

>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 = 36.4 bits (84), Expect = 8e-04
 Identities = 12/51 (23%), Positives = 22/51 (43%), Gaps = 9/51 (17%)

Query: 107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHS--------SCPNC 149
            C +CLGE+   E++  + +C   F   C+  ++            SCP+ 
Sbjct: 7   GCKLCLGEY-PVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDA 56

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	192
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.72
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.68
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.66
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.65
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.65
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.65
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.6
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.56
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.56
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.53
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.52
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.51
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.5
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.5
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
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.46
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.42
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.4
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	99.38
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.38
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.37
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.37
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.37
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.34
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.33
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.32
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.32
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.31
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.3
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.29
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.29
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.28
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.26
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.26
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.24
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.24
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.22
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.21
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.2
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.18
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	99.15
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.13
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.11
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.11
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.1
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	99.1
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	99.09
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.06
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	99.05
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.04
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.03
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	99.01
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	99.0
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	98.99
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.9
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.84
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.84
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.82
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.8
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.8
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.78
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.77
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.73
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.62
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.61
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.53
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.52
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.45
3nw0_A	238	Non-structural maintenance of chromosomes element	98.32
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	98.18
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	97.59
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	95.75
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	95.67
1we9_A	64	PHD finger family protein; structural genomics, PH	94.31
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	93.1
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	92.92
3lqh_A	183	Histone-lysine N-methyltransferase MLL; PHD finger	92.84
1mm2_A	61	MI2-beta; PHD, zinc finger, protein scaffold, DNA	92.63
3o36_A	184	Transcription intermediary factor 1-alpha; TRIM24,	91.75
2vpb_A	65	Hpygo1, pygopus homolog 1; gene regulation, WNT si	91.15
3u5n_A	207	E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, b	90.86
2yql_A	56	PHD finger protein 21A; PHD domain, structural gen	90.43
2k16_A	75	Transcription initiation factor TFIID subunit 3; p	90.11
2puy_A	60	PHD finger protein 21A; PHD finger, histone CODE,	89.66
1wep_A	79	PHF8; structural genomics, PHD domain, riken struc	89.52
2kgg_A	52	Histone demethylase jarid1A; PHD finger, histone m	89.08
1xwh_A	66	Autoimmune regulator; PHD domain, Zn binding domai	88.66
1fp0_A	88	KAP-1 corepressor; PHD domain, C3HC4 type zinc bin	88.1
3ql9_A	129	Transcriptional regulator ATRX; zinc finger, trans	87.28
2yt5_A	66	Metal-response element-binding transcription facto	86.76
3v43_A	112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	86.57
2ku3_A	71	Bromodomain-containing protein 1; PHD finger, chro	86.4
1wev_A	88	Riken cDNA 1110020M19; structural genomics, PHD do	85.66
2ysm_A	111	Myeloid/lymphoid or mixed-lineage leukemia protein	85.02
3v43_A	112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	84.93
2lbm_A	142	Transcriptional regulator ATRX; metal binding prot	84.69
1f62_A	51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	84.63
2xb1_A	105	Pygopus homolog 2, B-cell CLL/lymphoma 9-like Pro;	82.62
2l43_A	88	N-teminal domain from histone H3.3, linker, PHD1 f	82.5
2ri7_A	174	Nucleosome-remodeling factor subunit BPTF; zinc fi	82.0
3asl_A	70	E3 ubiquitin-protein ligase UHRF1; histone reader	81.39
2ro1_A	189	Transcription intermediary factor 1-beta; KAP, TIF	81.3

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

Probab=99.72  E-value=6e-18  Score=117.16  Aligned_cols=76  Identities=32%  Similarity=0.674  Sum_probs=66.1

Q ss_pred             HhhcCCCHHHHhcCCceeecCCC--CCCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcC
Q 043554           79 LAVTGLKKRDLRRIPVAVYGEGV--DIPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLN  155 (192)
Q Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~  155 (192)
                      ....+++++.++.++...+..+.  ...+..|+||+++|..++.++.++ |+|.||..||..|++.+.+||+||..+..
T Consensus        12 ~~~~~~s~~~i~~lp~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~l~-C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~   89 (91)
T 2l0b_A           12 VANPPASKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGTCPVCRCMFPP   89 (91)
T ss_dssp             SCCCCCCHHHHHTSCEEECCTTCSSSSSCSEETTTTEECCTTCEEEEET-TTEEEEHHHHHHHHTTTCBCTTTCCBSSC
T ss_pred             cCCCCCCHHHHHhCCCeeecccccccCCCCCCcccChhhcCCCcEEecC-CCChHHHHHHHHHHHcCCcCcCcCccCCC
Confidence            44567899999999998887653  335678999999999999999999 99999999999999999999999998854

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

Probab=99.68  E-value=1.1e-17  Score=111.58  Aligned_cols=68  Identities=32%  Similarity=0.785  Sum_probs=56.9

Q ss_pred             HHhcCCceeecCC-CCCCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCC
Q 043554           88 DLRRIPVAVYGEG-VDIPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNN  156 (192)
Q Consensus        88 ~~~~~~~~~~~~~-~~~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~  156 (192)
                      .++.++...+... ...++.+|+||+++|..++.++.++ |+|.||..||..|++.+.+||+||+.+...
T Consensus         5 ~i~~lp~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~w~~~~~~CP~Cr~~~~~~   73 (75)
T 1x4j_A            5 SSGQLPSYRFNPNNHQSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICRADSGPS   73 (75)
T ss_dssp             CCSSCCCEEBCSSSCSSSCCEETTTTEECCBTCEEEEET-TTEEEETTHHHHHHHHCSSCTTTCCCCCCC
T ss_pred             hHhhCCcEEecCccccCCCCCCeECCcccCCCCeEEEEC-CCCHhHHHHHHHHHHcCCcCcCcCCcCCCC
Confidence            3456777766654 3345678999999999999999999 999999999999999889999999988653

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

Probab=99.66  E-value=1.4e-16  Score=106.76  Aligned_cols=59  Identities=47%  Similarity=0.946  Sum_probs=51.6

Q ss_pred             CCCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCCCCCCC
Q 043554          102 DIPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNERST  161 (192)
Q Consensus       102 ~~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~~~~~  161 (192)
                      ...+.+|+||++.|..++.++.++ |+|.||..||..|++.+.+||+||+.+...+....
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~   70 (78)
T 2ect_A           12 VGSGLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNTATN   70 (78)
T ss_dssp             SSSSCCCTTTTSCCCTTSCEEECT-TSCEEETTTTHHHHTTTCSCTTTCCCCCCSCSCCC
T ss_pred             CCCCCCCeeCCccccCCCCEEEeC-CCCeecHHHHHHHHHcCCcCcCcCCccCCcccCCC
Confidence            335678999999999998889998 99999999999999988999999999977655544

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

Probab=99.65  E-value=8.8e-17  Score=100.62  Aligned_cols=51  Identities=53%  Similarity=1.248  Sum_probs=46.3

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCc
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLL  154 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~  154 (192)
                      ++.+|+||+++|.+++.+..++.|+|.||..||..|++++.+||+||+.+.
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            457899999999998888888679999999999999999999999999874

>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=99.65  E-value=2.1e-16  Score=103.43  Aligned_cols=55  Identities=40%  Similarity=0.921  Sum_probs=48.8

Q ss_pred             CCCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCCC
Q 043554          102 DIPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNN  157 (192)
Q Consensus       102 ~~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~  157 (192)
                      ...+..|+||++.|..++.++.++ |+|.||..||..|++.+.+||+||..+....
T Consensus        11 ~~~~~~C~IC~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   65 (69)
T 2kiz_A           11 EDTEEKCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDIEAQL   65 (69)
T ss_dssp             TTCCCSBTTTTBCCCSSSCEEECT-TSCEEEHHHHHHHHHHCSBCTTTCSBSCSCC
T ss_pred             CCCCCCCeeCCccccCCCcEEEeC-CCCHHHHHHHHHHHHcCCCCcCcCccccCcC
Confidence            345678999999999888899998 9999999999999998889999999886543

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

Probab=99.65  E-value=1.7e-16  Score=105.29  Aligned_cols=56  Identities=30%  Similarity=0.791  Sum_probs=49.6

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCCCCCC
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNERS  160 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~~~~  160 (192)
                      .+..|+||++.|..++.+..++ |+|.||..||..|++.+.+||+||..+.......
T Consensus        14 ~~~~C~IC~~~~~~~~~~~~~~-C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~   69 (74)
T 2ep4_A           14 LHELCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPVLQLAQLS   69 (74)
T ss_dssp             CSCBCSSSCCBCCSSSCEEEET-TTEEEEHHHHHHHHHHCSBCTTTCCBCSSCCSCC
T ss_pred             CCCCCcCCCcccCCCCcEEEcC-CCCEecHHHHHHHHHcCCcCCCcCcccccccccC
Confidence            4678999999999999999998 9999999999999998889999999986654433

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

Probab=99.60  E-value=6.4e-16  Score=104.68  Aligned_cols=54  Identities=30%  Similarity=0.775  Sum_probs=43.7

Q ss_pred             CCCCCCCcccCCcCC-----------CCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCC
Q 043554          103 IPATECPICLGEFVD-----------GEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNN  156 (192)
Q Consensus       103 ~~~~~C~ICl~~~~~-----------~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~  156 (192)
                      .++.+|+||+++|.+           ++.++.++.|+|.||.+||.+|++++.+||+||+.+...
T Consensus        13 ~~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~~   77 (81)
T 2ecl_A           13 VECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVVQ   77 (81)
T ss_dssp             CCCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBCCEE
T ss_pred             CCCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCcchh
Confidence            356789999998864           344555555999999999999999999999999987543

>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=99.56  E-value=3.3e-15  Score=93.29  Aligned_cols=50  Identities=32%  Similarity=0.713  Sum_probs=43.4

Q ss_pred             CCCCCCcccCCcCCCC-ceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCc
Q 043554          104 PATECPICLGEFVDGE-KVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLL  154 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~-~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~  154 (192)
                      .+.+|+||++.|.+++ .++.++ |+|.||..||..|++.+.+||+||+.+.
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            4678999999997644 567787 9999999999999998899999998874

>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=3.4e-15  Score=106.97  Aligned_cols=56  Identities=23%  Similarity=0.608  Sum_probs=44.6

Q ss_pred             CCCCCCcccCCcCCCC---------------ceEEcCCCCCcccHhhHHHHH-----hCCCCCcccCccCcCCCCCC
Q 043554          104 PATECPICLGEFVDGE---------------KVRVLPKCNHGFHVRCIDTWL-----LSHSSCPNCRHSLLNNNERS  160 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~---------------~v~~l~~C~H~FH~~Ci~~Wl-----~~~~~CP~CR~~l~~~~~~~  160 (192)
                      .+.+|+||+++|..+.               .++.++ |+|.||..||..|+     +.+.+||+||+.+.......
T Consensus        24 ~~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~-C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~~~g~q   99 (114)
T 1v87_A           24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTK-CSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEKTGTQ   99 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESS-SCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSCSSSC
T ss_pred             CCCcCccCChhhcCcccccccccccccCcccceecCC-CCCcccHHHHHHHHHcccCCCCCcCCCCCCccCCCCCCC
Confidence            3568999999997653               345777 99999999999999     44668999999987664433

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

Probab=99.53  E-value=3.6e-15  Score=97.83  Aligned_cols=54  Identities=24%  Similarity=0.658  Sum_probs=46.2

Q ss_pred             CCCCCCcccCCcCCC----CceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCCCC
Q 043554          104 PATECPICLGEFVDG----EKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNE  158 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~----~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~~  158 (192)
                      ++.+|+||++.|.+.    +.+..++ |||.||..||..|++++.+||+||..+...+-
T Consensus         9 ~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~   66 (71)
T 3ng2_A            9 GTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHKRY   66 (71)
T ss_dssp             TCCBCTTTCCBHHHHHTTTCCEEECT-TSCEEEHHHHHHHHHHCSBCTTTCCBCCCCSC
T ss_pred             CCCCCcccChhhhccccccCCeEeCC-CCChHhHHHHHHHHHcCCCCCCCCCccChhhe
Confidence            567899999999764    4557787 99999999999999988999999999876543

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

Probab=99.52  E-value=6.4e-15  Score=95.98  Aligned_cols=52  Identities=25%  Similarity=0.682  Sum_probs=44.4

Q ss_pred             CCCCCCCcccCCcCCC----CceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcC
Q 043554          103 IPATECPICLGEFVDG----EKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLN  155 (192)
Q Consensus       103 ~~~~~C~ICl~~~~~~----~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~  155 (192)
                      .++..|+||++.|.+.    ..+..++ |||.||..||..|++.+.+||+||..+..
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   68 (69)
T 2ea6_A           13 SGTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINH   68 (69)
T ss_dssp             TCCCCCTTTCCCHHHHTTTTCCEEECS-SSCEEEHHHHHHHHHHCSSCTTTCCCCCC
T ss_pred             CCCCCCcccCccccccccccCCeEeCC-CCChhcHHHHHHHHHcCCCCCCCCCccCc
Confidence            3567899999999864    3457787 99999999999999988999999998754

>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=99.51  E-value=1.3e-14  Score=103.06  Aligned_cols=51  Identities=33%  Similarity=0.669  Sum_probs=43.6

Q ss_pred             CCCCCCCcccCCcCCCC---------------ceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCc
Q 043554          103 IPATECPICLGEFVDGE---------------KVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLL  154 (192)
Q Consensus       103 ~~~~~C~ICl~~~~~~~---------------~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~  154 (192)
                      .++..|+||++.|.+.-               .++.++ |+|.||..||..||+.+.+||+||+.+.
T Consensus        35 ~~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~-C~H~FH~~Ci~~Wl~~~~~CP~Cr~~~~  100 (106)
T 3dpl_R           35 IVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREWE  100 (106)
T ss_dssp             SCSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEET-TSCEEEHHHHHHHHTTCSBCSSSCSBCC
T ss_pred             CCCCCCccCChhHhCcCchhhccccccCCccceEeecc-cCcEECHHHHHHHHHcCCcCcCCCCcce
Confidence            35778999999998651               356677 9999999999999999999999999863

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

Probab=99.50  E-value=2.6e-14  Score=96.51  Aligned_cols=56  Identities=25%  Similarity=0.596  Sum_probs=45.7

Q ss_pred             CCCCCCCCcccCCcCCCCceEEcCCCC-----CcccHhhHHHHHhCC--CCCcccCccCcCCCCC
Q 043554          102 DIPATECPICLGEFVDGEKVRVLPKCN-----HGFHVRCIDTWLLSH--SSCPNCRHSLLNNNER  159 (192)
Q Consensus       102 ~~~~~~C~ICl~~~~~~~~v~~l~~C~-----H~FH~~Ci~~Wl~~~--~~CP~CR~~l~~~~~~  159 (192)
                      ..++..|.||+++|.+++.+ ++| |+     |.||.+||++|+..+  .+||+||..+......
T Consensus        12 ~~~~~~C~IC~~~~~~~~~l-~~p-C~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~~~~   74 (80)
T 2d8s_A           12 PSSQDICRICHCEGDDESPL-ITP-CHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIMETKL   74 (80)
T ss_dssp             CTTSCCCSSSCCCCCSSSCE-ECS-SSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCCCCS
T ss_pred             CCCCCCCeEcCccccCCCee-Eec-cccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecCccc
Confidence            34567899999999877766 588 86     999999999999754  5899999998655443

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

Probab=99.50  E-value=7.3e-15  Score=94.31  Aligned_cols=53  Identities=25%  Similarity=0.691  Sum_probs=45.1

Q ss_pred             CCCCCCcccCCcCCC----CceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCCC
Q 043554          104 PATECPICLGEFVDG----EKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNN  157 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~----~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~  157 (192)
                      ++.+|+||++.+.++    +.+..++ |||.||..|+..|++++.+||+||..+...+
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~   58 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHKR   58 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEET-TSCEEEHHHHHHHHHHCSBCTTTCCBCTTTC
T ss_pred             CCCCCCccChhhhCccccCCCEEeCC-CCCchhHHHHHHHHHcCCCCCCCCccCCccc
Confidence            356899999999764    4556777 9999999999999998889999999986654

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

Probab=99.48  E-value=4.6e-14  Score=93.12  Aligned_cols=56  Identities=27%  Similarity=0.602  Sum_probs=46.0

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCCCCCCCC
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNERSTA  162 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~~~~~~  162 (192)
                      ++..|+||++.|.++  +..++ |||.||..||..|++.+..||+||..+...+.....
T Consensus        14 ~~~~C~IC~~~~~~p--~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~   69 (72)
T 2djb_A           14 PYILCSICKGYLIDA--TTITE-CLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQPLSGP   69 (72)
T ss_dssp             GGGSCTTTSSCCSSC--EECSS-SCCEECHHHHHHHHHHCSSCTTTCCCCCSSCSCCCC
T ss_pred             CCCCCCCCChHHHCc--CEECC-CCCHHHHHHHHHHHHcCCcCCCcCcccCcccccccC
Confidence            456899999999874  33347 999999999999999888999999999776555443

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

Probab=99.47  E-value=5.5e-14  Score=91.49  Aligned_cols=49  Identities=35%  Similarity=0.839  Sum_probs=42.9

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcC
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLN  155 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~  155 (192)
                      .+..|+||++.+.++  +..++ |||.||..|+..|++.+.+||+||..+..
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            467899999998753  57788 99999999999999988999999998854

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

Probab=99.46  E-value=1.6e-14  Score=95.08  Aligned_cols=52  Identities=29%  Similarity=0.614  Sum_probs=44.3

Q ss_pred             CCCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCCC
Q 043554          102 DIPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNN  157 (192)
Q Consensus       102 ~~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~  157 (192)
                      ..++..|+||++.+.+.   ..++ |+|.||..||..|++.+.+||+||..+....
T Consensus        12 ~~~~~~C~IC~~~~~~~---~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~~~   63 (71)
T 2d8t_A           12 SLTVPECAICLQTCVHP---VSLP-CKHVFCYLCVKGASWLGKRCALCRQEIPEDF   63 (71)
T ss_dssp             SSSCCBCSSSSSBCSSE---EEET-TTEEEEHHHHHHCTTCSSBCSSSCCBCCHHH
T ss_pred             CCCCCCCccCCcccCCC---EEcc-CCCHHHHHHHHHHHHCCCcCcCcCchhCHhh
Confidence            34567899999998764   5677 9999999999999998899999999986543

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

Probab=99.46  E-value=2.8e-14  Score=93.47  Aligned_cols=50  Identities=42%  Similarity=0.947  Sum_probs=43.8

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCCCC
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNE  158 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~~  158 (192)
                      ++..|+||++.+.+    ..++ |+|.||..||..|+..+.+||+||..+...+.
T Consensus        14 ~~~~C~IC~~~~~~----~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~   63 (70)
T 2ecn_A           14 DEEECCICMDGRAD----LILP-CAHSFCQKCIDKWSDRHRNCPICRLQMTGANE   63 (70)
T ss_dssp             CCCCCSSSCCSCCS----EEET-TTEEECHHHHHHSSCCCSSCHHHHHCTTCCCC
T ss_pred             CCCCCeeCCcCccC----cccC-CCCcccHHHHHHHHHCcCcCCCcCCcccCCCc
Confidence            46789999999877    5677 99999999999999988999999999875543

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

Probab=99.42  E-value=2.3e-13  Score=92.73  Aligned_cols=53  Identities=28%  Similarity=0.671  Sum_probs=45.2

Q ss_pred             CCCCCCCcccCCcCCCCc-eEEcCCCCCcccHhhHHHHHhCC---CCCcccCccCcCC
Q 043554          103 IPATECPICLGEFVDGEK-VRVLPKCNHGFHVRCIDTWLLSH---SSCPNCRHSLLNN  156 (192)
Q Consensus       103 ~~~~~C~ICl~~~~~~~~-v~~l~~C~H~FH~~Ci~~Wl~~~---~~CP~CR~~l~~~  156 (192)
                      .+..+|+||++.|.+.+. .+.++ |||.||..||..|++.+   ..||+||..+...
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   69 (88)
T 2ct2_A           13 REVLECPICMESFTEEQLRPKLLH-CGHTICRQCLEKLLASSINGVRCPFCSKITRIT   69 (88)
T ss_dssp             CSCCBCTTTCCBCCTTSSCEEECS-SSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCCS
T ss_pred             cCCCCCccCCccccccCCCeEECC-CCChhhHHHHHHHHHcCCCCcCCCCCCCcccch
Confidence            356789999999998765 67787 99999999999999865   7899999987554

>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=99.40  E-value=2.6e-14  Score=103.07  Aligned_cols=51  Identities=35%  Similarity=0.712  Sum_probs=1.6

Q ss_pred             CCCCCCCcccCCcCCC-------------C--ceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCc
Q 043554          103 IPATECPICLGEFVDG-------------E--KVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLL  154 (192)
Q Consensus       103 ~~~~~C~ICl~~~~~~-------------~--~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~  154 (192)
                      .+++.|+||+++|.+.             +  .+..++ |+|.||..||..||+.+.+||+||+.+.
T Consensus        46 ~~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~-C~H~FH~~CI~~Wl~~~~~CP~Cr~~~~  111 (117)
T 4a0k_B           46 IVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREWE  111 (117)
T ss_dssp             CCC----------------------------------------------------------------
T ss_pred             CCCCcCeECChhhcCcChhhhcccccccccccccccCC-cCceEcHHHHHHHHHcCCcCCCCCCeee
Confidence            3567999999999753             2  233346 9999999999999999999999999864

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

Probab=99.38  E-value=4e-13  Score=89.15  Aligned_cols=54  Identities=22%  Similarity=0.652  Sum_probs=43.9

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCC--CCCcccCccCcCCCCCC
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSH--SSCPNCRHSLLNNNERS  160 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~--~~CP~CR~~l~~~~~~~  160 (192)
                      ...+|+||.+.+..++...   .|+|.||..||..||+.+  .+||+||+.+..+.+..
T Consensus        14 ~i~~C~IC~~~i~~g~~C~---~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~~~~~~   69 (74)
T 2ct0_A           14 AVKICNICHSLLIQGQSCE---TCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEIPKS   69 (74)
T ss_dssp             SSCBCSSSCCBCSSSEECS---SSCCEECHHHHHHHSTTCSSCCCTTTCSCCCSCCCCC
T ss_pred             CCCcCcchhhHcccCCccC---CCCchhhHHHHHHHHHhcCCCCCCCCcCcCCCCCCCC
Confidence            4568999999998765433   599999999999999876  78999999986554443

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

Probab=99.38  E-value=3.1e-13  Score=91.01  Aligned_cols=48  Identities=23%  Similarity=0.387  Sum_probs=42.0

Q ss_pred             CCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCc
Q 043554          103 IPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLL  154 (192)
Q Consensus       103 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~  154 (192)
                      .....|+||++.|.++   .+++ |||.||..||..|++....||+||..+.
T Consensus        13 ~~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~   60 (81)
T 2csy_A           13 EIPFRCFICRQAFQNP---VVTK-CRHYFCESCALEHFRATPRCYICDQPTG   60 (81)
T ss_dssp             CCCSBCSSSCSBCCSE---EECT-TSCEEEHHHHHHHHHHCSBCSSSCCBCC
T ss_pred             CCCCCCcCCCchhcCe---eEcc-CCCHhHHHHHHHHHHCCCcCCCcCcccc
Confidence            3467899999999764   4677 9999999999999998889999999885

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

Probab=99.37  E-value=5.4e-13  Score=87.84  Aligned_cols=50  Identities=30%  Similarity=0.674  Sum_probs=41.7

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHh---CCCCCcccCccCcCCC
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLL---SHSSCPNCRHSLLNNN  157 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~---~~~~CP~CR~~l~~~~  157 (192)
                      ++..|+||++.|.+.   ..++ |||.||..||..|++   .+..||+||..+..++
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            567899999998863   5667 999999999999996   4558999999886543

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

Probab=99.37  E-value=5.2e-13  Score=88.54  Aligned_cols=51  Identities=29%  Similarity=0.673  Sum_probs=41.6

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCC--CCCcccCccCcCCC
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSH--SSCPNCRHSLLNNN  157 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~--~~CP~CR~~l~~~~  157 (192)
                      ++..|+||++.|.++   ..++.|||.||..||..|++.+  ..||+||+.+...+
T Consensus        14 ~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~   66 (74)
T 2yur_A           14 DELLCLICKDIMTDA---VVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPD   66 (74)
T ss_dssp             GGGSCSSSCCCCTTC---EECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCCTT
T ss_pred             CCCCCcCCChHHhCC---eEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCCcc
Confidence            456899999999875   4465599999999999999754  68999999765443

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

Probab=99.37  E-value=3.9e-13  Score=87.02  Aligned_cols=49  Identities=22%  Similarity=0.560  Sum_probs=41.2

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHh-CCCCCcccCccCcCC
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLL-SHSSCPNCRHSLLNN  156 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~l~~~  156 (192)
                      ++..|+||++.+.++.   .++ |||.||..||..|++ .+..||+||+.+..+
T Consensus        14 ~~~~C~IC~~~~~~p~---~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   63 (66)
T 2ecy_A           14 DKYKCEKCHLVLCSPK---QTE-CGHRFCESCMAALLSSSSPKCTACQESIVKD   63 (66)
T ss_dssp             CCEECTTTCCEESSCC---CCS-SSCCCCHHHHHHHHTTSSCCCTTTCCCCCTT
T ss_pred             cCCCCCCCChHhcCee---ECC-CCCHHHHHHHHHHHHhCcCCCCCCCcCCChh
Confidence            4678999999998763   366 999999999999994 567899999988654

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

Probab=99.34  E-value=3.3e-13  Score=100.01  Aligned_cols=47  Identities=32%  Similarity=0.855  Sum_probs=41.4

Q ss_pred             CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcC
Q 043554          105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLN  155 (192)
Q Consensus       105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~  155 (192)
                      +..|+||++.|.++   ..++ |||.||..||..|+..+.+||+||.++..
T Consensus        53 ~~~C~iC~~~~~~~---~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~   99 (138)
T 4ayc_A           53 ELQCIICSEYFIEA---VTLN-CAHSFCSYCINEWMKRKIECPICRKDIKS   99 (138)
T ss_dssp             HSBCTTTCSBCSSE---EEET-TSCEEEHHHHHHHTTTCSBCTTTCCBCCC
T ss_pred             cCCCcccCcccCCc---eECC-CCCCccHHHHHHHHHcCCcCCCCCCcCCC
Confidence            45799999999764   5678 99999999999999999999999998843

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

Probab=99.33  E-value=5.1e-13  Score=97.37  Aligned_cols=55  Identities=24%  Similarity=0.650  Sum_probs=46.7

Q ss_pred             CCCCCCcccCCcCCC----CceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCCCCC
Q 043554          104 PATECPICLGEFVDG----EKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNER  159 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~----~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~~~  159 (192)
                      ++.+|+||++.|.++    +.+..++ |||.||..||..|++.+.+||+||+.+......
T Consensus         6 ~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~l~   64 (133)
T 4ap4_A            6 GTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKINHKRYH   64 (133)
T ss_dssp             CSCBCTTTCCBHHHHHHTTCCEEEET-TCCEEEHHHHHHHHTTCSBCTTTCCBCTTTCEE
T ss_pred             CCCCCcccChhhhCccccccCeEecC-CCChhhHHHHHHHHHhCCCCCCCCCcCcccccc
Confidence            467899999999764    4557787 999999999999999999999999998665543

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

Probab=99.32  E-value=1.3e-12  Score=87.23  Aligned_cols=49  Identities=27%  Similarity=0.606  Sum_probs=42.2

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC-CCCCcccCccCcCC
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS-HSSCPNCRHSLLNN  156 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l~~~  156 (192)
                      ++..|+||++.|.++   ..++ |||.||..||..|+.. +.+||+||..+...
T Consensus         7 ~~~~C~IC~~~~~~P---v~~~-CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~~   56 (78)
T 1t1h_A            7 EYFRCPISLELMKDP---VIVS-TGQTYERSSIQKWLDAGHKTCPKSQETLLHA   56 (78)
T ss_dssp             SSSSCTTTSCCCSSE---EEET-TTEEEEHHHHHHHHTTTCCBCTTTCCBCSSC
T ss_pred             ccCCCCCccccccCC---EEcC-CCCeecHHHHHHHHHHCcCCCCCCcCCCChh
Confidence            467899999999875   4567 9999999999999986 77899999988654

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

Probab=99.32  E-value=2.9e-12  Score=86.34  Aligned_cols=49  Identities=33%  Similarity=0.640  Sum_probs=42.3

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC------CCCCcccCccCcCC
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS------HSSCPNCRHSLLNN  156 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~------~~~CP~CR~~l~~~  156 (192)
                      ++..|+||++.|.++   ..++ |+|.||..||..|+..      ...||+||..+..+
T Consensus        18 ~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~   72 (85)
T 2ecw_A           18 EEVTCPICLELLKEP---VSAD-CNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFG   72 (85)
T ss_dssp             TTTSCTTTCSCCSSC---EECT-TSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTT
T ss_pred             cCCCCcCCChhhCcc---eeCC-CCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHH
Confidence            467899999999876   4677 9999999999999986      66899999988654

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

Probab=99.31  E-value=3.7e-12  Score=85.88  Aligned_cols=50  Identities=36%  Similarity=0.701  Sum_probs=42.5

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC------CCCCcccCccCcCCC
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS------HSSCPNCRHSLLNNN  157 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~------~~~CP~CR~~l~~~~  157 (192)
                      ++..|+||++.|.+.   ..++ |||.||..|+..|+..      ...||+||..+...+
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            467899999999875   4567 9999999999999976      678999999987543

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

Probab=99.30  E-value=1.8e-12  Score=83.66  Aligned_cols=54  Identities=24%  Similarity=0.570  Sum_probs=42.7

Q ss_pred             CCCCCCcccC-CcCCCCce-EEcCCCCCcccHhhHHHHHhC-CCCCcccCccCcCCCC
Q 043554          104 PATECPICLG-EFVDGEKV-RVLPKCNHGFHVRCIDTWLLS-HSSCPNCRHSLLNNNE  158 (192)
Q Consensus       104 ~~~~C~ICl~-~~~~~~~v-~~l~~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l~~~~~  158 (192)
                      ++..|+||++ .|.++... ..++ |||.||..||..|+.+ +..||+||..+..++-
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~   58 (65)
T 1g25_A            2 DDQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGAGNCPECGTPLRKSNF   58 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECT-TCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCCC
T ss_pred             CCCcCCcCCCCccCCCccCeecCC-CCCHhHHHHHHHHHHcCCCcCCCCCCccccccc
Confidence            3568999999 77776543 4566 9999999999999764 4679999999865543

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

Probab=99.29  E-value=3.9e-12  Score=81.47  Aligned_cols=42  Identities=31%  Similarity=0.734  Sum_probs=36.3

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHh---CCCCCccc
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLL---SHSSCPNC  149 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~---~~~~CP~C  149 (192)
                      ++..|+||++.|.++   ..++ |||.||..||..|++   .+..||+|
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            567899999999875   5667 999999999999997   45689998

>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=99.29  E-value=1.2e-12  Score=91.71  Aligned_cols=48  Identities=31%  Similarity=0.762  Sum_probs=41.1

Q ss_pred             CCCCCcccCCcCCCCceEE-cCCCCCcccHhhHHHHHhCC-CCCcccCccCcCC
Q 043554          105 ATECPICLGEFVDGEKVRV-LPKCNHGFHVRCIDTWLLSH-SSCPNCRHSLLNN  156 (192)
Q Consensus       105 ~~~C~ICl~~~~~~~~v~~-l~~C~H~FH~~Ci~~Wl~~~-~~CP~CR~~l~~~  156 (192)
                      +..|+||++.|.++   +. ++ |||.||..||..|++.+ ..||+||..+...
T Consensus        22 ~~~C~IC~~~~~~p---~~~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~   71 (100)
T 3lrq_A           22 VFRCFICMEKLRDA---RLCPH-CSKLCCFSCIRRWLTEQRAQCPHCRAPLQLR   71 (100)
T ss_dssp             HTBCTTTCSBCSSE---EECTT-TCCEEEHHHHHHHHHHTCSBCTTTCCBCCGG
T ss_pred             CCCCccCCccccCc---cccCC-CCChhhHHHHHHHHHHCcCCCCCCCCcCCHH
Confidence            56899999999763   45 77 99999999999999876 6899999998543

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

Probab=99.28  E-value=9.8e-13  Score=87.83  Aligned_cols=49  Identities=33%  Similarity=0.609  Sum_probs=41.7

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC-------CCCCcccCccCcCC
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS-------HSSCPNCRHSLLNN  156 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~-------~~~CP~CR~~l~~~  156 (192)
                      ++..|+||++.|.++   ..++ |||.||..||..|++.       ...||+||..+...
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            467899999999875   4467 9999999999999976       56799999988654

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

Probab=99.26  E-value=2.6e-12  Score=89.67  Aligned_cols=48  Identities=25%  Similarity=0.650  Sum_probs=41.1

Q ss_pred             CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcC
Q 043554          105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLN  155 (192)
Q Consensus       105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~  155 (192)
                      +..|+||++.|.++  +..++ |||.||..||..|+..+.+||+||..+..
T Consensus        22 ~~~C~IC~~~~~~p--~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~~~   69 (99)
T 2y43_A           22 LLRCGICFEYFNIA--MIIPQ-CSHNYCSLCIRKFLSYKTQCPTCCVTVTE   69 (99)
T ss_dssp             HTBCTTTCSBCSSE--EECTT-TCCEEEHHHHHHHHTTCCBCTTTCCBCCG
T ss_pred             CCCcccCChhhCCc--CEECC-CCCHhhHHHHHHHHHCCCCCCCCCCcCCh
Confidence            46899999999874  33346 99999999999999988899999998865

>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=99.26  E-value=3.2e-12  Score=90.61  Aligned_cols=50  Identities=30%  Similarity=0.735  Sum_probs=42.5

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCC
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNN  156 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~  156 (192)
                      ++..|+||++.|.++  +..++ |||.||..||..|+..+..||+||..+...
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            356899999999764  44447 999999999999999889999999988654

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

Probab=99.24  E-value=2.6e-12  Score=93.54  Aligned_cols=54  Identities=24%  Similarity=0.664  Sum_probs=45.4

Q ss_pred             CCCCCCCcccCCcCCC----CceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCCC
Q 043554          103 IPATECPICLGEFVDG----EKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNN  157 (192)
Q Consensus       103 ~~~~~C~ICl~~~~~~----~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~  157 (192)
                      .+...|+||++.|.+.    .....++ |||.||..||..|++.+.+||+||..+..++
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            3567899999999763    3446677 9999999999999999999999999987654

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

Probab=99.24  E-value=5.7e-12  Score=79.09  Aligned_cols=42  Identities=29%  Similarity=0.831  Sum_probs=35.6

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHh---CCCCCccc
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLL---SHSSCPNC  149 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~---~~~~CP~C  149 (192)
                      ++..|+||++.+.++   ..++ |||.||..||..|++   .+..||+|
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            467899999999876   4577 999999999999964   46679998

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

Probab=99.22  E-value=9.8e-12  Score=85.45  Aligned_cols=48  Identities=31%  Similarity=0.704  Sum_probs=40.1

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC--CCCCcccCccCc
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS--HSSCPNCRHSLL  154 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~--~~~CP~CR~~l~  154 (192)
                      ++..|+||++.|.++   ..++.|||.||..||..|+..  +..||+||..+.
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            567899999999875   456559999999999999964  358999999873

>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=99.21  E-value=1.1e-11  Score=89.96  Aligned_cols=47  Identities=26%  Similarity=0.528  Sum_probs=40.4

Q ss_pred             CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCC-CCcccCccCcC
Q 043554          105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHS-SCPNCRHSLLN  155 (192)
Q Consensus       105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~-~CP~CR~~l~~  155 (192)
                      +..|+||++.|.++   ..++ |||.||..||..|+..+. .||+||..+..
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            56899999999864   5677 999999999999998544 89999999865

>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=99.20  E-value=1.7e-11  Score=87.01  Aligned_cols=49  Identities=29%  Similarity=0.647  Sum_probs=40.9

Q ss_pred             CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCC---CCcccCccCcCCC
Q 043554          105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHS---SCPNCRHSLLNNN  157 (192)
Q Consensus       105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~---~CP~CR~~l~~~~  157 (192)
                      ...|+||++.|.++   ..++ |||.||..||..|+..+.   .||+||..+....
T Consensus        21 ~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   72 (112)
T 1jm7_A           21 ILECPICLELIKEP---VSTK-CDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRS   72 (112)
T ss_dssp             HTSCSSSCCCCSSC---CBCT-TSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTT
T ss_pred             CCCCcccChhhcCe---EECC-CCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCHhh
Confidence            45799999999775   3467 999999999999998653   8999999887654

>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=99.18  E-value=1.2e-11  Score=94.08  Aligned_cols=48  Identities=38%  Similarity=0.777  Sum_probs=40.8

Q ss_pred             CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC-CCCCcccCccCcC
Q 043554          105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS-HSSCPNCRHSLLN  155 (192)
Q Consensus       105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l~~  155 (192)
                      +..|+||++.|.++  +..++ |||.||..||..|+.. +..||+||..+..
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            45899999999874  44457 9999999999999986 7789999998853

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

Probab=99.15  E-value=7.1e-11  Score=79.15  Aligned_cols=55  Identities=18%  Similarity=0.408  Sum_probs=42.0

Q ss_pred             CCCCCCCcccCCcCCCCce-EEcCCCCCcccHhhHHHHHh-CCCCCcccCccCcCCCC
Q 043554          103 IPATECPICLGEFVDGEKV-RVLPKCNHGFHVRCIDTWLL-SHSSCPNCRHSLLNNNE  158 (192)
Q Consensus       103 ~~~~~C~ICl~~~~~~~~v-~~l~~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~l~~~~~  158 (192)
                      .++.+|+||++.+...+.. ..++ |||.||..|+..|+. ....||+||+.+.....
T Consensus         9 ~~~~~CpICle~~~~~d~~~~p~~-CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~~   65 (78)
T 1e4u_A            9 EDPVECPLCMEPLEIDDINFFPCT-CGYQICRFCWHRIRTDENGLCPACRKPYPEDPA   65 (78)
T ss_dssp             CCCCBCTTTCCBCCTTTTTCCSST-TSCCCCHHHHHHHTTSSCSBCTTTCCBCSSCSS
T ss_pred             ccCCcCCccCccCccccccccccC-CCCCcCHHHHHHHHhcCCCCCCCCCCccCCCch
Confidence            3567899999998654332 2345 999999999999875 35679999999876543

>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=99.13  E-value=2.9e-11  Score=90.79  Aligned_cols=48  Identities=27%  Similarity=0.546  Sum_probs=41.2

Q ss_pred             CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCC-CCcccCccCcCC
Q 043554          105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHS-SCPNCRHSLLNN  156 (192)
Q Consensus       105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~-~CP~CR~~l~~~  156 (192)
                      ...|+||++.|.++   ..++ |||.||..||..|+.... .||+||..+...
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            56899999999775   4577 999999999999998654 799999998665

>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=99.11  E-value=1.7e-11  Score=88.25  Aligned_cols=49  Identities=35%  Similarity=0.665  Sum_probs=41.6

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCC-CCcccCccCcCC
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHS-SCPNCRHSLLNN  156 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~-~CP~CR~~l~~~  156 (192)
                      ++..|+||++.+.++   ..++ |||.||..||..|++.+. +||+||..+...
T Consensus        17 ~~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   66 (118)
T 3hct_A           17 SKYECPICLMALREA---VQTP-CGHRFCKACIIKSIRDAGHKCPVDNEILLEN   66 (118)
T ss_dssp             GGGBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             CCCCCCcCChhhcCe---EECC-cCChhhHHHHHHHHhhCCCCCCCCCCCcCHH
Confidence            456899999999875   5577 999999999999998654 899999988654

>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=99.11  E-value=4e-11  Score=85.92  Aligned_cols=49  Identities=31%  Similarity=0.565  Sum_probs=41.7

Q ss_pred             CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC-CCCCcccCccCcCCC
Q 043554          105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS-HSSCPNCRHSLLNNN  157 (192)
Q Consensus       105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l~~~~  157 (192)
                      +..|+||++.+.++   ..++ |||.||..||..|+.. +.+||+||..+...+
T Consensus        23 ~~~C~IC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   72 (116)
T 1rmd_A           23 SISCQICEHILADP---VETS-CKHLFCRICILRCLKVMGSYCPSCRYPCFPTD   72 (116)
T ss_dssp             HTBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGG
T ss_pred             CCCCCCCCcHhcCc---EEcC-CCCcccHHHHHHHHhHCcCcCCCCCCCCCHhh
Confidence            56899999999764   4577 9999999999999986 678999999986543

>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=99.10  E-value=1.6e-11  Score=87.87  Aligned_cols=48  Identities=29%  Similarity=0.710  Sum_probs=40.8

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC-CCCCcccCccCcC
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS-HSSCPNCRHSLLN  155 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l~~  155 (192)
                      ++..|+||++.|.++   ..++ |||.||..||..|+.. +..||+||..+..
T Consensus        14 ~~~~C~iC~~~~~~p---~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (115)
T 3l11_A           14 SECQCGICMEILVEP---VTLP-CNHTLCKPCFQSTVEKASLCCPFCRRRVSS   62 (115)
T ss_dssp             HHHBCTTTCSBCSSC---EECT-TSCEECHHHHCCCCCTTTSBCTTTCCBCHH
T ss_pred             CCCCCccCCcccCce---eEcC-CCCHHhHHHHHHHHhHCcCCCCCCCcccCc
Confidence            356899999999875   5667 9999999999999976 6689999998853

>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=99.10  E-value=3.4e-11  Score=77.65  Aligned_cols=47  Identities=23%  Similarity=0.499  Sum_probs=39.7

Q ss_pred             CCCCCCcccCCcCCCCceEE--cCCCCCc-ccHhhHHHHHhCCCCCcccCccCc
Q 043554          104 PATECPICLGEFVDGEKVRV--LPKCNHG-FHVRCIDTWLLSHSSCPNCRHSLL  154 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~--l~~C~H~-FH~~Ci~~Wl~~~~~CP~CR~~l~  154 (192)
                      ++.+|.||++.+.+.   ..  +| |||. |+..|+..|.+.+..||+||+++.
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            456899999987653   33  48 9999 899999999988889999999874

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

Probab=99.09  E-value=4.2e-11  Score=75.06  Aligned_cols=47  Identities=23%  Similarity=0.535  Sum_probs=39.1

Q ss_pred             CCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCC
Q 043554          103 IPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNN  156 (192)
Q Consensus       103 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~  156 (192)
                      .+...|+||++.|.+.   +.++ |||.||..|+..|   ...||+||+.+...
T Consensus         4 ~~~~~C~IC~~~~~~p---~~l~-CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~   50 (56)
T 1bor_A            4 FQFLRCQQCQAEAKCP---KLLP-CLHTLCSGCLEAS---GMQCPICQAPWPLG   50 (56)
T ss_dssp             CCCSSCSSSCSSCBCC---SCST-TSCCSBTTTCSSS---SSSCSSCCSSSSCC
T ss_pred             ccCCCceEeCCccCCe---EEcC-CCCcccHHHHccC---CCCCCcCCcEeecC
Confidence            3567899999999875   5677 9999999999884   56799999988543

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

Probab=99.06  E-value=8e-11  Score=80.10  Aligned_cols=49  Identities=20%  Similarity=0.151  Sum_probs=43.4

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCC
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNN  156 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~  156 (192)
                      +...|+||++-|+++   .+++ |||.|+..||..|+..+.+||+||..+...
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            467899999999886   6788 999999999999999888999999988543

>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=99.05  E-value=6.1e-11  Score=76.18  Aligned_cols=49  Identities=20%  Similarity=0.396  Sum_probs=39.7

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCc-ccHhhHHHHHhCCCCCcccCccCc
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHG-FHVRCIDTWLLSHSSCPNCRHSLL  154 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~-FH~~Ci~~Wl~~~~~CP~CR~~l~  154 (192)
                      .+..|.||++...+. .+..+| |||. |+..|+..|.+.+..||+||+++.
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            456899999986553 122348 9998 999999999988889999999874

>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=99.04  E-value=1.2e-10  Score=81.69  Aligned_cols=49  Identities=20%  Similarity=0.163  Sum_probs=43.5

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCC
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNN  156 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~  156 (192)
                      +...|+||++-|.++   .+++ |||.|+..||..|+..+.+||+||.++...
T Consensus        28 ~~~~CpI~~~~m~dP---V~~~-cGhtf~r~~I~~~l~~~~~cP~~~~~l~~~   76 (100)
T 2kre_A           28 DEFRDPLMDTLMTDP---VRLP-SGTIMDRSIILRHLLNSPTDPFNRQTLTES   76 (100)
T ss_dssp             TTTBCTTTCSBCSSE---EEET-TTEEEEHHHHHHHTTSCSBCSSSCCBCCTT
T ss_pred             HhhCCcCccCcccCC---eECC-CCCEEchHHHHHHHHcCCCCCCCCCCCChh
Confidence            467899999999886   6677 999999999999999888999999988653

>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=99.03  E-value=1.7e-10  Score=80.61  Aligned_cols=49  Identities=27%  Similarity=0.215  Sum_probs=43.4

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCC-CcccHhhHHHHHhCCCCCcccCccCcCC
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCN-HGFHVRCIDTWLLSHSSCPNCRHSLLNN  156 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~-H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~  156 (192)
                      ++..|+||++-|+++   .+++ || |.|+..||..|+..+.+||+||.++...
T Consensus        21 ~~~~CpI~~~~m~dP---V~~~-cG~htf~r~cI~~~l~~~~~cP~~~~~l~~~   70 (98)
T 1wgm_A           21 DEFLDPIMSTLMCDP---VVLP-SSRVTVDRSTIARHLLSDQTDPFNRSPLTMD   70 (98)
T ss_dssp             TTTBCTTTCSBCSSE---EECT-TTCCEEEHHHHHHHTTTSCBCTTTCSBCCTT
T ss_pred             HhcCCcCccccccCC---eECC-CCCeEECHHHHHHHHHhCCCCCCCCCCCChh
Confidence            467899999999986   5677 99 9999999999999888999999988654

>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=99.01  E-value=1e-10  Score=84.00  Aligned_cols=45  Identities=22%  Similarity=0.535  Sum_probs=38.9

Q ss_pred             CCCCCcccCCcCCCCceEEc-CCCCCcccHhhHHHHHhCCCCCcccCccCcC
Q 043554          105 ATECPICLGEFVDGEKVRVL-PKCNHGFHVRCIDTWLLSHSSCPNCRHSLLN  155 (192)
Q Consensus       105 ~~~C~ICl~~~~~~~~v~~l-~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~  155 (192)
                      ...|+||++.|.++   ..+ + |||.||..||..|+.  ..||+||..+..
T Consensus        22 ~~~C~IC~~~~~~p---v~~~~-CgH~fC~~Ci~~~~~--~~CP~Cr~~~~~   67 (117)
T 1jm7_B           22 LLRCSRCTNILREP---VCLGG-CEHIFCSNCVSDCIG--TGCPVCYTPAWI   67 (117)
T ss_dssp             TTSCSSSCSCCSSC---BCCCS-SSCCBCTTTGGGGTT--TBCSSSCCBCSC
T ss_pred             CCCCCCCChHhhCc---cEeCC-CCCHHHHHHHHHHhc--CCCcCCCCcCcc
Confidence            56899999999875   445 7 999999999999987  789999998844

>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=99.00  E-value=8.4e-11  Score=87.41  Aligned_cols=48  Identities=21%  Similarity=0.449  Sum_probs=40.6

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCC-CCcccCccCcC
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHS-SCPNCRHSLLN  155 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~-~CP~CR~~l~~  155 (192)
                      ++..|+||++.|.++   ..++ |||.||..||..|++... +||+||.++..
T Consensus        30 ~~~~C~IC~~~~~~p---v~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~   78 (141)
T 3knv_A           30 AKYLCSACRNVLRRP---FQAQ-CGHRYCSFCLASILSSGPQNCAACVHEGIY   78 (141)
T ss_dssp             GGGBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHGGGSCEECHHHHHTTCC
T ss_pred             cCcCCCCCChhhcCc---EECC-CCCccCHHHHHHHHhcCCCCCCCCCCcccc
Confidence            457899999999876   4577 999999999999998654 89999997643

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

Probab=98.99  E-value=2.3e-10  Score=97.63  Aligned_cols=48  Identities=29%  Similarity=0.722  Sum_probs=41.5

Q ss_pred             CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHh-CCCCCcccCccCcCC
Q 043554          105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLL-SHSSCPNCRHSLLNN  156 (192)
Q Consensus       105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~l~~~  156 (192)
                      ..+|+||++.+.+   ...++ |||.||..|+..|+. ...+||+||..+...
T Consensus       332 ~~~C~ICle~~~~---pv~lp-CGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~~  380 (389)
T 2y1n_A          332 FQLCKICAENDKD---VKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKGT  380 (389)
T ss_dssp             SSBCTTTSSSBCC---EEEET-TCCEECHHHHHHHHHHTCSBCTTTCCBCCEE
T ss_pred             CCCCCccCcCCCC---eEEeC-CCChhhHHHHHHHHhcCCCCCCCCCCccCCc
Confidence            3689999999865   46788 999999999999998 678899999988654

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

Probab=98.90  E-value=2.7e-10  Score=75.39  Aligned_cols=43  Identities=23%  Similarity=0.642  Sum_probs=36.8

Q ss_pred             CCCCCcccCCcCCCCceEEcCCCCCc-ccHhhHHHHHhCCCCCcccCccCcC
Q 043554          105 ATECPICLGEFVDGEKVRVLPKCNHG-FHVRCIDTWLLSHSSCPNCRHSLLN  155 (192)
Q Consensus       105 ~~~C~ICl~~~~~~~~v~~l~~C~H~-FH~~Ci~~Wl~~~~~CP~CR~~l~~  155 (192)
                      +..|+||++.+.+   ...+| |||. ||..|+..|    ..||+||..+..
T Consensus        24 ~~~C~iC~~~~~~---~~~~p-CgH~~~C~~C~~~~----~~CP~Cr~~i~~   67 (74)
T 4ic3_A           24 EKLCKICMDRNIA---IVFVP-CGHLVTCKQCAEAV----DKCPMCYTVITF   67 (74)
T ss_dssp             HTBCTTTSSSBCC---EEEET-TCCBCCCHHHHTTC----SBCTTTCCBCSE
T ss_pred             CCCCCCCCCCCCC---EEEcC-CCChhHHHHhhhcC----ccCCCcCcCccC
Confidence            4589999998766   46778 9999 999999998    789999998754

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

Probab=98.84  E-value=6.4e-10  Score=93.03  Aligned_cols=52  Identities=29%  Similarity=0.669  Sum_probs=39.9

Q ss_pred             CCCCCCCcccCCcCCCCceE----EcCCCCCcccHhhHHHHHhCC-----------CCCcccCccCc
Q 043554          103 IPATECPICLGEFVDGEKVR----VLPKCNHGFHVRCIDTWLLSH-----------SSCPNCRHSLL  154 (192)
Q Consensus       103 ~~~~~C~ICl~~~~~~~~v~----~l~~C~H~FH~~Ci~~Wl~~~-----------~~CP~CR~~l~  154 (192)
                      ....+|+||++.+.++..+-    ..++|+|.||..||.+||+..           .+||+||+++.
T Consensus       306 e~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs  372 (381)
T 3k1l_B          306 NEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLS  372 (381)
T ss_dssp             CSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEE
T ss_pred             cCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCC
Confidence            35678999999998744331    122599999999999999642           35999999875

>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=98.84  E-value=7.8e-10  Score=84.29  Aligned_cols=49  Identities=35%  Similarity=0.661  Sum_probs=41.5

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCC-CCCcccCccCcCC
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSH-SSCPNCRHSLLNN  156 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~-~~CP~CR~~l~~~  156 (192)
                      ++..|+||++.|.++   ..++ |||.||..||..|+..+ .+||+||..+...
T Consensus        17 ~~~~C~IC~~~~~~p---v~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~   66 (170)
T 3hcs_A           17 SKYECPICLMALREA---VQTP-CGHRFCKACIIKSIRDAGHKCPVDNEILLEN   66 (170)
T ss_dssp             GGGBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHHCSBCTTTCCBCCGG
T ss_pred             CCCCCCCCChhhcCc---EECC-CCCHHHHHHHHHHHHhCCCCCCCCccCcchh
Confidence            457899999999876   4577 99999999999999754 4899999988654

>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=98.82  E-value=1.6e-09  Score=74.96  Aligned_cols=48  Identities=25%  Similarity=0.510  Sum_probs=38.7

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCC------CCCcc--cCcc-Cc
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSH------SSCPN--CRHS-LL  154 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~------~~CP~--CR~~-l~  154 (192)
                      .+..|+||++.|.++   .+++.|||.|+..||..|+..+      .+||+  |+.. +.
T Consensus         6 ~~~~CPI~~~~~~dP---V~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~   62 (94)
T 2yu4_A            6 SGFTCPITKEEMKKP---VKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIR   62 (94)
T ss_dssp             SCCBCTTTCSBCSSE---EEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBC
T ss_pred             cEeECcCcCchhcCC---EEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccC
Confidence            467899999999875   4452399999999999999753      48999  9866 43

>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=2e-09  Score=74.27  Aligned_cols=48  Identities=25%  Similarity=0.688  Sum_probs=40.0

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC--------CCCCcc--cCcc
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS--------HSSCPN--CRHS  152 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~--------~~~CP~--CR~~  152 (192)
                      +..+|+||++++..++.+...+ |||.||.+|+..|+..        ...||.  |+..
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            3568999999998877666677 9999999999999953        236999  9987

>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=98.80  E-value=1.8e-09  Score=87.65  Aligned_cols=49  Identities=14%  Similarity=0.116  Sum_probs=41.9

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC-CCCCcccCccCcCC
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS-HSSCPNCRHSLLNN  156 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l~~~  156 (192)
                      ....|+||++-|.++   .+++ |||.||..||..|+.. ..+||+||.++...
T Consensus       207 ~~~~c~i~~~~~~dP---v~~~-~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~~  256 (281)
T 2c2l_A          207 DYLCGKISFELMREP---CITP-SGITYDRKDIEEHLQRVGHFNPVTRSPLTQE  256 (281)
T ss_dssp             STTBCTTTCSBCSSE---EECS-SCCEEETTHHHHHHHHTCSSCTTTCCCCCGG
T ss_pred             cccCCcCcCCHhcCC---eECC-CCCEECHHHHHHHHHHCCCCCcCCCCCCchh
Confidence            567899999999886   6788 9999999999999975 44599999988543

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

Probab=98.78  E-value=3.6e-09  Score=67.23  Aligned_cols=47  Identities=26%  Similarity=0.571  Sum_probs=36.4

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCC--C---cccHhhHHHHHhC--CCCCcccCccCc
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCN--H---GFHVRCIDTWLLS--HSSCPNCRHSLL  154 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~--H---~FH~~Ci~~Wl~~--~~~CP~CR~~l~  154 (192)
                      +...|.||+++..  +.+ ++| |.  |   .||..||.+|+..  +.+||+|+..+.
T Consensus         5 ~~~~CrIC~~~~~--~~l-~~P-C~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~   58 (60)
T 1vyx_A            5 DVPVCWICNEELG--NER-FRA-CGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             SCCEETTTTEECS--CCC-CCS-CCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCEeEEeecCCC--Cce-ecC-cCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeee
Confidence            4678999999843  233 577 55  4   8999999999963  568999998774

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

Probab=98.77  E-value=8.4e-09  Score=67.08  Aligned_cols=47  Identities=26%  Similarity=0.654  Sum_probs=38.3

Q ss_pred             CCCCCCCcccCCcCCCCceEEcCCCCCc-ccHhhHHHHHhCCCCCcccCccCcCCC
Q 043554          103 IPATECPICLGEFVDGEKVRVLPKCNHG-FHVRCIDTWLLSHSSCPNCRHSLLNNN  157 (192)
Q Consensus       103 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~-FH~~Ci~~Wl~~~~~CP~CR~~l~~~~  157 (192)
                      .++..|.||++...+   +..+| |+|. ||..|+..    ...||+||+.+....
T Consensus        13 ~~~~~C~IC~~~~~~---~v~~p-CgH~~~C~~C~~~----~~~CP~CR~~i~~~~   60 (68)
T 2ea5_A           13 ENSKDCVVCQNGTVN---WVLLP-CRHTCLCDGCVKY----FQQCPMCRQFVQESF   60 (68)
T ss_dssp             CCSSCCSSSSSSCCC---CEETT-TTBCCSCTTHHHH----CSSCTTTCCCCCCEE
T ss_pred             CCCCCCCCcCcCCCC---EEEEC-CCChhhhHHHHhc----CCCCCCCCcchhceE
Confidence            356789999998654   57899 9999 99999984    468999999886543

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

Probab=98.73  E-value=4.4e-09  Score=69.58  Aligned_cols=44  Identities=23%  Similarity=0.638  Sum_probs=35.7

Q ss_pred             CCCCCcccCCcCCCCceEEcCCCCCc-ccHhhHHHHHhCCCCCcccCccCcCC
Q 043554          105 ATECPICLGEFVDGEKVRVLPKCNHG-FHVRCIDTWLLSHSSCPNCRHSLLNN  156 (192)
Q Consensus       105 ~~~C~ICl~~~~~~~~v~~l~~C~H~-FH~~Ci~~Wl~~~~~CP~CR~~l~~~  156 (192)
                      +..|+||++.+.+   ...+| |||. ||..|+..    ...||+||..+...
T Consensus        25 ~~~C~IC~~~~~~---~~~~p-CgH~~~C~~C~~~----~~~CP~Cr~~i~~~   69 (75)
T 2ecg_A           25 EKLCKICMDRNIA---IVFVP-CGHLVTCKQCAEA----VDKCPMCYTVITFK   69 (75)
T ss_dssp             HHSCSSSCSSCCC---BCCSS-SCCCCBCHHHHHH----CSBCTTTCCBCCCC
T ss_pred             CCCCCcCCCCCCC---EEEec-CCCHHHHHHHhhC----CCCCccCCceecCc
Confidence            4579999999766   35678 9999 99999965    36799999988553

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

Probab=98.62  E-value=1.2e-08  Score=78.59  Aligned_cols=49  Identities=14%  Similarity=0.111  Sum_probs=41.5

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCC-CCCcccCccCcCC
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSH-SSCPNCRHSLLNN  156 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~-~~CP~CR~~l~~~  156 (192)
                      +...|+||++-|.++   .+++ |||.|+..||..|+..+ .+||+|+.++...
T Consensus       105 ~~f~CPI~~elm~DP---V~~~-~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~~  154 (179)
T 2f42_A          105 DYLCGKISFELMREP---CITP-SGITYDRKDIEEHLQRVGHFDPVTRSPLTQD  154 (179)
T ss_dssp             GGGBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCGG
T ss_pred             HhhcccCccccCCCC---eECC-CCCEECHHHHHHHHHhCCCCCCCCcCCCChh
Confidence            467899999999985   6677 99999999999999753 4699999988543

>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=98.61  E-value=1.2e-08  Score=68.37  Aligned_cols=44  Identities=30%  Similarity=0.650  Sum_probs=36.8

Q ss_pred             CCCCCcccCCcCCCCceEEcCCCCCc-ccHhhHHHHHhCCCCCcccCccCcCC
Q 043554          105 ATECPICLGEFVDGEKVRVLPKCNHG-FHVRCIDTWLLSHSSCPNCRHSLLNN  156 (192)
Q Consensus       105 ~~~C~ICl~~~~~~~~v~~l~~C~H~-FH~~Ci~~Wl~~~~~CP~CR~~l~~~  156 (192)
                      +..|.||++.+.+   +..+| |||. ||..|+..|    ..||+||..+...
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            4579999998765   57788 9999 999999887    3899999988654

>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=98.53  E-value=3.7e-08  Score=79.73  Aligned_cols=50  Identities=24%  Similarity=0.488  Sum_probs=40.7

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCC--CCCcc--cCccCcCC
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSH--SSCPN--CRHSLLNN  156 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~--~~CP~--CR~~l~~~  156 (192)
                      ....|+||++.|.++  |+... |||.|++.||..|+..+  ..||+  ||..+...
T Consensus       180 ~el~CPIcl~~f~DP--Vts~~-CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~~  233 (267)
T 3htk_C          180 IELTCPITCKPYEAP--LISRK-CNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMR  233 (267)
T ss_dssp             CCSBCTTTSSBCSSE--EEESS-SCCEEEHHHHHHHSTTCSCEECSGGGCSCEECGG
T ss_pred             eeeECcCccCcccCC--eeeCC-CCCcccHHHHHHHHHhCCCCCCCcccccCcCchh
Confidence            456899999999876  55456 99999999999999754  46999  99977543

>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=98.52  E-value=3.2e-08  Score=62.94  Aligned_cols=48  Identities=10%  Similarity=0.058  Sum_probs=41.2

Q ss_pred             CCCCcccCCcCCCCceEEc-CCCCCcccHhhHHHHHhCCCCCcccCccCcCCC
Q 043554          106 TECPICLGEFVDGEKVRVL-PKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNN  157 (192)
Q Consensus       106 ~~C~ICl~~~~~~~~v~~l-~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~  157 (192)
                      ..|+||++.++++   .++ + +||+|...||++|++.+.+||+.+.++...+
T Consensus         4 ~~CpIs~~~m~dP---V~~~~-sG~~yer~~I~~~l~~~~~cP~t~~~L~~~~   52 (61)
T 2bay_A            4 MLCAISGKVPRRP---VLSPK-SRTIFEKSLLEQYVKDTGNDPITNEPLSIEE   52 (61)
T ss_dssp             CCCTTTCSCCSSE---EEETT-TTEEEEHHHHHHHHHHHSBCTTTCCBCCGGG
T ss_pred             EEecCCCCCCCCC---EEeCC-CCcEEcHHHHHHHHHhCCCCcCCcCCCChhh
Confidence            5799999999975   445 6 9999999999999988788999999886544

>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=98.45  E-value=3.6e-08  Score=83.27  Aligned_cols=44  Identities=27%  Similarity=0.705  Sum_probs=37.5

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCc-ccHhhHHHHHhCCCCCcccCccCcC
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHG-FHVRCIDTWLLSHSSCPNCRHSLLN  155 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~-FH~~Ci~~Wl~~~~~CP~CR~~l~~  155 (192)
                      ++..|+||++.+.+   ...+| |||. ||..|+..|    ..||+||..+..
T Consensus       294 ~~~~C~IC~~~~~~---~v~lp-CgH~~fC~~C~~~~----~~CP~CR~~i~~  338 (345)
T 3t6p_A          294 EERTCKVCMDKEVS---VVFIP-CGHLVVCQECAPSL----RKCPICRGIIKG  338 (345)
T ss_dssp             TTCBCTTTSSSBCC---EEEET-TCCEEECTTTGGGC----SBCTTTCCBCCE
T ss_pred             CCCCCCccCCcCCc---eEEcC-CCChhHhHHHHhcC----CcCCCCCCCccC
Confidence            46789999999866   46778 9999 999999998    679999998854

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

Probab=98.32  E-value=7.1e-07  Score=71.62  Aligned_cols=53  Identities=21%  Similarity=0.631  Sum_probs=42.9

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCC--CCcccCccCcCCCCC
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHS--SCPNCRHSLLNNNER  159 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~--~CP~CR~~l~~~~~~  159 (192)
                      ....|.||.+-...+   ...++|+|.||..|+..|++.+.  .||.|+..|....+.
T Consensus       179 ~i~~C~iC~~iv~~g---~~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~~~~~  233 (238)
T 3nw0_A          179 AVKICNICHSLLIQG---QSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEIPK  233 (238)
T ss_dssp             TCCBCTTTCSBCSSC---EECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCCSCCCC
T ss_pred             CCCcCcchhhHHhCC---cccCccChHHHHHHHHHHHHhCCCCCCCCCCCCCCCCCCC
Confidence            367899999998876   44556999999999999997644  799999998666443

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

Probab=98.18  E-value=1.1e-06  Score=60.74  Aligned_cols=47  Identities=23%  Similarity=0.453  Sum_probs=37.4

Q ss_pred             CCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHh-CCCCCcccCccCcCC
Q 043554          107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLL-SHSSCPNCRHSLLNN  156 (192)
Q Consensus       107 ~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~l~~~  156 (192)
                      -|.+|--.+.  ...++.| |+|+||.+|+..|.+ ..++||.|+.++..-
T Consensus         3 fC~~C~~Pi~--iygRmIP-CkHvFCydCa~~~~~~~~k~Cp~C~~~V~rV   50 (101)
T 3vk6_A            3 FCDKCGLPIK--VYGRMIP-CKHVFCYDCAILHEKKGDKMCPGCSDPVQRI   50 (101)
T ss_dssp             BCTTTCSBCS--EEEEEET-TCCEEEHHHHHHHHHTTCCBCTTTCCBCSEE
T ss_pred             ecCccCCCeE--EEeeecc-ccccHHHHHHHHHHhccCCCCcCcCCeeeee
Confidence            4777865544  4578899 999999999999985 467899999988543

>2lri_C Autoimmune regulator; Zn binding protein domain, apeced, transcription; NMR {Homo sapiens}

Probab=95.75  E-value=0.013  Score=37.31  Aligned_cols=45  Identities=29%  Similarity=0.574  Sum_probs=33.7

Q ss_pred             CCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCC----CCCcccCc
Q 043554          103 IPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSH----SSCPNCRH  151 (192)
Q Consensus       103 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~----~~CP~CR~  151 (192)
                      .++..|.||.+    +..+.....|...||..|+...+...    -.||.|..
T Consensus        10 ~~~~~C~vC~~----~~~ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~   58 (66)
T 2lri_C           10 APGARCGVCGD----GTDVLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSG   58 (66)
T ss_dssp             CTTCCCTTTSC----CTTCEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTT
T ss_pred             CCCCCcCCCCC----CCeEEECCCCCCceecccCCCccCcCCCCCEECccccC
Confidence            35668999974    34466666799999999998877542    25999965

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

Probab=95.67  E-value=0.0093  Score=40.70  Aligned_cols=35  Identities=11%  Similarity=0.358  Sum_probs=26.0

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHH
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTW  139 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~W  139 (192)
                      ++..|.||++.+..+....=+. |+|.||..|+..+
T Consensus         2 ee~~C~~C~~~~~~~av~~C~~-C~~~~C~~Cl~~~   36 (101)
T 2jun_A            2 EKVLCQFCDQDPAQDAVKTCVT-CEVSYCDECLKAT   36 (101)
T ss_dssp             CCCBCTTCCSSSCCBCCEEETT-TTEEECHHHHHHH
T ss_pred             CCCCCcCCCCCCCCCceEECCc-CChHHhHHHCHHH
Confidence            3568999998754433333366 9999999999983

>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=94.31  E-value=0.016  Score=36.40  Aligned_cols=49  Identities=20%  Similarity=0.465  Sum_probs=36.2

Q ss_pred             CCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHh-----CCCCCcccCc
Q 043554          103 IPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLL-----SHSSCPNCRH  151 (192)
Q Consensus       103 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~-----~~~~CP~CR~  151 (192)
                      .++..|+||...+.+....+....|..=||..|+.--..     .+..||.|+.
T Consensus         4 ~e~~~C~~C~~~~~~~~~mI~Cd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~   57 (64)
T 1we9_A            4 GSSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSN   57 (64)
T ss_dssp             SSCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHT
T ss_pred             CCCCCCCCCCCccCCCCCEEEccCCCCCCCccccCcChhHhcCCCcEECCCCcC
Confidence            356789999999876666666667888899999854221     3456999965

>2l5u_A Chromodomain-helicase-DNA-binding protein 4; CHD4, MI2B, MI2-beta, PHD, protein binding, peptide binding metal binding protein; NMR {Homo sapiens}

Probab=93.10  E-value=0.088  Score=32.71  Aligned_cols=46  Identities=22%  Similarity=0.608  Sum_probs=32.9

Q ss_pred             CCCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC----CCCCcccCc
Q 043554          102 DIPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS----HSSCPNCRH  151 (192)
Q Consensus       102 ~~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~----~~~CP~CR~  151 (192)
                      ..++..|.+|.+.    ..+.....|...||..|+..-+..    .-.||.|+.
T Consensus         8 ~~~~~~C~vC~~~----g~ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~   57 (61)
T 2l5u_A            8 TDHQDYCEVCQQG----GEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEK   57 (61)
T ss_dssp             SCCCSSCTTTSCC----SSEEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGG
T ss_pred             CCCCCCCccCCCC----CcEEECCCCChhhhhhccCCCCCCCCCCceECccccc
Confidence            3456789999863    456666678899999999874432    225999964

>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=92.92  E-value=0.21  Score=33.11  Aligned_cols=34  Identities=18%  Similarity=0.427  Sum_probs=23.4

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHH
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTW  139 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~W  139 (192)
                      .|..|.||- .+..++.. ....|+-+||..|+.+-
T Consensus        14 ~D~~C~VC~-~~t~~~l~-pCRvC~RvfH~~CL~r~   47 (89)
T 1wil_A           14 NDEMCDVCE-VWTAESLF-PCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CSCCCTTTC-CCCSSCCS-SCSSSSSCCCHHHHHHH
T ss_pred             CCcccCccc-ccccccee-ccccccccccHhhcccc
Confidence            577899995 34444322 22248999999999984

>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=92.84  E-value=0.053  Score=41.42  Aligned_cols=48  Identities=25%  Similarity=0.551  Sum_probs=36.2

Q ss_pred             CCCCCcccCCcCCCCc---eEEcCCCCCcccHhhHHH------HHh-----CCCCCcccCcc
Q 043554          105 ATECPICLGEFVDGEK---VRVLPKCNHGFHVRCIDT------WLL-----SHSSCPNCRHS  152 (192)
Q Consensus       105 ~~~C~ICl~~~~~~~~---v~~l~~C~H~FH~~Ci~~------Wl~-----~~~~CP~CR~~  152 (192)
                      +..|+||...|.+++.   ++....|..=||..|+.-      -+.     ....||.|+..
T Consensus         2 G~~CpiC~k~Y~~~~~~~~MIqCd~C~~W~H~~Cvgi~~~~~e~~~~~pe~~~y~Cp~C~~~   63 (183)
T 3lqh_A            2 GNFCPLCDKCYDDDDYESKMMQCGKCDRWVHSKCENLSDEMYEILSNLPESVAYTCVNCTER   63 (183)
T ss_dssp             CCBCTTTCCBCTTCCTTCCEEECTTTCCEEEGGGSSCCHHHHHHHHHSHHHHCCCCTTTCCS
T ss_pred             cCcCCCCcCccCCcccCCCeEECCCCCcccchhccccCHHHHHHhhcCCCCCeeECcCCCCC
Confidence            4569999999998763   677777999999999732      111     15789999764

>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=92.63  E-value=0.043  Score=34.17  Aligned_cols=48  Identities=21%  Similarity=0.554  Sum_probs=32.7

Q ss_pred             CCCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC----CCCCcccCccC
Q 043554          102 DIPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS----HSSCPNCRHSL  153 (192)
Q Consensus       102 ~~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~----~~~CP~CR~~l  153 (192)
                      +.++..|.||.+.    ..+.....|...||..|+..-+..    .-.||.|+...
T Consensus         6 d~~~~~C~vC~~~----g~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~~   57 (61)
T 1mm2_A            6 DHHMEFCRVCKDG----GELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPA   57 (61)
T ss_dssp             CSSCSSCTTTCCC----SSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTC
T ss_pred             cCCCCcCCCCCCC----CCEEEcCCCCHHHcccccCCCcCcCCCCccCChhhcCch
Confidence            3456789999852    344555568899999999854432    22599997654

>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=91.75  E-value=0.16  Score=38.42  Aligned_cols=46  Identities=24%  Similarity=0.477  Sum_probs=33.3

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC----CCCCcccCccC
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS----HSSCPNCRHSL  153 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~----~~~CP~CR~~l  153 (192)
                      ++..|.+|.+.    ..+.....|...||..|+..-+..    .-.||.|+..-
T Consensus         3 ~~~~C~~C~~~----g~ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~   52 (184)
T 3o36_A            3 NEDWCAVCQNG----GELLCCEKCPKVFHLSCHVPTLTNFPSGEWICTFCRDLS   52 (184)
T ss_dssp             SCSSCTTTCCC----SSCEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCSS
T ss_pred             CCCccccCCCC----CeeeecCCCCcccCccccCCCCCCCCCCCEECccccCcc
Confidence            46679999843    346666679999999998765543    23599997644

>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=91.15  E-value=0.2  Score=31.53  Aligned_cols=35  Identities=29%  Similarity=0.580  Sum_probs=27.2

Q ss_pred             CCCCCCCCcccCCcCCCCceEEcC-CCCCcccHhhH
Q 043554          102 DIPATECPICLGEFVDGEKVRVLP-KCNHGFHVRCI  136 (192)
Q Consensus       102 ~~~~~~C~ICl~~~~~~~~v~~l~-~C~H~FH~~Ci  136 (192)
                      +.+...|.+|...+.+++..+... .|.--||..|+
T Consensus         5 ~~~~~~C~~C~~p~~~~~~mI~CD~~C~~WfH~~Cv   40 (65)
T 2vpb_A            5 SDPVYPCGICTNEVNDDQDAILCEASCQKWFHRICT   40 (65)
T ss_dssp             ----CBCTTTCSBCCTTSCEEEBTTTTCCEEEHHHH
T ss_pred             CCCcCcCccCCCccCCCCCeEecccCccccCchhcc
Confidence            345678999999998887777776 78888999997

>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=90.86  E-value=0.069  Score=41.36  Aligned_cols=48  Identities=29%  Similarity=0.499  Sum_probs=34.5

Q ss_pred             CCCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC----CCCCcccCccC
Q 043554          102 DIPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS----HSSCPNCRHSL  153 (192)
Q Consensus       102 ~~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~----~~~CP~CR~~l  153 (192)
                      +.++..|.+|.+.    ..+.....|...||..|+..-+..    .-.||.|+..-
T Consensus         4 d~~~~~C~~C~~~----g~ll~Cd~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~   55 (207)
T 3u5n_A            4 DPNEDWCAVCQNG----GDLLCCEKCPKVFHLTCHVPTLLSFPSGDWICTFCRDIG   55 (207)
T ss_dssp             CSSCSSBTTTCCC----EEEEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCSS
T ss_pred             CCCCCCCCCCCCC----CceEEcCCCCCccCCccCCCCCCCCCCCCEEeCceeCcc
Confidence            3456789999743    456677789999999999765542    22599997643

>2yql_A PHD finger protein 21A; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=90.43  E-value=0.056  Score=32.95  Aligned_cols=46  Identities=22%  Similarity=0.583  Sum_probs=31.6

Q ss_pred             CCCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC----CCCCcccCc
Q 043554          102 DIPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS----HSSCPNCRH  151 (192)
Q Consensus       102 ~~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~----~~~CP~CR~  151 (192)
                      +.++..|.+|.+.    ..+.....|...||..|+..=+..    .-.||.|+.
T Consensus         6 ~~~~~~C~vC~~~----g~ll~Cd~C~~~~H~~Cl~ppl~~~p~g~W~C~~C~~   55 (56)
T 2yql_A            6 SGHEDFCSVCRKS----GQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQD   55 (56)
T ss_dssp             CSSCCSCSSSCCS----SCCEECSSSSCEECSSSSSSCCCSCCCSSCCCHHHHC
T ss_pred             CCCCCCCccCCCC----CeEEEcCCCCcceECccCCCCcCCCCCCceEChhhhC
Confidence            4457789999864    345566679999999998854432    224888843

>2k16_A Transcription initiation factor TFIID subunit 3; protein, alternative splicing, metal-binding, nucleus, phosphoprotein, transcription regulation; NMR {Mus musculus} PDB: 2k17_A*

Probab=90.11  E-value=0.092  Score=33.86  Aligned_cols=50  Identities=20%  Similarity=0.416  Sum_probs=35.1

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHh----CCCCCcccCccCc
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLL----SHSSCPNCRHSLL  154 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~----~~~~CP~CR~~l~  154 (192)
                      +...|.||..... ++.++....|.--||..|+..-..    ..-.||.|+..+.
T Consensus        17 ~~~~C~~C~~~~~-~~~mi~CD~C~~wfH~~Cv~~~~~~~~~~~w~C~~C~~~~~   70 (75)
T 2k16_A           17 QIWICPGCNKPDD-GSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKCANKIK   70 (75)
T ss_dssp             EEECBTTTTBCCS-SCCEEECSSSSSEEEHHHHTCSSCCCSSSCCCCTTTHHHHC
T ss_pred             CCcCCCCCCCCCC-CCCEEEcCCCCcccccccCCCCccCCCCCCEEChhccCchh
Confidence            4456999987653 445666667998999999875432    2346999977653

>2puy_A PHD finger protein 21A; PHD finger, histone CODE, BRAF-HDAC complex, transcription; 1.43A {Homo sapiens}

Probab=89.66  E-value=0.043  Score=33.96  Aligned_cols=49  Identities=24%  Similarity=0.655  Sum_probs=33.8

Q ss_pred             CCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC----CCCCcccCccCcC
Q 043554          103 IPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS----HSSCPNCRHSLLN  155 (192)
Q Consensus       103 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~----~~~CP~CR~~l~~  155 (192)
                      .++..|.+|...    ..+.....|...||..|+..=+..    .-.||.|......
T Consensus         3 ~~~~~C~vC~~~----g~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~~~~   55 (60)
T 2puy_A            3 IHEDFCSVCRKS----GQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQDQMLK   55 (60)
T ss_dssp             CCCSSCTTTCCC----SSCEECSSSSCEECGGGSSSCCSSCCCSCCCCHHHHHHHHH
T ss_pred             CCCCCCcCCCCC----CcEEEcCCCCcCEECCcCCCCcCCCCCCceEChhccChhhc
Confidence            356789999863    345566679999999999854432    2259999765443

>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=89.52  E-value=0.82  Score=29.61  Aligned_cols=49  Identities=18%  Similarity=0.443  Sum_probs=33.7

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHH-----hCCCCCcccCccC
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWL-----LSHSSCPNCRHSL  153 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl-----~~~~~CP~CR~~l  153 (192)
                      +...| ||...+......+....|..=||..|+.---     .....||.|+...
T Consensus        11 ~~~~C-~C~~~~d~~~~MIqCd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~~~   64 (79)
T 1wep_A           11 VPVYC-LCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVF   64 (79)
T ss_dssp             CCCCS-TTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTTS
T ss_pred             CccEE-EcCCccCCCCceEEcCCCCCcEEeeecCcccccccCCCeEECCCccccc
Confidence            34556 9998886555666666788889999984211     1345799997643

>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=89.08  E-value=0.51  Score=28.10  Aligned_cols=44  Identities=20%  Similarity=0.319  Sum_probs=31.4

Q ss_pred             CCCcccCCcCCCCceEEcC-CCCCcccHhhHHHH----HhCCCCCcccC
Q 043554          107 ECPICLGEFVDGEKVRVLP-KCNHGFHVRCIDTW----LLSHSSCPNCR  150 (192)
Q Consensus       107 ~C~ICl~~~~~~~~v~~l~-~C~H~FH~~Ci~~W----l~~~~~CP~CR  150 (192)
                      .|.+|...+.+++..+... .|.-=||..|+.--    ...+..||.|+
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            5889999887666666666 58878999997421    13566799885

>1xwh_A Autoimmune regulator; PHD domain, Zn binding domain, apeced, nucleosome, E3 ligase, transcription; NMR {Homo sapiens} PDB: 2ke1_A 2kft_A

Probab=88.66  E-value=0.16  Score=32.03  Aligned_cols=45  Identities=22%  Similarity=0.577  Sum_probs=31.9

Q ss_pred             CCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC----CCCCcccCc
Q 043554          103 IPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS----HSSCPNCRH  151 (192)
Q Consensus       103 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~----~~~CP~CR~  151 (192)
                      .++..|.||.+.    ..+.....|...||..|+..-+..    .-.||.|..
T Consensus         6 ~~~~~C~vC~~~----g~ll~CD~C~~~fH~~Cl~ppl~~~P~g~W~C~~C~~   54 (66)
T 1xwh_A            6 KNEDECAVCRDG----GELICCDGCPRAFHLACLSPPLREIPSGTWRCSSCLQ   54 (66)
T ss_dssp             SCCCSBSSSSCC----SSCEECSSCCCEECTTTSSSCCSSCCSSCCCCHHHHH
T ss_pred             CCCCCCccCCCC----CCEEEcCCCChhhcccccCCCcCcCCCCCeECccccC
Confidence            356789999863    345566679999999999854332    225999965

>1fp0_A KAP-1 corepressor; PHD domain, C3HC4 type zinc binding domain, -structure, transcription; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=88.10  E-value=0.47  Score=31.76  Aligned_cols=47  Identities=28%  Similarity=0.507  Sum_probs=33.1

Q ss_pred             CCCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC----CCCCcccCcc
Q 043554          102 DIPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS----HSSCPNCRHS  152 (192)
Q Consensus       102 ~~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~----~~~CP~CR~~  152 (192)
                      +.++..|.+|.+.    ..+.....|.-.||..|+..=+..    .-.||.|+..
T Consensus        22 d~n~~~C~vC~~~----g~LL~CD~C~~~fH~~Cl~PpL~~~P~g~W~C~~C~~~   72 (88)
T 1fp0_A           22 DDSATICRVCQKP----GDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVL   72 (88)
T ss_dssp             SSSSSCCSSSCSS----SCCEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCC
T ss_pred             CCCCCcCcCcCCC----CCEEECCCCCCceecccCCCCCCCCcCCCcCCccccCC
Confidence            4456789999864    345566678899999999664432    2259999754

>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=87.28  E-value=0.69  Score=33.18  Aligned_cols=48  Identities=23%  Similarity=0.432  Sum_probs=33.3

Q ss_pred             CCCCCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHH------h-----CCCCCcccCc
Q 043554          100 GVDIPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWL------L-----SHSSCPNCRH  151 (192)
Q Consensus       100 ~~~~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl------~-----~~~~CP~CR~  151 (192)
                      +.+..+..|.||-+    +.++.....|-..||..||..=+      +     ..=.|++|+.
T Consensus        52 d~Dg~~~~C~vC~d----GG~LlcCd~Cpr~Fc~~Cl~~~lg~~~l~~i~~~~~~W~C~~C~~  110 (129)
T 3ql9_A           52 DSDGMDEQCRWCAE----GGNLICCDFCHNAFCKKCILRNLGRRELSTIMDENNQWYCYICHP  110 (129)
T ss_dssp             CTTSCBSSCTTTCC----CSEEEECSSSSCEEEHHHHHHHTCHHHHHHHTCTTSCCCCTTTCC
T ss_pred             CCCCCCCcCeecCC----CCeeEecCCCchhhhHHHhCCCcchhHHHHhccCCCCeEcCCcCC
Confidence            44556678999985    34555656788999999998642      1     1236999955

>2yt5_A Metal-response element-binding transcription factor 2; zinc-regulated factor 1, ZIRF1, metal-response element DNA-binding protein M96; NMR {Mus musculus}

Probab=86.76  E-value=0.53  Score=29.27  Aligned_cols=51  Identities=22%  Similarity=0.528  Sum_probs=35.1

Q ss_pred             CCCCCCCcccCCcC-CCCceEEcCCCCCcccHhhHHHHHh-------CCCCCcccCccC
Q 043554          103 IPATECPICLGEFV-DGEKVRVLPKCNHGFHVRCIDTWLL-------SHSSCPNCRHSL  153 (192)
Q Consensus       103 ~~~~~C~ICl~~~~-~~~~v~~l~~C~H~FH~~Ci~~Wl~-------~~~~CP~CR~~l  153 (192)
                      .++..|.||..... +...+.....|.-.||..|+..=+.       ..-.|+.|+...
T Consensus         4 ~~~~~C~vC~~~~~~~~~~ll~Cd~C~~~~H~~C~~p~l~~~~~~p~~~W~C~~C~~~~   62 (66)
T 2yt5_A            4 GSSGVCTICQEEYSEAPNEMVICDKCGQGYHQLCHTPHIDSSVIDSDEKWLCRQCVFAT   62 (66)
T ss_dssp             CCCCCBSSSCCCCCBTTBCEEECSSSCCEEETTTSSSCCCHHHHHSSCCCCCHHHHHTT
T ss_pred             CCCCCCCCCCCCCCCCCCCEEECCCCChHHHhhhCCCcccccccCCCCCEECCCCcCcc
Confidence            35678999997653 3456666667999999999875221       223599996543

>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A

Probab=86.57  E-value=0.23  Score=34.57  Aligned_cols=46  Identities=26%  Similarity=0.607  Sum_probs=31.8

Q ss_pred             CCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC----CCCCcccCc
Q 043554          106 TECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS----HSSCPNCRH  151 (192)
Q Consensus       106 ~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~----~~~CP~CR~  151 (192)
                      ..|.||.+.-.+.+.+.....|...||..|+..-+..    .-.||.|+.
T Consensus        62 ~~C~vC~~~~~~~~~ll~Cd~C~~~yH~~Cl~p~l~~~P~~~W~C~~C~~  111 (112)
T 3v43_A           62 KTCSSCRDQGKNADNMLFCDSCDRGFHMECCDPPLTRMPKGMWICQICRP  111 (112)
T ss_dssp             CCBTTTCCCCCTTCCCEECTTTCCEECGGGCSSCCSSCCSSCCCCTTTSC
T ss_pred             CccccccCcCCCccceEEcCCCCCeeecccCCCCCCCCCCCCeECCCCCC
Confidence            3688888654444556666679999999998754432    225999974

>2ku3_A Bromodomain-containing protein 1; PHD finger, chromatin regulator, metal-binding, finger, signaling protein; NMR {Homo sapiens}

Probab=86.40  E-value=1.1  Score=28.55  Aligned_cols=50  Identities=18%  Similarity=0.399  Sum_probs=34.3

Q ss_pred             CCCCCCCCcccCCc-CCCCceEEcCCCCCcccHhhHHHHHh--CCCCCcccCc
Q 043554          102 DIPATECPICLGEF-VDGEKVRVLPKCNHGFHVRCIDTWLL--SHSSCPNCRH  151 (192)
Q Consensus       102 ~~~~~~C~ICl~~~-~~~~~v~~l~~C~H~FH~~Ci~~Wl~--~~~~CP~CR~  151 (192)
                      ..++..|.||.+.- .+.+.+.....|.-.||..|+..-..  ..=.||.|+.
T Consensus        13 ~~~~~~C~vC~~~~s~~~~~ll~CD~C~~~~H~~Cl~~~~vP~g~W~C~~C~~   65 (71)
T 2ku3_A           13 IDEDAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRHCLQ   65 (71)
T ss_dssp             CCSSCSCSSSCCCCCCSSSCEEECSSSCCEEEHHHHTCSSCCSSCCCCHHHHH
T ss_pred             CCCCCCCCCCCCCCCCCCCCEEECCCCCCccccccCCCCcCCCCCcCCccCcC
Confidence            44577899998764 34456677778999999999864221  1225888854

>1wev_A Riken cDNA 1110020M19; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, gene regulation; NMR {Mus musculus} SCOP: g.50.1.2

Probab=85.66  E-value=0.24  Score=33.03  Aligned_cols=50  Identities=18%  Similarity=0.450  Sum_probs=35.3

Q ss_pred             CCCCCCcccCCcCC-CCceEEcCCCCCcccHhhHHHHHh--------CCCCCcccCccC
Q 043554          104 PATECPICLGEFVD-GEKVRVLPKCNHGFHVRCIDTWLL--------SHSSCPNCRHSL  153 (192)
Q Consensus       104 ~~~~C~ICl~~~~~-~~~v~~l~~C~H~FH~~Ci~~Wl~--------~~~~CP~CR~~l  153 (192)
                      .+..|.||...-.. ...+.....|...||..|+..=+.        ..-.|+.|+...
T Consensus        15 ~~~~C~vC~~~~~~~~~~ll~CD~C~~~yH~~Cl~Ppl~~~~~~~p~g~W~C~~C~~~~   73 (88)
T 1wev_A           15 MGLACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTRQM   73 (88)
T ss_dssp             HCCSCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHHHHH
T ss_pred             CCCcCCCCCCCCCCCCCceEECCCCCCeEcCccCCCcccccccCCCCCCeeCccccchh
Confidence            35689999976443 345667778999999999875432        122599997654

>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=85.02  E-value=0.36  Score=33.40  Aligned_cols=38  Identities=16%  Similarity=0.301  Sum_probs=27.0

Q ss_pred             CCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHh
Q 043554          103 IPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLL  141 (192)
Q Consensus       103 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~  141 (192)
                      .++..|.||.+.-+.. .+.....|+..||..|+...+.
T Consensus         5 ~~~~~C~~C~~~g~~~-~ll~C~~C~~~~H~~Cl~~~~~   42 (111)
T 2ysm_A            5 SSGANCAVCDSPGDLL-DQFFCTTCGQHYHGMCLDIAVT   42 (111)
T ss_dssp             CCCSCBTTTCCCCCTT-TSEECSSSCCEECTTTTTCCCC
T ss_pred             CCCCCCcCCCCCCCCc-CCeECCCCCCCcChHHhCCccc
Confidence            3577899998764322 2344456999999999987653

>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A

Probab=84.93  E-value=1.8  Score=29.87  Aligned_cols=34  Identities=26%  Similarity=0.612  Sum_probs=25.0

Q ss_pred             CCCCCCcccCCcC-----CCCceEEcCCCCCcccHhhHH
Q 043554          104 PATECPICLGEFV-----DGEKVRVLPKCNHGFHVRCID  137 (192)
Q Consensus       104 ~~~~C~ICl~~~~-----~~~~v~~l~~C~H~FH~~Ci~  137 (192)
                      +...|.+|+..-.     .++++.....|+..||..|+.
T Consensus         4 p~~~C~~C~~~~~~~~~g~~~~Ll~C~~C~~~~H~~Cl~   42 (112)
T 3v43_A            4 PIPICSFCLGTKEQNREKKPEELISCADCGNSGHPSCLK   42 (112)
T ss_dssp             CCSSBTTTCCCTTCCTTSCCCCCEECTTTCCEECHHHHT
T ss_pred             cCccccccCCchhhCcCCCchhceEhhhcCCCCCCchhc
Confidence            4568999987632     234566666799999999995

>2lbm_A Transcriptional regulator ATRX; metal binding protein-structural protein compl; HET: M3L; NMR {Homo sapiens} PDB: 2ld1_A

Probab=84.69  E-value=1.7  Score=31.56  Aligned_cols=47  Identities=21%  Similarity=0.366  Sum_probs=33.7

Q ss_pred             CCCCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHh-----------CCCCCcccCc
Q 043554          101 VDIPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLL-----------SHSSCPNCRH  151 (192)
Q Consensus       101 ~~~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~-----------~~~~CP~CR~  151 (192)
                      .+..+..|.+|.+-    .++.....|-..||..||..=+.           ..=.||+|+.
T Consensus        59 ~Dg~~d~C~vC~~G----G~LlcCD~Cpr~Fh~~Cl~p~l~~~~l~~i~~p~~~W~C~~C~~  116 (142)
T 2lbm_A           59 SDGMDEQCRWCAEG----GNLICCDFCHNAFCKKCILRNLGRKELSTIMDENNQWYCYICHP  116 (142)
T ss_dssp             TTSCBCSCSSSCCC----SSEEECSSSCCEEEHHHHHHHTCHHHHHHHHTSTTCCCCTTTCC
T ss_pred             CCCCCCeecccCCC----CcEEeCCCCCCeeeHhhcCCCCChhhhhhcccCCCCCEeecccC
Confidence            34567889999853    45566667999999999986442           1235999964

>1f62_A Transcription factor WSTF; Zn-finger; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=84.63  E-value=0.55  Score=27.66  Aligned_cols=44  Identities=27%  Similarity=0.709  Sum_probs=29.5

Q ss_pred             CCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC----CCCCcccCc
Q 043554          107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS----HSSCPNCRH  151 (192)
Q Consensus       107 ~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~----~~~CP~CR~  151 (192)
                      .|.||...-. .+.+.....|...||..|+..=+..    .-.||.|+.
T Consensus         2 ~C~vC~~~~~-~~~ll~Cd~C~~~~H~~Cl~p~l~~~P~g~W~C~~C~~   49 (51)
T 1f62_A            2 RCKVCRKKGE-DDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSC-CSCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCCCCCCCCC-CCCEEECCCCChhhCcccCCCCcCCCCCCcEECcCccc
Confidence            4888986543 3455566679999999999643322    224999964

>2xb1_A Pygopus homolog 2, B-cell CLL/lymphoma 9-like Pro; fusion protein, signal transduction, transcription, metal BI WNT proteins; 1.90A {Homo sapiens}

Probab=82.62  E-value=0.99  Score=31.03  Aligned_cols=48  Identities=23%  Similarity=0.471  Sum_probs=35.0

Q ss_pred             CCCCCcccCCcCCCCceEEcC-CCCCcccHhhHHHH------H----hCCCCCcccCcc
Q 043554          105 ATECPICLGEFVDGEKVRVLP-KCNHGFHVRCIDTW------L----LSHSSCPNCRHS  152 (192)
Q Consensus       105 ~~~C~ICl~~~~~~~~v~~l~-~C~H~FH~~Ci~~W------l----~~~~~CP~CR~~  152 (192)
                      ...|.||...+.+....+... .|..=||..|+.-=      +    ..+..||.|+..
T Consensus         3 ~~~C~iC~~p~~~~~~mi~Cdd~C~~WfH~~CVglt~~~~~~i~~~~~~~~~Cp~C~~~   61 (105)
T 2xb1_A            3 VYPCGACRSEVNDDQDAILCEASCQKWFHRECTGMTESAYGLLTTEASAVWACDLCLKT   61 (105)
T ss_dssp             CCBCTTTCSBCCTTSCEEECTTTTCCEEEGGGTTCCHHHHHHHHHCTTEEECCHHHHHT
T ss_pred             cCCCCCCCCccCCCCCEEEecCCcccccccccCCcCHHHHHhhccCCCCCEECccccCc
Confidence            457999999997777777765 68888999997321      1    034569999764

>2l43_A N-teminal domain from histone H3.3, linker, PHD1 from bromodomain-containing protein...; PHD finger, histone CODE, transcription; NMR {Homo sapiens}

Probab=82.50  E-value=1.7  Score=28.88  Aligned_cols=51  Identities=20%  Similarity=0.416  Sum_probs=34.7

Q ss_pred             CCCCCCCcccCCc-CCCCceEEcCCCCCcccHhhHHHHHh--CCCCCcccCccC
Q 043554          103 IPATECPICLGEF-VDGEKVRVLPKCNHGFHVRCIDTWLL--SHSSCPNCRHSL  153 (192)
Q Consensus       103 ~~~~~C~ICl~~~-~~~~~v~~l~~C~H~FH~~Ci~~Wl~--~~~~CP~CR~~l  153 (192)
                      .++..|.||.+.- .+.+.+.....|.-.||..|+..-+.  ..-.||.|....
T Consensus        23 ~~~~~C~vC~~~~s~~~~~ll~CD~C~~~fH~~Cl~p~~vP~g~W~C~~C~~~~   76 (88)
T 2l43_A           23 DEDAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRHCLQSR   76 (88)
T ss_dssp             CCCCCCSSCCSSSSCSEEEEEECSSSCCCCCHHHHTCSSCCSSCCCCHHHHHHT
T ss_pred             CCCCcCCcCCCCCCCCCCCEEECCCCCchhhcccCCCCccCCCceECccccCcc
Confidence            4567899998754 23446666667889999999875221  122599996543

>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=82.00  E-value=0.27  Score=36.69  Aligned_cols=48  Identities=21%  Similarity=0.525  Sum_probs=34.4

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHH-----hCCCCCcccCcc
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWL-----LSHSSCPNCRHS  152 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl-----~~~~~CP~CR~~  152 (192)
                      +...| +|...+.+...+.....|..-||..|+.---     .....||.|+..
T Consensus         7 ~~~~C-~C~~~~~~~~~mi~Cd~C~~WfH~~Cv~~~~~~~~~~~~~~C~~C~~~   59 (174)
T 2ri7_A            7 TKLYC-ICKTPEDESKFYIGCDRCQNWYHGRCVGILQSEAELIDEYVCPQCQST   59 (174)
T ss_dssp             CCEET-TTTEECCTTSCEEECTTTCCEEEHHHHTCCHHHHTTCSSCCCHHHHHH
T ss_pred             CCcEe-eCCCCCCCCCCEeECCCCCchhChhhcCCchhhccCccCeecCCCcch
Confidence            45568 9998876666677777799999999984211     134579999763

>3asl_A E3 ubiquitin-protein ligase UHRF1; histone reader module, epigenetic regulation, LI binding protein complex; 1.41A {Homo sapiens} PDB: 3sou_A 3sow_A* 3sox_A 3zvy_A 2lgg_A 2lgk_A* 2lgl_A 3t6r_A 3zvz_B

Probab=81.39  E-value=0.48  Score=30.15  Aligned_cols=44  Identities=36%  Similarity=0.822  Sum_probs=28.4

Q ss_pred             CCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC-----CCCCcccCc
Q 043554          107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS-----HSSCPNCRH  151 (192)
Q Consensus       107 ~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~-----~~~CP~CR~  151 (192)
                      .|.||...- +++.+.....|...||..|+..=|..     .=.||.|+.
T Consensus        20 ~C~~C~~~~-~~~~ll~CD~C~~~yH~~Cl~Ppl~~~P~g~~W~C~~C~~   68 (70)
T 3asl_A           20 ACHLCGGRQ-DPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPECRN   68 (70)
T ss_dssp             SBTTTCCCS-CGGGEEECTTTCCEEEGGGSSSCCSSCCSSSCCCCTTTSC
T ss_pred             CCcCCCCcC-CCCCEEEcCCCCCceecccCCCCcCCCCCCCCcCCcCccC
Confidence            466776432 33456666679999999999843321     225888864

>2ro1_A Transcription intermediary factor 1-beta; KAP, TIF, PHD finger, bromodomain, SUMO, acetylation, alternative splicing, metal-binding, nucleus; NMR {Homo sapiens}

Probab=81.30  E-value=1.2  Score=33.85  Aligned_cols=44  Identities=27%  Similarity=0.532  Sum_probs=30.2

Q ss_pred             CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC----CCCCcccCcc
Q 043554          105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS----HSSCPNCRHS  152 (192)
Q Consensus       105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~----~~~CP~CR~~  152 (192)
                      +..|.+|.+.    ..+.....|...||..|+..=+..    .-.||.|+..
T Consensus         2 ~~~C~~C~~~----g~ll~Cd~C~~~~H~~Cl~p~l~~~p~g~W~C~~C~~~   49 (189)
T 2ro1_A            2 ATICRVCQKP----GDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVL   49 (189)
T ss_dssp             CCCBTTTCCC----SSCCCCTTTCCBCCSTTSTTCCSSCCCTTCCTTTTSCS
T ss_pred             CCcCccCCCC----CceeECCCCCchhccccCCCCcccCCCCCCCCcCccCC
Confidence            4579999854    334445568899999999653332    2259999765

---

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	192
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	1e-19
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	8e-13
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	5e-11
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	7e-11
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	3e-10
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	2e-09
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	7e-08
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	1e-06
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	2e-06
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	2e-06
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	1e-05
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	3e-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 = 76.1 bits (187), Expect = 1e-19
 Identities = 27/49 (55%), Positives = 35/49 (71%)

Query: 106 TECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLL 154
            EC +CL E  DGE+ R LP+C HGFH  C+D WL SHS+CP CR +++
Sbjct: 6   VECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV 54

>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 = 58.8 bits (142), Expect = 8e-13
 Identities = 15/50 (30%), Positives = 23/50 (46%), Gaps = 3/50 (6%)

Query: 104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSL 153
            A  CPICL +  +     +   C H F   CI  W+  + +CP C+  +
Sbjct: 4   VAERCPICLEDPSNYS---MALPCLHAFCYVCITRWIRQNPTCPLCKVPV 50

>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 = 54.0 bits (129), Expect = 5e-11
 Identities = 13/56 (23%), Positives = 20/56 (35%), Gaps = 2/56 (3%)

Query: 107 ECPICLGEFVDGEKVRVLP-KCNHGFHVRCIDTWL-LSHSSCPNCRHSLLNNNERS 160
            CP C         ++++   C H     C+D        +CP C   L  +N R 
Sbjct: 5   GCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNFRV 60

>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 = 53.2 bits (127), Expect = 7e-11
 Identities = 10/51 (19%), Positives = 16/51 (31%), Gaps = 1/51 (1%)

Query: 107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWL-LSHSSCPNCRHSLLNN 156
           ECP+C+      +       C +     C        +  CP CR     +
Sbjct: 2   ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPED 52

>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 = 52.4 bits (125), Expect = 3e-10
 Identities = 19/70 (27%), Positives = 21/70 (30%), Gaps = 14/70 (20%)

Query: 95  AVYGEGVDIPATECPICLGEFVDGEK--------------VRVLPKCNHGFHVRCIDTWL 140
           AV     DI    C IC    +D                       CNH FH  CI  WL
Sbjct: 11  AVALWAWDIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWL 70

Query: 141 LSHSSCPNCR 150
            +   CP   
Sbjct: 71  KTRQVCPLDN 80

>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 = 50.0 bits (119), Expect = 2e-09
 Identities = 15/47 (31%), Positives = 20/47 (42%), Gaps = 5/47 (10%)

Query: 108 CPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSS-CPNCRHSL 153
           C IC     D   V++ P C H     C+ +W  S    CP CR  +
Sbjct: 26  CKICAENDKD---VKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEI 68

>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 = 45.3 bits (107), Expect = 7e-08
 Identities = 11/47 (23%), Positives = 16/47 (34%), Gaps = 7/47 (14%)

Query: 107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSL 153
            C  C  E       ++LP C H     C++        CP C+   
Sbjct: 8   RCQQCQAEAKC---PKLLP-CLHTLCSGCLEAS---GMQCPICQAPW 47

>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 = 43.1 bits (101), Expect = 1e-06
 Identities = 16/54 (29%), Positives = 23/54 (42%), Gaps = 7/54 (12%)

Query: 107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHS---SCPNCRHSLLNNN 157
           ECPICL    +     V  KC+H F   C+   L        CP C++ +   +
Sbjct: 23  ECPICLELIKEP----VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRS 72

>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 = 43.1 bits (100), Expect = 2e-06
 Identities = 14/63 (22%), Positives = 23/63 (36%), Gaps = 19/63 (30%)

Query: 107 ECPICLGEFVD--------------GEKVRVLPKCNHGFHVRCIDTWLLS-----HSSCP 147
           +C IC+ +                    V  L KC+H FH+ C+     +        CP
Sbjct: 27  DCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCP 86

Query: 148 NCR 150
           +C+
Sbjct: 87  SCK 89

>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 = 41.8 bits (97), Expect = 2e-06
 Identities = 11/47 (23%), Positives = 15/47 (31%), Gaps = 3/47 (6%)

Query: 108 CPICLGEFVDGEKVRVLPK-CNHGFHVRCIDTWLLSH--SSCPNCRH 151
           C IC  E  +               H  C+ TWL     ++C  C  
Sbjct: 9   CWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGV 55

>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 = 39.9 bits (93), Expect = 1e-05
 Identities = 16/47 (34%), Positives = 18/47 (38%), Gaps = 5/47 (10%)

Query: 108 CPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSS-CPNCRHSL 153
           C IC     D     V   C H F   CI   L    S CP+CR+  
Sbjct: 26  CQICEHILAD----PVETSCKHLFCRICILRCLKVMGSYCPSCRYPC 68

>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 = 38.9 bits (90), Expect = 3e-05
 Identities = 11/55 (20%), Positives = 21/55 (38%), Gaps = 9/55 (16%)

Query: 104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHS--------SCPNCR 150
            ++ C +CLGE+   +   +   C   F   C+  ++            SCP+  
Sbjct: 4   GSSGCKLCLGEYPVEQMTTIAQ-CQCIFCTLCLKQYVELLIKEGLETAISCPDAA 57

>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 = 37.1 bits (85), Expect = 2e-04
 Identities = 10/51 (19%), Positives = 15/51 (29%), Gaps = 5/51 (9%)

Query: 107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNN 157
            C  C        +   L  C H F   C+   +   + CP C       +
Sbjct: 24  RCSRCTNIL---REPVCLGGCEHIFCSNCVSDCI--GTGCPVCYTPAWIQD 69

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	192
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.77
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.61
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.56
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.56
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.56
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.52
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.47
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.4
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.36
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.34
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.28
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	99.2
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.16
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.08
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.08
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.92
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.7
d1fp0a1	70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	93.89
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	93.88
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	93.71
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	93.35
d1wepa_	79	PHD finger protein 8 {Mouse (Mus musculus) [TaxId:	93.0
d1weva_	88	PHD finger protein 22 {Mouse (Mus musculus) [TaxId	92.79
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	90.72
d1wfka_	88	Zinc finger FYVE domain containing protein 19 {Mou	86.47
d1wema_	76	Death associated transcription factor 1, Datf1 (DI	86.24
d1y02a2	51	Rififylin (FYVE-RING finger protein Sakura) {Human	84.66
d1z60a1	59	TFIIH p44 subunit cysteine-rich domain {Human (Hom	84.48
d1weoa_	93	Cellulose synthase A catalytic subunit 7, IRX3 {Th	83.88
d1rutx3	31	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	83.33
d1dvpa2	72	Hrs {Fruit fly (Drosophila melanogaster) [TaxId: 7	81.28

>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=99.77  E-value=8.7e-20  Score=113.46  Aligned_cols=51  Identities=53%  Similarity=1.248  Sum_probs=46.5

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCc
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLL  154 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~  154 (192)
                      ++.+|+||+++|.+++.+..++.|+|.||..||..|++++.+||+||+++.
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            456799999999999999888669999999999999999999999999874

>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=99.61  E-value=2.9e-16  Score=101.43  Aligned_cols=49  Identities=35%  Similarity=0.839  Sum_probs=42.8

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcC
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLN  155 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~  155 (192)
                      ..++|+||++.|.++  ++.++ |||.||.+||.+|++++.+||+||+++..
T Consensus         4 ~~d~C~IC~~~~~~~--~~~~~-C~H~Fc~~Ci~~w~~~~~~CP~CR~~i~~   52 (68)
T d1chca_           4 VAERCPICLEDPSNY--SMALP-CLHAFCYVCITRWIRQNPTCPLCKVPVES   52 (68)
T ss_dssp             CCCCCSSCCSCCCSC--EEETT-TTEEESTTHHHHHHHHSCSTTTTCCCCCC
T ss_pred             CCCCCccCCcCccCC--cEEeC-CCCcCcHHHHHHHHHhCCcCCCCCcchHh
Confidence            456899999999753  56788 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=99.56  E-value=3.3e-16  Score=95.89  Aligned_cols=48  Identities=21%  Similarity=0.482  Sum_probs=40.5

Q ss_pred             CCCcccCCcCCCCce-EEcCCCCCcccHhhHHHHHhC-CCCCcccCccCcC
Q 043554          107 ECPICLGEFVDGEKV-RVLPKCNHGFHVRCIDTWLLS-HSSCPNCRHSLLN  155 (192)
Q Consensus       107 ~C~ICl~~~~~~~~v-~~l~~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l~~  155 (192)
                      +|+||+++|..++.+ ..++ |||.||.+|+.+|++. +..||+||+++.+
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 4456 9999999999999986 4469999998865

>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=99.56  E-value=2.1e-15  Score=106.71  Aligned_cols=54  Identities=24%  Similarity=0.629  Sum_probs=42.7

Q ss_pred             CCCCCCcccCCcCCC---------------CceEEcCCCCCcccHhhHHHHHhCC-----CCCcccCccCcCCCC
Q 043554          104 PATECPICLGEFVDG---------------EKVRVLPKCNHGFHVRCIDTWLLSH-----SSCPNCRHSLLNNNE  158 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~---------------~~v~~l~~C~H~FH~~Ci~~Wl~~~-----~~CP~CR~~l~~~~~  158 (192)
                      .+.+|+||+++|...               ..+.+++ |+|+||.+||..||+.+     .+||+||+.+..+..
T Consensus        24 ~~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~-CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~~~~   97 (114)
T d1v87a_          24 PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTK-CSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEKTG   97 (114)
T ss_dssp             CSCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESS-SCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSCSS
T ss_pred             ccccccchhheecccccccccccccccccccceEECC-CCChhhHHHHHHHHHhcCcCCCCccccccchhccCcC
Confidence            456899999998642               3456777 99999999999999743     379999998866544

>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=99.56  E-value=1.5e-15  Score=102.80  Aligned_cols=51  Identities=31%  Similarity=0.623  Sum_probs=43.0

Q ss_pred             CCCCCCcccCCcCCCC---------------ceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcC
Q 043554          104 PATECPICLGEFVDGE---------------KVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLN  155 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~---------------~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~  155 (192)
                      .++.|+||++++.+..               .+..++ |||.||..||..||+.+.+||+||+.+.-
T Consensus        20 ~~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR~~~~~   85 (88)
T d3dplr1          20 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREWEF   85 (88)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEET-TSCEEEHHHHHHHHTTCSBCSSSCSBCCE
T ss_pred             CCCcCEEccchhhCccccccccccccccccCCeEEcc-ccCcccHHHHHHHHHHCCcCCCCCCcccc
Confidence            4567999999987542               356677 99999999999999999999999998753

>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=4.5e-15  Score=94.87  Aligned_cols=53  Identities=26%  Similarity=0.602  Sum_probs=41.7

Q ss_pred             CCCCCCcccCCcCCC-C-ceEEcCCCCCcccHhhHHHHHhC-CCCCcccCccCcCCC
Q 043554          104 PATECPICLGEFVDG-E-KVRVLPKCNHGFHVRCIDTWLLS-HSSCPNCRHSLLNNN  157 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~-~-~v~~l~~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l~~~~  157 (192)
                      ++..|+||++++..+ + .+.+++ |||.||.+||..|+++ +..||+||+.+...+
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~~~   57 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGAGNCPECGTPLRKSN   57 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECT-TCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCC
T ss_pred             CCCCCCcCCceeecCCceEEEeCc-cChHhhHHHHHHHhCcCcCCCCCCCcCccccc
Confidence            467899999986433 2 345666 9999999999999965 557999999885543

>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=99.47  E-value=2.6e-14  Score=94.67  Aligned_cols=49  Identities=31%  Similarity=0.727  Sum_probs=41.2

Q ss_pred             CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC-CCCCcccCccCcCCC
Q 043554          105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS-HSSCPNCRHSLLNNN  157 (192)
Q Consensus       105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l~~~~  157 (192)
                      ...|+||++.+.+   .++++ |||.||.+||..|+.. .++||+||..+...+
T Consensus        23 ~~~C~IC~~~~~~---~~~~~-CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~~   72 (79)
T d1fbva4          23 FQLCKICAENDKD---VKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKGTE   72 (79)
T ss_dssp             TTBCTTTSSSBCC---EECSS-SCCEECHHHHHHHHHTTCCSCTTTCCCCCCCC
T ss_pred             CCCCccCCCcCCC---eEEeC-CCCeeeHHHHHHHHHHCcCcCCCCCcCccCCc
Confidence            3579999998865   57788 9999999999999975 567999999986544

>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=99.40  E-value=3.2e-14  Score=88.16  Aligned_cols=48  Identities=15%  Similarity=0.141  Sum_probs=40.9

Q ss_pred             CCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCCC
Q 043554          107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNN  157 (192)
Q Consensus       107 ~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~  157 (192)
                      .|+||++.++++   ..++.|||+||.+||.+|++++.+||+||+++...+
T Consensus         2 ~C~Ic~~~~~~P---v~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l~~~d   49 (56)
T d2baya1           2 LCAISGKVPRRP---VLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEE   49 (56)
T ss_dssp             CCTTTCSCCSSE---EEETTTTEEEEHHHHHHHHHHHSBCTTTCCBCCGGG
T ss_pred             CCccCCchHHhc---CccCCCCCcccHHHHHHHHhhccCCCccCCcCCHHh
Confidence            599999999875   344449999999999999999899999999886543

>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=99.36  E-value=8.8e-14  Score=86.05  Aligned_cols=48  Identities=23%  Similarity=0.534  Sum_probs=39.4

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCCCC
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNNNE  158 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~~~  158 (192)
                      +..+|+||++.|.+.   ++++ |||.||..||+.|   +.+||+||+.+.....
T Consensus         5 ~~l~C~IC~~~~~~p---~~lp-CgH~fC~~Ci~~~---~~~CP~Cr~~~~~~~~   52 (56)
T d1bora_           5 QFLRCQQCQAEAKCP---KLLP-CLHTLCSGCLEAS---GMQCPICQAPWPLGAD   52 (56)
T ss_dssp             CCSSCSSSCSSCBCC---SCST-TSCCSBTTTCSSS---SSSCSSCCSSSSCCSS
T ss_pred             CCCCCcccCcccCCC---EEec-CCCHHhHHHHHcC---CCcCcCCCCcccCCCC
Confidence            345899999999875   5678 9999999999875   5679999999865444

>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=99.34  E-value=3.6e-13  Score=90.35  Aligned_cols=48  Identities=31%  Similarity=0.562  Sum_probs=40.5

Q ss_pred             CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC-CCCCcccCccCcCC
Q 043554          105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS-HSSCPNCRHSLLNN  156 (192)
Q Consensus       105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l~~~  156 (192)
                      ...|+||++.|.+.   .+++ |||.||..||.+|++. +.+||+||.++...
T Consensus        23 ~l~C~IC~~~~~~p---v~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~   71 (86)
T d1rmda2          23 SISCQICEHILADP---VETS-CKHLFCRICILRCLKVMGSYCPSCRYPCFPT   71 (86)
T ss_dssp             HTBCTTTCSBCSSE---EECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBCCGG
T ss_pred             CcCCccCCcchhcc---eecC-CCChhhHHHHHHHHhhCCCcCcccCCCCChh
Confidence            35799999999764   6787 9999999999999974 56799999988544

>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=99.28  E-value=1.3e-12  Score=90.40  Aligned_cols=47  Identities=32%  Similarity=0.688  Sum_probs=39.4

Q ss_pred             CCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCC---CCCcccCccCcCC
Q 043554          106 TECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSH---SSCPNCRHSLLNN  156 (192)
Q Consensus       106 ~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~---~~CP~CR~~l~~~  156 (192)
                      ..|+||++.|.++   ..++ |||.||..||..|++.+   ..||+||..+...
T Consensus        22 l~CpIC~~~~~~p---v~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   71 (103)
T d1jm7a_          22 LECPICLELIKEP---VSTK-CDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKR   71 (103)
T ss_dssp             TSCSSSCCCCSSC---CBCT-TSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTT
T ss_pred             cCCCccCchhCCe---EEcC-CCCchhhHHHHHHHHHCCCCCcCcCCCCcCChh
Confidence            4799999999875   4577 99999999999999754   3799999988543

>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=99.20  E-value=3.9e-12  Score=79.54  Aligned_cols=52  Identities=21%  Similarity=0.354  Sum_probs=38.1

Q ss_pred             CCCCCCCcccCCcCCCCceE-EcCCCCCcccHhhHHHHHh--CCCCCcccCccCc
Q 043554          103 IPATECPICLGEFVDGEKVR-VLPKCNHGFHVRCIDTWLL--SHSSCPNCRHSLL  154 (192)
Q Consensus       103 ~~~~~C~ICl~~~~~~~~v~-~l~~C~H~FH~~Ci~~Wl~--~~~~CP~CR~~l~  154 (192)
                      ++...|.||++++.+..... ...+|+|.||..||..|+.  .+.+||+||+++.
T Consensus         4 ed~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~   58 (60)
T d1vyxa_           4 EDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             CSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeee
Confidence            35678999999987553221 1113569999999999995  4568999999874

>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=99.16  E-value=4.9e-12  Score=86.55  Aligned_cols=47  Identities=21%  Similarity=0.493  Sum_probs=38.2

Q ss_pred             CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCC
Q 043554          105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNN  156 (192)
Q Consensus       105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~  156 (192)
                      ...|+||++.|.++  +...+ |||.||..||..|+.+  .||+||..+...
T Consensus        22 ~l~C~IC~~~~~~p--v~~~~-CgH~fC~~Ci~~~~~~--~CP~Cr~~~~~~   68 (97)
T d1jm7b_          22 LLRCSRCTNILREP--VCLGG-CEHIFCSNCVSDCIGT--GCPVCYTPAWIQ   68 (97)
T ss_dssp             TTSCSSSCSCCSSC--BCCCS-SSCCBCTTTGGGGTTT--BCSSSCCBCSCS
T ss_pred             cCCCccCCchhhcC--ceeCC-CCCchhHHHHHHHHhc--cccccCCcCchh
Confidence            45799999999876  33446 9999999999999853  599999887543

>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=3.9e-11  Score=78.68  Aligned_cols=50  Identities=26%  Similarity=0.596  Sum_probs=42.3

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC-CCCCcccCccCcCCC
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS-HSSCPNCRHSLLNNN  157 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l~~~~  157 (192)
                      ++..|+||++.|.++   ++++ |||.|+..||..|++. ...||.|+.++....
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            567899999999886   4677 9999999999999976 456999999886543

>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=99.08  E-value=3.6e-11  Score=79.27  Aligned_cols=49  Identities=14%  Similarity=0.116  Sum_probs=41.8

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC-CCCCcccCccCcCC
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS-HSSCPNCRHSLLNN  156 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~l~~~  156 (192)
                      ++..|+||++-|.++   .+++ |||.|+..||..|+.. +.+||+||.++...
T Consensus         6 ~~l~CpIc~~l~~dP---v~~~-cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~~   55 (80)
T d2c2la2           6 DYLCGKISFELMREP---CITP-SGITYDRKDIEEHLQRVGHFNPVTRSPLTQE   55 (80)
T ss_dssp             STTBCTTTCSBCSSE---EECS-SCCEEETTHHHHHHHHTCSSCTTTCCCCCGG
T ss_pred             ccccCcCcCchhhhh---cccC-CcCeecHHHHHHHHhcCCccCCCcccccccc
Confidence            467899999999886   4677 9999999999999974 56799999987543

>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=98.92  E-value=4.3e-10  Score=76.86  Aligned_cols=50  Identities=26%  Similarity=0.207  Sum_probs=42.8

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccCccCcCC
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCRHSLLNN  156 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~l~~~  156 (192)
                      ++..|+||++-|.++   ++++.|+|.|++.||..|++.+.+||+||.++...
T Consensus        21 ~~f~CPI~~~lm~dP---V~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l~~~   70 (98)
T d1wgma_          21 DEFLDPIMSTLMCDP---VVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMD   70 (98)
T ss_dssp             TTTBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHTTTSCBCTTTCSBCCTT
T ss_pred             HHhCCcCchhHHHHH---HhcccccchhhHHHHHHHHHhcCCcccccccccch
Confidence            468999999999986   67773456899999999999999999999988654

>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=98.70  E-value=3.1e-09  Score=71.61  Aligned_cols=46  Identities=24%  Similarity=0.626  Sum_probs=37.1

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCC--------CCCcccC
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSH--------SSCPNCR  150 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~--------~~CP~CR  150 (192)
                      ...+|+||++++...+.+..++ |+|.||.+|+..|++.+        ..||.|+
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~-C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~   57 (94)
T d1wima_           4 GSSGCKLCLGEYPVEQMTTIAQ-CQCIFCTLCLKQYVELLIKEGLETAISCPDAA   57 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETT-TTEEEEHHHHHHHHHHHHHHCSCCCEECSCTT
T ss_pred             CCCcCccCCCcccCCceEEECC-CCCEeCCcCHHHHHHHHHhcCCccccCCcCCC
Confidence            3568999999998777777776 99999999999999521        1499864

>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=93.89  E-value=0.019  Score=35.23  Aligned_cols=46  Identities=26%  Similarity=0.478  Sum_probs=31.7

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCC----CCCcccCccC
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSH----SSCPNCRHSL  153 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~----~~CP~CR~~l  153 (192)
                      ....|.+|.+.    ..+.....|...||..|+...+...    -.||.|+..-
T Consensus         6 ~c~~C~~C~~~----~~ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~   55 (70)
T d1fp0a1           6 SATICRVCQKP----GDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLP   55 (70)
T ss_dssp             SSSCCSSSCSS----SCCEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCCC
T ss_pred             CCCCCCCCCCc----CEEEECCCCChhhccccCCCCcCcCCCCCEECcCCcCcC
Confidence            34567777542    3466666799999999998776432    2599996533

>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=93.88  E-value=0.023  Score=34.09  Aligned_cols=48  Identities=21%  Similarity=0.515  Sum_probs=36.4

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHH---HHh--CCCCCcccCc
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDT---WLL--SHSSCPNCRH  151 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~---Wl~--~~~~CP~CR~  151 (192)
                      ....|.+|...+.+++.++....|+.-||..|+..   ...  .+..||.|+.
T Consensus         5 ~~~~C~~C~~~~~~~~~~I~Cd~C~~w~H~~C~~~~~~~~~~~~~w~C~~C~~   57 (64)
T d1we9a_           5 SSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSN   57 (64)
T ss_dssp             SCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHT
T ss_pred             CCCcCcCcCCCCCCCCCEEEcCCCCccCCcccCCcChHHCCCCCeEECcCCcC
Confidence            45689999998877777777778999999999853   111  2456999964

>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=93.71  E-value=0.016  Score=33.16  Aligned_cols=44  Identities=27%  Similarity=0.709  Sum_probs=31.6

Q ss_pred             CCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC----CCCCcccCc
Q 043554          107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS----HSSCPNCRH  151 (192)
Q Consensus       107 ~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~----~~~CP~CR~  151 (192)
                      .|.||...-. ++.+.....|+..||..|+..-+..    .-.||.||.
T Consensus         2 ~C~vC~~~~~-~~~~i~Cd~C~~~~H~~C~~p~~~~~p~~~W~C~~C~~   49 (51)
T d1f62a_           2 RCKVCRKKGE-DDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSC-CSCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCcCcCCCCC-CCCEEEcCCCCCCCCCCCCCCCCCcCCCCCEECcCCcC
Confidence            5889976543 3455666779999999999876543    224999974

>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=93.35  E-value=0.012  Score=35.11  Aligned_cols=48  Identities=21%  Similarity=0.549  Sum_probs=33.0

Q ss_pred             CCCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC----CCCCcccCccCc
Q 043554          103 IPATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS----HSSCPNCRHSLL  154 (192)
Q Consensus       103 ~~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~----~~~CP~CR~~l~  154 (192)
                      ..+..|.+|.+.    ..+.....|.-.||..|+...+..    .-.||.|+..-.
T Consensus         7 ~~~~~C~~C~~~----g~lv~Cd~C~~~~H~~C~~~~~~~~~~~~W~C~~C~~~~~   58 (61)
T d1mm2a_           7 HHMEFCRVCKDG----GELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPAL   58 (61)
T ss_dssp             SSCSSCTTTCCC----SSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTCC
T ss_pred             CCcCCCcCCCCC----CeEEEeCCCCccCchhhcCCCcCcCCCCcEECCCCcCccc
Confidence            345579999752    345555678999999998765542    235999976543

>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=93.00  E-value=0.18  Score=31.25  Aligned_cols=46  Identities=17%  Similarity=0.373  Sum_probs=32.9

Q ss_pred             CCCcccCCcCCCCceEEcCCCCCcccHhhHH--HH-Hh--CCCCCcccCcc
Q 043554          107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCID--TW-LL--SHSSCPNCRHS  152 (192)
Q Consensus       107 ~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~--~W-l~--~~~~CP~CR~~  152 (192)
                      .+-||...+..++..+....|+--||..|+.  .. ..  .+..||.|+..
T Consensus        13 v~CiC~~~~~~~~~mI~Cd~C~~W~H~~C~g~~~~~~~~~~~~~C~~C~~~   63 (79)
T d1wepa_          13 VYCLCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAV   63 (79)
T ss_dssp             CCSTTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTT
T ss_pred             eEeECCCccCCCCcEEECCCCCCcEeccccCcchhcCCCCCEEECccCcCC
Confidence            4449998877666677777899899999984  21 12  23579999764

>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=92.79  E-value=0.014  Score=37.35  Aligned_cols=49  Identities=18%  Similarity=0.482  Sum_probs=33.3

Q ss_pred             CCCCCcccCCcCC-CCceEEcCCCCCcccHhhHHHHH-----hC---CCCCcccCccC
Q 043554          105 ATECPICLGEFVD-GEKVRVLPKCNHGFHVRCIDTWL-----LS---HSSCPNCRHSL  153 (192)
Q Consensus       105 ~~~C~ICl~~~~~-~~~v~~l~~C~H~FH~~Ci~~Wl-----~~---~~~CP~CR~~l  153 (192)
                      ...|.||...... ...+.....|+..||..|+...+     +.   .-.||.|....
T Consensus        16 ~~~C~iC~~~~~~~~~~~v~Cd~C~~~~H~~C~~p~~~~~~~~~~~~~W~C~~C~~~~   73 (88)
T d1weva_          16 GLACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTRQM   73 (88)
T ss_dssp             CCSCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHHHHH
T ss_pred             cCCccCCCCccCCCCCeEEEcCCCCCccccccCCCcccccccccCCCeEECcccCchH
Confidence            4579999875443 34566677799999999976332     21   34699996543

>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=90.72  E-value=0.086  Score=33.18  Aligned_cols=34  Identities=18%  Similarity=0.446  Sum_probs=25.3

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHH
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTW  139 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~W  139 (192)
                      +|..|.|| +-|..++.. ...-|+-+||..|+.+-
T Consensus        14 ~D~mC~vC-~v~t~~~l~-pCRvCtRv~H~~CL~r~   47 (89)
T d1wila_          14 NDEMCDVC-EVWTAESLF-PCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CSCCCTTT-CCCCSSCCS-SCSSSSSCCCHHHHHHH
T ss_pred             cCcccccc-Cccccccee-cceeecchhhHHHHHHh
Confidence            57789999 666665543 22248899999999985

>d1wfka_ g.50.1.1 (A:) Zinc finger FYVE domain containing protein 19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: FYVE, a phosphatidylinositol-3-phosphate binding domain
domain: Zinc finger FYVE domain containing protein 19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=86.47  E-value=0.11  Score=33.25  Aligned_cols=52  Identities=21%  Similarity=0.367  Sum_probs=37.3

Q ss_pred             CCCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhC-------CCCCcccCccCcC
Q 043554          104 PATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLS-------HSSCPNCRHSLLN  155 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~-------~~~CP~CR~~l~~  155 (192)
                      .+..|.+|..+|.--..-.....||-+||..|...++..       ...|-.|-..+..
T Consensus         8 ~~s~C~~C~~~Fs~~~rrhhCr~CG~vfC~~Cs~~~~~lp~~~~~~~RVC~~C~~~l~~   66 (88)
T d1wfka_           8 MESRCYGCAVKFTLFKKEYGCKNCGRAFCNGCLSFSALVPRAGNTQQKVCKQCHTILTR   66 (88)
T ss_dssp             CCSBCTTTCCBCCSSSCEEECSSSCCEEETTTSCEEEEETTTTSEEEEECHHHHHHHHH
T ss_pred             ccCcCcccCchhccccccccccccChhhChHHhCCccccCCCCCCCCeECHHHHHHHHh
Confidence            466899999999765554555579999999998765431       1259999665544

>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=86.24  E-value=0.55  Score=28.43  Aligned_cols=45  Identities=29%  Similarity=0.585  Sum_probs=30.0

Q ss_pred             CCCCCcccCCcCCCCceEEcCCCCCcccHhhHH----H--HH---hCCCCCcccCc
Q 043554          105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCID----T--WL---LSHSSCPNCRH  151 (192)
Q Consensus       105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~----~--Wl---~~~~~CP~CR~  151 (192)
                      ...| ||...... +.++....|.--||..|+.    .  .+   ..+..||.|+.
T Consensus        16 ~~~C-iC~~~~~~-~~mi~Cd~C~~w~H~~Cvg~~~~~~~~~~~~~~~w~C~~C~~   69 (76)
T d1wema_          16 ALYC-ICRQPHNN-RFMICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCTI   69 (76)
T ss_dssp             CCCS-TTCCCCCS-SCEEECSSSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHH
T ss_pred             cCEE-ECCCccCC-CeEEEECCCCCcCCccccCCCcccccccCCCCCcEECCCCcC
Confidence            4457 89876544 4466666788899999982    1  11   23468999954

>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=84.66  E-value=0.074  Score=30.47  Aligned_cols=44  Identities=18%  Similarity=0.467  Sum_probs=28.8

Q ss_pred             CCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCcccC
Q 043554          107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNCR  150 (192)
Q Consensus       107 ~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~CR  150 (192)
                      .|.+|...|..-..-.....||.+|+..|....-+....|..|.
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            58889888875544344446999999999765444445577774

>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=84.48  E-value=0.19  Score=29.46  Aligned_cols=44  Identities=36%  Similarity=0.553  Sum_probs=31.3

Q ss_pred             CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHHHHhCCCCCccc
Q 043554          105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDTWLLSHSSCPNC  149 (192)
Q Consensus       105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~Wl~~~~~CP~C  149 (192)
                      ...|--|+..+.+. .+...+.|++.|+.+|=.--=..-.+||-|
T Consensus        15 ~~~C~gC~~~l~~~-~~y~C~~C~~~FC~dCD~fiHe~lh~CpgC   58 (59)
T d1z60a1          15 ERFCYGCQGELKDQ-HVYVCAVCQNVFCVDCDVFVHDSLHSCPGC   58 (59)
T ss_dssp             CCEETTTTEECTTS-EEECCTTTTCCBCHHHHHTTTTTSCSSSTT
T ss_pred             CCCccCCCCcCCCC-ceEECcCCCCccccccchhhhhhhcCCCCC
Confidence            45799999888654 345677899999999943321344579988

>d1weoa_ g.44.1.1 (A:) Cellulose synthase A catalytic subunit 7, IRX3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Cellulose synthase A catalytic subunit 7, IRX3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=83.88  E-value=3.3  Score=25.79  Aligned_cols=54  Identities=15%  Similarity=0.290  Sum_probs=37.2

Q ss_pred             CCCCCCcccCCcCCC---CceEEcCCCCCcccHhhHHHHHh-CCCCCcccCccCcCCC
Q 043554          104 PATECPICLGEFVDG---EKVRVLPKCNHGFHVRCIDTWLL-SHSSCPNCRHSLLNNN  157 (192)
Q Consensus       104 ~~~~C~ICl~~~~~~---~~v~~l~~C~H~FH~~Ci~~Wl~-~~~~CP~CR~~l~~~~  157 (192)
                      ....|.||-+++...   +...-...|+--.|+.|.+-=.+ -++.||.|+..+-...
T Consensus        15 ~~q~CqiCGd~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG~q~CpqCkt~Ykr~k   72 (93)
T d1weoa_          15 DGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTRYKRLR   72 (93)
T ss_dssp             SSCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTSCSSCTTTCCCCCCCT
T ss_pred             ccchhhhcccccccCCCCCEEEEecccCCccchHHHHHHHhccCccCcccCChhhhhc
Confidence            466899999987633   22222334677789999876554 4678999998875433

>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=83.33  E-value=0.19  Score=25.56  Aligned_cols=28  Identities=21%  Similarity=0.485  Sum_probs=23.5

Q ss_pred             CCCcccCCcCCCCceEEcCCCCCcccHhhH
Q 043554          107 ECPICLGEFVDGEKVRVLPKCNHGFHVRCI  136 (192)
Q Consensus       107 ~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci  136 (192)
                      .|+-|...+...|.|+..  =+++||-.|+
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            599999999999888765  4689999984

>d1dvpa2 g.50.1.1 (A:149-220) Hrs {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: FYVE, a phosphatidylinositol-3-phosphate binding domain
domain: Hrs
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=81.28  E-value=0.49  Score=28.72  Aligned_cols=34  Identities=21%  Similarity=0.400  Sum_probs=25.9

Q ss_pred             CCCCCcccCCcCCCCceEEcCCCCCcccHhhHHH
Q 043554          105 ATECPICLGEFVDGEKVRVLPKCNHGFHVRCIDT  138 (192)
Q Consensus       105 ~~~C~ICl~~~~~~~~v~~l~~C~H~FH~~Ci~~  138 (192)
                      +..|.+|...|..-..-.....||++|+.+|...
T Consensus        13 ~~~C~~C~~~F~~~~rrhhCr~CG~~~C~~C~~~   46 (72)
T d1dvpa2          13 GRVCHRCRVEFTFTNRKHHCRNCGQVFCGQCTAK   46 (72)
T ss_dssp             CSBCTTTCCBCCSSSCCEECTTTCCEECSTTSCE
T ss_pred             CCccccCCCcccCccccccccccCCeeChhhhCC
Confidence            4579999999976544444557999999999654