Citrus Sinensis ID: 030323

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------18
Protein Sequence
MGLHGQLIDLSSDSLPLLIVALIANCFGNLRSLLFSLLHSVGMTRVDPVQNNPAGPHVGSGLASLIVLAEQLNKNRAFSYKYNNNNNINKINDNCCCGQGVASSAAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERVWNTRRRVGGDLIQWFSLR
Secondary Structure (PSIPRED)
cccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccEEEEccccccccHHHHHHHHccccccccccccccccccccHHHHccccccccEEEEcc
Secondary Structure Prediction (SSPRO)
ccccccccHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHccccccccHHHHHHHHHHHHHHcccccccHEEcccccccccccccccccccccccccccccEEEHcccccccEEEEccccccccHHHHHHHHHHccccccccccccccHHHcHHHHHHHcHHHEEEEEcc
Coil and Loop (DISEMBL)
mglhgqlidlssdsLPLLIVALIANCFGNLRSLLFSLLHSvgmtrvdpvqnnpagphvgSGLASLIVLAEQLNKNRAFsykynnnnninkindncccgqgvassaagsdCMVCLCtlrdgelvrkldcrhvfhkdcldgwlhhlnfncplcrspvvseervwntrrrvggdlIQWFSLR
Flexible Loop (DISEMBL)
MGLHGQLIDLSSDSLPLLIVALIANCFGNLRSLLFSLLHSVGMTRVDPVQNNPAGPHVGSGLASLIVLAEQLNKNRAFSYKYNNNNNINKINDNCCCGQGVASSAAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLcrspvvseervwntrrrvggdliqwfslr
Low Complexity Region (SEG)
MGLHGQlidlssdslplliVALIANCFGNLRSLLFSLLHSVGMTRVDPVQNNPAGPHVGSGLASLIVLAEQLNKNRAFSykynnnnninkinDNCCCGQGVASSAAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERVWNTRRRVGGDLIQWFSLR
Disordered region (IsUnstruct)
*******IDLSSDSLPLLIVALIANCFGNLRSLLFSLLHSVGMTRVDPVQ*****PHVGSGLASLIVLAEQL*******************NDNCCCGQGVASSAAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERVWNTRRRVGGDLIQWF***
Disordered Region (DISOPRED)
*G***********SLPLLIVALIANCFGNLRSLLFSLLHSVGMTRV************************************************************GSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPV****************LIQWFSLR
Disordered Region (DISEMBL)
MGLHGQLIDLSSDSLPLLIVALIANCFGNLRSLLFSLLHSVGMTRVDPVQNNPAGPHVGSGLASLIVLAEQLNKNRAFSYKYNNNNNINKINDNCCCGQGVASSAAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERVWNTRRRVGGDLIQWFSLR
Disordered Region (DISPRO)
*********LSSDSLPLLIVALIANCFGNLRSLLFSLLHSVGMTRVDPVQNNPAGPHVGSGLASLIVLAEQLNKNRAFSYKYNN**********************GSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERVWNTRRRVGGDLIQWFSLR
Transmembrane Helix (TMHMM)
ooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
iiiiiiHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSiiHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MGLHGQLIDLSSDSLPLLIVALIANCFGNLRSLLFSLLHSVGMTRVDPVQNNPAGPHVGSGLASLIVLAEQLNKNRAFSYKYNNNNNINKINDNCCCGQGVASSAAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERVWNTRRRVGGDLIQWFSLR
Positional Conservation
no confident homologs detected

---

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	179	2.2.26 [Sep-21-2011]
Q9ZT50	155	E3 ubiquitin-protein liga	yes	no	0.837	0.967	0.472	1e-35
Q9ZU51	147	Probable E3 ubiquitin-pro	no	no	0.670	0.816	0.487	1e-32
Q4KLR8	784	E3 ubiquitin-protein liga	N/A	no	0.374	0.085	0.397	1e-08
P87237	821	Uncharacterized RING fing	yes	no	0.324	0.070	0.423	1e-08
E9QAU8	347	RING finger protein 165 O	yes	no	0.670	0.345	0.259	3e-08
Q6ZSG1	346	RING finger protein 165 O	yes	no	0.648	0.335	0.274	3e-08
Q5SSZ7	913	E3 ubiquitin-protein liga	no	no	0.357	0.070	0.376	6e-08
Q99ML9	989	E3 ubiquitin-protein liga	no	no	0.234	0.042	0.511	3e-07
Q6ZNA4	994	E3 ubiquitin-protein liga	no	no	0.234	0.042	0.511	3e-07
Q6NRV8	959	E3 ubiquitin-protein liga	N/A	no	0.234	0.043	0.511	3e-07

>sp|Q9ZT50|RHA2A_ARATH E3 ubiquitin-protein ligase RHA2A OS=Arabidopsis thaliana GN=RHA2A PE=1 SV=1

 Score =  149 bits (375), Expect = 1e-35,   Method: Compositional matrix adjust.
 Identities = 86/182 (47%), Positives = 111/182 (60%), Gaps = 32/182 (17%)

Query: 1   MGLHGQLIDLSSDSLPLLIVALIANCFGNLRSLLFSLLHSVGMTRVDPVQNNPAGP---- 56
           MGL GQL D+SSDS+PL++++L+A    +LRS L  L            ++NP  P    
Sbjct: 1   MGLQGQLSDVSSDSIPLMLLSLLAVFINHLRSFLLRL----------TSKSNPNLPVDDV 50

Query: 57  HVGSGLASLIVLAEQLNKNRAFSYKYNNNNNINKINDNCCCGQGVASSAAGSDCMVCLCT 116
            + SGLA++IVLA+QL+ NR FSY+                         GSDC+VCL  
Sbjct: 51  SIASGLANIIVLADQLSLNRLFSYR------------------CGDGGGGGSDCVVCLSK 92

Query: 117 LRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERVWNTRRRVGGDLIQWF 176
           L++GE VRKL+CRHVFHK CL+GWLH  NF CPLCRS +VS++ V  T+R VG DLI  F
Sbjct: 93  LKEGEEVRKLECRHVFHKKCLEGWLHQFNFTCPLCRSALVSDDCVSKTQRSVGRDLISCF 152

Query: 177 SL 178
           SL
Sbjct: 153 SL 154

E3 ubiquitin-protein ligase involved in the positive regulation of abscisic acid (ABA) signaling and responses to salt and osmotic stresses during seed germination and early seedling development. Possesses E3 ubiquitin ligase activity in vitro.
Arabidopsis thaliana (taxid: 3702)
EC: 6EC: .EC: 3EC: .EC: 2EC: .EC: -

>sp|Q9ZU51|RHA2B_ARATH Probable E3 ubiquitin-protein ligase RHA2B OS=Arabidopsis thaliana GN=RHA2B PE=1 SV=2

 Score =  138 bits (348), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 76/156 (48%), Positives = 96/156 (61%), Gaps = 36/156 (23%)

Query: 1   MGLHGQLIDLSSDSLPLLIVALIANCFGNLRSLLFSLLHSVGMTRVDPVQNNPAGPHVGS 60
           MGL GQL D+SSDS+PL+++AL+A  F ++RSLL                  P+   V  
Sbjct: 1   MGLQGQLSDVSSDSIPLMLLALLATFFRHVRSLLL----------------FPSSAPVVV 44

Query: 61  GLASLIVLAEQLNKNRAFSYKYNNNNNINKINDNCCCGQGVASSAAGSDCMVCLCTLRDG 120
             ++L VLA+QLN NR FSY+Y++N                    A SDC+VCL  L+ G
Sbjct: 45  VTSNLSVLADQLNLNRLFSYRYSDN--------------------AASDCIVCLSKLKTG 84

Query: 121 ELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVV 156
           E VRKLDCRHVFHK CL+GWL HLNFNCPLCRSP++
Sbjct: 85  EEVRKLDCRHVFHKQCLEGWLQHLNFNCPLCRSPLL 120

Arabidopsis thaliana (taxid: 3702)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q4KLR8|ZNRF3_XENLA E3 ubiquitin-protein ligase ZNRF3 OS=Xenopus laevis GN=znrf3 PE=2 SV=1

 Score = 59.7 bits (143), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 27/68 (39%), Positives = 39/68 (57%), Gaps = 1/68 (1%)

Query: 93  DNCCCGQGVASSAAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCR 152
           +  C G    SS++ SDC +CL    DGE +R + C H FHK C+D WL   N  CP CR
Sbjct: 185 EGSCGGLDTLSSSSISDCAICLEKYIDGEELRVIPCTHRFHKRCVDPWLLQ-NHTCPHCR 243

Query: 153 SPVVSEER 160
             ++ +++
Sbjct: 244 HNIIEQKK 251

E3 ubiquitin-protein ligase that acts as a negative regulator of the Wnt signaling pathway by mediating the ubiquitination and subsequent degradation of Wnt receptor complex components.

Xenopus laevis (taxid: 8355)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|P87237|YC0C_SCHPO Uncharacterized RING finger protein C4G3.12c OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPCC4G3.12c PE=4 SV=1

 Score = 59.3 bits (142), Expect = 1e-08,   Method: Composition-based stats.
 Identities = 25/59 (42%), Positives = 39/59 (66%), Gaps = 1/59 (1%)

Query: 102 ASSAAGSDCMVCLCTLRDGELVRKLD-CRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE 159
           AS ++   C++CL T  +G++ RKL  C+H FH+ C+D WL   N +CPLCR+  V+ +
Sbjct: 758 ASLSSADSCLICLETYTNGDICRKLQACKHFFHQACIDQWLTTGNNSCPLCRAHGVTTQ 816

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

>sp|E9QAU8|RN165_MOUSE RING finger protein 165 OS=Mus musculus GN=Rnf165 PE=2 SV=1

 Score = 58.2 bits (139), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 34/131 (25%), Positives = 60/131 (45%), Gaps = 11/131 (8%)

Query: 29  NLRSLLFSLLHSVGMTRVDPVQNNPAGPHVGSGLASLIVLAEQLN-------KNRAFSYK 81
            +R+  +  LH + +  ++P ++  A   V      L+ L ++L        +N    + 
Sbjct: 210 EIRNYPYPQLHFLALQGLNPSRHTSA---VRESYEELLQLEDRLGNVTRGAVQNTIERFT 266

Query: 82  YNNNNNINKINDNCCCGQGVASSAAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWL 141
           + +     +  D+         S     C +CL  L DGE VR+L C H+FH+ C+D WL
Sbjct: 267 FPHKYKKRRPQDSKGKKDEGEESDTDEKCTICLSMLEDGEDVRRLPCMHLFHQLCVDQWL 326

Query: 142 HHLNFNCPLCR 152
             ++  CP+CR
Sbjct: 327 -AMSKKCPICR 336

Mus musculus (taxid: 10090)

>sp|Q6ZSG1|RN165_HUMAN RING finger protein 165 OS=Homo sapiens GN=RNF165 PE=1 SV=1

 Score = 57.8 bits (138), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 37/135 (27%), Positives = 63/135 (46%), Gaps = 19/135 (14%)

Query: 29  NLRSLLFSLLHSVGMTRVDPVQNNPAGPHVGSGLASLIVLAEQLN-------KNRAFSYK 81
            +R+  +  LH + +  ++P ++  A   V      L+ L ++L        +N    + 
Sbjct: 209 EIRNYPYPQLHFLALQGLNPSRHTSA---VRESYEELLQLEDRLGNVTRGAVQNTIERFT 265

Query: 82  YNNNNNINKINDNCCCGQGVASSAAGSD----CMVCLCTLRDGELVRKLDCRHVFHKDCL 137
           + +     +  D    G+G       SD    C +CL  L DGE VR+L C H+FH+ C+
Sbjct: 266 FPHKYKKRRPQD----GKGKKDEGEESDTDEKCTICLSMLEDGEDVRRLPCMHLFHQLCV 321

Query: 138 DGWLHHLNFNCPLCR 152
           D WL  ++  CP+CR
Sbjct: 322 DQWL-AMSKKCPICR 335

Homo sapiens (taxid: 9606)

>sp|Q5SSZ7|ZNRF3_MOUSE E3 ubiquitin-protein ligase ZNRF3 OS=Mus musculus GN=Znrf3 PE=2 SV=1

 Score = 57.0 bits (136), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 26/69 (37%), Positives = 37/69 (53%), Gaps = 5/69 (7%)

Query: 93  DNCCCGQGVASSAAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWL--HHLNFNCPL 150
           +  C      SS + SDC +CL    DGE +R + C H FH+ C+D WL  HH    CP 
Sbjct: 273 EGSCGALDTLSSGSTSDCAICLEKYIDGEELRVIPCTHRFHRKCVDPWLLQHH---TCPH 329

Query: 151 CRSPVVSEE 159
           CR  ++ ++
Sbjct: 330 CRHNIIEQK 338

Mus musculus (taxid: 10090)

>sp|Q99ML9|RN111_MOUSE E3 ubiquitin-protein ligase Arkadia OS=Mus musculus GN=Rnf111 PE=1 SV=1

 Score = 55.1 bits (131), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 22/43 (51%), Positives = 29/43 (67%), Gaps = 1/43 (2%)

Query: 110 CMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCR 152
           C +CL  L +GE VR+L C H+FH+ C+D WL   N  CP+CR
Sbjct: 937 CTICLSILEEGEDVRRLPCMHLFHQVCVDQWL-ITNKKCPICR 978

Acts in the Nodal pathway of mesoderm patterning during embryonic development. Acts downstream AXIN1 as an E3 ubiquitin-protein ligase which promotes the ubiquitination of inhibitory SMADs such as SMAD7, induces their proteasomal degradation and thereby enhances the transcriptional activity of TGF-beta and BMP. Activates Smad3/Smad4-dependent transcription by triggering signal-induced SnoN degradation.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q6ZNA4|RN111_HUMAN E3 ubiquitin-protein ligase Arkadia OS=Homo sapiens GN=RNF111 PE=1 SV=3

 Score = 54.7 bits (130), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 22/43 (51%), Positives = 29/43 (67%), Gaps = 1/43 (2%)

Query: 110 CMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCR 152
           C +CL  L +GE VR+L C H+FH+ C+D WL   N  CP+CR
Sbjct: 942 CTICLSILEEGEDVRRLPCMHLFHQVCVDQWL-ITNKKCPICR 983

Acts in the NODAL pathway of mesoderm patterning during embryonic development. Acts downstream AXIN1 as an E3 ubiquitin-protein ligase which promotes the ubiquitination of inhibitory SMADs such as SMAD7, induces their proteasomal degradation and thereby enhances the transcriptional activity of TGF-beta and BMP. Activates Smad3/Smad4-dependent transcription by triggering signal-induced SnoN degradation.

Homo sapiens (taxid: 9606)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q6NRV8|R111B_XENLA E3 ubiquitin-protein ligase arkadia-B OS=Xenopus laevis GN=rnf111-b PE=2 SV=1

 Score = 54.7 bits (130), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 22/43 (51%), Positives = 29/43 (67%), Gaps = 1/43 (2%)

Query: 110 CMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCR 152
           C +CL  L +GE VR+L C H+FH+ C+D WL   N  CP+CR
Sbjct: 907 CTICLSILEEGEDVRRLPCMHLFHQVCVDQWL-ITNKKCPICR 948

Acts in the nodal-related pathway of mesoderm patterning during embryonic development. Enhances signaling of the subset of TGF-beta factors responsible for the formation of dorso-anterior tissues of Spemann's organizer. May act as an E3 ubiquitin-protein ligase, which accepts ubiquitin from specific E2 ubiquitin-conjugating enzymes and then transfers it to substrates.

Xenopus laevis (taxid: 8355)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	179
224101783	168	predicted protein [Populus trichocarpa]	0.927	0.988	0.596	4e-53
225424108	162	PREDICTED: E3 ubiquitin-protein ligase R	0.893	0.987	0.602	4e-52
224108389	169	predicted protein [Populus trichocarpa]	0.932	0.988	0.585	2e-50
255570699	183	conserved hypothetical protein [Ricinus	0.994	0.972	0.559	2e-43
358348777	164	RING finger protein [Medicago truncatula	0.905	0.987	0.464	5e-37
356536268	169	PREDICTED: E3 ubiquitin-protein ligase R	0.927	0.982	0.461	2e-35
297849936	146	ring-H2 finger A2A [Arabidopsis lyrata s	0.815	1.0	0.505	1e-34
15218053	155	E3 ubiquitin-protein ligase RHA2A [Arabi	0.837	0.967	0.472	6e-34
356574248	153	PREDICTED: E3 ubiquitin-protein ligase R	0.849	0.993	0.449	4e-31
18379162	147	putative E3 ubiquitin-protein ligase RHA	0.670	0.816	0.487	7e-31

>gi|224101783|ref|XP_002312419.1| predicted protein [Populus trichocarpa] gi|222852239|gb|EEE89786.1| predicted protein [Populus trichocarpa]

 Score =  212 bits (540), Expect = 4e-53,   Method: Compositional matrix adjust.
 Identities = 108/181 (59%), Positives = 130/181 (71%), Gaps = 15/181 (8%)

Query: 1   MGLHGQLIDLSSDSLPLLIVALIANCFGNLRSLLFSLLHSVGMTRVDP--VQNNPAGPHV 58
           MGL  QL D+SS+S+PLL++A IANC   LRS  FS+ HSVG+ R+D   V ++     +
Sbjct: 1   MGLQNQLNDVSSESIPLLLIAFIANCVACLRSFFFSVFHSVGVHRLDQAHVMDDRLMGSM 60

Query: 59  GSGLASLIVLAEQLNKNRAFSYKYNNNNNINKINDNCCCGQGVASSAAGSDCMVCLCTLR 118
           GSGLA LIVLAEQ   NR F+YKY             CCG+   +   GSDC+VCLCTLR
Sbjct: 61  GSGLAGLIVLAEQRKLNRVFAYKY-------------CCGRDDGNDKGGSDCVVCLCTLR 107

Query: 119 DGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERVWNTRRRVGGDLIQWFSL 178
           DG+ VRKLDCRHVFHK+C DGWL HLNFNCPLCR P+VS+ERV  TRRRVG +L++WFSL
Sbjct: 108 DGDQVRKLDCRHVFHKECFDGWLDHLNFNCPLCRWPLVSDERVEETRRRVGENLVEWFSL 167

Query: 179 R 179
           R
Sbjct: 168 R 168

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225424108|ref|XP_002283507.1| PREDICTED: E3 ubiquitin-protein ligase RHA2A-like [Vitis vinifera]

 Score =  209 bits (531), Expect = 4e-52,   Method: Compositional matrix adjust.
 Identities = 109/181 (60%), Positives = 129/181 (71%), Gaps = 21/181 (11%)

Query: 1   MGLHGQLIDLSSDSLPLLIVALIANCFGNLRSLLFSLLHSVGMTR--VDPVQNNPAGPHV 58
           MGL  QL D+SSDS+PLL+VA+IANC   +RSLL  L  S+G++R   D V++   G  V
Sbjct: 1   MGLQSQLNDVSSDSIPLLLVAIIANCVAYIRSLLLGLFQSMGLSRFDADEVEDGLLGA-V 59

Query: 59  GSGLASLIVLAEQLNKNRAFSYKYNNNNNINKINDNCCCGQGVASSAAGSDCMVCLCTLR 118
           GSGLASLIVLAEQLN NR FSY+Y  +                    A SDC+VCLC LR
Sbjct: 60  GSGLASLIVLAEQLNLNRVFSYRYGEDG------------------GAASDCVVCLCRLR 101

Query: 119 DGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERVWNTRRRVGGDLIQWFSL 178
           DG+ VR+L CRHVFHK+C DGWL HLNFNCPLCRSP+VS+ERV  T+RRVGGDL+ WFSL
Sbjct: 102 DGDQVRRLACRHVFHKECFDGWLDHLNFNCPLCRSPLVSDERVALTQRRVGGDLVTWFSL 161

Query: 179 R 179
           R
Sbjct: 162 R 162

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224108389|ref|XP_002314830.1| predicted protein [Populus trichocarpa] gi|222863870|gb|EEF01001.1| predicted protein [Populus trichocarpa]

 Score =  204 bits (518), Expect = 2e-50,   Method: Compositional matrix adjust.
 Identities = 106/181 (58%), Positives = 126/181 (69%), Gaps = 14/181 (7%)

Query: 1   MGLHGQLIDLSSDSLPLLIVALIANCFGNLRSLLFSLLHSVGMTRVDP--VQNNPAGPHV 58
           MGL  QL D+SS+S+PLL++ALIANC   LRS LFS+ HSVG+ R+D   V ++     +
Sbjct: 1   MGLQNQLNDVSSESIPLLLIALIANCVACLRSFLFSVFHSVGLHRLDQAHVMDDGLLGSI 60

Query: 59  GSGLASLIVLAEQLNKNRAFSYKYNNNNNINKINDNCCCGQGVASSAAGSDCMVCLCTLR 118
           GSG A LIVLAEQ   NR FSYKY            CC G    +   GSDC+VCLCTLR
Sbjct: 61  GSGFAGLIVLAEQRKLNRVFSYKY------------CCGGDSNTNDKGGSDCVVCLCTLR 108

Query: 119 DGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERVWNTRRRVGGDLIQWFSL 178
            G+ VR+LDC HVFHK+C DGWL HLNFNCPLCR P+VS+ERV  TRRRVG D++ W SL
Sbjct: 109 HGDQVRRLDCCHVFHKECFDGWLDHLNFNCPLCRWPLVSDERVEETRRRVGADVVDWLSL 168

Query: 179 R 179
           R
Sbjct: 169 R 169

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255570699|ref|XP_002526304.1| conserved hypothetical protein [Ricinus communis] gi|223534385|gb|EEF36093.1| conserved hypothetical protein [Ricinus communis]

 Score =  180 bits (457), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 103/184 (55%), Positives = 123/184 (66%), Gaps = 6/184 (3%)

Query: 1   MGLHGQLIDLSSDSLPLLIVALIANCFGNLRSLLFSLLHSVGMTRVDPVQNNPAGP---- 56
           MGL  QL D+SSDS+PLL++ALIA    +LRS  FS+ HS+ + R    Q+         
Sbjct: 1   MGLQSQLNDVSSDSIPLLLLALIAKSIDHLRSFFFSIFHSMALPRFTNSQSILFDEGLLI 60

Query: 57  -HVGSGLASLIVLAEQLNKNRAFSYKYNNNNNINKINDNCCCGQGVASSAAGSDCMVCLC 115
             +GSGL+SLIVLAEQLN NR FSY+Y +    N  N N       A    GSDC+VCLC
Sbjct: 61  DSMGSGLSSLIVLAEQLNVNRLFSYRYRSCGG-NDDNHNRGGAGAGAGGGGGSDCVVCLC 119

Query: 116 TLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERVWNTRRRVGGDLIQW 175
            L DG+ VRKLDCRHVFHKDC D WL  L FNCPLCRSP+VS +RV +TR RV GDL+ W
Sbjct: 120 ALSDGDQVRKLDCRHVFHKDCFDDWLRQLKFNCPLCRSPLVSGQRVLSTRSRVAGDLVAW 179

Query: 176 FSLR 179
           FS+R
Sbjct: 180 FSVR 183

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|358348777|ref|XP_003638419.1| RING finger protein [Medicago truncatula] gi|355504354|gb|AES85557.1| RING finger protein [Medicago truncatula] gi|388513305|gb|AFK44714.1| unknown [Medicago truncatula]

 Score =  159 bits (401), Expect = 5e-37,   Method: Compositional matrix adjust.
 Identities = 84/181 (46%), Positives = 112/181 (61%), Gaps = 19/181 (10%)

Query: 1   MGLHGQLIDLSSDSLPLLIVALIANCFGNLRSLLFSLLHSVGMTRV--DPVQNNPAGPHV 58
           MGL  QL D+SSDS+PLL++  IA C   +RS+L + L S+G++R+  D + ++     V
Sbjct: 1   MGLQSQLNDVSSDSIPLLVLMHIATCVNYIRSMLLNFLQSIGLSRLQTDQIVDDHFIAAV 60

Query: 59  GSGLASLIVLAEQLNKNRAFSYKYNNNNNINKINDNCCCGQGVASSAAGSDCMVCLCTLR 118
           GSGLA LI+L++QL+ N  F YKY +                 A+SA    C+ C     
Sbjct: 61  GSGLAGLIMLSDQLSLNNQFFYKYED-----------------AASADNHRCVFCQSNFE 103

Query: 119 DGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERVWNTRRRVGGDLIQWFSL 178
           +G+ VRKL CRHVFH+ CL+GW H  NFNCPLCR  + S+ERV  T RRVG  LI WF+L
Sbjct: 104 NGDHVRKLPCRHVFHRHCLNGWFHRFNFNCPLCRCSLHSDERVALTERRVGSQLISWFTL 163

Query: 179 R 179
           R
Sbjct: 164 R 164

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356536268|ref|XP_003536661.1| PREDICTED: E3 ubiquitin-protein ligase RHA2A-like [Glycine max]

 Score =  153 bits (387), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 83/180 (46%), Positives = 109/180 (60%), Gaps = 14/180 (7%)

Query: 1   MGLHGQLIDLSSDSLPLLIVALIANCFGNLRSLLFSLLHSVGMTRV--DPVQNNPAGPHV 58
           MGL  QL D+SS S+PLL++A IA C   LRS+LF+LL ++G++R   D + +      V
Sbjct: 1   MGLQNQLNDVSSGSIPLLVLAQIATCVNYLRSMLFALLQTLGLSRFHSDQIVDERFLAAV 60

Query: 59  GSGLASLIVLAEQLNKNRAFSYKYNNNNNINKINDNCCCGQGVASSAAGSDCMVCLCTLR 118
           GSGLA LI+L++QL  +  F + ++     +                    C+VC  T  
Sbjct: 61  GSGLAGLIMLSDQLTLSSQFFHHHHGTAAGH------------DHDHDHHPCVVCQATFE 108

Query: 119 DGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERVWNTRRRVGGDLIQWFSL 178
           DG+ VR L CRHVFH+ C DGWLHH  FNCPLCRSP+ S+ERV  T RR+G  LI WFSL
Sbjct: 109 DGDQVRMLPCRHVFHRRCFDGWLHHYKFNCPLCRSPLFSDERVALTERRLGQQLISWFSL 168

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297849936|ref|XP_002892849.1| ring-H2 finger A2A [Arabidopsis lyrata subsp. lyrata] gi|297338691|gb|EFH69108.1| ring-H2 finger A2A [Arabidopsis lyrata subsp. lyrata]

 Score =  151 bits (381), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 87/172 (50%), Positives = 111/172 (64%), Gaps = 26/172 (15%)

Query: 1   MGLHGQLIDLSSDSLPLLIVALIANCFGNLRSLLFSLLHSVGMTRVDPVQNNPAGPHVGS 60
           MGL GQL D+SSDS+PL++++L+A    +LRS L  L  +       PV +      V S
Sbjct: 1   MGLQGQLSDVSSDSIPLMLLSLLAVFINHLRSFLLRL--TAKSNHNLPVDD----VSVAS 54

Query: 61  GLASLIVLAEQLNKNRAFSYKYNNNNNINKINDNCCCGQGVASSAAGSDCMVCLCTLRDG 120
           GLA++IVLA+QL+ NR FSY+               CG G      GSDC+VCL  L++G
Sbjct: 55  GLANIIVLADQLSLNRLFSYR---------------CGDG-----GGSDCVVCLSKLKEG 94

Query: 121 ELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERVWNTRRRVGGDL 172
           E VRKL+CRHVFHK CL+GWLH LNF CPLCRS +VS++ V  T+RRVG DL
Sbjct: 95  EEVRKLECRHVFHKKCLEGWLHQLNFTCPLCRSALVSDDCVSKTQRRVGRDL 146

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15218053|ref|NP_172962.1| E3 ubiquitin-protein ligase RHA2A [Arabidopsis thaliana] gi|50401214|sp|Q9ZT50.1|RHA2A_ARATH RecName: Full=E3 ubiquitin-protein ligase RHA2A; AltName: Full=RING-H2 zinc finger protein RHA2a gi|5103808|gb|AAD39638.1|AC007591_3 Identical to gb|AF078822 RING-H2 finger RHA2a protein from Arabidopsis thaliana. ESTs gb|N37587, gb|T04684, gb|AA394318, gb|Z35014 and gb|AA713343 come from this gene [Arabidopsis thaliana] gi|3790569|gb|AAC68671.1| RING-H2 finger protein RHA2a [Arabidopsis thaliana] gi|19715570|gb|AAL91611.1| At1g15100/F9L1_3 [Arabidopsis thaliana] gi|20334914|gb|AAM16213.1| At1g15100/F9L1_3 [Arabidopsis thaliana] gi|21593875|gb|AAM65842.1| putative RING-H2 zinc finger protein [Arabidopsis thaliana] gi|66865898|gb|AAY57583.1| RING finger family protein [Arabidopsis thaliana] gi|332191143|gb|AEE29264.1| E3 ubiquitin-protein ligase RHA2A [Arabidopsis thaliana]

 Score =  149 bits (375), Expect = 6e-34,   Method: Compositional matrix adjust.
 Identities = 86/182 (47%), Positives = 111/182 (60%), Gaps = 32/182 (17%)

Query: 1   MGLHGQLIDLSSDSLPLLIVALIANCFGNLRSLLFSLLHSVGMTRVDPVQNNPAGP---- 56
           MGL GQL D+SSDS+PL++++L+A    +LRS L  L            ++NP  P    
Sbjct: 1   MGLQGQLSDVSSDSIPLMLLSLLAVFINHLRSFLLRL----------TSKSNPNLPVDDV 50

Query: 57  HVGSGLASLIVLAEQLNKNRAFSYKYNNNNNINKINDNCCCGQGVASSAAGSDCMVCLCT 116
            + SGLA++IVLA+QL+ NR FSY+                         GSDC+VCL  
Sbjct: 51  SIASGLANIIVLADQLSLNRLFSYR------------------CGDGGGGGSDCVVCLSK 92

Query: 117 LRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERVWNTRRRVGGDLIQWF 176
           L++GE VRKL+CRHVFHK CL+GWLH  NF CPLCRS +VS++ V  T+R VG DLI  F
Sbjct: 93  LKEGEEVRKLECRHVFHKKCLEGWLHQFNFTCPLCRSALVSDDCVSKTQRSVGRDLISCF 152

Query: 177 SL 178
           SL
Sbjct: 153 SL 154

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356574248|ref|XP_003555262.1| PREDICTED: E3 ubiquitin-protein ligase RHA2A-like [Glycine max]

 Score =  139 bits (351), Expect = 4e-31,   Method: Compositional matrix adjust.
 Identities = 80/178 (44%), Positives = 102/178 (57%), Gaps = 26/178 (14%)

Query: 1   MGLHGQLIDLSSDSLPLLIVALIANCFGNLRSLLFSLLHSVGMTRVDPVQNNPAGPHVGS 60
           MGL  QL D+SS S+PLL++A IA C   LRS+LF+LL       +    + P+ P    
Sbjct: 1   MGLQNQLNDVSSGSIPLLVLAQIATCVNYLRSMLFALL------SLTSASSPPSDP---- 50

Query: 61  GLASLIVLAEQLNKNRAFSYKYNNNNNINKINDNCCCGQGVASSAAGSDCMVCLCTLRDG 120
           GLA LI+L++QL  +  F + ++                  A       C+VC  T  DG
Sbjct: 51  GLAGLIMLSDQLTLSSQFFHHHHAG----------------AGGHDHHPCVVCQATFEDG 94

Query: 121 ELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERVWNTRRRVGGDLIQWFSL 178
           + VR L CRHVFH+ C DGWLHH  FNCPLCRSP+ S+ERV  T RR+G  LI WFSL
Sbjct: 95  DQVRMLPCRHVFHRRCFDGWLHHYKFNCPLCRSPLFSDERVAVTERRLGQQLISWFSL 152

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18379162|ref|NP_565253.1| putative E3 ubiquitin-protein ligase RHA2B [Arabidopsis thaliana] gi|51316550|sp|Q9ZU51.2|RHA2B_ARATH RecName: Full=Probable E3 ubiquitin-protein ligase RHA2B; AltName: Full=RING-H2 zinc finger protein RHA2b gi|3790571|gb|AAC68672.1| RING-H2 finger protein RHA2b [Arabidopsis thaliana] gi|20197589|gb|AAD14516.2| RING-H2 finger protein RHA2b [Arabidopsis thaliana] gi|98960889|gb|ABF58928.1| At2g01150 [Arabidopsis thaliana] gi|330250313|gb|AEC05407.1| putative E3 ubiquitin-protein ligase RHA2B [Arabidopsis thaliana]

 Score =  138 bits (348), Expect = 7e-31,   Method: Compositional matrix adjust.
 Identities = 76/156 (48%), Positives = 96/156 (61%), Gaps = 36/156 (23%)

Query: 1   MGLHGQLIDLSSDSLPLLIVALIANCFGNLRSLLFSLLHSVGMTRVDPVQNNPAGPHVGS 60
           MGL GQL D+SSDS+PL+++AL+A  F ++RSLL                  P+   V  
Sbjct: 1   MGLQGQLSDVSSDSIPLMLLALLATFFRHVRSLLL----------------FPSSAPVVV 44

Query: 61  GLASLIVLAEQLNKNRAFSYKYNNNNNINKINDNCCCGQGVASSAAGSDCMVCLCTLRDG 120
             ++L VLA+QLN NR FSY+Y++N                    A SDC+VCL  L+ G
Sbjct: 45  VTSNLSVLADQLNLNRLFSYRYSDN--------------------AASDCIVCLSKLKTG 84

Query: 121 ELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVV 156
           E VRKLDCRHVFHK CL+GWL HLNFNCPLCRSP++
Sbjct: 85  EEVRKLDCRHVFHKQCLEGWLQHLNFNCPLCRSPLL 120

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	179
TAIR|locus:2037683	155	RHA2A "RING-H2 finger A2A" [Ar	0.441	0.509	0.621	2.6e-32
TAIR|locus:2038766	147	RHA2B "RING-H2 finger protein	0.301	0.367	0.740	7.1e-25
TAIR|locus:2082757	170	BRH1 "brassinosteroid-responsi	0.284	0.3	0.461	3.6e-12
ASPGD|ASPL0000007802	114	AN5845 [Emericella nidulans (t	0.324	0.508	0.457	9.4e-11
POMBASE|SPCC4G3.12c	821	SPCC4G3.12c "ubiquitin-protein	0.324	0.070	0.423	1.3e-10
UNIPROTKB|G3MWN3	136	G3MWN3 "Uncharacterized protei	0.256	0.338	0.510	1.5e-10
TAIR|locus:2059793	162	XERICO [Arabidopsis thaliana (	0.284	0.314	0.450	1.5e-10
TAIR|locus:2177931	176	AT5G41400 [Arabidopsis thalian	0.301	0.306	0.456	1.5e-10
TAIR|locus:2160215	226	AT5G54990 [Arabidopsis thalian	0.329	0.261	0.433	4.1e-10
TAIR|locus:4515102735	133	AT1G67856 [Arabidopsis thalian	0.340	0.458	0.403	8.4e-10

TAIR|locus:2037683 RHA2A "RING-H2 finger A2A" [Arabidopsis thaliana (taxid:3702)]

 Score = 277 (102.6 bits), Expect = 2.6e-32, Sum P(2) = 2.6e-32
 Identities = 51/82 (62%), Positives = 60/82 (73%)

Query:    97 CGQGVASSAAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVV 156
             CG G      GSDC+VCL  L++GE VRKL+CRHVFHK CL+GWLH  NF CPLCRS +V
Sbjct:    76 CGDG---GGGGSDCVVCLSKLKEGEEVRKLECRHVFHKKCLEGWLHQFNFTCPLCRSALV 132

Query:   157 SEERVWNTRRRVGGDLIQWFSL 178
             S++ V  T+R VG DLI  FSL
Sbjct:   133 SDDCVSKTQRSVGRDLISCFSL 154

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

GO:0005515 "protein binding" evidence=IPI

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

GO:0016567 "protein ubiquitination" evidence=IDA

GO:0009651 "response to salt stress" evidence=IMP

GO:0009789 "positive regulation of abscisic acid mediated signaling pathway" evidence=IMP

GO:0047484 "regulation of response to osmotic stress" evidence=IMP

TAIR|locus:2038766 RHA2B "RING-H2 finger protein 2B" [Arabidopsis thaliana (taxid:3702)]

 Score = 236 (88.1 bits), Expect = 7.1e-25, Sum P(2) = 7.1e-25
 Identities = 40/54 (74%), Positives = 45/54 (83%)

Query:   103 SSAAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVV 156
             S  A SDC+VCL  L+ GE VRKLDCRHVFHK CL+GWL HLNFNCPLCRSP++
Sbjct:    67 SDNAASDCIVCLSKLKTGEEVRKLDCRHVFHKQCLEGWLQHLNFNCPLCRSPLL 120

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

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

GO:0080167 "response to karrikin" evidence=IEP

TAIR|locus:2082757 BRH1 "brassinosteroid-responsive RING-H2" [Arabidopsis thaliana (taxid:3702)]

 Score = 142 (55.0 bits), Expect = 3.6e-12, Sum P(2) = 3.6e-12
 Identities = 24/52 (46%), Positives = 33/52 (63%)

Query:   109 DCMVCLCTLRDGELVRKL-DCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE 159
             +C VCL      + +R L +CRH+FH+ CLD W+ H    CPLCR+P V +E
Sbjct:    93 NCAVCLYEFEGEQEIRWLRNCRHIFHRSCLDRWMDHDQKTCPLCRTPFVPDE 144

GO:0005634 "nucleus" evidence=ISM

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

GO:0009741 "response to brassinosteroid stimulus" evidence=IEP

GO:0010200 "response to chitin" evidence=IEP

GO:0030003 "cellular cation homeostasis" evidence=RCA

GO:0070838 "divalent metal ion transport" evidence=RCA

ASPGD|ASPL0000007802 AN5845 [Emericella nidulans (taxid:162425)]

 Score = 150 (57.9 bits), Expect = 9.4e-11, P = 9.4e-11
 Identities = 27/59 (45%), Positives = 38/59 (64%)

Query:   101 VASSAAGS-DCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSE 158
             +ASS   S  C +CL T+R  +LV  + CRHVFH  CL+ W  + N NCPLC+ P++ +
Sbjct:    42 IASSQPVSPSCCICLDTVRPDDLVHSIPCRHVFHAGCLEFWYLYENDNCPLCQRPLLPQ 100

GO:0008150 "biological_process" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

POMBASE|SPCC4G3.12c SPCC4G3.12c "ubiquitin-protein ligase E3 (predicted)" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 142 (55.0 bits), Expect = 1.3e-10, Sum P(2) = 1.3e-10
 Identities = 25/59 (42%), Positives = 39/59 (66%)

Query:   102 ASSAAGSDCMVCLCTLRDGELVRKLD-CRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE 159
             AS ++   C++CL T  +G++ RKL  C+H FH+ C+D WL   N +CPLCR+  V+ +
Sbjct:   758 ASLSSADSCLICLETYTNGDICRKLQACKHFFHQACIDQWLTTGNNSCPLCRAHGVTTQ 816

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

GO:0005575 "cellular_component" evidence=ND

GO:0008270 "zinc ion binding" evidence=ISM

GO:0016567 "protein ubiquitination" evidence=ISM

UNIPROTKB|G3MWN3 G3MWN3 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 148 (57.2 bits), Expect = 1.5e-10, P = 1.5e-10
 Identities = 24/47 (51%), Positives = 33/47 (70%)

Query:   108 SDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSP 154
             ++C VCL  L  G+L+R L C+HV+H DC++ WL   +F CPLCR P
Sbjct:    80 TECAVCLMDLVPGDLIRPLPCKHVYHLDCINQWLTR-SFTCPLCRGP 125

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2059793 XERICO [Arabidopsis thaliana (taxid:3702)]

 Score = 148 (57.2 bits), Expect = 1.5e-10, P = 1.5e-10
 Identities = 23/51 (45%), Positives = 33/51 (64%)

Query:   106 AGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVV 156
             A ++C VCL   +    + KL C H+FHK CL+ W+ + N  CPLCR+P+V
Sbjct:    99 ADNECSVCLSKFQGDSEINKLKCGHLFHKTCLEKWIDYWNITCPLCRTPLV 149

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

GO:0005515 "protein binding" evidence=IPI

GO:0006970 "response to osmotic stress" evidence=IEP

GO:0009651 "response to salt stress" evidence=IEP

GO:0010200 "response to chitin" evidence=IEP

GO:0009687 "abscisic acid metabolic process" evidence=IMP

GO:0009739 "response to gibberellin stimulus" evidence=IEP

TAIR|locus:2177931 AT5G41400 [Arabidopsis thaliana (taxid:3702)]

 Score = 148 (57.2 bits), Expect = 1.5e-10, P = 1.5e-10
 Identities = 26/57 (45%), Positives = 39/57 (68%)

Query:   106 AGSDCM-VCLCTLRDGELVRKL-DCRHVFHKDCLDGWLHHLN-FNCPLCRSPVVSEE 159
             +GSDC  VCL    + + +R+L +C+H+FH+ CLD W+   N   CPLCR+P +S+E
Sbjct:   100 SGSDCCAVCLHEFENDDEIRRLTNCQHIFHRSCLDRWMMGYNQMTCPLCRTPFISDE 156

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

GO:0006612 "protein targeting to membrane" evidence=RCA

GO:0009963 "positive regulation of flavonoid biosynthetic process" evidence=RCA

GO:0010363 "regulation of plant-type hypersensitive response" evidence=RCA

TAIR|locus:2160215 AT5G54990 [Arabidopsis thaliana (taxid:3702)]

 Score = 144 (55.7 bits), Expect = 4.1e-10, P = 4.1e-10
 Identities = 26/60 (43%), Positives = 33/60 (55%)

Query:    94 NCCCGQGVASSAAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRS 153
             +CCC Q         DC +CL  L  G    KL C HVFH+DC+  WL   N +CP+CR+
Sbjct:   158 DCCCKQKGTCLVPALDCPICLTELSSGVSRMKLPCSHVFHRDCIMTWLKK-NPSCPICRT 216

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:4515102735 AT1G67856 [Arabidopsis thaliana (taxid:3702)]

 Score = 141 (54.7 bits), Expect = 8.4e-10, P = 8.4e-10
 Identities = 25/62 (40%), Positives = 35/62 (56%)

Query:    93 DNCCCGQGVASSAAGSDCMVCLCTLRDGELVRKL-DCRHVFHKDCLDGWLHHLNFNCPLC 151
             ++ C  +G  +     DC VCLC  ++ E V +L  C+H FH  CLD W  + +  CPLC
Sbjct:    70 ESLCENRGSRNEREAMDCCVCLCGFKEEEEVSELVSCKHYFHSACLDKWFGNNHTTCPLC 129

Query:   152 RS 153
             RS
Sbjct:   130 RS 131

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9ZT50	RHA2A_ARATH	6, ., 3, ., 2, ., -	0.4725	0.8379	0.9677	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	179
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	5e-13
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	4e-10
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	8e-10
smart00184	40	smart00184, RING, Ring finger	1e-05
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	5e-05
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	2e-04
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	8e-04
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	0.003

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

 Score = 60.1 bits (146), Expect = 5e-13
 Identities = 24/46 (52%), Positives = 29/46 (63%), Gaps = 1/46 (2%)

Query: 109 DCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSP 154
           +C +CL     GE V  L C HVFHK+CLD WL   +  CPLCR+P
Sbjct: 2   ECPICLDEFEPGEEVVVLPCGHVFHKECLDKWLRS-SNTCPLCRAP 46

Length = 46

>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 = 52.4 bits (126), Expect = 4e-10
 Identities = 20/47 (42%), Positives = 27/47 (57%), Gaps = 2/47 (4%)

Query: 109 DCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPV 155
           +C +CL   R+   V  L C HVF + C+D WL      CPLCR+P+
Sbjct: 1   ECPICLEEFRE--PVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

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

 Score = 56.2 bits (135), Expect = 8e-10
 Identities = 17/49 (34%), Positives = 27/49 (55%)

Query: 107 GSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPV 155
           G +C +C+      + +R L C H FH  C+D WL   +  CP+CR+ +
Sbjct: 323 GVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAI 371

Length = 374

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

 Score = 40.2 bits (94), Expect = 1e-05
 Identities = 14/42 (33%), Positives = 19/42 (45%), Gaps = 2/42 (4%)

Query: 110 CMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLC 151
           C +CL      +    L C H F + C+  WL   N  CP+C
Sbjct: 1   CPICLEEY--LKDPVILPCGHTFCRSCIRKWLESGNNTCPIC 40

E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s). Length = 40

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

 Score = 42.3 bits (99), Expect = 5e-05
 Identities = 14/37 (37%), Positives = 21/37 (56%), Gaps = 1/37 (2%)

Query: 124 RKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEER 160
           ++L C H+ H  CL  WL      CP+CR PV+ ++ 
Sbjct: 314 KRLPCGHILHLHCLKNWLERQQ-TCPICRRPVIFDQS 349

Length = 491

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

 Score = 37.1 bits (86), Expect = 2e-04
 Identities = 17/42 (40%), Positives = 21/42 (50%), Gaps = 2/42 (4%)

Query: 110 CMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLC 151
           C +CL   +D   V  L C H+F   C+  WL   N  CPLC
Sbjct: 1   CPICLEEPKD--PVTILPCGHLFCSKCILSWLESGNVTCPLC 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|206094 pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RING finger)

 Score = 35.5 bits (82), Expect = 8e-04
 Identities = 17/44 (38%), Positives = 24/44 (54%), Gaps = 3/44 (6%)

Query: 110 CMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRS 153
           C +CL  LRD   V    C HVF ++C+  +L      CP+CR+
Sbjct: 5   CPICLDLLRD--PVVLTPCGHVFCRECILRYLKK-KSKCPICRT 45

Length = 45

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

 Score = 34.7 bits (80), Expect = 0.003
 Identities = 14/30 (46%), Positives = 16/30 (53%), Gaps = 1/30 (3%)

Query: 123 VRKLDCRHVFHKDCLDGWLHHLNFNCPLCR 152
           V   +C H FH  C+  WL   N  CPLCR
Sbjct: 45  VVWGECGHAFHLHCISRWLKTRN-TCPLCR 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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	179
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.66
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.53
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.36
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.27
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.22
PHA02929	238	N1R/p28-like protein; Provisional	99.21
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.17
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	99.15
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	99.1
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	99.07
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	99.07
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	99.05
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	99.02
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.99
PHA02926	242	zinc finger-like protein; Provisional	98.91
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.9
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.9
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	98.88
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	98.88
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.86
PF14634	44	zf-RING_5: zinc-RING finger domain	98.82
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.79
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.75
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	98.73
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.57
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.54
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.52
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.51
TIGR00570	309	cdk7 CDK-activating kinase assembly factor MAT1. A	98.35
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.34
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.32
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.31
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	98.31
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.3
KOG2177	386	consensus Predicted E3 ubiquitin ligase [Posttrans	98.29
COG5219	1525	Uncharacterized conserved protein, contains RING Z	98.26
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	98.19
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.16
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	98.13
KOG0824	324	consensus Predicted E3 ubiquitin ligase [Posttrans	98.12
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	98.01
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	97.91
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	97.9
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	97.89
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	97.88
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.87
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	97.71
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.59
KOG4445	368	consensus Uncharacterized conserved protein, conta	97.54
KOG1645	463	consensus RING-finger-containing E3 ubiquitin liga	97.49
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.48
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.46
KOG0297	391	consensus TNF receptor-associated factor [Signal t	97.28
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	97.17
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.13
KOG3039	303	consensus Uncharacterized conserved protein [Funct	97.09
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	97.02
KOG2660	331	consensus Locus-specific chromosome binding protei	96.99
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	96.96
COG5152	259	Uncharacterized conserved protein, contains RING a	96.89
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.87
PHA02825	162	LAP/PHD finger-like protein; Provisional	96.72
COG5222	427	Uncharacterized conserved protein, contains RING Z	96.71
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	96.58
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	96.53
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	96.45
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	96.44
PHA02862	156	5L protein; Provisional	96.35
KOG1002	791	consensus Nucleotide excision repair protein RAD16	96.22
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	96.18
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	96.15
COG5175	480	MOT2 Transcriptional repressor [Transcription]	95.97
PF04641	260	Rtf2: Rtf2 RING-finger	95.96
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	95.81
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	95.79
KOG4739	233	consensus Uncharacterized protein involved in syna	95.74
COG5236	493	Uncharacterized conserved protein, contains RING Z	95.65
KOG4185	296	consensus Predicted E3 ubiquitin ligase [Posttrans	95.51
PHA03096	284	p28-like protein; Provisional	95.42
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	95.41
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	95.4
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	95.33
KOG0801	205	consensus Predicted E3 ubiquitin ligase [Posttrans	95.32
KOG1940	276	consensus Zn-finger protein [General function pred	95.31
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	95.22
KOG3800	300	consensus Predicted E3 ubiquitin ligase containing	95.21
PF07800	162	DUF1644: Protein of unknown function (DUF1644); In	95.18
COG5220	314	TFB3 Cdk activating kinase (CAK)/RNA polymerase II	95.08
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	94.99
KOG3002	299	consensus Zn finger protein [General function pred	94.91
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	94.77
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	94.71
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	94.5
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	94.42
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	94.2
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	93.86
KOG1001	674	consensus Helicase-like transcription factor HLTF/	93.44
KOG4367	699	consensus Predicted Zn-finger protein [Function un	93.19
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	92.9
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	91.9
KOG0309	1081	consensus Conserved WD40 repeat-containing protein	91.64
KOG3053	293	consensus Uncharacterized conserved protein [Funct	91.22
KOG1100	207	consensus Predicted E3 ubiquitin ligase [Posttrans	91.07
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	90.69
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	89.93
KOG3899	381	consensus Uncharacterized conserved protein [Funct	89.34
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	89.09
KOG0298	1394	consensus DEAD box-containing helicase-like transc	88.65
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	88.24
PF02891	50	zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR0041	87.71
KOG0825	1134	consensus PHD Zn-finger protein [General function	87.49
KOG1609	323	consensus Protein involved in mRNA turnover and st	87.44
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	87.17
KOG1829	580	consensus Uncharacterized conserved protein, conta	85.71
smart00249	47	PHD PHD zinc finger. The plant homeodomain (PHD) f	84.88
KOG3161	861	consensus Predicted E3 ubiquitin ligase [Posttrans	83.0

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

Probab=99.66  E-value=2e-16  Score=132.93  Aligned_cols=72  Identities=25%  Similarity=0.665  Sum_probs=57.3

Q ss_pred             HhhhccccccccCCCCCCCCCCCCccCCCCCCCCcCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCC
Q 030323           71 QLNKNRAFSYKYNNNNNINKINDNCCCGQGVASSAAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPL  150 (179)
Q Consensus        71 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~  150 (179)
                      +..+.+++...|.......                ....|+||+|+|..+++++.|||+|.||..||++||......||+
T Consensus       209 k~~l~~~p~~~f~~~~~~~----------------~~~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPv  272 (348)
T KOG4628|consen  209 KRLLKKLPVRTFTKGDDED----------------ATDTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPV  272 (348)
T ss_pred             HHHHhhCCcEEeccccccC----------------CCceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCC
Confidence            3445566777776655411                125999999999999999999999999999999999985566999


Q ss_pred             ccCCCCCC
Q 030323          151 CRSPVVSE  158 (179)
Q Consensus       151 Cr~~~~~~  158 (179)
                      |+..+...
T Consensus       273 CK~di~~~  280 (348)
T KOG4628|consen  273 CKRDIRTD  280 (348)
T ss_pred             CCCcCCCC
Confidence            99987644

>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=99.53  E-value=3.3e-15  Score=90.33  Aligned_cols=44  Identities=50%  Similarity=1.204  Sum_probs=39.7

Q ss_pred             cccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCcc
Q 030323          108 SDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCR  152 (179)
Q Consensus       108 ~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr  152 (179)
                      .+|+||++.+..++.+..++|+|.||.+|+.+|+++ +.+||+||
T Consensus         1 d~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~-~~~CP~CR   44 (44)
T PF13639_consen    1 DECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKR-NNSCPVCR   44 (44)
T ss_dssp             -CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHH-SSB-TTTH
T ss_pred             CCCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHh-CCcCCccC
Confidence            379999999998888999999999999999999998 77999997

...

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

Probab=99.36  E-value=4.2e-13  Score=109.95  Aligned_cols=52  Identities=33%  Similarity=0.919  Sum_probs=47.5

Q ss_pred             CCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCC
Q 030323          106 AGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVS  157 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~  157 (179)
                      ..-+|+|||+.|...++++.+||.|.||..|+++|+...+..||+||.++++
T Consensus       322 ~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP  373 (374)
T COG5540         322 KGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP  373 (374)
T ss_pred             CCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence            3579999999999999999999999999999999998547789999999976

>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=99.27  E-value=3.8e-12  Score=85.14  Aligned_cols=45  Identities=38%  Similarity=0.902  Sum_probs=35.2

Q ss_pred             CcccccccccccCC----------CceEEeCCCCcchHHhHHHHHhcCCCCCCCcc
Q 030323          107 GSDCMVCLCTLRDG----------ELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCR  152 (179)
Q Consensus       107 ~~~C~ICl~~~~~~----------~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr  152 (179)
                      +..|+||++.+.++          -.+...+|+|.||..||.+|+.. +.+||+||
T Consensus        19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~-~~~CP~CR   73 (73)
T PF12678_consen   19 DDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQ-NNTCPLCR   73 (73)
T ss_dssp             CSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTT-SSB-TTSS
T ss_pred             CCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhc-CCcCCCCC
Confidence            45699999999433          23344579999999999999987 77999997

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=99.22  E-value=3.3e-11  Score=101.31  Aligned_cols=51  Identities=31%  Similarity=0.936  Sum_probs=42.4

Q ss_pred             CCccccccccc-ccCCC---------ceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCC
Q 030323          106 AGSDCMVCLCT-LRDGE---------LVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVS  157 (179)
Q Consensus       106 ~~~~C~ICl~~-~~~~~---------~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~  157 (179)
                      ++..|.|||++ +..+.         ....|||||.+|-+|++.|+.+ +.+||+||.++.-
T Consensus       286 ~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ER-qQTCPICr~p~if  346 (491)
T COG5243         286 SDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLER-QQTCPICRRPVIF  346 (491)
T ss_pred             CCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHh-ccCCCcccCcccc
Confidence            47799999999 43331         3467999999999999999997 8899999999643

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.21  E-value=1.2e-11  Score=99.87  Aligned_cols=50  Identities=32%  Similarity=0.907  Sum_probs=40.8

Q ss_pred             CCcccccccccccCCCc----e-EEeCCCCcchHHhHHHHHhcCCCCCCCccCCCC
Q 030323          106 AGSDCMVCLCTLRDGEL----V-RKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVV  156 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~----~-~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~  156 (179)
                      .+.+|+||++.+.++..    . ...+|+|.||..||.+|+.. +.+||+||.++.
T Consensus       173 ~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~-~~tCPlCR~~~~  227 (238)
T PHA02929        173 KDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKE-KNTCPVCRTPFI  227 (238)
T ss_pred             CCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhc-CCCCCCCCCEee
Confidence            46799999998765431    2 33469999999999999986 789999999875

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.17  E-value=2.5e-11  Score=94.65  Aligned_cols=52  Identities=31%  Similarity=0.667  Sum_probs=43.4

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhc---------------CCCCCCCccCCCCCCc
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHH---------------LNFNCPLCRSPVVSEE  159 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~---------------~~~~CP~Cr~~~~~~~  159 (179)
                      .++.+|+||++.++++   ..++|||.||..||..|+..               ....||+||..+...+
T Consensus        16 ~~~~~CpICld~~~dP---VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~   82 (193)
T PLN03208         16 GGDFDCNICLDQVRDP---VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEAT   82 (193)
T ss_pred             CCccCCccCCCcCCCc---EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhc
Confidence            3578999999999888   77889999999999999852               1357999999987654

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

Probab=99.15  E-value=3.8e-11  Score=97.97  Aligned_cols=52  Identities=27%  Similarity=0.679  Sum_probs=46.2

Q ss_pred             CcCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323          104 SAAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE  159 (179)
Q Consensus       104 ~~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~  159 (179)
                      ......|.+|+|...++   ..+||||.||.+||..|... ...||+||.++.+.+
T Consensus       236 ~~a~~kC~LCLe~~~~p---SaTpCGHiFCWsCI~~w~~e-k~eCPlCR~~~~psk  287 (293)
T KOG0317|consen  236 PEATRKCSLCLENRSNP---SATPCGHIFCWSCILEWCSE-KAECPLCREKFQPSK  287 (293)
T ss_pred             CCCCCceEEEecCCCCC---CcCcCcchHHHHHHHHHHcc-ccCCCcccccCCCcc
Confidence            35678999999998888   88999999999999999986 677999999998765

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

Probab=99.10  E-value=9.8e-11  Score=92.98  Aligned_cols=53  Identities=30%  Similarity=0.648  Sum_probs=44.5

Q ss_pred             CcCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcC--CCCCCCccCCCCCCc
Q 030323          104 SAAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHL--NFNCPLCRSPVVSEE  159 (179)
Q Consensus       104 ~~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~--~~~CP~Cr~~~~~~~  159 (179)
                      .....+|.||++.-+++   +++.|||.||+.||.+|++..  ...||+|+..+..+.
T Consensus        44 ~~~~FdCNICLd~akdP---VvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~   98 (230)
T KOG0823|consen   44 DGGFFDCNICLDLAKDP---VVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDT   98 (230)
T ss_pred             CCCceeeeeeccccCCC---EEeecccceehHHHHHHHhhcCCCeeCCccccccccce
Confidence            35678999999998888   777899999999999999863  245899999887553

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

Probab=99.07  E-value=8.8e-11  Score=70.26  Aligned_cols=39  Identities=36%  Similarity=0.922  Sum_probs=30.8

Q ss_pred             cccccccccCCCceEEeCCCCcchHHhHHHHHhcCC---CCCCCc
Q 030323          110 CMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLN---FNCPLC  151 (179)
Q Consensus       110 C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~---~~CP~C  151 (179)
                      |+||++.|.++   +.++|||.|+..||..|....+   ..||.|
T Consensus         1 CpiC~~~~~~P---v~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKDP---VSLPCGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SSE---EE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCCc---cccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            89999999999   8899999999999999987543   369987

>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=99.07  E-value=7.9e-11  Score=72.95  Aligned_cols=46  Identities=35%  Similarity=0.910  Sum_probs=38.6

Q ss_pred             CcccccccccccCCCceEEeCCCCc-chHHhHHHHHhcCCCCCCCccCCCC
Q 030323          107 GSDCMVCLCTLRDGELVRKLDCRHV-FHKDCLDGWLHHLNFNCPLCRSPVV  156 (179)
Q Consensus       107 ~~~C~ICl~~~~~~~~~~~lpC~H~-fh~~Ci~~wl~~~~~~CP~Cr~~~~  156 (179)
                      +..|.||++...+   +..+||||. ||..|+..|+.. ...||+||+++.
T Consensus         2 ~~~C~iC~~~~~~---~~~~pCgH~~~C~~C~~~~~~~-~~~CP~Cr~~i~   48 (50)
T PF13920_consen    2 DEECPICFENPRD---VVLLPCGHLCFCEECAERLLKR-KKKCPICRQPIE   48 (50)
T ss_dssp             HSB-TTTSSSBSS---EEEETTCEEEEEHHHHHHHHHT-TSBBTTTTBB-S
T ss_pred             cCCCccCCccCCc---eEEeCCCChHHHHHHhHHhccc-CCCCCcCChhhc
Confidence            5689999998665   477899999 999999999985 889999999874

...

>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=99.05  E-value=2.1e-10  Score=68.14  Aligned_cols=45  Identities=44%  Similarity=1.097  Sum_probs=36.3

Q ss_pred             ccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCC
Q 030323          109 DCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPV  155 (179)
Q Consensus       109 ~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~  155 (179)
                      +|+||++.+...  ....+|+|.||..|+..|+...+..||+|+..+
T Consensus         1 ~C~iC~~~~~~~--~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEFREP--VVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhhhCc--eEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            599999998433  344459999999999999986567899998754

>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=99.02  E-value=1.6e-10  Score=67.88  Aligned_cols=39  Identities=44%  Similarity=1.018  Sum_probs=32.7

Q ss_pred             cccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCc
Q 030323          110 CMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLC  151 (179)
Q Consensus       110 C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~C  151 (179)
                      |+||++.+.++  +..++|||.||.+|+.+|+.. +.+||+|
T Consensus         1 C~iC~~~~~~~--~~~~~CGH~fC~~C~~~~~~~-~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRDP--VVVTPCGHSFCKECIEKYLEK-NPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SSE--EEECTTSEEEEHHHHHHHHHC-TSB-TTT
T ss_pred             CCCCCCcccCc--CEECCCCCchhHHHHHHHHHC-cCCCcCC
Confidence            89999998774  456789999999999999998 8899998

>smart00504 Ubox Modified RING finger domain

Probab=98.99  E-value=5.4e-10  Score=72.00  Aligned_cols=48  Identities=19%  Similarity=0.420  Sum_probs=42.9

Q ss_pred             cccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323          108 SDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE  159 (179)
Q Consensus       108 ~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~  159 (179)
                      ..|+||.+.+.++   ..++|||.|+++||.+|+.. +.+||+|+.++..++
T Consensus         2 ~~Cpi~~~~~~~P---v~~~~G~v~~~~~i~~~~~~-~~~cP~~~~~~~~~~   49 (63)
T smart00504        2 FLCPISLEVMKDP---VILPSGQTYERRAIEKWLLS-HGTDPVTGQPLTHED   49 (63)
T ss_pred             cCCcCCCCcCCCC---EECCCCCEEeHHHHHHHHHH-CCCCCCCcCCCChhh
Confidence            4799999999998   77899999999999999987 789999999886554

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

>PHA02926 zinc finger-like protein; Provisional

Probab=98.91  E-value=9.2e-10  Score=87.15  Aligned_cols=51  Identities=25%  Similarity=0.695  Sum_probs=38.1

Q ss_pred             CCcccccccccccCC-----CceEEe-CCCCcchHHhHHHHHhcC-----CCCCCCccCCCC
Q 030323          106 AGSDCMVCLCTLRDG-----ELVRKL-DCRHVFHKDCLDGWLHHL-----NFNCPLCRSPVV  156 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~-----~~~~~l-pC~H~fh~~Ci~~wl~~~-----~~~CP~Cr~~~~  156 (179)
                      .+.+|+||+|....+     ..-..| +|+|.||..||..|....     ..+||+||..+.
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            468999999976332     112345 699999999999999753     245999999764

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

Probab=98.90  E-value=8.4e-10  Score=84.45  Aligned_cols=53  Identities=25%  Similarity=0.639  Sum_probs=42.8

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE  159 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~  159 (179)
                      ++-..|+|||+.+..... ..+.|||+||..||...+.. ...||+|++.+..++
T Consensus       129 ~~~~~CPiCl~~~sek~~-vsTkCGHvFC~~Cik~alk~-~~~CP~C~kkIt~k~  181 (187)
T KOG0320|consen  129 EGTYKCPICLDSVSEKVP-VSTKCGHVFCSQCIKDALKN-TNKCPTCRKKITHKQ  181 (187)
T ss_pred             ccccCCCceecchhhccc-cccccchhHHHHHHHHHHHh-CCCCCCcccccchhh
Confidence            456899999999876522 23579999999999999986 779999999776553

>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=98.90  E-value=9.2e-10  Score=65.14  Aligned_cols=40  Identities=45%  Similarity=1.045  Sum_probs=34.1

Q ss_pred             cccccccccCCCceEEeCCCCcchHHhHHHHHh-cCCCCCCCc
Q 030323          110 CMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLH-HLNFNCPLC  151 (179)
Q Consensus       110 C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~-~~~~~CP~C  151 (179)
                      |+||++.+..+  ...++|+|.||..|+.+|+. .....||+|
T Consensus         1 C~iC~~~~~~~--~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFEDP--VILLPCGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSSE--EEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccCC--CEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence            89999998877  23678999999999999999 446679998

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 ....

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

Probab=98.88  E-value=1.8e-09  Score=73.54  Aligned_cols=51  Identities=27%  Similarity=0.637  Sum_probs=37.3

Q ss_pred             CcccccccccccCC--------Cc-eEEe-CCCCcchHHhHHHHHhcC--CCCCCCccCCCCC
Q 030323          107 GSDCMVCLCTLRDG--------EL-VRKL-DCRHVFHKDCLDGWLHHL--NFNCPLCRSPVVS  157 (179)
Q Consensus       107 ~~~C~ICl~~~~~~--------~~-~~~l-pC~H~fh~~Ci~~wl~~~--~~~CP~Cr~~~~~  157 (179)
                      ++.|.||+..|...        +. ...+ .|+|.||..||.+|+...  +..||+||++...
T Consensus        21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~   83 (85)
T PF12861_consen   21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF   83 (85)
T ss_pred             CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence            56888888877521        11 1223 599999999999999853  4689999997653

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

Probab=98.88  E-value=2.1e-09  Score=87.16  Aligned_cols=73  Identities=30%  Similarity=0.650  Sum_probs=60.4

Q ss_pred             cCCcccccccccccCCC-------ceEEeCCCCcchHHhHHHHHhcC-CCCCCCccCCCCCC---cchhhhhhhcccchh
Q 030323          105 AAGSDCMVCLCTLRDGE-------LVRKLDCRHVFHKDCLDGWLHHL-NFNCPLCRSPVVSE---ERVWNTRRRVGGDLI  173 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~-------~~~~lpC~H~fh~~Ci~~wl~~~-~~~CP~Cr~~~~~~---~~~~~~~~~~~~~~~  173 (179)
                      .++..|+||-..+....       ++-.|.|+|+||..||..|...+ ..+||.|+..+..+   +++++.+....+.+.
T Consensus       222 l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~rmfsnpWekph~~yg~Ll  301 (328)
T KOG1734|consen  222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKRMFSNPWEKPHVWYGQLL  301 (328)
T ss_pred             CCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHhhhccCccccchhHHHHHH
Confidence            35779999998775543       56778999999999999997643 57899999988755   468888999999999


Q ss_pred             hccc
Q 030323          174 QWFS  177 (179)
Q Consensus       174 ~~~~  177 (179)
                      ||.|
T Consensus       302 dwlR  305 (328)
T KOG1734|consen  302 DWLR  305 (328)
T ss_pred             HHHH
Confidence            9987

>smart00184 RING Ring finger

Probab=98.86  E-value=3.2e-09  Score=60.81  Aligned_cols=39  Identities=41%  Similarity=1.034  Sum_probs=32.9

Q ss_pred             cccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCc
Q 030323          110 CMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLC  151 (179)
Q Consensus       110 C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~C  151 (179)
                      |+||++.....   ..++|+|.||..|++.|+...+..||+|
T Consensus         1 C~iC~~~~~~~---~~~~C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEELKDP---VVLPCGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCCCCc---EEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence            78999885444   7789999999999999998546789987

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)

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.82  E-value=4.4e-09  Score=63.38  Aligned_cols=44  Identities=27%  Similarity=0.749  Sum_probs=36.8

Q ss_pred             ccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccC
Q 030323          109 DCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRS  153 (179)
Q Consensus       109 ~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~  153 (179)
                      .|+||.+.+........++|||.||..|+..+. .....||+||+
T Consensus         1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~-~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLK-GKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEcccCCHHHHHHHHhhc-CCCCCCcCCCC
Confidence            489999999555566778999999999999987 33678999985

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.79  E-value=3.5e-09  Score=91.23  Aligned_cols=50  Identities=24%  Similarity=0.518  Sum_probs=43.6

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCC
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSE  158 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~  158 (179)
                      .....|+||++.|..+   .+++|+|.||..|+..|+.. ...||+|+..+...
T Consensus        24 e~~l~C~IC~d~~~~P---vitpCgH~FCs~CI~~~l~~-~~~CP~Cr~~~~~~   73 (397)
T TIGR00599        24 DTSLRCHICKDFFDVP---VLTSCSHTFCSLCIRRCLSN-QPKCPLCRAEDQES   73 (397)
T ss_pred             ccccCCCcCchhhhCc---cCCCCCCchhHHHHHHHHhC-CCCCCCCCCccccc
Confidence            3568999999999888   67899999999999999986 66899999988654

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

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

Probab=98.75  E-value=3.7e-09  Score=95.05  Aligned_cols=52  Identities=33%  Similarity=0.907  Sum_probs=44.1

Q ss_pred             cCCcccccccccccCCCc--eEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCC
Q 030323          105 AAGSDCMVCLCTLRDGEL--VRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVS  157 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~--~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~  157 (179)
                      ..+..|+||+|.+..+..  ...+||+|.||..|+..|+.+ +.+||+||..+..
T Consensus       289 ~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er-~qtCP~CR~~~~~  342 (543)
T KOG0802|consen  289 LSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFER-QQTCPTCRTVLYD  342 (543)
T ss_pred             hcCCeeeeechhhccccccccceeecccchHHHHHHHHHHH-hCcCCcchhhhhc
Confidence            347899999999887543  478899999999999999998 8899999995543

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

Probab=98.73  E-value=2.5e-08  Score=86.70  Aligned_cols=96  Identities=21%  Similarity=0.448  Sum_probs=61.7

Q ss_pred             HHHHHHHHHHHHhcccCCCCCCCCCCCCCCCchHHHHHHHHHHhhhccccccccCCCCCCCCCCCCccCCCCCCCCcCCc
Q 030323           29 NLRSLLFSLLHSVGMTRVDPVQNNPAGPHVGSGLASLIVLAEQLNKNRAFSYKYNNNNNINKINDNCCCGQGVASSAAGS  108 (179)
Q Consensus        29 ~l~~~l~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  108 (179)
                      ++...+..+-.++|-+-+.+....++++.+-..                        -..+         .+++-.....
T Consensus       526 lFQv~vLl~Qd~lGsR~FlPkk~lpe~YsY~r~------------------------l~~d---------h~~~~~~~t~  572 (636)
T KOG0828|consen  526 LFQVLVLLVQDYLGSRCFLPKKFLPEKYSYHRR------------------------LQQD---------HLEAFVRRTN  572 (636)
T ss_pred             HHHHHHHHHHhhcccccccchhhCccccccccc------------------------cccc---------cccchhhccc
Confidence            344445555678888887777777665444221                        1100         0001113356


Q ss_pred             ccccccccccCCC--------------ceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCC
Q 030323          109 DCMVCLCTLRDGE--------------LVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVS  157 (179)
Q Consensus       109 ~C~ICl~~~~~~~--------------~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~  157 (179)
                      .|+|||.+..-..              ....+||.|.||..|+.+|....+-.||+||.++++
T Consensus       573 dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp  635 (636)
T KOG0828|consen  573 DCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP  635 (636)
T ss_pred             cceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence            9999999763221              123459999999999999999546689999999875

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

Probab=98.57  E-value=2.9e-08  Score=59.54  Aligned_cols=39  Identities=38%  Similarity=0.780  Sum_probs=22.4

Q ss_pred             cccccccccCCC-ceEEeCCCCcchHHhHHHHHhcC---CCCCC
Q 030323          110 CMVCLCTLRDGE-LVRKLDCRHVFHKDCLDGWLHHL---NFNCP  149 (179)
Q Consensus       110 C~ICl~~~~~~~-~~~~lpC~H~fh~~Ci~~wl~~~---~~~CP  149 (179)
                      |+||.| |...+ ....|+|||.|+.+|++++..+.   ...||
T Consensus         1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP   43 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP   43 (43)
T ss_dssp             -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred             CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence            899999 76633 34778999999999999999853   34576

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

Probab=98.54  E-value=6.4e-08  Score=78.37  Aligned_cols=53  Identities=30%  Similarity=0.592  Sum_probs=44.3

Q ss_pred             CcCCcccccccccccCCCceEEeCCCCcchHHhHHH-HHhcCCCCCCCccCCCCCCc
Q 030323          104 SAAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDG-WLHHLNFNCPLCRSPVVSEE  159 (179)
Q Consensus       104 ~~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~-wl~~~~~~CP~Cr~~~~~~~  159 (179)
                      ...+..|+||++....+   ..++|||.||..||-. |-.++-..||+||+.+.+++
T Consensus       212 p~~d~kC~lC~e~~~~p---s~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~  265 (271)
T COG5574         212 PLADYKCFLCLEEPEVP---SCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK  265 (271)
T ss_pred             cccccceeeeecccCCc---ccccccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence            36689999999998887   8889999999999999 76653345999999887664

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

Probab=98.52  E-value=8.6e-08  Score=64.09  Aligned_cols=49  Identities=31%  Similarity=0.663  Sum_probs=35.6

Q ss_pred             ccccccccccCCCceEEe--CCCCcchHHhHHHHHhcCCCCCCCccCCCCCC
Q 030323          109 DCMVCLCTLRDGELVRKL--DCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSE  158 (179)
Q Consensus       109 ~C~ICl~~~~~~~~~~~l--pC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~  158 (179)
                      .|+-|......+++....  -|.|.||..||.+||.. +..||++|++..-.
T Consensus        33 ~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~T-k~~CPld~q~w~~~   83 (88)
T COG5194          33 TCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDT-KGVCPLDRQTWVLA   83 (88)
T ss_pred             cCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhh-CCCCCCCCceeEEe
Confidence            455555444444444333  39999999999999997 77999999987543

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

Probab=98.51  E-value=6.9e-08  Score=64.43  Aligned_cols=66  Identities=18%  Similarity=0.379  Sum_probs=46.6

Q ss_pred             CCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCcchhhhhhhcccchhhcc
Q 030323          106 AGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERVWNTRRRVGGDLIQWF  176 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~~~~  176 (179)
                      +...|+|+.+.+.++   ..+|+||.|.+.||..|+...+.+||+|+.++..++...  +..+-..+.+|.
T Consensus         3 ~~f~CpIt~~lM~dP---Vi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~p--n~~Lk~~I~~~~   68 (73)
T PF04564_consen    3 DEFLCPITGELMRDP---VILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESDLIP--NRALKSAIEEWC   68 (73)
T ss_dssp             GGGB-TTTSSB-SSE---EEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSEE---HHHHHHHHHHH
T ss_pred             cccCCcCcCcHhhCc---eeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccceE--CHHHHHHHHHHH
Confidence            357899999999999   888999999999999999976789999999887655333  233334444553

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 ....

>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1

Probab=98.35  E-value=4.1e-07  Score=75.85  Aligned_cols=53  Identities=25%  Similarity=0.528  Sum_probs=39.3

Q ss_pred             Cccccccccc-ccCCCc-eEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323          107 GSDCMVCLCT-LRDGEL-VRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE  159 (179)
Q Consensus       107 ~~~C~ICl~~-~~~~~~-~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~  159 (179)
                      +..||+|... +.+++. ..+.+|||.||.+|++..+......||.|+.++...+
T Consensus         3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~   57 (309)
T TIGR00570         3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNN   57 (309)
T ss_pred             CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhh
Confidence            4689999995 334432 1222799999999999976655678999998876554

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).

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

Probab=98.34  E-value=2.7e-07  Score=80.80  Aligned_cols=50  Identities=24%  Similarity=0.644  Sum_probs=40.9

Q ss_pred             CcccccccccccCCCceEEeCCCCcchHHhHHHHHhcC----CCCCCCccCCCCCCc
Q 030323          107 GSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHL----NFNCPLCRSPVVSEE  159 (179)
Q Consensus       107 ~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~----~~~CP~Cr~~~~~~~  159 (179)
                      +..||||++....+   ..+.|||.||..||-+++...    ...||+||..+..++
T Consensus       186 ~~~CPICL~~~~~p---~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kd  239 (513)
T KOG2164|consen  186 DMQCPICLEPPSVP---VRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKD  239 (513)
T ss_pred             CCcCCcccCCCCcc---cccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccc
Confidence            78999999997776   455699999999999876643    246999999988754

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

Probab=98.32  E-value=2.3e-07  Score=77.57  Aligned_cols=50  Identities=22%  Similarity=0.476  Sum_probs=44.2

Q ss_pred             CCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323          106 AGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE  159 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~  159 (179)
                      .-..|-||.|.|..+   ..+||+|.||.-||..+|.. +..||.|+.++.+..
T Consensus        22 ~lLRC~IC~eyf~ip---~itpCsHtfCSlCIR~~L~~-~p~CP~C~~~~~Es~   71 (442)
T KOG0287|consen   22 DLLRCGICFEYFNIP---MITPCSHTFCSLCIRKFLSY-KPQCPTCCVTVTESD   71 (442)
T ss_pred             HHHHHhHHHHHhcCc---eeccccchHHHHHHHHHhcc-CCCCCceecccchhh
Confidence            356999999999998   78899999999999999987 889999998876543

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

Probab=98.31  E-value=1.5e-07  Score=62.43  Aligned_cols=51  Identities=27%  Similarity=0.685  Sum_probs=36.1

Q ss_pred             CCcccccccccccC--------CCce-EEe-CCCCcchHHhHHHHHhcC--CCCCCCccCCCC
Q 030323          106 AGSDCMVCLCTLRD--------GELV-RKL-DCRHVFHKDCLDGWLHHL--NFNCPLCRSPVV  156 (179)
Q Consensus       106 ~~~~C~ICl~~~~~--------~~~~-~~l-pC~H~fh~~Ci~~wl~~~--~~~CP~Cr~~~~  156 (179)
                      .+++|.||.-.|..        ++.. .++ -|.|.||..||.+|+...  +..||+||+...
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            34588888877742        1221 223 399999999999999753  457999998764

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

Probab=98.31  E-value=3.7e-07  Score=78.79  Aligned_cols=51  Identities=29%  Similarity=0.658  Sum_probs=41.3

Q ss_pred             CCcCCcccccccccccCCC-ceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCC
Q 030323          103 SSAAGSDCMVCLCTLRDGE-LVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVV  156 (179)
Q Consensus       103 ~~~~~~~C~ICl~~~~~~~-~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~  156 (179)
                      +..+-++||||+|.+.... .+....|.|.||..|+..|   ...+||+||.-..
T Consensus       171 ~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w---~~~scpvcR~~q~  222 (493)
T KOG0804|consen  171 GLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKW---WDSSCPVCRYCQS  222 (493)
T ss_pred             CcccCCCcchhHhhcCccccceeeeecccccchHHHhhc---ccCcChhhhhhcC
Confidence            4467889999999986553 3455579999999999999   4669999998765

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

Probab=98.30  E-value=9.1e-07  Score=54.53  Aligned_cols=43  Identities=28%  Similarity=0.706  Sum_probs=32.7

Q ss_pred             ccccccccccCCCceEEeCCC-----CcchHHhHHHHHhcC-CCCCCCcc
Q 030323          109 DCMVCLCTLRDGELVRKLDCR-----HVFHKDCLDGWLHHL-NFNCPLCR  152 (179)
Q Consensus       109 ~C~ICl~~~~~~~~~~~lpC~-----H~fh~~Ci~~wl~~~-~~~CP~Cr  152 (179)
                      .|.||++ ...++.....||.     |.+|..|+.+|+... +.+||+|+
T Consensus         1 ~CrIC~~-~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHD-EGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCC-CCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            4889998 3334444567875     789999999999864 45799995

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

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

Probab=98.29  E-value=2.8e-07  Score=74.58  Aligned_cols=45  Identities=31%  Similarity=0.704  Sum_probs=40.2

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccC
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRS  153 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~  153 (179)
                      .+...|+||++.|..+   ..+||+|.||..|+..+.. ....||.||.
T Consensus        11 ~~~~~C~iC~~~~~~p---~~l~C~H~~c~~C~~~~~~-~~~~Cp~cr~   55 (386)
T KOG2177|consen   11 QEELTCPICLEYFREP---VLLPCGHNFCRACLTRSWE-GPLSCPVCRP   55 (386)
T ss_pred             cccccChhhHHHhhcC---ccccccchHhHHHHHHhcC-CCcCCcccCC
Confidence            4678999999999999   8889999999999999877 4678999993

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

Probab=98.26  E-value=3.2e-07  Score=85.11  Aligned_cols=51  Identities=31%  Similarity=0.815  Sum_probs=38.4

Q ss_pred             CCcccccccccccCCC---ceEEe-CCCCcchHHhHHHHHhcC-CCCCCCccCCCC
Q 030323          106 AGSDCMVCLCTLRDGE---LVRKL-DCRHVFHKDCLDGWLHHL-NFNCPLCRSPVV  156 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~---~~~~l-pC~H~fh~~Ci~~wl~~~-~~~CP~Cr~~~~  156 (179)
                      +..+|+||...+..-+   .-... .|+|.||..|+.+|+... +.+||+||.+++
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            6679999998765111   01223 499999999999999864 468999998875

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

Probab=98.19  E-value=1.6e-06  Score=72.98  Aligned_cols=49  Identities=35%  Similarity=0.875  Sum_probs=40.0

Q ss_pred             cCCcccccccccccCCCceEEeCCCCc-chHHhHHHHHhcCCCCCCCccCCCCC
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHV-FHKDCLDGWLHHLNFNCPLCRSPVVS  157 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~-fh~~Ci~~wl~~~~~~CP~Cr~~~~~  157 (179)
                      +...+|.|||.+..+-   .+|||.|. .|..|.+.-.-+ +..||+||+++..
T Consensus       288 ~~gkeCVIClse~rdt---~vLPCRHLCLCs~Ca~~Lr~q-~n~CPICRqpi~~  337 (349)
T KOG4265|consen  288 ESGKECVICLSESRDT---VVLPCRHLCLCSGCAKSLRYQ-TNNCPICRQPIEE  337 (349)
T ss_pred             cCCCeeEEEecCCcce---EEecchhhehhHhHHHHHHHh-hcCCCccccchHh
Confidence            5578999999986665   88999999 999999975433 5689999998853

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

Probab=98.16  E-value=1.1e-06  Score=72.27  Aligned_cols=47  Identities=26%  Similarity=0.591  Sum_probs=41.9

Q ss_pred             CCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCC
Q 030323          106 AGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVV  156 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~  156 (179)
                      .-..|-||-+.+..+   ..++|||.||.-||...|.. +..||+||.+..
T Consensus        24 s~lrC~IC~~~i~ip---~~TtCgHtFCslCIR~hL~~-qp~CP~Cr~~~~   70 (391)
T COG5432          24 SMLRCRICDCRISIP---CETTCGHTFCSLCIRRHLGT-QPFCPVCREDPC   70 (391)
T ss_pred             hHHHhhhhhheeecc---eecccccchhHHHHHHHhcC-CCCCccccccHH
Confidence            356999999999998   77789999999999999986 899999998764

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

Probab=98.13  E-value=3.2e-07  Score=77.08  Aligned_cols=51  Identities=33%  Similarity=0.605  Sum_probs=44.5

Q ss_pred             CCcccccccccccCCCceEEeC-CCCcchHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323          106 AGSDCMVCLCTLRDGELVRKLD-CRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE  159 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~lp-C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~  159 (179)
                      .+..|+||++.++..   ++.+ |.|.||.+||..-+...+..||.||+.+..+-
T Consensus        42 ~~v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Skr   93 (381)
T KOG0311|consen   42 IQVICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKR   93 (381)
T ss_pred             hhhccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccc
Confidence            477999999998876   5555 99999999999999988899999999987664

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

Probab=98.12  E-value=1.5e-06  Score=71.66  Aligned_cols=50  Identities=28%  Similarity=0.568  Sum_probs=43.3

Q ss_pred             CCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCC
Q 030323          106 AGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSE  158 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~  158 (179)
                      ...+|+||+.....+   ..|+|+|.||..||+.-......+|++||.++++.
T Consensus         6 ~~~eC~IC~nt~n~P---v~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~   55 (324)
T KOG0824|consen    6 KKKECLICYNTGNCP---VNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDST   55 (324)
T ss_pred             cCCcceeeeccCCcC---ccccccchhhhhhhcchhhcCCCCCceecCCCCcc
Confidence            467999999987777   77899999999999987776567899999999765

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

Probab=98.01  E-value=1.1e-06  Score=58.10  Aligned_cols=50  Identities=34%  Similarity=0.806  Sum_probs=23.2

Q ss_pred             Cccccccccccc-CCCceEEe----CCCCcchHHhHHHHHhcC--C--------CCCCCccCCCC
Q 030323          107 GSDCMVCLCTLR-DGELVRKL----DCRHVFHKDCLDGWLHHL--N--------FNCPLCRSPVV  156 (179)
Q Consensus       107 ~~~C~ICl~~~~-~~~~~~~l----pC~H~fh~~Ci~~wl~~~--~--------~~CP~Cr~~~~  156 (179)
                      +.+|.||.+... .++.....    .|++.||..|+.+|+...  .        ..||.|+.++.
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            468999999865 33221211    489999999999999742  1        14999998774

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

Probab=97.91  E-value=2e-06  Score=53.57  Aligned_cols=47  Identities=26%  Similarity=0.596  Sum_probs=37.3

Q ss_pred             CcccccccccccCCCceEEeCCCCc-chHHhHHHHHhcCCCCCCCccCCCC
Q 030323          107 GSDCMVCLCTLRDGELVRKLDCRHV-FHKDCLDGWLHHLNFNCPLCRSPVV  156 (179)
Q Consensus       107 ~~~C~ICl~~~~~~~~~~~lpC~H~-fh~~Ci~~wl~~~~~~CP~Cr~~~~  156 (179)
                      +.+|.||+|.-.+.   ....|||. .|.+|-.+-++..+..||+||.++-
T Consensus         7 ~dECTICye~pvds---VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~   54 (62)
T KOG4172|consen    7 SDECTICYEHPVDS---VLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK   54 (62)
T ss_pred             ccceeeeccCcchH---HHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence            37999999986654   44469999 8999988766655789999999763

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

Probab=97.90  E-value=2.3e-06  Score=55.18  Aligned_cols=56  Identities=23%  Similarity=0.636  Sum_probs=27.2

Q ss_pred             CcccccccccccCCCceEEe-CCCCcchHHhHHHHHhcCCCCCCCccCCCCCCcchhhhhhhccc
Q 030323          107 GSDCMVCLCTLRDGELVRKL-DCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERVWNTRRRVGG  170 (179)
Q Consensus       107 ~~~C~ICl~~~~~~~~~~~l-pC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~  170 (179)
                      -..|++|.+.+..+   ..+ .|.|.||..||..-+.   ..||+|+.+.-.+  ..+.++++.+
T Consensus         7 lLrCs~C~~~l~~p---v~l~~CeH~fCs~Ci~~~~~---~~CPvC~~Paw~q--D~~~NrqLd~   63 (65)
T PF14835_consen    7 LLRCSICFDILKEP---VCLGGCEHIFCSSCIRDCIG---SECPVCHTPAWIQ--DIQINRQLDS   63 (65)
T ss_dssp             TTS-SSS-S--SS----B---SSS--B-TTTGGGGTT---TB-SSS--B-S-S--S----HHHHH
T ss_pred             hcCCcHHHHHhcCC---ceeccCccHHHHHHhHHhcC---CCCCCcCChHHHH--HHHhhhhhhc
Confidence            46899999999888   555 5999999999987543   4699998866544  4455566543

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

Probab=97.89  E-value=1.2e-05  Score=56.46  Aligned_cols=49  Identities=27%  Similarity=0.612  Sum_probs=35.5

Q ss_pred             CCccccccccccc------------CCCceEE-e-CCCCcchHHhHHHHHhcCCCCCCCccCCC
Q 030323          106 AGSDCMVCLCTLR------------DGELVRK-L-DCRHVFHKDCLDGWLHHLNFNCPLCRSPV  155 (179)
Q Consensus       106 ~~~~C~ICl~~~~------------~~~~~~~-l-pC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~  155 (179)
                      .-..|+||..-+-            ..++..+ - -|.|.||..||.+|++. +..||+|.++-
T Consensus        45 ~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlkt-r~vCPLdn~eW  107 (114)
T KOG2930|consen   45 VVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKT-RNVCPLDNKEW  107 (114)
T ss_pred             eechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhh-cCcCCCcCcce
Confidence            4678999876431            1122233 3 49999999999999997 78999997653

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

Probab=97.88  E-value=6.7e-06  Score=70.02  Aligned_cols=50  Identities=24%  Similarity=0.740  Sum_probs=38.0

Q ss_pred             CcccccccccccCCCceEEeC-CCCcchHHhHHHHHhcCC--CCCCCccCCCC
Q 030323          107 GSDCMVCLCTLRDGELVRKLD-CRHVFHKDCLDGWLHHLN--FNCPLCRSPVV  156 (179)
Q Consensus       107 ~~~C~ICl~~~~~~~~~~~lp-C~H~fh~~Ci~~wl~~~~--~~CP~Cr~~~~  156 (179)
                      .+.|.||.+.+-....+.... |||.||..|+.+|+....  ..||+|+-.+.
T Consensus         4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~   56 (465)
T KOG0827|consen    4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQ   56 (465)
T ss_pred             cceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeeccc
Confidence            468999966555555555565 999999999999998643  47999994443

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

Probab=97.87  E-value=4.1e-06  Score=76.49  Aligned_cols=51  Identities=24%  Similarity=0.566  Sum_probs=42.6

Q ss_pred             CCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323          106 AGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE  159 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~  159 (179)
                      +-..|++|-...++.   +...|+|.||..|+..-+...+..||.|..+|.+.|
T Consensus       642 ~~LkCs~Cn~R~Kd~---vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganD  692 (698)
T KOG0978|consen  642 ELLKCSVCNTRWKDA---VITKCGHVFCEECVQTRYETRQRKCPKCNAAFGAND  692 (698)
T ss_pred             hceeCCCccCchhhH---HHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccc
Confidence            356999999776654   545699999999999999877899999999997765

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

Probab=97.71  E-value=1.6e-05  Score=67.61  Aligned_cols=51  Identities=27%  Similarity=0.782  Sum_probs=38.7

Q ss_pred             cCCcccccccccccCCC----ceEEeC-CCCcchHHhHHHHHhcCC------CCCCCccCCC
Q 030323          105 AAGSDCMVCLCTLRDGE----LVRKLD-CRHVFHKDCLDGWLHHLN------FNCPLCRSPV  155 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~----~~~~lp-C~H~fh~~Ci~~wl~~~~------~~CP~Cr~~~  155 (179)
                      ..+..|.||++......    .-..+| |.|.||..||..|-...+      +.||.||...
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s  220 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS  220 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence            45789999999865542    122345 999999999999985433      6799999855

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

Probab=97.59  E-value=3.4e-05  Score=66.83  Aligned_cols=49  Identities=35%  Similarity=0.702  Sum_probs=43.5

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCC
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVS  157 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~  157 (179)
                      ..+..|.||+..+..+   +.+||||.||..|+++-+.. ...||.||.++..
T Consensus        82 ~sef~c~vc~~~l~~p---v~tpcghs~c~~Cl~r~ld~-~~~cp~Cr~~l~e  130 (398)
T KOG4159|consen   82 RSEFECCVCSRALYPP---VVTPCGHSFCLECLDRSLDQ-ETECPLCRDELVE  130 (398)
T ss_pred             cchhhhhhhHhhcCCC---ccccccccccHHHHHHHhcc-CCCCccccccccc
Confidence            4578999999999998   77899999999999997774 7789999999975

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

Probab=97.54  E-value=2.4e-05  Score=64.69  Aligned_cols=54  Identities=28%  Similarity=0.679  Sum_probs=44.5

Q ss_pred             CCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcC----------------------CCCCCCccCCCCCCc
Q 030323          106 AGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHL----------------------NFNCPLCRSPVVSEE  159 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~----------------------~~~CP~Cr~~~~~~~  159 (179)
                      ....|.||+--|..++....++|.|.||..|+.++|..-                      ...||+||..+..+.
T Consensus       114 p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~  189 (368)
T KOG4445|consen  114 PNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEE  189 (368)
T ss_pred             CCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccccc
Confidence            467999999999999888999999999999998876321                      236999999886553

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

Probab=97.49  E-value=7e-05  Score=64.28  Aligned_cols=53  Identities=28%  Similarity=0.832  Sum_probs=39.8

Q ss_pred             CcccccccccccCCCc--eEEeCCCCcchHHhHHHHHhcC-CCCCCCccCCCCCCc
Q 030323          107 GSDCMVCLCTLRDGEL--VRKLDCRHVFHKDCLDGWLHHL-NFNCPLCRSPVVSEE  159 (179)
Q Consensus       107 ~~~C~ICl~~~~~~~~--~~~lpC~H~fh~~Ci~~wl~~~-~~~CP~Cr~~~~~~~  159 (179)
                      ..+|+||++.+.-+-.  +..+.|||.|-.+||++|+.+. ...||.|......++
T Consensus         4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katkr~   59 (463)
T KOG1645|consen    4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATKRQ   59 (463)
T ss_pred             cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHHHH
Confidence            5799999998765433  3344599999999999999642 357999977655443

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

Probab=97.48  E-value=2.4e-05  Score=71.82  Aligned_cols=49  Identities=22%  Similarity=0.489  Sum_probs=38.1

Q ss_pred             CcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCC
Q 030323          107 GSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVV  156 (179)
Q Consensus       107 ~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~  156 (179)
                      ...|++|+..+.+.......+|+|.||..|+..|-.. ..+||+||..+.
T Consensus       123 ~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~-aqTCPiDR~EF~  171 (1134)
T KOG0825|consen  123 ENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRC-AQTCPVDRGEFG  171 (1134)
T ss_pred             hhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhh-cccCchhhhhhh
Confidence            3456666666655544555679999999999999886 679999999875

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

Probab=97.46  E-value=7.2e-05  Score=47.50  Aligned_cols=44  Identities=23%  Similarity=0.556  Sum_probs=29.2

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhc-CCCCCCC
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHH-LNFNCPL  150 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~-~~~~CP~  150 (179)
                      .-...|||.+..|++|  ++...|+|.|-++.|.+|+.. ....||+
T Consensus         9 ~~~~~CPiT~~~~~~P--V~s~~C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen    9 TISLKCPITLQPFEDP--VKSKKCGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             B--SB-TTTSSB-SSE--EEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             EeccCCCCcCChhhCC--cCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence            3468999999999988  444479999999999999943 2456998

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

Probab=97.28  E-value=0.00011  Score=63.72  Aligned_cols=53  Identities=30%  Similarity=0.672  Sum_probs=45.0

Q ss_pred             cCCcccccccccccCCCceEE-eCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCcch
Q 030323          105 AAGSDCMVCLCTLRDGELVRK-LDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERV  161 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~-lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~  161 (179)
                      .++..|++|+..+.++   .. ..|||.||..|+..|+.. +..||.|+..+...+..
T Consensus        19 ~~~l~C~~C~~vl~~p---~~~~~cgh~fC~~C~~~~~~~-~~~cp~~~~~~~~~~~~   72 (391)
T KOG0297|consen   19 DENLLCPICMSVLRDP---VQTTTCGHRFCAGCLLESLSN-HQKCPVCRQELTQAEEL   72 (391)
T ss_pred             cccccCccccccccCC---CCCCCCCCcccccccchhhcc-CcCCcccccccchhhcc
Confidence            4578999999999988   44 479999999999999997 88999998888655543

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

Probab=97.17  E-value=0.00043  Score=55.32  Aligned_cols=53  Identities=30%  Similarity=0.766  Sum_probs=43.2

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcC-------CCCCCCccCCCCCC
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHL-------NFNCPLCRSPVVSE  158 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~-------~~~CP~Cr~~~~~~  158 (179)
                      +....|..|-..+..++.++ |-|-|.||..|++.|-...       ...||-|..++.+.
T Consensus        48 DY~pNC~LC~t~La~gdt~R-LvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp  107 (299)
T KOG3970|consen   48 DYNPNCRLCNTPLASGDTTR-LVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPP  107 (299)
T ss_pred             CCCCCCceeCCccccCccee-ehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCC
Confidence            45679999999998887766 6699999999999997542       24799999988654

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

Probab=97.13  E-value=0.00021  Score=61.45  Aligned_cols=50  Identities=24%  Similarity=0.583  Sum_probs=38.9

Q ss_pred             CCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcC-CCCCCCccCCCCCC
Q 030323          106 AGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHL-NFNCPLCRSPVVSE  158 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~-~~~CP~Cr~~~~~~  158 (179)
                      .-.-|-||-|.=   +.+++=||||..|..|+..|-... ..+||.||.++...
T Consensus       368 TFeLCKICaend---KdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGt  418 (563)
T KOG1785|consen  368 TFELCKICAEND---KDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGT  418 (563)
T ss_pred             hHHHHHHhhccC---CCcccccccchHHHHHHHhhcccCCCCCCCceeeEeccc
Confidence            345799998763   334666999999999999998653 57899999987543

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.09  E-value=0.00042  Score=56.03  Aligned_cols=61  Identities=20%  Similarity=0.301  Sum_probs=50.5

Q ss_pred             cCCcccccccccccCCCceEEe-CCCCcchHHhHHHHHhcCCCCCCCccCCCCCCcchhhhhh
Q 030323          105 AAGSDCMVCLCTLRDGELVRKL-DCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERVWNTRR  166 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~l-pC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~~~~~  166 (179)
                      +....||||.+.+.+......| ||||+|+.+|+++.+.. ...||+|-.++..++-..-.+.
T Consensus       219 s~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~-D~v~pv~d~plkdrdiI~LqrG  280 (303)
T KOG3039|consen  219 SKRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRK-DMVDPVTDKPLKDRDIIGLQRG  280 (303)
T ss_pred             ccceecccchhhhcCccceEEeccCCcEeeHHHHHHhccc-cccccCCCCcCcccceEeeecc
Confidence            3567999999999998777777 79999999999998775 8899999999887775444333

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

Probab=97.02  E-value=0.00065  Score=55.72  Aligned_cols=53  Identities=23%  Similarity=0.434  Sum_probs=40.9

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhc-CCCCCCCccCCCCCCc
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHH-LNFNCPLCRSPVVSEE  159 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~-~~~~CP~Cr~~~~~~~  159 (179)
                      ..+.+|++|-+.-..|  ....+|+|.||.-|+..-... ...+||.|..++.+-+
T Consensus       237 t~~~~C~~Cg~~PtiP--~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~lq  290 (298)
T KOG2879|consen  237 TSDTECPVCGEPPTIP--HVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVEPLQ  290 (298)
T ss_pred             cCCceeeccCCCCCCC--eeeccccceeehhhhhhhhcchhhcccCccCCCCcchh
Confidence            4678999999997777  233479999999999975542 2479999998886443

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

Probab=96.99  E-value=0.00019  Score=60.12  Aligned_cols=49  Identities=27%  Similarity=0.599  Sum_probs=41.5

Q ss_pred             CCcccccccccccCCCceEEeC-CCCcchHHhHHHHHhcCCCCCCCccCCCCCC
Q 030323          106 AGSDCMVCLCTLRDGELVRKLD-CRHVFHKDCLDGWLHHLNFNCPLCRSPVVSE  158 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~lp-C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~  158 (179)
                      ...+|.+|...|.+.   .+.. |-|.||++||...+.. +..||.|...+...
T Consensus        14 ~~itC~LC~GYliDA---TTI~eCLHTFCkSCivk~l~~-~~~CP~C~i~ih~t   63 (331)
T KOG2660|consen   14 PHITCRLCGGYLIDA---TTITECLHTFCKSCIVKYLEE-SKYCPTCDIVIHKT   63 (331)
T ss_pred             cceehhhccceeecc---hhHHHHHHHHHHHHHHHHHHH-hccCCccceeccCc
Confidence            467999999999887   5555 9999999999999997 88999998766433

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

Probab=96.96  E-value=0.0006  Score=41.65  Aligned_cols=46  Identities=24%  Similarity=0.516  Sum_probs=22.7

Q ss_pred             cccccccccCCC-ceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCC
Q 030323          110 CMVCLCTLRDGE-LVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPV  155 (179)
Q Consensus       110 C~ICl~~~~~~~-~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~  155 (179)
                      |++|.+++...+ ....-+|++..|..|...-+...+..||-||.+.
T Consensus         1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y   47 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY   47 (48)
T ss_dssp             -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred             CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence            789999884332 2233358899999998887765578999999864

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

Probab=96.89  E-value=0.00036  Score=54.77  Aligned_cols=45  Identities=18%  Similarity=0.352  Sum_probs=38.6

Q ss_pred             cccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCC
Q 030323          108 SDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVV  156 (179)
Q Consensus       108 ~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~  156 (179)
                      ..|.||.++|..+   +++.|||.||..|...-++. ...|-+|.+...
T Consensus       197 F~C~iCKkdy~sp---vvt~CGH~FC~~Cai~~y~k-g~~C~~Cgk~t~  241 (259)
T COG5152         197 FLCGICKKDYESP---VVTECGHSFCSLCAIRKYQK-GDECGVCGKATY  241 (259)
T ss_pred             eeehhchhhccch---hhhhcchhHHHHHHHHHhcc-CCcceecchhhc
Confidence            4899999999998   77789999999999987775 778999977553

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

Probab=96.87  E-value=0.00039  Score=59.60  Aligned_cols=48  Identities=31%  Similarity=0.654  Sum_probs=39.1

Q ss_pred             CCcccccccccccC-CCceEEeCCCCcchHHhHHHHHhcC-CCCCCCccC
Q 030323          106 AGSDCMVCLCTLRD-GELVRKLDCRHVFHKDCLDGWLHHL-NFNCPLCRS  153 (179)
Q Consensus       106 ~~~~C~ICl~~~~~-~~~~~~lpC~H~fh~~Ci~~wl~~~-~~~CP~Cr~  153 (179)
                      .+..|..|-+.+.- ++....|||.|.||..|+...+.+. ..+||-||+
T Consensus       364 ~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk  413 (518)
T KOG1941|consen  364 TELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK  413 (518)
T ss_pred             HhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence            46789999998763 4566778999999999999988752 368999993

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=96.72  E-value=0.0019  Score=49.06  Aligned_cols=50  Identities=24%  Similarity=0.642  Sum_probs=36.8

Q ss_pred             cCCcccccccccccCCCceEEeCCC--C---cchHHhHHHHHhcC-CCCCCCccCCCCCC
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCR--H---VFHKDCLDGWLHHL-NFNCPLCRSPVVSE  158 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~--H---~fh~~Ci~~wl~~~-~~~CP~Cr~~~~~~  158 (179)
                      ..+..|-||.+.-..    ..-||.  .   ..|.+|++.|+... ..+|++|+.+..-.
T Consensus         6 ~~~~~CRIC~~~~~~----~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~   61 (162)
T PHA02825          6 LMDKCCWICKDEYDV----VTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK   61 (162)
T ss_pred             CCCCeeEecCCCCCC----ccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence            457899999988432    224654  3   56999999999864 45799999887543

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

Probab=96.71  E-value=0.00098  Score=55.40  Aligned_cols=43  Identities=35%  Similarity=0.857  Sum_probs=36.7

Q ss_pred             cccccccccccCCCceEEeC-CCCcchHHhHHHHHhcCCCCCCCccC
Q 030323          108 SDCMVCLCTLRDGELVRKLD-CRHVFHKDCLDGWLHHLNFNCPLCRS  153 (179)
Q Consensus       108 ~~C~ICl~~~~~~~~~~~lp-C~H~fh~~Ci~~wl~~~~~~CP~Cr~  153 (179)
                      ..|+.|-..+.++   ..+| |+|.||.+||...|....+.||.|..
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            7899999988887   4456 89999999999888766899999954

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

Probab=96.58  E-value=0.0011  Score=49.07  Aligned_cols=35  Identities=20%  Similarity=0.532  Sum_probs=29.6

Q ss_pred             CcccccccccccCCCceEEeCCC------CcchHHhHHHHH
Q 030323          107 GSDCMVCLCTLRDGELVRKLDCR------HVFHKDCLDGWL  141 (179)
Q Consensus       107 ~~~C~ICl~~~~~~~~~~~lpC~------H~fh~~Ci~~wl  141 (179)
                      ..+|+||++.+.+.+.++.++|+      |.||.+|+.+|-
T Consensus        26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~   66 (134)
T PF05883_consen   26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWR   66 (134)
T ss_pred             CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHH
Confidence            56999999999885667777775      789999999994

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.

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

Probab=96.53  E-value=0.00091  Score=55.38  Aligned_cols=48  Identities=17%  Similarity=0.345  Sum_probs=40.8

Q ss_pred             CcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCC
Q 030323          107 GSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSE  158 (179)
Q Consensus       107 ~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~  158 (179)
                      ...|-||...|..+   ++..|+|.||..|...-++. ...|++|.+.....
T Consensus       241 Pf~c~icr~~f~~p---Vvt~c~h~fc~~ca~~~~qk-~~~c~vC~~~t~g~  288 (313)
T KOG1813|consen  241 PFKCFICRKYFYRP---VVTKCGHYFCEVCALKPYQK-GEKCYVCSQQTHGS  288 (313)
T ss_pred             Cccccccccccccc---hhhcCCceeehhhhcccccc-CCcceecccccccc
Confidence            45699999999999   77789999999999887775 77999998876543

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=96.45  E-value=0.0016  Score=40.75  Aligned_cols=47  Identities=26%  Similarity=0.661  Sum_probs=34.5

Q ss_pred             CcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323          107 GSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE  159 (179)
Q Consensus       107 ~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~  159 (179)
                      ...|-.|...-..+   ..+||+|..+..|..-+   .-..||.|.+++...+
T Consensus         7 ~~~~~~~~~~~~~~---~~~pCgH~I~~~~f~~~---rYngCPfC~~~~~~~~   53 (55)
T PF14447_consen    7 EQPCVFCGFVGTKG---TVLPCGHLICDNCFPGE---RYNGCPFCGTPFEFDD   53 (55)
T ss_pred             ceeEEEcccccccc---ccccccceeeccccChh---hccCCCCCCCcccCCC
Confidence            34566666554444   77899999999998865   2458999999886554

>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=96.44  E-value=0.0013  Score=46.19  Aligned_cols=32  Identities=28%  Similarity=0.671  Sum_probs=26.8

Q ss_pred             CCcccccccccccCCCceEEeCCCCcchHHhHH
Q 030323          106 AGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLD  138 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~  138 (179)
                      ++..|++|-..+.. ......||||.||..|+.
T Consensus        77 ~~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~  108 (109)
T PF10367_consen   77 ESTKCSVCGKPLGN-SVFVVFPCGHVVHYSCIK  108 (109)
T ss_pred             CCCCccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence            46789999999877 456677999999999975

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 [].

>PHA02862 5L protein; Provisional

Probab=96.35  E-value=0.0032  Score=47.04  Aligned_cols=48  Identities=21%  Similarity=0.536  Sum_probs=35.4

Q ss_pred             CcccccccccccCCCceEEeCCC-----CcchHHhHHHHHhcC-CCCCCCccCCCCCC
Q 030323          107 GSDCMVCLCTLRDGELVRKLDCR-----HVFHKDCLDGWLHHL-NFNCPLCRSPVVSE  158 (179)
Q Consensus       107 ~~~C~ICl~~~~~~~~~~~lpC~-----H~fh~~Ci~~wl~~~-~~~CP~Cr~~~~~~  158 (179)
                      ...|-||.+.-.+.    .-||.     ...|.+|+.+|+... +..|++|+.+..-+
T Consensus         2 ~diCWIC~~~~~e~----~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik   55 (156)
T PHA02862          2 SDICWICNDVCDER----NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIK   55 (156)
T ss_pred             CCEEEEecCcCCCC----cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEE
Confidence            35899999984332    34664     459999999999853 35799999987543

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

Probab=96.22  E-value=0.0022  Score=57.12  Aligned_cols=51  Identities=22%  Similarity=0.576  Sum_probs=40.6

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhc----CCCCCCCccCCCCCC
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHH----LNFNCPLCRSPVVSE  158 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~----~~~~CP~Cr~~~~~~  158 (179)
                      .++..|.+|-+.-++.   ....|.|.||+.|+..+...    .+-+||+|...+.-+
T Consensus       534 k~~~~C~lc~d~aed~---i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiD  588 (791)
T KOG1002|consen  534 KGEVECGLCHDPAEDY---IESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSID  588 (791)
T ss_pred             cCceeecccCChhhhh---HhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccccc
Confidence            3577999999987776   66779999999999877643    256899998877644

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

Probab=96.18  E-value=0.0058  Score=51.93  Aligned_cols=45  Identities=27%  Similarity=0.497  Sum_probs=34.1

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCC
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVV  156 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~  156 (179)
                      .....|.||++...+-   ..+||||.-|  |..--.  +..+||+||..+.
T Consensus       303 ~~p~lcVVcl~e~~~~---~fvpcGh~cc--ct~cs~--~l~~CPvCR~rI~  347 (355)
T KOG1571|consen  303 PQPDLCVVCLDEPKSA---VFVPCGHVCC--CTLCSK--HLPQCPVCRQRIR  347 (355)
T ss_pred             CCCCceEEecCCccce---eeecCCcEEE--chHHHh--hCCCCchhHHHHH
Confidence            4578999999987664   7889999965  655432  2567999998764

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

Probab=96.15  E-value=0.0037  Score=37.98  Aligned_cols=41  Identities=32%  Similarity=0.831  Sum_probs=26.3

Q ss_pred             cccccccccCCCceEEeCCC--C---cchHHhHHHHHhcC-CCCCCCc
Q 030323          110 CMVCLCTLRDGELVRKLDCR--H---VFHKDCLDGWLHHL-NFNCPLC  151 (179)
Q Consensus       110 C~ICl~~~~~~~~~~~lpC~--H---~fh~~Ci~~wl~~~-~~~CP~C  151 (179)
                      |-||++.-...+ .-..||+  -   ..|.+|+.+|+... +.+|++|
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            678888765543 2345753  3   68999999999852 4579887

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=95.97  E-value=0.0055  Score=51.88  Aligned_cols=53  Identities=21%  Similarity=0.402  Sum_probs=39.9

Q ss_pred             CCcccccccccccCCCc-eEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCC
Q 030323          106 AGSDCMVCLCTLRDGEL-VRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSE  158 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~-~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~  158 (179)
                      ++..||.|+|.+...++ ....|||-..|..|...--+..+.+||-||.....+
T Consensus        13 eed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~de   66 (480)
T COG5175          13 EEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDE   66 (480)
T ss_pred             ccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhcccc
Confidence            45569999998765433 334578988999998876666678999999877654

>PF04641 Rtf2: Rtf2 RING-finger

Probab=95.96  E-value=0.011  Score=48.58  Aligned_cols=54  Identities=24%  Similarity=0.391  Sum_probs=42.9

Q ss_pred             CcCCcccccccccccCCCceEEe-CCCCcchHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323          104 SAAGSDCMVCLCTLRDGELVRKL-DCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE  159 (179)
Q Consensus       104 ~~~~~~C~ICl~~~~~~~~~~~l-pC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~  159 (179)
                      ......|||....|........+ ||||+|...++..--  ....||+|-.++...+
T Consensus       110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k--~~~~Cp~c~~~f~~~D  164 (260)
T PF04641_consen  110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK--KSKKCPVCGKPFTEED  164 (260)
T ss_pred             CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc--ccccccccCCccccCC
Confidence            35678999999999665555555 899999999999862  2568999999987664

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

Probab=95.81  E-value=0.0087  Score=51.76  Aligned_cols=47  Identities=28%  Similarity=0.590  Sum_probs=37.2

Q ss_pred             CcccccccccccCCCceEEeCCCCcchHHhHHHHHhcC-------CCCCCCccC
Q 030323          107 GSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHL-------NFNCPLCRS  153 (179)
Q Consensus       107 ~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~-------~~~CP~Cr~  153 (179)
                      -..|.||++..........+||+|+||+.|...++...       .-.||-+.-
T Consensus       184 lf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C  237 (445)
T KOG1814|consen  184 LFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC  237 (445)
T ss_pred             cccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence            56999999998766778889999999999999987632       125776644

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

Probab=95.79  E-value=0.0064  Score=51.72  Aligned_cols=49  Identities=18%  Similarity=0.445  Sum_probs=40.8

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCC
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVS  157 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~  157 (179)
                      .++..|+||...-...   ...||+|.=|..||.+.+.+ .+.|=.|+..+..
T Consensus       420 sEd~lCpICyA~pi~A---vf~PC~H~SC~~CI~qHlmN-~k~CFfCktTv~~  468 (489)
T KOG4692|consen  420 SEDNLCPICYAGPINA---VFAPCSHRSCYGCITQHLMN-CKRCFFCKTTVID  468 (489)
T ss_pred             cccccCcceecccchh---hccCCCCchHHHHHHHHHhc-CCeeeEecceeee
Confidence            5688999999764443   56799999999999999987 8899999987763

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

Probab=95.74  E-value=0.005  Score=49.70  Aligned_cols=44  Identities=30%  Similarity=0.617  Sum_probs=31.5

Q ss_pred             ccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCC
Q 030323          109 DCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVV  156 (179)
Q Consensus       109 ~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~  156 (179)
                      -|..|.-.-. ++....+.|.|+||..|...-   ....||+|++++-
T Consensus         5 hCn~C~~~~~-~~~f~LTaC~HvfC~~C~k~~---~~~~C~lCkk~ir   48 (233)
T KOG4739|consen    5 HCNKCFRFPS-QDPFFLTACRHVFCEPCLKAS---SPDVCPLCKKSIR   48 (233)
T ss_pred             EeccccccCC-CCceeeeechhhhhhhhcccC---Cccccccccceee
Confidence            4666654433 556677789999999997752   2338999999863

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

Probab=95.65  E-value=0.02  Score=48.76  Aligned_cols=48  Identities=21%  Similarity=0.546  Sum_probs=37.2

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHh-cCCCCCCCccCCC
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLH-HLNFNCPLCRSPV  155 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~-~~~~~CP~Cr~~~  155 (179)
                      ++...|.||-+...-.   ..+||+|..|..|.-+.-. ..++.||+||.+-
T Consensus        59 Een~~C~ICA~~~TYs---~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~  107 (493)
T COG5236          59 EENMNCQICAGSTTYS---ARYPCGHQICHACAVRLRALYMQKGCPLCRTET  107 (493)
T ss_pred             cccceeEEecCCceEE---EeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence            5677999999876654   6789999999999875321 2367899999864

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

Probab=95.51  E-value=0.012  Score=48.93  Aligned_cols=49  Identities=24%  Similarity=0.634  Sum_probs=39.9

Q ss_pred             CcccccccccccCCC---ceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCC
Q 030323          107 GSDCMVCLCTLRDGE---LVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPV  155 (179)
Q Consensus       107 ~~~C~ICl~~~~~~~---~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~  155 (179)
                      ...|-||-++|+..+   ..+.|.|||.++..|+.+-+......||.||.+.
T Consensus         3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~   54 (296)
T KOG4185|consen    3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT   54 (296)
T ss_pred             CCceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence            358999999997653   2356779999999999998876556799999985

>PHA03096 p28-like protein; Provisional

Probab=95.42  E-value=0.0089  Score=49.82  Aligned_cols=45  Identities=22%  Similarity=0.422  Sum_probs=31.4

Q ss_pred             cccccccccccCC----CceEEeC-CCCcchHHhHHHHHhcCC--CCCCCcc
Q 030323          108 SDCMVCLCTLRDG----ELVRKLD-CRHVFHKDCLDGWLHHLN--FNCPLCR  152 (179)
Q Consensus       108 ~~C~ICl~~~~~~----~~~~~lp-C~H~fh~~Ci~~wl~~~~--~~CP~Cr  152 (179)
                      ..|.||++.....    ..-..|+ |.|.||..|+..|.....  .+||.||
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~  230 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENR  230 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCcccc
Confidence            5899999975432    1234566 999999999999987532  3344443

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=95.41  E-value=0.021  Score=35.71  Aligned_cols=34  Identities=29%  Similarity=0.733  Sum_probs=28.8

Q ss_pred             CCcccccccccccCCCceEEeC-CCCcchHHhHHH
Q 030323          106 AGSDCMVCLCTLRDGELVRKLD-CRHVFHKDCLDG  139 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~lp-C~H~fh~~Ci~~  139 (179)
                      ....|++|-+.|.+++.+.+-| |+-.+|+.|.+.
T Consensus         4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~   38 (54)
T PF14446_consen    4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK   38 (54)
T ss_pred             cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence            4579999999998777777777 999999999664

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

Probab=95.40  E-value=0.011  Score=58.18  Aligned_cols=53  Identities=28%  Similarity=0.706  Sum_probs=39.6

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcC---------CCCCCCccCCCCC
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHL---------NFNCPLCRSPVVS  157 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~---------~~~CP~Cr~~~~~  157 (179)
                      +.+..|.||..+--.....+.|.|+|.||..|...-|.+.         --.||+|+.++..
T Consensus      3484 D~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred             ccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence            4567899998764444456789999999999998766542         1269999998753

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

Probab=95.33  E-value=0.0099  Score=55.51  Aligned_cols=48  Identities=31%  Similarity=0.849  Sum_probs=36.8

Q ss_pred             CCcccccccccccCCCceEEe-CCCCcchHHhHHHHHhcC------CCCCCCccC
Q 030323          106 AGSDCMVCLCTLRDGELVRKL-DCRHVFHKDCLDGWLHHL------NFNCPLCRS  153 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~l-pC~H~fh~~Ci~~wl~~~------~~~CP~Cr~  153 (179)
                      ...+|.||.+.+.....+-.- .|-|+||..||..|-.+.      .-.||.|+.
T Consensus       190 ~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs  244 (950)
T KOG1952|consen  190 RKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS  244 (950)
T ss_pred             CceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence            567999999998765444333 489999999999998653      236999984

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

Probab=95.32  E-value=0.0052  Score=46.83  Aligned_cols=30  Identities=30%  Similarity=0.845  Sum_probs=27.2

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchH
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHK  134 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~  134 (179)
                      ....+|.||+|++..++.+..|||-..||+
T Consensus       175 ddkGECvICLEdL~~GdtIARLPCLCIYHK  204 (205)
T KOG0801|consen  175 DDKGECVICLEDLEAGDTIARLPCLCIYHK  204 (205)
T ss_pred             ccCCcEEEEhhhccCCCceeccceEEEeec
Confidence            456799999999999999999999999986

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

Probab=95.31  E-value=0.0092  Score=49.41  Aligned_cols=51  Identities=24%  Similarity=0.569  Sum_probs=39.6

Q ss_pred             CCcccccccccccCC-CceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCC
Q 030323          106 AGSDCMVCLCTLRDG-ELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSE  158 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~-~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~  158 (179)
                      ....||||.+.+... ..+..++|||..|..|....... +.+||+|.+ +..+
T Consensus       157 ~~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~-~y~CP~C~~-~~d~  208 (276)
T KOG1940|consen  157 SEFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICE-GYTCPICSK-PGDM  208 (276)
T ss_pred             ccCCCchhHHHhccccccCCccCcccchHHHHHHHHhcc-CCCCCcccc-hHHH
Confidence            345699999976544 34466799999999999998876 499999988 5444

>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=95.22  E-value=0.0093  Score=35.55  Aligned_cols=42  Identities=29%  Similarity=0.770  Sum_probs=22.6

Q ss_pred             cccccccccCCCceEEeCCCCcchHHhHHHHHhcCC-CCCCCc
Q 030323          110 CMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLN-FNCPLC  151 (179)
Q Consensus       110 C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~-~~CP~C  151 (179)
                      |.+|.+....+..-..-.|+-.+|..|++.++...+ ..||.|
T Consensus         1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C   43 (43)
T PF08746_consen    1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC   43 (43)
T ss_dssp             -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred             CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence            677888777762222223988999999999988633 269987

; PDB: 3NW0_A 2CT0_A.

>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=95.21  E-value=0.019  Score=47.56  Aligned_cols=48  Identities=21%  Similarity=0.478  Sum_probs=37.3

Q ss_pred             cccccccc-ccCCCceEEe-CCCCcchHHhHHHHHhcCCCCCCCccCCCC
Q 030323          109 DCMVCLCT-LRDGELVRKL-DCRHVFHKDCLDGWLHHLNFNCPLCRSPVV  156 (179)
Q Consensus       109 ~C~ICl~~-~~~~~~~~~l-pC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~  156 (179)
                      .||+|..+ +-+++..... +|+|..|.+|++.-+..+...||.|...+-
T Consensus         2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLR   51 (300)
T KOG3800|consen    2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILR   51 (300)
T ss_pred             CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhh
Confidence            58999885 4455443333 799999999999999887789999977553

>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=95.18  E-value=0.029  Score=42.66  Aligned_cols=60  Identities=28%  Similarity=0.552  Sum_probs=36.9

Q ss_pred             CcccccccccccCCC---------ceEEeCCCCc-chHHhHHHHHhcC------------------------------CC
Q 030323          107 GSDCMVCLCTLRDGE---------LVRKLDCRHV-FHKDCLDGWLHHL------------------------------NF  146 (179)
Q Consensus       107 ~~~C~ICl~~~~~~~---------~~~~lpC~H~-fh~~Ci~~wl~~~------------------------------~~  146 (179)
                      +.+|+||||.--+..         ..+..=|+.. -|..|++++-+..                              ..
T Consensus         2 d~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L   81 (162)
T PF07800_consen    2 DVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQPEL   81 (162)
T ss_pred             CccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCcccccccccccccc
Confidence            679999999854441         1122225444 5788999875321                              12


Q ss_pred             CCCCccCCCCCCcchhhhhh
Q 030323          147 NCPLCRSPVVSEERVWNTRR  166 (179)
Q Consensus       147 ~CP~Cr~~~~~~~~~~~~~~  166 (179)
                      .||+||..+........-++
T Consensus        82 ~CPLCRG~V~GWtvve~AR~  101 (162)
T PF07800_consen   82 ACPLCRGEVKGWTVVEPARR  101 (162)
T ss_pred             cCccccCceeceEEchHHHH
Confidence            59999999876654433333

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.

>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=95.08  E-value=0.013  Score=47.46  Aligned_cols=48  Identities=21%  Similarity=0.508  Sum_probs=37.9

Q ss_pred             CCccccccccc-ccCCCceEEe-C-CCCcchHHhHHHHHhcCCCCCC--CccC
Q 030323          106 AGSDCMVCLCT-LRDGELVRKL-D-CRHVFHKDCLDGWLHHLNFNCP--LCRS  153 (179)
Q Consensus       106 ~~~~C~ICl~~-~~~~~~~~~l-p-C~H~fh~~Ci~~wl~~~~~~CP--~Cr~  153 (179)
                      .+..||||..+ +-+|+..... | |-|..|.+|+++-+..+...||  -|.+
T Consensus         9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~k   61 (314)
T COG5220           9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGK   61 (314)
T ss_pred             hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHH
Confidence            45699999986 4456544444 7 9999999999999998788999  7744

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

Probab=94.99  E-value=0.071  Score=45.81  Aligned_cols=32  Identities=25%  Similarity=0.808  Sum_probs=24.9

Q ss_pred             CCCcchHHhHHHHHhcCC------------CCCCCccCCCCCCc
Q 030323          128 CRHVFHKDCLDGWLHHLN------------FNCPLCRSPVVSEE  159 (179)
Q Consensus       128 C~H~fh~~Ci~~wl~~~~------------~~CP~Cr~~~~~~~  159 (179)
                      |....|.+|+-+|+..++            ..||+||+.+...|
T Consensus       311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCilD  354 (358)
T PF10272_consen  311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCILD  354 (358)
T ss_pred             ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceeee
Confidence            667789999999997542            36999999986543

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

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

Probab=94.91  E-value=0.019  Score=48.28  Aligned_cols=45  Identities=29%  Similarity=0.648  Sum_probs=36.4

Q ss_pred             cCCcccccccccccCCCceEEeCC--CCcchHHhHHHHHhcCCCCCCCccCCCCC
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDC--RHVFHKDCLDGWLHHLNFNCPLCRSPVVS  157 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC--~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~  157 (179)
                      .+-.+||||.+.+..+    ...|  ||..|..|-.+    ....||.||.++..
T Consensus        46 ~~lleCPvC~~~l~~P----i~QC~nGHlaCssC~~~----~~~~CP~Cr~~~g~   92 (299)
T KOG3002|consen   46 LDLLDCPVCFNPLSPP----IFQCDNGHLACSSCRTK----VSNKCPTCRLPIGN   92 (299)
T ss_pred             hhhccCchhhccCccc----ceecCCCcEehhhhhhh----hcccCCcccccccc
Confidence            4567999999999988    4556  79999999653    36689999999973

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

Probab=94.77  E-value=0.24  Score=42.82  Aligned_cols=45  Identities=31%  Similarity=0.449  Sum_probs=38.0

Q ss_pred             CcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCC--CCCCCc
Q 030323          107 GSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLN--FNCPLC  151 (179)
Q Consensus       107 ~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~--~~CP~C  151 (179)
                      -..|||=.+--.+.+....|.|||+..++-+.+-.+++.  ..||.|
T Consensus       334 vF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYC  380 (394)
T KOG2817|consen  334 VFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYC  380 (394)
T ss_pred             eeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCC
Confidence            468999888777666678899999999999999877655  679999

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

Probab=94.71  E-value=0.018  Score=53.88  Aligned_cols=44  Identities=30%  Similarity=0.634  Sum_probs=34.9

Q ss_pred             CCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCC
Q 030323          106 AGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPV  155 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~  155 (179)
                      ....|..|-..+.-|  .+-..|||.||..|+.    .+...||-|+.+.
T Consensus       839 q~skCs~C~~~LdlP--~VhF~CgHsyHqhC~e----~~~~~CP~C~~e~  882 (933)
T KOG2114|consen  839 QVSKCSACEGTLDLP--FVHFLCGHSYHQHCLE----DKEDKCPKCLPEL  882 (933)
T ss_pred             eeeeecccCCccccc--eeeeecccHHHHHhhc----cCcccCCccchhh
Confidence            346999999998877  3334699999999998    2467899998744

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

Probab=94.50  E-value=0.0077  Score=49.99  Aligned_cols=43  Identities=30%  Similarity=0.687  Sum_probs=32.6

Q ss_pred             CCcccccccccccCCCceEEeCCCCc-chHHhHHHHHhcCCCCCCCccCCCC
Q 030323          106 AGSDCMVCLCTLRDGELVRKLDCRHV-FHKDCLDGWLHHLNFNCPLCRSPVV  156 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~lpC~H~-fh~~Ci~~wl~~~~~~CP~Cr~~~~  156 (179)
                      ...-|.||++...+   ...|+|||. -|.+|-..     -..||+||+-+.
T Consensus       299 ~~~LC~ICmDaP~D---CvfLeCGHmVtCt~CGkr-----m~eCPICRqyi~  342 (350)
T KOG4275|consen  299 TRRLCAICMDAPRD---CVFLECGHMVTCTKCGKR-----MNECPICRQYIV  342 (350)
T ss_pred             HHHHHHHHhcCCcc---eEEeecCcEEeehhhccc-----cccCchHHHHHH
Confidence            37889999987443   478899998 67778554     238999998654

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

Probab=94.42  E-value=0.039  Score=40.76  Aligned_cols=50  Identities=26%  Similarity=0.574  Sum_probs=37.2

Q ss_pred             CcccccccccccCCCceEEe-C---CCCcchHHhHHH-HHhc-CCCCCCCccCCCCCCc
Q 030323          107 GSDCMVCLCTLRDGELVRKL-D---CRHVFHKDCLDG-WLHH-LNFNCPLCRSPVVSEE  159 (179)
Q Consensus       107 ~~~C~ICl~~~~~~~~~~~l-p---C~H~fh~~Ci~~-wl~~-~~~~CP~Cr~~~~~~~  159 (179)
                      -.+|.||.|.-.+.   +-| |   ||-..|..|-.. |-.. ..++||+|+.++-...
T Consensus        80 lYeCnIC~etS~ee---~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~  135 (140)
T PF05290_consen   80 LYECNICKETSAEE---RFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSS  135 (140)
T ss_pred             ceeccCcccccchh---hcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence            57999999986555   444 3   899999998775 5432 2578999999986554

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

Probab=94.20  E-value=0.045  Score=46.14  Aligned_cols=47  Identities=23%  Similarity=0.450  Sum_probs=38.7

Q ss_pred             CCcccccccccccCCCceEEeC-CCCcchHHhHHHHHhcCCCCCCCccCCCC
Q 030323          106 AGSDCMVCLCTLRDGELVRKLD-CRHVFHKDCLDGWLHHLNFNCPLCRSPVV  156 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~lp-C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~  156 (179)
                      ....||||+..-.++   ..+. -|-+||..|+-..+.+ ...||+=..+..
T Consensus       299 ~~~~CpvClk~r~Np---tvl~vSGyVfCY~Ci~~Yv~~-~~~CPVT~~p~~  346 (357)
T KOG0826|consen  299 DREVCPVCLKKRQNP---TVLEVSGYVFCYPCIFSYVVN-YGHCPVTGYPAS  346 (357)
T ss_pred             ccccChhHHhccCCC---ceEEecceEEeHHHHHHHHHh-cCCCCccCCcch
Confidence            467999999998887   5554 6999999999999986 789998766654

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

Probab=93.86  E-value=0.051  Score=42.18  Aligned_cols=51  Identities=29%  Similarity=0.778  Sum_probs=33.0

Q ss_pred             CcccccccccccCCC----ceEEeCCCCcchHHhHHHHHhcC----C------CCCCCccCCCCC
Q 030323          107 GSDCMVCLCTLRDGE----LVRKLDCRHVFHKDCLDGWLHHL----N------FNCPLCRSPVVS  157 (179)
Q Consensus       107 ~~~C~ICl~~~~~~~----~~~~lpC~H~fh~~Ci~~wl~~~----~------~~CP~Cr~~~~~  157 (179)
                      -..|.||...--++.    ......||..||.-|+..||+..    +      ..||.|..++.-
T Consensus       165 ~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial  229 (234)
T KOG3268|consen  165 LGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL  229 (234)
T ss_pred             hhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence            345666654322221    12234699999999999999742    1      259999988753

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

Probab=93.44  E-value=0.042  Score=51.00  Aligned_cols=48  Identities=25%  Similarity=0.542  Sum_probs=37.7

Q ss_pred             cccccccccccCCCceEEeCCCCcchHHhHHHHHhcCC-CCCCCccCCCCCCc
Q 030323          108 SDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLN-FNCPLCRSPVVSEE  159 (179)
Q Consensus       108 ~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~-~~CP~Cr~~~~~~~  159 (179)
                      ..|.+|++    .+.....+|+|.||.+|+..-+...+ ..||.||..+..++
T Consensus       455 ~~c~ic~~----~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~  503 (674)
T KOG1001|consen  455 HWCHICCD----LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKK  503 (674)
T ss_pred             cccccccc----cccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHH
Confidence            79999999    33346678999999999998776533 45999998776554

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

Probab=93.19  E-value=0.05  Score=47.69  Aligned_cols=36  Identities=25%  Similarity=0.450  Sum_probs=31.3

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhc
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHH  143 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~  143 (179)
                      +++..|+||...|.++   ++|||+|..|..|...-+.+
T Consensus         2 eeelkc~vc~~f~~ep---iil~c~h~lc~~ca~~~~~~   37 (699)
T KOG4367|consen    2 EEELKCPVCGSFYREP---IILPCSHNLCQACARNILVQ   37 (699)
T ss_pred             cccccCceehhhccCc---eEeecccHHHHHHHHhhccc
Confidence            4578999999999999   99999999999998865543

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

Probab=92.90  E-value=0.09  Score=49.28  Aligned_cols=54  Identities=17%  Similarity=0.468  Sum_probs=37.8

Q ss_pred             cCCcccccccccccCCCceEEeCCCC-----cchHHhHHHHHhcC-CCCCCCccCCCCCCc
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRH-----VFHKDCLDGWLHHL-NFNCPLCRSPVVSEE  159 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H-----~fh~~Ci~~wl~~~-~~~CP~Cr~~~~~~~  159 (179)
                      +++..|-||..+=..++. -.=||++     ..|.+|+-+|+... ...|-+|+.++.-++
T Consensus        10 ~d~~~CRICr~e~~~d~p-LfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~   69 (1175)
T COG5183          10 EDKRSCRICRTEDIRDDP-LFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKD   69 (1175)
T ss_pred             ccchhceeecCCCCCCCc-CcccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeee
Confidence            456899999986443321 1126653     48999999999853 357999998876443

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

Probab=91.90  E-value=0.0089  Score=51.38  Aligned_cols=51  Identities=22%  Similarity=0.567  Sum_probs=43.2

Q ss_pred             CCcccccccccccCC-CceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCC
Q 030323          106 AGSDCMVCLCTLRDG-ELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVS  157 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~-~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~  157 (179)
                      ....|+||.+.++.. +.+..+-|||.+|..|+.+|+.. ...||.|+.+++-
T Consensus       195 lv~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~-~~kl~~~~rel~~  246 (465)
T KOG0827|consen  195 LVGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLAT-KRKLPSCRRELPK  246 (465)
T ss_pred             HHhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHH-HHHhHHHHhhhhh
Confidence            456899999988765 55666779999999999999997 7789999998863

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

Probab=91.64  E-value=0.36  Score=45.12  Aligned_cols=41  Identities=29%  Similarity=0.637  Sum_probs=28.9

Q ss_pred             cccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCC
Q 030323          108 SDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPL  150 (179)
Q Consensus       108 ~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~  150 (179)
                      ..|+||--.+. +.......|+|+.|.+|...|+.. +-.||.
T Consensus      1029 ~~C~~C~l~V~-gss~~Cg~C~Hv~H~sc~~eWf~~-gd~Cps 1069 (1081)
T KOG0309|consen 1029 FQCAICHLAVR-GSSNFCGTCGHVGHTSCMMEWFRT-GDVCPS 1069 (1081)
T ss_pred             eeeeeEeeEee-ccchhhccccccccHHHHHHHHhc-CCcCCC
Confidence            34777655443 223344569999999999999997 568874

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.22  E-value=0.12  Score=42.27  Aligned_cols=52  Identities=27%  Similarity=0.703  Sum_probs=35.7

Q ss_pred             cCCcccccccccccCCCce-EEeCCC-----CcchHHhHHHHHhcCCC-------CCCCccCCCC
Q 030323          105 AAGSDCMVCLCTLRDGELV-RKLDCR-----HVFHKDCLDGWLHHLNF-------NCPLCRSPVV  156 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~-~~lpC~-----H~fh~~Ci~~wl~~~~~-------~CP~Cr~~~~  156 (179)
                      +.+..|=||...=++.... -+-||.     |-.|.+|+..|+..++.       .||-|+.+..
T Consensus        18 e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi   82 (293)
T KOG3053|consen   18 ELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI   82 (293)
T ss_pred             ccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence            4578999999874433111 123653     66999999999986432       5999988653

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

Probab=91.07  E-value=0.1  Score=41.57  Aligned_cols=39  Identities=36%  Similarity=0.683  Sum_probs=28.5

Q ss_pred             cccccccccCCCceEEeCCCCc-chHHhHHHHHhcCCCCCCCccCCCC
Q 030323          110 CMVCLCTLRDGELVRKLDCRHV-FHKDCLDGWLHHLNFNCPLCRSPVV  156 (179)
Q Consensus       110 C~ICl~~~~~~~~~~~lpC~H~-fh~~Ci~~wl~~~~~~CP~Cr~~~~  156 (179)
                      |-.|-+.   ...+..+||.|. +|..|-..     -..||+|+....
T Consensus       161 Cr~C~~~---~~~VlllPCrHl~lC~~C~~~-----~~~CPiC~~~~~  200 (207)
T KOG1100|consen  161 CRKCGER---EATVLLLPCRHLCLCGICDES-----LRICPICRSPKT  200 (207)
T ss_pred             ceecCcC---CceEEeecccceEeccccccc-----CccCCCCcChhh
Confidence            7777755   445677899988 89889653     346999987653

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

Probab=90.69  E-value=0.14  Score=48.41  Aligned_cols=36  Identities=28%  Similarity=0.491  Sum_probs=28.1

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHH
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWL  141 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl  141 (179)
                      +.+.+|.+|.-.+... .-...||||.||+.|+.+-.
T Consensus       815 ep~d~C~~C~~~ll~~-pF~vf~CgH~FH~~Cl~~~v  850 (911)
T KOG2034|consen  815 EPQDSCDHCGRPLLIK-PFYVFPCGHCFHRDCLIRHV  850 (911)
T ss_pred             cCccchHHhcchhhcC-cceeeeccchHHHHHHHHHH
Confidence            4578999999886543 33556999999999998764

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

Probab=89.93  E-value=0.11  Score=43.55  Aligned_cols=44  Identities=30%  Similarity=0.590  Sum_probs=29.0

Q ss_pred             CcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCC
Q 030323          107 GSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPV  155 (179)
Q Consensus       107 ~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~  155 (179)
                      ...|--|--.+..  ..+..||+|+||.+|...  . ..+.||.|-..+
T Consensus        90 VHfCd~Cd~PI~I--YGRmIPCkHvFCl~CAr~--~-~dK~Cp~C~d~V  133 (389)
T KOG2932|consen   90 VHFCDRCDFPIAI--YGRMIPCKHVFCLECARS--D-SDKICPLCDDRV  133 (389)
T ss_pred             eEeecccCCccee--eecccccchhhhhhhhhc--C-ccccCcCcccHH
Confidence            3456666544321  226679999999999764  2 256899996554

>KOG3899 consensus Uncharacterized conserved protein [Function unknown]

Probab=89.34  E-value=0.21  Score=41.71  Aligned_cols=32  Identities=25%  Similarity=0.676  Sum_probs=25.2

Q ss_pred             CCCcchHHhHHHHHhcC------------CCCCCCccCCCCCCc
Q 030323          128 CRHVFHKDCLDGWLHHL------------NFNCPLCRSPVVSEE  159 (179)
Q Consensus       128 C~H~fh~~Ci~~wl~~~------------~~~CP~Cr~~~~~~~  159 (179)
                      |....|.+|+.+|+...            +.+||+||+.+...+
T Consensus       325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~d  368 (381)
T KOG3899|consen  325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRD  368 (381)
T ss_pred             cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEee
Confidence            67789999999998532            357999999887544

>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=89.09  E-value=0.11  Score=31.54  Aligned_cols=45  Identities=24%  Similarity=0.683  Sum_probs=24.2

Q ss_pred             cccccccccccCCCceEEeCC-CCcchHHhHHHHHhcCCCCCCCccCCCCCC
Q 030323          108 SDCMVCLCTLRDGELVRKLDC-RHVFHKDCLDGWLHHLNFNCPLCRSPVVSE  158 (179)
Q Consensus       108 ~~C~ICl~~~~~~~~~~~lpC-~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~  158 (179)
                      ..|--|+-.  +.   ....| .|..|..|+...+.. ...||+|..+++.+
T Consensus         3 ~nCKsCWf~--~k---~Li~C~dHYLCl~CLt~ml~~-s~~C~iC~~~LPtk   48 (50)
T PF03854_consen    3 YNCKSCWFA--NK---GLIKCSDHYLCLNCLTLMLSR-SDRCPICGKPLPTK   48 (50)
T ss_dssp             ----SS-S----S---SEEE-SS-EEEHHHHHHT-SS-SSEETTTTEE----
T ss_pred             ccChhhhhc--CC---CeeeecchhHHHHHHHHHhcc-ccCCCcccCcCccc
Confidence            346666644  33   23457 499999999998876 77899999988754

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=88.65  E-value=0.15  Score=49.95  Aligned_cols=46  Identities=30%  Similarity=0.610  Sum_probs=37.5

Q ss_pred             CCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCC
Q 030323          106 AGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSP  154 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~  154 (179)
                      ....|.||++.+.+-.  ....|+|.+|..|...|+.. +..||.|+..
T Consensus      1152 ~~~~c~ic~dil~~~~--~I~~cgh~~c~~c~~~~l~~-~s~~~~~ksi 1197 (1394)
T KOG0298|consen 1152 GHFVCEICLDILRNQG--GIAGCGHEPCCRCDELWLYA-SSRCPICKSI 1197 (1394)
T ss_pred             cccchHHHHHHHHhcC--CeeeechhHhhhHHHHHHHH-hccCcchhhh
Confidence            4569999999987331  34569999999999999997 8899999753

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

Probab=88.24  E-value=0.25  Score=42.92  Aligned_cols=38  Identities=24%  Similarity=0.616  Sum_probs=27.9

Q ss_pred             CCccccccc-ccccCCCceEEeCCCCcchHHhHHHHHhc
Q 030323          106 AGSDCMVCL-CTLRDGELVRKLDCRHVFHKDCLDGWLHH  143 (179)
Q Consensus       106 ~~~~C~ICl-~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~  143 (179)
                      ...+|.||. +.....+......|+|.||.+|+.+.+..
T Consensus       145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev  183 (384)
T KOG1812|consen  145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEV  183 (384)
T ss_pred             ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhh
Confidence            467999999 44433333334569999999999988874

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

Probab=87.71  E-value=0.64  Score=28.44  Aligned_cols=44  Identities=30%  Similarity=0.726  Sum_probs=19.1

Q ss_pred             cccccccccccCCCceEEeCCCCcchHHhHHHHHh----cCCCCCCCccCC
Q 030323          108 SDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLH----HLNFNCPLCRSP  154 (179)
Q Consensus       108 ~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~----~~~~~CP~Cr~~  154 (179)
                      ..|++....+..+  ++...|.|.-|-+ ++.|+.    ...-.||+|.++
T Consensus         3 L~CPls~~~i~~P--~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~   50 (50)
T PF02891_consen    3 LRCPLSFQRIRIP--VRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP   50 (50)
T ss_dssp             SB-TTTSSB-SSE--EEETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred             eeCCCCCCEEEeC--ccCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence            4788888887776  4555799984321 223333    223569999764

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

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

Probab=87.49  E-value=0.51  Score=44.36  Aligned_cols=59  Identities=17%  Similarity=0.073  Sum_probs=41.9

Q ss_pred             cCCcccccccccccCCCc-eEEeC---CCCcchHHhHHHHHhcC-----CCCCCCccCCCCCCcchhh
Q 030323          105 AAGSDCMVCLCTLRDGEL-VRKLD---CRHVFHKDCLDGWLHHL-----NFNCPLCRSPVVSEERVWN  163 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~-~~~lp---C~H~fh~~Ci~~wl~~~-----~~~CP~Cr~~~~~~~~~~~  163 (179)
                      .+..+|.+|...+.+++. ...+|   |+|.||..||..|.+..     .-.|+.|..-+....+..+
T Consensus        94 a~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aq  161 (1134)
T KOG0825|consen   94 AESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQ  161 (1134)
T ss_pred             ccccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcc
Confidence            456788899888877422 23344   99999999999998753     2358999887766554444

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

Probab=87.44  E-value=0.63  Score=38.57  Aligned_cols=52  Identities=23%  Similarity=0.627  Sum_probs=36.3

Q ss_pred             CCcccccccccccCCCc-eEEeCCC-----CcchHHhHHHHHhcC-CCCCCCccCCCCC
Q 030323          106 AGSDCMVCLCTLRDGEL-VRKLDCR-----HVFHKDCLDGWLHHL-NFNCPLCRSPVVS  157 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~-~~~lpC~-----H~fh~~Ci~~wl~~~-~~~CP~Cr~~~~~  157 (179)
                      .+..|-||.+....... ....||.     +..|..|++.|+..+ +..|.+|......
T Consensus        77 ~~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~  135 (323)
T KOG1609|consen   77 SGPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFIN  135 (323)
T ss_pred             CCCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeeccccccee
Confidence            35789999997544321 2445663     458999999999843 4679999886543

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

Probab=87.17  E-value=0.15  Score=47.11  Aligned_cols=50  Identities=28%  Similarity=0.656  Sum_probs=39.3

Q ss_pred             CcccccccccccCCCceEEeCCCCcchHHhHHHHHhcC--CCCCCCccCCCCCCc
Q 030323          107 GSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHL--NFNCPLCRSPVVSEE  159 (179)
Q Consensus       107 ~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~--~~~CP~Cr~~~~~~~  159 (179)
                      ..+|+||...+..+   ..+.|.|.|+..|+..-+...  ...||+|+..+...+
T Consensus        21 ~lEc~ic~~~~~~p---~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s   72 (684)
T KOG4362|consen   21 ILECPICLEHVKEP---SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRS   72 (684)
T ss_pred             hccCCceeEEeecc---chhhhhHHHHhhhhhceeeccCccccchhhhhhhhhhh
Confidence            57999999998888   667899999999998644432  357999987665443

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

Probab=85.71  E-value=0.31  Score=44.44  Aligned_cols=42  Identities=33%  Similarity=0.667  Sum_probs=28.1

Q ss_pred             Cccccccccc-----ccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCcc
Q 030323          107 GSDCMVCLCT-----LRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCR  152 (179)
Q Consensus       107 ~~~C~ICl~~-----~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr  152 (179)
                      ...|.+|...     |......+...|++.||..|...    ++..||.|-
T Consensus       511 gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r----~s~~CPrC~  557 (580)
T KOG1829|consen  511 GFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRR----KSPCCPRCE  557 (580)
T ss_pred             eeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhc----cCCCCCchH
Confidence            5678888442     33233344556999999999664    455699993

>smart00249 PHD PHD zinc finger

Probab=84.88  E-value=0.33  Score=28.00  Aligned_cols=31  Identities=32%  Similarity=0.619  Sum_probs=19.9

Q ss_pred             ccccccccccCCCceEEeCCCCcchHHhHHH
Q 030323          109 DCMVCLCTLRDGELVRKLDCRHVFHKDCLDG  139 (179)
Q Consensus       109 ~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~  139 (179)
                      .|.+|......+..+.--.|...||..|+..
T Consensus         1 ~C~~C~~~~~~~~~i~C~~C~~~~H~~C~~~   31 (47)
T smart00249        1 YCSVCGKPDDGGELLQCDGCDRWYHQTCLGP   31 (47)
T ss_pred             CcccCCCcCCCCCEEECCCCCchhhhhhCCC
Confidence            3677877653332222235999999999764

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

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

Probab=83.00  E-value=0.45  Score=43.76  Aligned_cols=44  Identities=25%  Similarity=0.471  Sum_probs=31.2

Q ss_pred             CCcccccccccccCCCc-eEEeCCCCcchHHhHHHHHhcCCCCCCCccC
Q 030323          106 AGSDCMVCLCTLRDGEL-VRKLDCRHVFHKDCLDGWLHHLNFNCPLCRS  153 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~-~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~  153 (179)
                      +-..|.||+..|..... -+.+-|||..|..|++.-.   +.+|| |+.
T Consensus        10 ~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~ly---n~scp-~~~   54 (861)
T KOG3161|consen   10 LLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLY---NASCP-TKR   54 (861)
T ss_pred             HHhhchHHHHHHHHHhcCcccccccchHHHHHHHhHh---hccCC-CCc
Confidence            34689999887755422 2445699999999999753   56898 533

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	179
2kiz_A	69	Solution Structure Of Arkadia Ring-H2 Finger Domain		2e-06
1x4j_A	75	Solution Structure Of Ring Finger In Ring Finger Pr		5e-06
1iym_A	55	Ring-H2 Finger Domain Of El5 Length = 55		3e-05
2ect_A	78	Solution Structure Of The Zinc Finger, C3hc4 Type (		4e-05

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

Iteration: 1
 Score = 48.9 bits (115), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 22/49 (44%), Positives = 32/49 (65%), Gaps = 1/49 (2%)
Query: 110 CMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSE 158
           C +CL  L +GE VR+L C H+FH+ C+D WL   N  CP+CR  + ++
Sbjct: 17  CTICLSILEEGEDVRRLPCMHLFHQVCVDQWL-ITNKKCPICRVDIEAQ 64

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

Iteration: 1
 Score = 47.4 bits (111), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 20/44 (45%), Positives = 27/44 (61%), Gaps = 1/44 (2%)
Query: 110 CMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRS 153
           C+VC+C     +L+R L C H FH  C+D WL   N  CP+CR+
Sbjct: 26  CVVCMCDFESRQLLRVLPCNHEFHAKCVDKWL-KANRTCPICRA 68

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

Iteration: 1
 Score = 44.7 bits (104), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 26/51 (50%), Positives = 30/51 (58%), Gaps = 2/51 (3%)
Query: 107 GSDCMVCLCTLRDGELVRKLD-CRHVFHKDCLDGWLHHLNFNCPLCRSPVV 156
           G +C VCL  L DGE  R L  C H FH +C+D WL   +  CPLCR  VV
Sbjct: 5   GVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGS-HSTCPLCRLTVV 54

>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 = 43.9 bits (102), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 22/65 (33%), Positives = 32/65 (49%), Gaps = 1/65 (1%)
Query: 105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERVWNT 164
            +G +C VC      GE VR+L C H+FH  C+  WL   + +CP+CR  +  +    N 
Sbjct: 13  GSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHD-SCPVCRKSLTGQNTATNP 71
Query: 165 RRRVG 169
               G
Sbjct: 72  PGLTG 76

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	179
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	3e-17
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	6e-17
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	1e-16
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	4e-15
2ect_A	78	Ring finger protein 126; metal binding protein, st	1e-14
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	3e-14
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	6e-14
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	1e-11
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	1e-10
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	2e-08
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	2e-08
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	4e-08
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	9e-08
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	1e-07
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	3e-07
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	6e-07
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	6e-07
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	9e-07
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	1e-06
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	1e-06
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	1e-06
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	1e-06
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	3e-06
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	3e-06
3nw0_A	238	Non-structural maintenance of chromosomes element	4e-06
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	5e-06
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	8e-06
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	9e-06
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	9e-06
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	1e-05
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	2e-05
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	2e-05
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	2e-05
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	3e-05
1z6u_A	150	NP95-like ring finger protein isoform B; structura	6e-05
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	7e-05
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	9e-05
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	1e-04
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	2e-04
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	5e-04

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

 Score = 71.6 bits (176), Expect = 3e-17
 Identities = 20/54 (37%), Positives = 29/54 (53%), Gaps = 1/54 (1%)

Query: 102 ASSAAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPV 155
              +  + C+VC+C     +L+R L C H FH  C+D WL   N  CP+CR+  
Sbjct: 18  NHQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWL-KANRTCPICRADS 70

>2kiz_A E3 ubiquitin-protein ligase arkadia; ring-H2 finger, E3 ligase, Zn binding domain, metal zinc, zinc-finger, metal binding protein; NMR {Homo sapiens} Length = 69

 Score = 70.5 bits (173), Expect = 6e-17
 Identities = 23/61 (37%), Positives = 34/61 (55%), Gaps = 1/61 (1%)

Query: 98  GQGVASSAAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVS 157
           G+          C +CL  L +GE VR+L C H+FH+ C+D WL   N  CP+CR  + +
Sbjct: 5   GEEGTEEDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWL-ITNKKCPICRVDIEA 63

Query: 158 E 158
           +
Sbjct: 64  Q 64

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

 Score = 69.2 bits (170), Expect = 1e-16
 Identities = 26/55 (47%), Positives = 31/55 (56%), Gaps = 2/55 (3%)

Query: 103 SSAAGSDCMVCLCTLRDGELVRKL-DCRHVFHKDCLDGWLHHLNFNCPLCRSPVV 156
           +   G +C VCL  L DGE  R L  C H FH +C+D WL   +  CPLCR  VV
Sbjct: 1   AMDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGS-HSTCPLCRLTVV 54

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

 Score = 65.6 bits (160), Expect = 4e-15
 Identities = 18/54 (33%), Positives = 26/54 (48%), Gaps = 1/54 (1%)

Query: 107 GSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEER 160
              C VCL   +  + +    C+H FH+ CL  WL  +   CPLC  PV+   +
Sbjct: 15  HELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWL-EVRKVCPLCNMPVLQLAQ 67

>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 = 64.8 bits (158), Expect = 1e-14
 Identities = 20/55 (36%), Positives = 30/55 (54%), Gaps = 1/55 (1%)

Query: 105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE 159
            +G +C VC      GE VR+L C H+FH  C+  WL   + +CP+CR  +  + 
Sbjct: 13  GSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWL-EQHDSCPVCRKSLTGQN 66

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

 Score = 63.9 bits (156), Expect = 3e-14
 Identities = 16/54 (29%), Positives = 24/54 (44%), Gaps = 1/54 (1%)

Query: 102 ASSAAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPV 155
            +      C +C      G++  +L C H FHK C+  WL   +  CP+CR   
Sbjct: 35  GAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWL-QKSGTCPVCRCMF 87

>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 = 61.9 bits (151), Expect = 6e-14
 Identities = 16/53 (30%), Positives = 24/53 (45%), Gaps = 2/53 (3%)

Query: 104 SAAGSDCMVCLCTLRDG-ELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPV 155
           S+  S C +CL  +     +   L C H+ H+ C +  L    + CPLC  P 
Sbjct: 2   SSGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKE-GYRCPLCSGPS 53

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

 Score = 56.6 bits (137), Expect = 1e-11
 Identities = 17/54 (31%), Positives = 23/54 (42%), Gaps = 3/54 (5%)

Query: 104 SAAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVS 157
           +     C +CL    +      L C H F   C+  W+   N  CPLC+ PV S
Sbjct: 2   ATVAERCPICLEDPSNY--SMALPCLHAFCYVCITRWIRQ-NPTCPLCKVPVES 52

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

 Score = 53.5 bits (129), Expect = 1e-10
 Identities = 16/54 (29%), Positives = 24/54 (44%), Gaps = 5/54 (9%)

Query: 107 GSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEER 160
             +C +C+    DG     L C H F + C+D W    + NCP+CR  +     
Sbjct: 15  EEECCICM----DGRADLILPCAHSFCQKCIDKWSDR-HRNCPICRLQMTGANE 63

>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 = 52.1 bits (124), Expect = 2e-08
 Identities = 14/53 (26%), Positives = 20/53 (37%), Gaps = 3/53 (5%)

Query: 109 DCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERV 161
            C +C    +D   V+   C H+    CL  W       CP CR  +   E +
Sbjct: 334 LCKICAENDKD---VKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPI 383

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

 Score = 48.4 bits (115), Expect = 2e-08
 Identities = 15/51 (29%), Positives = 23/51 (45%), Gaps = 2/51 (3%)

Query: 110 CMVCLCTLRDGELVRKL-DCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE 159
           C+ C    +  + V    +C H FH  C+  W+   N  CPLC+   V + 
Sbjct: 29  CLRCQAENKQEDCVVVWGECNHSFHNCCMSLWV-KQNNRCPLCQQDWVVQR 78

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

 Score = 47.2 bits (112), Expect = 4e-08
 Identities = 16/54 (29%), Positives = 24/54 (44%), Gaps = 5/54 (9%)

Query: 109 DCMVCLCTLRD----GELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSE 158
            C +C+    +    G L+   +C HVF   CL   L + N  CP CR  +  +
Sbjct: 17  SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN-TCPTCRKKINHK 69

>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 = 46.4 bits (110), Expect = 9e-08
 Identities = 17/62 (27%), Positives = 25/62 (40%), Gaps = 5/62 (8%)

Query: 98  GQGVASSAAGSDCMVCLCTLRD----GELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRS 153
           G      +    C +C+    +    G L+   +C HVF   CL   L + N  CP CR 
Sbjct: 1   GTTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN-TCPTCRK 59

Query: 154 PV 155
            +
Sbjct: 60  KI 61

>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 = 46.8 bits (111), Expect = 1e-07
 Identities = 15/46 (32%), Positives = 21/46 (45%), Gaps = 2/46 (4%)

Query: 110 CMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPV 155
           C +C+  LRD  L     C  +    C+  WL      CP CR+P+
Sbjct: 25  CFICMEKLRDARLCPH--CSKLCCFSCIRRWLTEQRAQCPHCRAPL 68

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

 Score = 44.8 bits (106), Expect = 3e-07
 Identities = 16/50 (32%), Positives = 23/50 (46%), Gaps = 5/50 (10%)

Query: 110 CMVCLCTLRD----GELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPV 155
           C +C+    +    G L+   +C HVF   CL   L + N  CP CR  +
Sbjct: 6   CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN-TCPTCRKKI 54

>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 = 45.2 bits (106), Expect = 6e-07
 Identities = 14/66 (21%), Positives = 21/66 (31%), Gaps = 19/66 (28%)

Query: 109 DCMVCLCTL---------------RDGELVRKLDCRHVFHKDCLDGWL----HHLNFNCP 149
           DC++C+  L                   + R   C H FH  CL           +  CP
Sbjct: 27  DCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCP 86

Query: 150 LCRSPV 155
            C++  
Sbjct: 87  SCKTIY 92

>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 = 45.2 bits (106), Expect = 6e-07
 Identities = 14/65 (21%), Positives = 17/65 (26%), Gaps = 1/65 (1%)

Query: 92  NDNCCCGQGVASSAAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLC 151
            DNC   +                   +   V    C H FH  C+  WL      CPL 
Sbjct: 48  VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWL-KTRQVCPLD 106

Query: 152 RSPVV 156
                
Sbjct: 107 NREWE 111

>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 = 44.4 bits (104), Expect = 9e-07
 Identities = 14/65 (21%), Positives = 17/65 (26%), Gaps = 1/65 (1%)

Query: 92  NDNCCCGQGVASSAAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLC 151
            DNC   +                   +   V    C H FH  C+  WL      CPL 
Sbjct: 37  VDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWL-KTRQVCPLD 95

Query: 152 RSPVV 156
                
Sbjct: 96  NREWE 100

>3l11_A E3 ubiquitin-protein ligase RNF168; E3 ligase, ring domain, DNA damage, chromatin regulator, chromosomal protein, DNA repair, metal-binding; 2.12A {Homo sapiens} Length = 115

 Score = 44.5 bits (105), Expect = 1e-06
 Identities = 15/53 (28%), Positives = 20/53 (37%), Gaps = 3/53 (5%)

Query: 109 DCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERV 161
            C +C+  L +      L C H   K C    +   +  CP CR  V S  R 
Sbjct: 17  QCGICMEILVEP---VTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSSWTRY 66

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

 Score = 46.4 bits (109), Expect = 1e-06
 Identities = 13/63 (20%), Positives = 18/63 (28%), Gaps = 15/63 (23%)

Query: 108 SDCMVCLCTLRDGELVRK-----LDCRHVFHKDCLDGWL----------HHLNFNCPLCR 152
             C +C     DG  V         C    H  CL+ W                 CP C+
Sbjct: 309 LRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCK 368

Query: 153 SPV 155
           + +
Sbjct: 369 AKL 371

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

 Score = 43.4 bits (102), Expect = 1e-06
 Identities = 10/47 (21%), Positives = 14/47 (29%), Gaps = 3/47 (6%)

Query: 109 DCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLH-HLNFNCPLCRSP 154
            C +C   L  G       C    H  C+  +   +    CP C   
Sbjct: 17  ICNICHSLLIQG--QSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDY 61

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

 Score = 43.3 bits (102), Expect = 1e-06
 Identities = 17/55 (30%), Positives = 22/55 (40%), Gaps = 4/55 (7%)

Query: 101 VASSAAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPV 155
            A S    +C +CL T         L C+HVF   C+ G        C LCR  +
Sbjct: 9   TAPSLTVPECAICLQTCVH---PVSLPCKHVFCYLCVKGASWL-GKRCALCRQEI 59

>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 = 43.3 bits (102), Expect = 3e-06
 Identities = 15/57 (26%), Positives = 24/57 (42%), Gaps = 3/57 (5%)

Query: 110 CMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERVWNTRR 166
           C++C     D      ++C H F K C+  +L   +  CP+C   V     + N R 
Sbjct: 18  CVLCGGYFID--ATTIIECLHSFCKTCIVRYLET-SKYCPICDVQVHKTRPLLNIRS 71

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

 Score = 42.1 bits (99), Expect = 3e-06
 Identities = 11/51 (21%), Positives = 21/51 (41%), Gaps = 3/51 (5%)

Query: 109 DCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE 159
            C  C   L      ++ +C H F + C+   L   +  C  C+  +V ++
Sbjct: 17  KCEKCHLVLCSP---KQTECGHRFCESCMAALLSSSSPKCTACQESIVKDK 64

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

 Score = 44.3 bits (104), Expect = 4e-06
 Identities = 10/47 (21%), Positives = 14/47 (29%), Gaps = 3/47 (6%)

Query: 109 DCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLH-HLNFNCPLCRSP 154
            C +C   L  G       C    H  C+  +   +    CP C   
Sbjct: 182 ICNICHSLLIQG--QSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDY 226

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

 Score = 42.1 bits (99), Expect = 5e-06
 Identities = 10/46 (21%), Positives = 16/46 (34%), Gaps = 4/46 (8%)

Query: 110 CMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPV 155
           C +C    ++  +     CRH F + C           C +C  P 
Sbjct: 18  CFICRQAFQNPVV---TKCRHYFCESCALEHFRA-TPRCYICDQPT 59

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

 Score = 41.2 bits (96), Expect = 8e-06
 Identities = 13/62 (20%), Positives = 21/62 (33%), Gaps = 1/62 (1%)

Query: 103 SSAAGSDCMVCLCTLR-DGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERV 161
           +     +C +C+  L  D        C +   + C        N  CP CR P   +  V
Sbjct: 7   AKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDPAV 66

Query: 162 WN 163
           + 
Sbjct: 67  YK 68

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

 Score = 42.7 bits (100), Expect = 9e-06
 Identities = 13/48 (27%), Positives = 22/48 (45%), Gaps = 4/48 (8%)

Query: 110 CMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVS 157
           C++C     +      L+C H F   C++ W+      CP+CR  + S
Sbjct: 67  CIICSEYFIEAVT---LNCAHSFCSYCINEWMKR-KIECPICRKDIKS 110

>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 = 42.3 bits (99), Expect = 9e-06
 Identities = 14/47 (29%), Positives = 19/47 (40%), Gaps = 3/47 (6%)

Query: 109 DCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPV 155
            C+ C   +          C+H   KDCLD       F+CP CR  +
Sbjct: 54  QCICCQELVFR---PITTVCQHNVCKDCLDRSFRAQVFSCPACRYDL 97

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

 Score = 40.9 bits (96), Expect = 1e-05
 Identities = 13/46 (28%), Positives = 20/46 (43%), Gaps = 3/46 (6%)

Query: 110 CMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPV 155
           C +C   L D   +   +C H F K C+    ++ +  CP C   V
Sbjct: 18  CSICKGYLIDATTI--TECLHTFCKSCIVRHFYY-SNRCPKCNIVV 60

>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} Length = 170

 Score = 42.0 bits (98), Expect = 2e-05
 Identities = 12/54 (22%), Positives = 22/54 (40%), Gaps = 3/54 (5%)

Query: 110 CMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERVWN 163
           C +CL  LR+     +  C H F K C+   +      CP+    ++  +   +
Sbjct: 21  CPICLMALRE---AVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFPD 71

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

 Score = 41.3 bits (97), Expect = 2e-05
 Identities = 12/50 (24%), Positives = 21/50 (42%), Gaps = 3/50 (6%)

Query: 110 CMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE 159
           C +CL  LR+     +  C H F K C+   +      CP+    ++  +
Sbjct: 21  CPICLMALRE---AVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQ 67

>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 = 41.9 bits (98), Expect = 2e-05
 Identities = 17/50 (34%), Positives = 25/50 (50%), Gaps = 2/50 (4%)

Query: 110 CMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE 159
           C +CL  L++   +   +C H F  DC+   L   N  CP CR  +VS+ 
Sbjct: 57  CPICLDMLKN--TMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKR 104

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

 Score = 39.7 bits (93), Expect = 3e-05
 Identities = 13/50 (26%), Positives = 20/50 (40%), Gaps = 3/50 (6%)

Query: 110 CMVCLCTLRDGELVRK-LDCRHVFHKDCLDGWLHH--LNFNCPLCRSPVV 156
           C +C+ +  + +L  K L C H   + CL+  L        CP C     
Sbjct: 18  CPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITR 67

>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 = 40.4 bits (94), Expect = 6e-05
 Identities = 13/46 (28%), Positives = 18/46 (39%), Gaps = 3/46 (6%)

Query: 110 CMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPV 155
           C+ C   +         +C H   KDCL        F+CP CR  +
Sbjct: 81  CVCCQELVYQPVT---TECFHNVCKDCLQRSFKAQVFSCPACRHDL 123

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

 Score = 40.1 bits (93), Expect = 7e-05
 Identities = 14/50 (28%), Positives = 17/50 (34%), Gaps = 3/50 (6%)

Query: 110 CMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE 159
           C  C   LR      +  C H +   CL   L     NC  C    + EE
Sbjct: 34  CSACRNVLRR---PFQAQCGHRYCSFCLASILSSGPQNCAACVHEGIYEE 80

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

 Score = 39.8 bits (92), Expect = 9e-05
 Identities = 14/58 (24%), Positives = 22/58 (37%), Gaps = 5/58 (8%)

Query: 110 CMVCLCTLRDGELVRK----LDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERVWN 163
           C +C+    +     +     +C HVF   CL   L + N  CP CR  +  +     
Sbjct: 10  CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN-TCPTCRKKINHKRYHPI 66

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

 Score = 37.3 bits (87), Expect = 1e-04
 Identities = 11/46 (23%), Positives = 17/46 (36%), Gaps = 7/46 (15%)

Query: 110 CMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPV 155
           C  C    +     + L C H     CL+         CP+C++P 
Sbjct: 9   CQQCQAEAKC---PKLLPCLHTLCSGCLEA----SGMQCPICQAPW 47

>1rmd_A RAG1; V(D)J recombination, antibody, MAD, ring finger, zinc binuclear cluster, zinc finger, DNA-binding protein; 2.10A {Mus musculus} SCOP: g.37.1.1 g.44.1.1 Length = 116

 Score = 38.4 bits (89), Expect = 2e-04
 Identities = 14/46 (30%), Positives = 21/46 (45%), Gaps = 3/46 (6%)

Query: 110 CMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPV 155
           C +C   L D     +  C+H+F + C+   L  +   CP CR P 
Sbjct: 26  CQICEHILAD---PVETSCKHLFCRICILRCLKVMGSYCPSCRYPC 68

>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 = 36.8 bits (85), Expect = 5e-04
 Identities = 11/55 (20%), Positives = 20/55 (36%), Gaps = 7/55 (12%)

Query: 104 SAAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHH-------LNFNCPLC 151
           S+  S C +CL      ++     C+ +F   CL  ++            +CP  
Sbjct: 2   SSGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDA 56

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	179
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.62
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.6
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.57
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.57
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.56
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.56
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.49
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.48
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.45
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.45
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.44
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.44
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.43
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.43
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.43
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.43
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.42
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.41
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.41
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.39
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.38
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.37
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.36
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.36
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.35
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.34
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.34
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.34
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.33
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.33
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.33
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.33
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.3
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.28
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.28
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.28
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.28
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.27
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.26
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.25
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.24
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.22
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.21
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.2
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.2
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	99.19
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.18
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.18
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.13
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	99.11
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	99.09
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.08
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	99.08
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	99.05
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	99.03
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	99.02
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	99.02
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	98.99
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.98
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.96
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.95
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.82
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.77
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.76
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.75
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.69
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.67
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.63
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.57
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.51
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	98.27
3nw0_A	238	Non-structural maintenance of chromosomes element	97.8
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	95.97
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	94.58
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	94.56
1we9_A	64	PHD finger family protein; structural genomics, PH	91.9
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	90.49
1wep_A	79	PHF8; structural genomics, PHD domain, riken struc	90.46
2lv9_A	98	Histone-lysine N-methyltransferase MLL5; zinc fing	89.59
2yt5_A	66	Metal-response element-binding transcription facto	89.47
2k16_A	75	Transcription initiation factor TFIID subunit 3; p	89.16
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	88.72
2ysm_A	111	Myeloid/lymphoid or mixed-lineage leukemia protein	88.49
1f62_A	51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	88.35
3lqh_A	183	Histone-lysine N-methyltransferase MLL; PHD finger	86.71
1weo_A	93	Cellulose synthase, catalytic subunit (IRX3); stru	85.8
3v43_A	112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	85.52
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	85.01
2vpb_A	65	Hpygo1, pygopus homolog 1; gene regulation, WNT si	84.99
2lbm_A	142	Transcriptional regulator ATRX; metal binding prot	84.87
1wem_A	76	Death associated transcription factor 1; structura	84.54
3o36_A	184	Transcription intermediary factor 1-alpha; TRIM24,	83.49
1mm2_A	61	MI2-beta; PHD, zinc finger, protein scaffold, DNA	83.16
2ri7_A	174	Nucleosome-remodeling factor subunit BPTF; zinc fi	83.02
2yql_A	56	PHD finger protein 21A; PHD domain, structural gen	82.12
1xwh_A	66	Autoimmune regulator; PHD domain, Zn binding domai	80.79
3u5n_A	207	E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, b	80.73
3ql9_A	129	Transcriptional regulator ATRX; zinc finger, trans	80.11

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

Probab=99.62  E-value=3.1e-16  Score=104.01  Aligned_cols=53  Identities=38%  Similarity=0.971  Sum_probs=48.0

Q ss_pred             CCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323          106 AGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE  159 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~  159 (179)
                      ++..|+||++.+..++.++.+||+|.||..|+.+|+.. +.+||+||.++.+..
T Consensus        22 ~~~~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~w~~~-~~~CP~Cr~~~~~~~   74 (75)
T 1x4j_A           22 EQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKA-NRTCPICRADSGPSS   74 (75)
T ss_dssp             SCCEETTTTEECCBTCEEEEETTTEEEETTHHHHHHHH-CSSCTTTCCCCCCCC
T ss_pred             CCCCCeECCcccCCCCeEEEECCCCHhHHHHHHHHHHc-CCcCcCcCCcCCCCC
Confidence            46799999999999988899999999999999999997 789999999987643

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

Probab=99.60  E-value=1.1e-15  Score=105.24  Aligned_cols=52  Identities=31%  Similarity=0.786  Sum_probs=46.9

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCC
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVS  157 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~  157 (179)
                      .++..|+||++.+..++.++.+||+|.||..|+..|+.. +.+||+||.++.+
T Consensus        38 ~~~~~C~IC~~~~~~~~~~~~l~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~   89 (91)
T 2l0b_A           38 GQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQK-SGTCPVCRCMFPP   89 (91)
T ss_dssp             SSCSEETTTTEECCTTCEEEEETTTEEEEHHHHHHHHTT-TCBCTTTCCBSSC
T ss_pred             CCCCCCcccChhhcCCCcEEecCCCChHHHHHHHHHHHc-CCcCcCcCccCCC
Confidence            356799999999998888889999999999999999986 7799999998865

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

Probab=99.57  E-value=1.9e-15  Score=100.72  Aligned_cols=58  Identities=36%  Similarity=0.847  Sum_probs=50.4

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCcchhh
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERVWN  163 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~~  163 (179)
                      ..+..|+||++.|..++.+..++|+|.||..|+..|+.. +.+||+||..+...+...+
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~-~~~CP~Cr~~~~~~~~~~~   70 (78)
T 2ect_A           13 GSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQ-HDSCPVCRKSLTGQNTATN   70 (78)
T ss_dssp             SSSCCCTTTTSCCCTTSCEEECTTSCEEETTTTHHHHTT-TCSCTTTCCCCCCSCSCCC
T ss_pred             CCCCCCeeCCccccCCCCEEEeCCCCeecHHHHHHHHHc-CCcCcCcCCccCCcccCCC
Confidence            457899999999998888888999999999999999986 7899999999987664433

>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=99.57  E-value=4.6e-15  Score=96.61  Aligned_cols=53  Identities=42%  Similarity=1.007  Sum_probs=47.2

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCC
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSE  158 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~  158 (179)
                      ..+..|+||++.+..++.+..++|+|.||..|+..|+.. +.+||+||..+...
T Consensus        12 ~~~~~C~IC~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~-~~~CP~Cr~~~~~~   64 (69)
T 2kiz_A           12 DTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLIT-NKKCPICRVDIEAQ   64 (69)
T ss_dssp             TCCCSBTTTTBCCCSSSCEEECTTSCEEEHHHHHHHHHH-CSBCTTTCSBSCSC
T ss_pred             CCCCCCeeCCccccCCCcEEEeCCCCHHHHHHHHHHHHc-CCCCcCcCccccCc
Confidence            456799999999988778888999999999999999997 77899999988654

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

Probab=99.56  E-value=4.3e-15  Score=98.02  Aligned_cols=54  Identities=33%  Similarity=0.751  Sum_probs=48.2

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE  159 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~  159 (179)
                      .++..|+||++.+..+..+..++|+|.||..|+.+|+.. +.+||+||.++....
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~-~~~CP~Cr~~~~~~~   66 (74)
T 2ep4_A           13 NLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEV-RKVCPLCNMPVLQLA   66 (74)
T ss_dssp             CCSCBCSSSCCBCCSSSCEEEETTTEEEEHHHHHHHHHH-CSBCTTTCCBCSSCC
T ss_pred             CCCCCCcCCCcccCCCCcEEEcCCCCEecHHHHHHHHHc-CCcCCCcCccccccc
Confidence            457799999999999888888999999999999999997 679999999987544

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

Probab=99.56  E-value=2.3e-15  Score=93.71  Aligned_cols=51  Identities=51%  Similarity=1.056  Sum_probs=45.6

Q ss_pred             cCCcccccccccccCCCceEEeC-CCCcchHHhHHHHHhcCCCCCCCccCCCC
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLD-CRHVFHKDCLDGWLHHLNFNCPLCRSPVV  156 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lp-C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~  156 (179)
                      +++.+|+||++.+..++....++ |+|.||..|+.+|+.. +.+||+||.++.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~-~~~CP~Cr~~~~   54 (55)
T 1iym_A            3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGS-HSTCPLCRLTVV   54 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTT-CCSCSSSCCCSC
T ss_pred             CCCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHc-CCcCcCCCCEeE
Confidence            34679999999999888888887 9999999999999986 789999999874

>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=99.49  E-value=2.7e-14  Score=88.75  Aligned_cols=51  Identities=29%  Similarity=0.834  Sum_probs=43.4

Q ss_pred             cCCcccccccccccCC-CceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCC
Q 030323          105 AAGSDCMVCLCTLRDG-ELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVV  156 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~-~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~  156 (179)
                      .++..|+||++.+.++ +....++|+|.||..|+.+|+.. +.+||+||.++.
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~   54 (55)
T 2ecm_A            3 SGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKE-GYRCPLCSGPSS   54 (55)
T ss_dssp             SCCCSCTTTCCCCCTTTSCEEECTTSCEEETTHHHHHHHH-TCCCTTSCCSSC
T ss_pred             CCCCcCcccChhhcCCCcCeEecCCCCcccHHHHHHHHHc-CCcCCCCCCcCC
Confidence            3567999999998654 34677899999999999999997 689999999874

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

Probab=99.48  E-value=1.6e-14  Score=94.25  Aligned_cols=54  Identities=26%  Similarity=0.645  Sum_probs=45.8

Q ss_pred             cCCcccccccccccCC----CceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323          105 AAGSDCMVCLCTLRDG----ELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE  159 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~----~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~  159 (179)
                      .++..|+||++.+.++    +....++|||.||..|+.+|+.. +.+||+||.++..++
T Consensus         8 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~~~   65 (71)
T 3ng2_A            8 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN-ANTCPTCRKKINHKR   65 (71)
T ss_dssp             TTCCBCTTTCCBHHHHHTTTCCEEECTTSCEEEHHHHHHHHHH-CSBCTTTCCBCCCCS
T ss_pred             CCCCCCcccChhhhccccccCCeEeCCCCChHhHHHHHHHHHc-CCCCCCCCCccChhh
Confidence            4578999999998764    44577899999999999999997 779999999987654

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

Probab=99.45  E-value=7.1e-14  Score=90.49  Aligned_cols=52  Identities=27%  Similarity=0.660  Sum_probs=44.1

Q ss_pred             cCCcccccccccccCC----CceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCC
Q 030323          105 AAGSDCMVCLCTLRDG----ELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVS  157 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~----~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~  157 (179)
                      .+...|+||++.+.++    .....++|+|.||..|+..|+.. +.+||+||.++..
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~   68 (69)
T 2ea6_A           13 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN-ANTCPTCRKKINH   68 (69)
T ss_dssp             TCCCCCTTTCCCHHHHTTTTCCEEECSSSCEEEHHHHHHHHHH-CSSCTTTCCCCCC
T ss_pred             CCCCCCcccCccccccccccCCeEeCCCCChhcHHHHHHHHHc-CCCCCCCCCccCc
Confidence            4578999999998764    33467899999999999999997 7899999998854

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

Probab=99.45  E-value=5.3e-14  Score=94.78  Aligned_cols=52  Identities=31%  Similarity=0.767  Sum_probs=40.8

Q ss_pred             CCcccccccccccC-----------CCceEEeC-CCCcchHHhHHHHHhcCCCCCCCccCCCCCC
Q 030323          106 AGSDCMVCLCTLRD-----------GELVRKLD-CRHVFHKDCLDGWLHHLNFNCPLCRSPVVSE  158 (179)
Q Consensus       106 ~~~~C~ICl~~~~~-----------~~~~~~lp-C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~  158 (179)
                      ++.+|+||++.|..           ++.++.++ |+|.||..||.+|+.. +.+||+||+++..+
T Consensus        14 ~~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~~~~~   77 (81)
T 2ecl_A           14 ECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQ-NNRCPLCQQDWVVQ   77 (81)
T ss_dssp             CCSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTT-CCBCTTTCCBCCEE
T ss_pred             CCCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHh-CCCCCCcCCCcchh
Confidence            35667777777744           44456665 9999999999999997 77999999988654

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

Probab=99.44  E-value=1.6e-13  Score=90.16  Aligned_cols=52  Identities=25%  Similarity=0.510  Sum_probs=45.4

Q ss_pred             cCCcccccccccccCCCceEEe-CCCCcchHHhHHHHHhcCCCCCCCccCCCCCCcc
Q 030323          105 AAGSDCMVCLCTLRDGELVRKL-DCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEER  160 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~l-pC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~  160 (179)
                      .+...|+||++.+.++   ..+ +|+|.||..|+..|+.. +..||+||.++...+.
T Consensus        13 ~~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~~~~~   65 (72)
T 2djb_A           13 TPYILCSICKGYLIDA---TTITECLHTFCKSCIVRHFYY-SNRCPKCNIVVHQTQP   65 (72)
T ss_dssp             CGGGSCTTTSSCCSSC---EECSSSCCEECHHHHHHHHHH-CSSCTTTCCCCCSSCS
T ss_pred             CCCCCCCCCChHHHCc---CEECCCCCHHHHHHHHHHHHc-CCcCCCcCcccCcccc
Confidence            4578999999999887   666 89999999999999987 7899999999876653

>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=99.44  E-value=9.5e-14  Score=98.84  Aligned_cols=53  Identities=26%  Similarity=0.601  Sum_probs=42.6

Q ss_pred             CcccccccccccCCC---------------ceEEeCCCCcchHHhHHHHHhc----CCCCCCCccCCCCCCc
Q 030323          107 GSDCMVCLCTLRDGE---------------LVRKLDCRHVFHKDCLDGWLHH----LNFNCPLCRSPVVSEE  159 (179)
Q Consensus       107 ~~~C~ICl~~~~~~~---------------~~~~lpC~H~fh~~Ci~~wl~~----~~~~CP~Cr~~~~~~~  159 (179)
                      +..|+||++.|..+.               .+..++|+|.||..||..|+..    .+.+||+||..+....
T Consensus        25 ~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~~~~~   96 (114)
T 1v87_A           25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEKT   96 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSCS
T ss_pred             CCcCccCChhhcCcccccccccccccCcccceecCCCCCcccHHHHHHHHHcccCCCCCcCCCCCCccCCCC
Confidence            569999999997653               3346789999999999999952    2568999999886553

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

Probab=99.43  E-value=7.4e-14  Score=92.91  Aligned_cols=66  Identities=12%  Similarity=0.317  Sum_probs=51.3

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCcchhhhhhhcccchhhc
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERVWNTRRRVGGDLIQW  175 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~~~  175 (179)
                      .++..|+||++.+.++   ..++|||.||..||..|+...+.+||+||.++...+..  .+..+...+..|
T Consensus         6 ~~~~~C~IC~~~~~~P---v~~~CgH~fc~~Ci~~~~~~~~~~CP~C~~~~~~~~l~--~n~~l~~~i~~~   71 (78)
T 1t1h_A            6 PEYFRCPISLELMKDP---VIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLT--PNYVLKSLIALW   71 (78)
T ss_dssp             SSSSSCTTTSCCCSSE---EEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCCE--ECTTTHHHHHHH
T ss_pred             cccCCCCCccccccCC---EEcCCCCeecHHHHHHHHHHCcCCCCCCcCCCChhhCc--cCHHHHHHHHHH
Confidence            4578999999999988   77899999999999999986577899999998765422  233344444444

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

Probab=99.43  E-value=5.9e-14  Score=90.93  Aligned_cols=50  Identities=34%  Similarity=0.770  Sum_probs=43.1

Q ss_pred             CCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCC
Q 030323          106 AGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSE  158 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~  158 (179)
                      .+..|+||++.+.++  ...++|||.||..|+..|+.. +.+||+||.++...
T Consensus         4 ~~~~C~IC~~~~~~~--~~~~~C~H~fc~~Ci~~~~~~-~~~CP~Cr~~~~~~   53 (68)
T 1chc_A            4 VAERCPICLEDPSNY--SMALPCLHAFCYVCITRWIRQ-NPTCPLCKVPVESV   53 (68)
T ss_dssp             CCCCCSSCCSCCCSC--EEETTTTEEESTTHHHHHHHH-SCSTTTTCCCCCCE
T ss_pred             CCCCCeeCCccccCC--cEecCCCCeeHHHHHHHHHhC-cCcCcCCChhhHhh
Confidence            467999999998764  466799999999999999987 78999999998654

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

Probab=99.43  E-value=6.2e-14  Score=89.47  Aligned_cols=53  Identities=28%  Similarity=0.647  Sum_probs=44.9

Q ss_pred             CCcccccccccccCC----CceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323          106 AGSDCMVCLCTLRDG----ELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE  159 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~----~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~  159 (179)
                      ++.+|+||++.+.++    +....++|||.||..|+.+|+.. +.+||+||.++..++
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~~~   58 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN-ANTCPTCRKKINHKR   58 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEETTSCEEEHHHHHHHHHH-CSBCTTTCCBCTTTC
T ss_pred             CCCCCCccChhhhCccccCCCEEeCCCCCchhHHHHHHHHHc-CCCCCCCCccCCccc
Confidence            357999999998754    44567899999999999999997 789999999987654

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

Probab=99.43  E-value=1.5e-13  Score=88.71  Aligned_cols=52  Identities=21%  Similarity=0.571  Sum_probs=44.5

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE  159 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~  159 (179)
                      .+...|+||++.+.++   ..++|||.||..|+..|+...+..||+||.++..++
T Consensus        13 ~~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   64 (66)
T 2ecy_A           13 EDKYKCEKCHLVLCSP---KQTECGHRFCESCMAALLSSSSPKCTACQESIVKDK   64 (66)
T ss_dssp             CCCEECTTTCCEESSC---CCCSSSCCCCHHHHHHHHTTSSCCCTTTCCCCCTTT
T ss_pred             CcCCCCCCCChHhcCe---eECCCCCHHHHHHHHHHHHhCcCCCCCCCcCCChhh
Confidence            4578999999999888   557999999999999999654678999999987643

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

Probab=99.42  E-value=9.5e-14  Score=90.96  Aligned_cols=50  Identities=30%  Similarity=0.626  Sum_probs=43.9

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCC
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSE  158 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~  158 (179)
                      .++..|+||++.+.++   ..++|+|.||..|+..|+.. +.+||+||..+...
T Consensus        13 ~~~~~C~IC~~~~~~~---~~~~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~~~   62 (71)
T 2d8t_A           13 LTVPECAICLQTCVHP---VSLPCKHVFCYLCVKGASWL-GKRCALCRQEIPED   62 (71)
T ss_dssp             SSCCBCSSSSSBCSSE---EEETTTEEEEHHHHHHCTTC-SSBCSSSCCBCCHH
T ss_pred             CCCCCCccCCcccCCC---EEccCCCHHHHHHHHHHHHC-CCcCcCcCchhCHh
Confidence            4578999999999877   77899999999999999986 68999999988643

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

Probab=99.41  E-value=3e-13  Score=89.35  Aligned_cols=52  Identities=21%  Similarity=0.554  Sum_probs=44.6

Q ss_pred             cCCcccccccccccCCCceEEeC-CCCcchHHhHHHHHhcCC-CCCCCccCCCCCCc
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLD-CRHVFHKDCLDGWLHHLN-FNCPLCRSPVVSEE  159 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lp-C~H~fh~~Ci~~wl~~~~-~~CP~Cr~~~~~~~  159 (179)
                      .++..|+||++.+.++   ..++ |||.||..||..|+.... ..||+||.++...+
T Consensus        13 ~~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~   66 (74)
T 2yur_A           13 PDELLCLICKDIMTDA---VVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPD   66 (74)
T ss_dssp             CGGGSCSSSCCCCTTC---EECSSSCCEECTTHHHHHHHHSSSSCCSSSCCSSCCTT
T ss_pred             CCCCCCcCCChHHhCC---eEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCcCCCcc
Confidence            4578999999999988   7799 999999999999998632 68999999876544

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

Probab=99.41  E-value=4.2e-13  Score=87.98  Aligned_cols=52  Identities=29%  Similarity=0.613  Sum_probs=44.1

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhc--CCCCCCCccCCCCCCc
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHH--LNFNCPLCRSPVVSEE  159 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~--~~~~CP~Cr~~~~~~~  159 (179)
                      .+...|+||++.+.++   ..++|||.||..|+..|+..  .+..||+||.++..++
T Consensus        18 ~~~~~C~IC~~~~~~~---~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   71 (73)
T 2ysl_A           18 QEEVICPICLDILQKP---VTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNA   71 (73)
T ss_dssp             CCCCBCTTTCSBCSSE---EECTTCCEEEHHHHHHHCSSSCSCCCCSSSCCCCCCCC
T ss_pred             ccCCEeccCCcccCCe---EEcCCCChhhHHHHHHHHHcCCCCCCCCCCCCcCCccc
Confidence            4578999999999876   77899999999999999973  3568999999986543

>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=99.39  E-value=3.3e-13  Score=95.55  Aligned_cols=50  Identities=28%  Similarity=0.537  Sum_probs=42.0

Q ss_pred             CCcccccccccccCCC---------------ceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCC
Q 030323          106 AGSDCMVCLCTLRDGE---------------LVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVV  156 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~---------------~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~  156 (179)
                      ++..|+||++.|..+-               .+..++|+|.||..||.+|+.. +.+||+||.++.
T Consensus        36 ~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~-~~~CP~Cr~~~~  100 (106)
T 3dpl_R           36 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT-RQVCPLDNREWE  100 (106)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTT-CSBCSSSCSBCC
T ss_pred             CCCCCccCChhHhCcCchhhccccccCCccceEeecccCcEECHHHHHHHHHc-CCcCcCCCCcce
Confidence            4678999999987541               2566789999999999999997 889999999864

>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=4.6e-13  Score=89.77  Aligned_cols=48  Identities=21%  Similarity=0.533  Sum_probs=43.0

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCC
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVV  156 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~  156 (179)
                      .....|+||++.+.++   ..++|+|.||..|+..|+.. ...||+||.++.
T Consensus        13 ~~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~   60 (81)
T 2csy_A           13 EIPFRCFICRQAFQNP---VVTKCRHYFCESCALEHFRA-TPRCYICDQPTG   60 (81)
T ss_dssp             CCCSBCSSSCSBCCSE---EECTTSCEEEHHHHHHHHHH-CSBCSSSCCBCC
T ss_pred             CCCCCCcCCCchhcCe---eEccCCCHhHHHHHHHHHHC-CCcCCCcCcccc
Confidence            4567999999999887   67899999999999999987 789999999985

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

Probab=99.37  E-value=1.5e-13  Score=89.54  Aligned_cols=51  Identities=29%  Similarity=0.800  Sum_probs=44.3

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCcc
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEER  160 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~  160 (179)
                      .+...|+||++.+.+    ..++|+|.||..|+..|+.. +.+||+||.++...+.
T Consensus        13 ~~~~~C~IC~~~~~~----~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~~~~   63 (70)
T 2ecn_A           13 TDEEECCICMDGRAD----LILPCAHSFCQKCIDKWSDR-HRNCPICRLQMTGANE   63 (70)
T ss_dssp             CCCCCCSSSCCSCCS----EEETTTEEECHHHHHHSSCC-CSSCHHHHHCTTCCCC
T ss_pred             CCCCCCeeCCcCccC----cccCCCCcccHHHHHHHHHC-cCcCCCcCCcccCCCc
Confidence            456899999999876    67899999999999999985 7899999999876654

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

Probab=99.36  E-value=1.4e-12  Score=88.24  Aligned_cols=54  Identities=22%  Similarity=0.607  Sum_probs=45.2

Q ss_pred             cCCcccccccccccCCCc-eEEeCCCCcchHHhHHHHHhcC--CCCCCCccCCCCCC
Q 030323          105 AAGSDCMVCLCTLRDGEL-VRKLDCRHVFHKDCLDGWLHHL--NFNCPLCRSPVVSE  158 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~-~~~lpC~H~fh~~Ci~~wl~~~--~~~CP~Cr~~~~~~  158 (179)
                      .+...|+||++.+.+.+. ...++|||.||..|+..|+...  ...||+||..+...
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~   69 (88)
T 2ct2_A           13 REVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRIT   69 (88)
T ss_dssp             CSCCBCTTTCCBCCTTSSCEEECSSSCEEEHHHHHHHHHHCSSCBCCTTTCCCBCCS
T ss_pred             cCCCCCccCCccccccCCCeEECCCCChhhHHHHHHHHHcCCCCcCCCCCCCcccch
Confidence            456899999999988543 4778999999999999999873  36899999988654

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

Probab=99.36  E-value=2.1e-13  Score=100.57  Aligned_cols=49  Identities=27%  Similarity=0.846  Sum_probs=43.6

Q ss_pred             CcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323          107 GSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE  159 (179)
Q Consensus       107 ~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~  159 (179)
                      +..|+||++.+.++   +.+||||.||..|+..|+.. +.+||+||.++....
T Consensus        53 ~~~C~iC~~~~~~~---~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~~~  101 (138)
T 4ayc_A           53 ELQCIICSEYFIEA---VTLNCAHSFCSYCINEWMKR-KIECPICRKDIKSKT  101 (138)
T ss_dssp             HSBCTTTCSBCSSE---EEETTSCEEEHHHHHHHTTT-CSBCTTTCCBCCCEE
T ss_pred             cCCCcccCcccCCc---eECCCCCCccHHHHHHHHHc-CCcCCCCCCcCCCCC
Confidence            46899999999887   78899999999999999986 789999999987554

>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=99.35  E-value=2.7e-13  Score=98.04  Aligned_cols=67  Identities=25%  Similarity=0.434  Sum_probs=51.1

Q ss_pred             CCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCcchhhhhhhcccchhhcc
Q 030323          106 AGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERVWNTRRRVGGDLIQWF  176 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~~~~  176 (179)
                      ++..|+||++.+.++   ..++|||.||..|+..|+......||+||.++.... ....+..+...+..||
T Consensus        51 ~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~-~~~~n~~l~~~i~~~~  117 (124)
T 3fl2_A           51 ETFQCICCQELVFRP---ITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGRSY-AMQVNQPLQTVLNQLF  117 (124)
T ss_dssp             HHTBCTTTSSBCSSE---EECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTTC-CCCCCHHHHHHHHHHS
T ss_pred             cCCCCCcCChHHcCc---EEeeCCCcccHHHHHHHHhHCcCCCCCCCccCCCCC-CCCCCHHHHHHHHHHc
Confidence            457899999999987   778999999999999999864569999999997632 2233444444445554

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

Probab=99.34  E-value=7.8e-13  Score=85.00  Aligned_cols=53  Identities=25%  Similarity=0.493  Sum_probs=43.7

Q ss_pred             Ccccccccc-cccCCCce-EEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323          107 GSDCMVCLC-TLRDGELV-RKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE  159 (179)
Q Consensus       107 ~~~C~ICl~-~~~~~~~~-~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~  159 (179)
                      +..|+||++ .+.++... ..++|||.||..|+..|+...+..||+||.++...+
T Consensus         3 ~~~C~IC~~~~~~~~~~~~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   57 (65)
T 1g25_A            3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSN   57 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCC
T ss_pred             CCcCCcCCCCccCCCccCeecCCCCCHhHHHHHHHHHHcCCCcCCCCCCcccccc
Confidence            578999999 78777543 346899999999999998765678999999987654

>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=99.34  E-value=3.7e-13  Score=94.02  Aligned_cols=51  Identities=31%  Similarity=0.767  Sum_probs=44.2

Q ss_pred             CCcccccccccccCCCceEE-eCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323          106 AGSDCMVCLCTLRDGELVRK-LDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE  159 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~-lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~  159 (179)
                      ++..|+||++.+.++   +. ++|||.||..||..|+...+..||+||.++...+
T Consensus        21 ~~~~C~IC~~~~~~p---~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   72 (100)
T 3lrq_A           21 EVFRCFICMEKLRDA---RLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLRE   72 (100)
T ss_dssp             HHTBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCCGGG
T ss_pred             CCCCCccCCccccCc---cccCCCCChhhHHHHHHHHHHCcCCCCCCCCcCCHHH
Confidence            467999999999887   66 7899999999999999974479999999986544

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

Probab=99.34  E-value=8.6e-13  Score=88.82  Aligned_cols=54  Identities=26%  Similarity=0.692  Sum_probs=44.6

Q ss_pred             cCCcccccccccccCCCceEEeCCC-----CcchHHhHHHHHhcCC-CCCCCccCCCCCCc
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCR-----HVFHKDCLDGWLHHLN-FNCPLCRSPVVSEE  159 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~-----H~fh~~Ci~~wl~~~~-~~CP~Cr~~~~~~~  159 (179)
                      .++..|.||++++..++.+ .+||+     |.||..||++|+...+ .+||+||..+..+.
T Consensus        13 ~~~~~C~IC~~~~~~~~~l-~~pC~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~~~~~   72 (80)
T 2d8s_A           13 SSQDICRICHCEGDDESPL-ITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFIMET   72 (80)
T ss_dssp             TTSCCCSSSCCCCCSSSCE-ECSSSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBCCCCC
T ss_pred             CCCCCCeEcCccccCCCee-EeccccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCeeecCc
Confidence            4567999999998766655 58996     9999999999998633 58999999987654

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

Probab=99.33  E-value=1.1e-12  Score=89.76  Aligned_cols=49  Identities=20%  Similarity=0.550  Sum_probs=43.0

Q ss_pred             cCCcccccccccccCCCceEEeC-CCCcchHHhHHHHHhcC-CCCCCCccCCCC
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLD-CRHVFHKDCLDGWLHHL-NFNCPLCRSPVV  156 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lp-C~H~fh~~Ci~~wl~~~-~~~CP~Cr~~~~  156 (179)
                      .++..|+||++.|.++   ..++ |||.||..||..|+... ...||+||.++.
T Consensus        11 ~~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~   61 (92)
T 3ztg_A           11 PDELLCLICKDIMTDA---VVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV   61 (92)
T ss_dssp             CTTTEETTTTEECSSC---EECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSSC
T ss_pred             CcCCCCCCCChhhcCc---eECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcCC
Confidence            4578999999999988   7889 99999999999999753 368999999974

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

Probab=99.33  E-value=2.8e-12  Score=85.97  Aligned_cols=52  Identities=29%  Similarity=0.619  Sum_probs=44.8

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcC-----CCCCCCccCCCCCCc
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHL-----NFNCPLCRSPVVSEE  159 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~-----~~~CP~Cr~~~~~~~  159 (179)
                      .++..|+||++.+.++   ..++|+|.||..|+..|+...     ...||+||..+..++
T Consensus        17 ~~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~   73 (85)
T 2ecw_A           17 KEEVTCPICLELLKEP---VSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGN   73 (85)
T ss_dssp             CTTTSCTTTCSCCSSC---EECTTSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCCCTTC
T ss_pred             ccCCCCcCCChhhCcc---eeCCCCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcCCHHh
Confidence            4577999999999888   678999999999999999863     568999999987653

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

Probab=99.33  E-value=3.8e-13  Score=89.38  Aligned_cols=52  Identities=25%  Similarity=0.539  Sum_probs=44.4

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcC------CCCCCCccCCCCCCc
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHL------NFNCPLCRSPVVSEE  159 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~------~~~CP~Cr~~~~~~~  159 (179)
                      .++..|+||++.+.++   ..++|||.||..|+..|+...      ...||+||.++...+
T Consensus        10 ~~~~~C~IC~~~~~~p---~~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~~~~~   67 (79)
T 2egp_A           10 QEEVTCPICLELLTEP---LSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFEH   67 (79)
T ss_dssp             CCCCEETTTTEECSSC---CCCSSSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCCCSSG
T ss_pred             ccCCCCcCCCcccCCe---eECCCCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcCCHhh
Confidence            4578999999999887   668999999999999999752      568999999987643

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

Probab=99.33  E-value=3.3e-12  Score=81.45  Aligned_cols=44  Identities=32%  Similarity=0.671  Sum_probs=38.7

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhc--CCCCCCCc
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHH--LNFNCPLC  151 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~--~~~~CP~C  151 (179)
                      .++..|+||++.+.++   ..++|||.||..|+..|+..  .+..||+|
T Consensus        18 ~~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           18 QEEVICPICLDILQKP---VTIDCGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCBCTTTCSBCSSC---EECTTSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             ccCCCCCcCCchhCCe---EEeCCCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            4578999999999988   77899999999999999984  35689998

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

Probab=99.30  E-value=3.3e-12  Score=85.59  Aligned_cols=52  Identities=31%  Similarity=0.626  Sum_probs=44.4

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhc-----CCCCCCCccCCCCCCc
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHH-----LNFNCPLCRSPVVSEE  159 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~-----~~~~CP~Cr~~~~~~~  159 (179)
                      .+...|+||++.+.++   ..++|+|.||..|+..|+..     ....||+||..+...+
T Consensus        17 ~~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~~~~~   73 (85)
T 2ecv_A           17 KEEVTCPICLELLTQP---LSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPEN   73 (85)
T ss_dssp             CCCCCCTTTCSCCSSC---BCCSSSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSSCSSS
T ss_pred             cCCCCCCCCCcccCCc---eeCCCCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCccCHHh
Confidence            4578999999999887   66799999999999999975     2578999999987644

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

Probab=99.28  E-value=1.6e-12  Score=91.80  Aligned_cols=49  Identities=27%  Similarity=0.636  Sum_probs=43.6

Q ss_pred             CCcccccccccccCCCceEEe-CCCCcchHHhHHHHHhcCCCCCCCccCCCCCC
Q 030323          106 AGSDCMVCLCTLRDGELVRKL-DCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSE  158 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~l-pC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~  158 (179)
                      ++..|+||++.+.++   ..+ +|||.||..|+..|+.. +..||+||..+...
T Consensus        14 ~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~~~   63 (108)
T 2ckl_A           14 PHLMCVLCGGYFIDA---TTIIECLHSFCKTCIVRYLET-SKYCPICDVQVHKT   63 (108)
T ss_dssp             GGTBCTTTSSBCSSE---EEETTTCCEEEHHHHHHHHTS-CSBCTTTCCBSCSS
T ss_pred             CcCCCccCChHHhCc---CEeCCCCChhhHHHHHHHHHh-CCcCcCCCcccccc
Confidence            467999999999887   666 89999999999999986 68999999998765

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

Probab=99.28  E-value=1.4e-12  Score=94.40  Aligned_cols=54  Identities=26%  Similarity=0.645  Sum_probs=46.0

Q ss_pred             cCCcccccccccccCC----CceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323          105 AAGSDCMVCLCTLRDG----ELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE  159 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~----~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~  159 (179)
                      .++.+|+||++.+.++    +....++|||.||..||.+|+.. +.+||+||..+...+
T Consensus         5 ~~~~~C~IC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~~~   62 (133)
T 4ap4_A            5 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN-ANTCPTCRKKINHKR   62 (133)
T ss_dssp             CCSCBCTTTCCBHHHHHHTTCCEEEETTCCEEEHHHHHHHHTT-CSBCTTTCCBCTTTC
T ss_pred             CCCCCCcccChhhhCccccccCeEecCCCChhhHHHHHHHHHh-CCCCCCCCCcCcccc
Confidence            4578999999998764    45577899999999999999986 779999999987654

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

Probab=99.28  E-value=3.7e-12  Score=79.66  Aligned_cols=44  Identities=34%  Similarity=0.931  Sum_probs=37.9

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhc--CCCCCCCc
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHH--LNFNCPLC  151 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~--~~~~CP~C  151 (179)
                      .+...|+||++.+.++   ..++|+|.||..|+..|+..  .+.+||+|
T Consensus        13 ~~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           13 QVEASCSVCLEYLKEP---VIIECGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             CCCCBCSSSCCBCSSC---CCCSSCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             ccCCCCccCCcccCcc---EeCCCCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            4568999999999888   66899999999999999653  36789998

>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=99.28  E-value=1.2e-12  Score=97.92  Aligned_cols=50  Identities=26%  Similarity=0.544  Sum_probs=44.3

Q ss_pred             CCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCC
Q 030323          106 AGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSE  158 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~  158 (179)
                      +...|+||++.+.++   ..++|||.||..||..|+......||+||.++...
T Consensus        77 ~~~~C~IC~~~~~~p---v~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  126 (150)
T 1z6u_A           77 QSFMCVCCQELVYQP---VTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQN  126 (150)
T ss_dssp             HHTBCTTTSSBCSSE---EECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTT
T ss_pred             cCCEeecCChhhcCC---EEcCCCCchhHHHHHHHHHhCCCcCCCCCccCCCC
Confidence            457999999999887   77899999999999999997456899999999765

>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=99.27  E-value=3e-13  Score=96.49  Aligned_cols=50  Identities=28%  Similarity=0.682  Sum_probs=44.3

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCC
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVS  157 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~  157 (179)
                      .++..|+||++.+.++   ..++|||.||..|+..|+...+..||+||..+..
T Consensus        13 ~~~~~C~iC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~   62 (115)
T 3l11_A           13 LSECQCGICMEILVEP---VTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSS   62 (115)
T ss_dssp             HHHHBCTTTCSBCSSC---EECTTSCEECHHHHCCCCCTTTSBCTTTCCBCHH
T ss_pred             CCCCCCccCCcccCce---eEcCCCCHHhHHHHHHHHhHCcCCCCCCCcccCc
Confidence            4578999999999988   7789999999999999997656789999999864

>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=1.7e-12  Score=90.19  Aligned_cols=49  Identities=20%  Similarity=0.499  Sum_probs=43.0

Q ss_pred             CCcccccccccccCCCceEEe-CCCCcchHHhHHHHHhcCCCCCCCccCCCCCC
Q 030323          106 AGSDCMVCLCTLRDGELVRKL-DCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSE  158 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~l-pC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~  158 (179)
                      +...|+||++.+.++   ..+ +|||.||..|+..|+.. +.+||+||..+...
T Consensus        21 ~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~-~~~CP~Cr~~~~~~   70 (99)
T 2y43_A           21 DLLRCGICFEYFNIA---MIIPQCSHNYCSLCIRKFLSY-KTQCPTCCVTVTEP   70 (99)
T ss_dssp             HHTBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHHTT-CCBCTTTCCBCCGG
T ss_pred             CCCCcccCChhhCCc---CEECCCCCHhhHHHHHHHHHC-CCCCCCCCCcCChh
Confidence            457999999999886   666 89999999999999986 78999999998754

>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=99.25  E-value=7.1e-13  Score=95.34  Aligned_cols=50  Identities=28%  Similarity=0.537  Sum_probs=1.0

Q ss_pred             CCcccccccccccCCC---------------ceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCC
Q 030323          106 AGSDCMVCLCTLRDGE---------------LVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVV  156 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~---------------~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~  156 (179)
                      ++..|+||++.|..+.               .+..++|+|.||..||.+|+.. +.+||+||.++.
T Consensus        47 ~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~C~H~FH~~CI~~Wl~~-~~~CP~Cr~~~~  111 (117)
T 4a0k_B           47 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT-RQVCPLDNREWE  111 (117)
T ss_dssp             CC----------------------------------------------------------------
T ss_pred             CCCcCeECChhhcCcChhhhcccccccccccccccCCcCceEcHHHHHHHHHc-CCcCCCCCCeee
Confidence            4579999999987531               1223479999999999999997 789999999864

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

Probab=99.24  E-value=6.2e-12  Score=85.41  Aligned_cols=66  Identities=11%  Similarity=0.105  Sum_probs=52.3

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCcchhhhhhhcccchhhcc
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERVWNTRRRVGGDLIQWF  176 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~~~~  176 (179)
                      .++..|+||++.+.++   .+++|||.|++.||..|+.. +.+||+||.++...+.  ..+..+...+..|-
T Consensus        12 p~~~~CpI~~~~m~dP---V~~~cGhtf~r~~I~~~l~~-~~~cP~~~~~l~~~~l--~pn~~L~~~i~~~~   77 (85)
T 2kr4_A           12 PDEFRDPLMDTLMTDP---VRLPSGTVMDRSIILRHLLN-SPTDPFNRQMLTESML--EPVPELKEQIQAWM   77 (85)
T ss_dssp             CTTTBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHH-CSBCTTTCCBCCGGGC--EECHHHHHHHHHHH
T ss_pred             chheECcccCchhcCC---eECCCCCEECHHHHHHHHhc-CCCCCCCcCCCChHhc--chHHHHHHHHHHHH
Confidence            4578999999999999   88899999999999999996 7899999999876542  23334444555553

>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=99.22  E-value=1.3e-11  Score=85.98  Aligned_cols=66  Identities=12%  Similarity=0.161  Sum_probs=52.4

Q ss_pred             cCCcccccccccccCCCceEEeCCC-CcchHHhHHHHHhcCCCCCCCccCCCCCCcchhhhhhhcccchhhcc
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCR-HVFHKDCLDGWLHHLNFNCPLCRSPVVSEERVWNTRRRVGGDLIQWF  176 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~-H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~~~~  176 (179)
                      .++..|+||++.|.+|   ++++|| |.|++.||..|+.. +.+||+||.++...+..  .+..+...+..|.
T Consensus        20 p~~~~CpI~~~~m~dP---V~~~cG~htf~r~cI~~~l~~-~~~cP~~~~~l~~~~L~--pn~~Lk~~I~~~~   86 (98)
T 1wgm_A           20 CDEFLDPIMSTLMCDP---VVLPSSRVTVDRSTIARHLLS-DQTDPFNRSPLTMDQIR--PNTELKEKIQRWL   86 (98)
T ss_dssp             CTTTBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHTTT-SCBCTTTCSBCCTTTSE--ECHHHHHHHHHHH
T ss_pred             cHhcCCcCccccccCC---eECCCCCeEECHHHHHHHHHh-CCCCCCCCCCCChhhce--EcHHHHHHHHHHH
Confidence            4578999999999999   888999 99999999999986 78999999999765432  3334444555553

>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=99.21  E-value=1.3e-11  Score=86.41  Aligned_cols=66  Identities=9%  Similarity=0.102  Sum_probs=52.5

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCcchhhhhhhcccchhhcc
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERVWNTRRRVGGDLIQWF  176 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~~~~  176 (179)
                      .++..|+||++.|.+|   .+++|||.|++.||..|+.. +.+||+||.++...+..  .+..+...+..|.
T Consensus        27 p~~~~CpI~~~~m~dP---V~~~cGhtf~r~~I~~~l~~-~~~cP~~~~~l~~~~L~--pn~~Lk~~I~~~~   92 (100)
T 2kre_A           27 PDEFRDPLMDTLMTDP---VRLPSGTIMDRSIILRHLLN-SPTDPFNRQTLTESMLE--PVPELKEQIQAWM   92 (100)
T ss_dssp             STTTBCTTTCSBCSSE---EEETTTEEEEHHHHHHHTTS-CSBCSSSCCBCCTTSSE--ECHHHHHHHHHHH
T ss_pred             cHhhCCcCccCcccCC---eECCCCCEEchHHHHHHHHc-CCCCCCCCCCCChhhce--ECHHHHHHHHHHH
Confidence            4578999999999999   88899999999999999985 78999999999765432  2333444555553

>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=99.20  E-value=7.9e-12  Score=89.63  Aligned_cols=52  Identities=23%  Similarity=0.593  Sum_probs=45.0

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE  159 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~  159 (179)
                      .+...|+||++.+.++   ..++|||.||..|+..|+...+.+||+||.++...+
T Consensus        16 ~~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   67 (118)
T 3hct_A           16 ESKYECPICLMALREA---VQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQ   67 (118)
T ss_dssp             CGGGBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGG
T ss_pred             CCCCCCCcCChhhcCe---EECCcCChhhHHHHHHHHhhCCCCCCCCCCCcCHHh
Confidence            4568999999999887   778999999999999999874559999999987643

>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=99.20  E-value=9.6e-12  Score=94.04  Aligned_cols=51  Identities=33%  Similarity=0.644  Sum_probs=43.8

Q ss_pred             cCCcccccccccccCCCceEEe-CCCCcchHHhHHHHHhcCCCCCCCccCCCCCC
Q 030323          105 AAGSDCMVCLCTLRDGELVRKL-DCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSE  158 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~l-pC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~  158 (179)
                      .+...|+||++.+.++   ..+ +|||.||..|+..|+...+..||+||.++...
T Consensus        52 ~~~~~C~IC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~  103 (165)
T 2ckl_B           52 HSELMCPICLDMLKNT---MTTKECLHRFCADCIITALRSGNKECPTCRKKLVSK  103 (165)
T ss_dssp             HHHHBCTTTSSBCSSE---EEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCCSG
T ss_pred             CCCCCCcccChHhhCc---CEeCCCCChhHHHHHHHHHHhCcCCCCCCCCcCCCc
Confidence            3567999999999886   555 89999999999999996577899999998643

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

Probab=99.19  E-value=1.5e-11  Score=82.27  Aligned_cols=55  Identities=20%  Similarity=0.436  Sum_probs=42.7

Q ss_pred             cCCcccccccccccCCCceEEe--CCCCcchHHhHHHHHhcCCCCCCCccCCCCCCcc
Q 030323          105 AAGSDCMVCLCTLRDGELVRKL--DCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEER  160 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~l--pC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~  160 (179)
                      .++.+|+||++.+...+. ..+  +|||.||..|+..++...+..||.||+++..+..
T Consensus         9 ~~~~~CpICle~~~~~d~-~~~p~~CGH~fC~~Cl~~~~~~~~~~CP~CR~~~~~~~~   65 (78)
T 1e4u_A            9 EDPVECPLCMEPLEIDDI-NFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDPA   65 (78)
T ss_dssp             CCCCBCTTTCCBCCTTTT-TCCSSTTSCCCCHHHHHHHTTSSCSBCTTTCCBCSSCSS
T ss_pred             ccCCcCCccCccCccccc-cccccCCCCCcCHHHHHHHHhcCCCCCCCCCCccCCCch
Confidence            457899999998854322 234  4999999999999876556789999999876543

>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=99.18  E-value=8e-12  Score=89.15  Aligned_cols=51  Identities=27%  Similarity=0.670  Sum_probs=44.7

Q ss_pred             CCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323          106 AGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE  159 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~  159 (179)
                      ++..|+||++.+.++   ..++|||.||..|+..|+...+.+||+||.++...+
T Consensus        22 ~~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   72 (116)
T 1rmd_A           22 KSISCQICEHILADP---VETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTD   72 (116)
T ss_dssp             HHTBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGG
T ss_pred             CCCCCCCCCcHhcCc---EEcCCCCcccHHHHHHHHhHCcCcCCCCCCCCCHhh
Confidence            467999999999887   668999999999999999875678999999987654

>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=99.18  E-value=8.1e-12  Score=88.25  Aligned_cols=50  Identities=26%  Similarity=0.673  Sum_probs=42.8

Q ss_pred             CcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCC--CCCCCccCCCCCCc
Q 030323          107 GSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLN--FNCPLCRSPVVSEE  159 (179)
Q Consensus       107 ~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~--~~CP~Cr~~~~~~~  159 (179)
                      ...|+||++.+.++   ..++|||.||..|+..|+....  ..||+||.++...+
T Consensus        21 ~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   72 (112)
T 1jm7_A           21 ILECPICLELIKEP---VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRS   72 (112)
T ss_dssp             HTSCSSSCCCCSSC---CBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTT
T ss_pred             CCCCcccChhhcCe---EECCCCCHHHHHHHHHHHHhCCCCCCCcCCCCcCCHhh
Confidence            56899999999887   6679999999999999998522  48999999987654

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

Probab=99.13  E-value=2.8e-11  Score=87.39  Aligned_cols=54  Identities=26%  Similarity=0.645  Sum_probs=45.0

Q ss_pred             cCCcccccccccccCC----CceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323          105 AAGSDCMVCLCTLRDG----ELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE  159 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~----~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~  159 (179)
                      .+...|+||++.+..+    .....++|||.||..|+++|+.. +.+||+||.++..++
T Consensus        70 ~~~~~C~iC~~~~~~~~~~~~~~~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~~~  127 (133)
T 4ap4_A           70 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN-ANTCPTCRKKINHKR  127 (133)
T ss_dssp             SSSCBCTTTCCBHHHHHHTTCCEEEETTSBEEEHHHHHHHHHH-CSBCTTTCCBCCGGG
T ss_pred             CCCCCCCCCCCccccccccCcceEeCCCCChhhHHHHHHHHHc-CCCCCCCCCcCChhc
Confidence            3567899999998753    33467789999999999999997 789999999987654

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

Probab=99.11  E-value=4.8e-11  Score=79.01  Aligned_cols=53  Identities=23%  Similarity=0.429  Sum_probs=42.2

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcC-CCCCCCccCCCCCCc
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHL-NFNCPLCRSPVVSEE  159 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~-~~~CP~Cr~~~~~~~  159 (179)
                      +....|+||.+.+..++  +...|+|.||..||.+|++.. +.+||+||.+...+.
T Consensus        13 ~~i~~C~IC~~~i~~g~--~C~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~w~~~~   66 (74)
T 2ct0_A           13 DAVKICNICHSLLIQGQ--SCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEI   66 (74)
T ss_dssp             SSSCBCSSSCCBCSSSE--ECSSSCCEECHHHHHHHSTTCSSCCCTTTCSCCCSCC
T ss_pred             CCCCcCcchhhHcccCC--ccCCCCchhhHHHHHHHHHhcCCCCCCCCcCcCCCCC
Confidence            34679999999998662  233699999999999999863 278999999876543

>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=99.09  E-value=1.7e-11  Score=90.87  Aligned_cols=50  Identities=26%  Similarity=0.417  Sum_probs=43.5

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCC
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVS  157 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~  157 (179)
                      .++..|+||++.+.++   .+++|||.||..||..|+.....+||+||.++..
T Consensus        29 ~~~~~C~IC~~~~~~p---v~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~   78 (141)
T 3knv_A           29 EAKYLCSACRNVLRRP---FQAQCGHRYCSFCLASILSSGPQNCAACVHEGIY   78 (141)
T ss_dssp             CGGGBCTTTCSBCSSE---EECTTSCEEEHHHHHHHGGGSCEECHHHHHTTCC
T ss_pred             CcCcCCCCCChhhcCc---EECCCCCccCHHHHHHHHhcCCCCCCCCCCcccc
Confidence            3578999999999988   7789999999999999998745689999998643

>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=99.08  E-value=8.2e-11  Score=94.90  Aligned_cols=67  Identities=10%  Similarity=0.118  Sum_probs=52.5

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCcchhhhhhhcccchhhcc
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERVWNTRRRVGGDLIQWF  176 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~~~~  176 (179)
                      .....|+||++.+.+|   +++||||.||+.||..|+...+.+||+||.++...+.  ..+..+...+..|.
T Consensus       206 ~~~~~c~i~~~~~~dP---v~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~~~l--~~n~~l~~~i~~~~  272 (281)
T 2c2l_A          206 PDYLCGKISFELMREP---CITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQL--IPNLAMKEVIDAFI  272 (281)
T ss_dssp             CSTTBCTTTCSBCSSE---EECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGGC--EECHHHHHHHHHHH
T ss_pred             CcccCCcCcCCHhcCC---eECCCCCEECHHHHHHHHHHCCCCCcCCCCCCchhcC--cccHHHHHHHHHHH
Confidence            4578999999999999   8889999999999999998755569999999965442  23444445555554

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

Probab=99.08  E-value=2.4e-11  Score=76.02  Aligned_cols=48  Identities=23%  Similarity=0.559  Sum_probs=40.8

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE  159 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~  159 (179)
                      .+...|+||++.+.++   +.++|+|.||..|+..|    ...||+||..+....
T Consensus         4 ~~~~~C~IC~~~~~~p---~~l~CgH~fC~~Ci~~~----~~~CP~Cr~~~~~~~   51 (56)
T 1bor_A            4 FQFLRCQQCQAEAKCP---KLLPCLHTLCSGCLEAS----GMQCPICQAPWPLGA   51 (56)
T ss_dssp             CCCSSCSSSCSSCBCC---SCSTTSCCSBTTTCSSS----SSSCSSCCSSSSCCS
T ss_pred             ccCCCceEeCCccCCe---EEcCCCCcccHHHHccC----CCCCCcCCcEeecCC
Confidence            3567999999999988   77899999999999873    668999999886543

>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=99.05  E-value=8.4e-11  Score=75.55  Aligned_cols=47  Identities=26%  Similarity=0.583  Sum_probs=40.2

Q ss_pred             CCcccccccccccCCCceEEe--CCCCc-chHHhHHHHHhcCCCCCCCccCCCC
Q 030323          106 AGSDCMVCLCTLRDGELVRKL--DCRHV-FHKDCLDGWLHHLNFNCPLCRSPVV  156 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~l--pC~H~-fh~~Ci~~wl~~~~~~CP~Cr~~~~  156 (179)
                      ++..|+||++...+.   ..+  ||||. ||..|+..|... +..||+||.++.
T Consensus         7 ~~~~C~IC~~~~~~~---~~~~~pCgH~~~C~~C~~~~~~~-~~~CPiCR~~i~   56 (64)
T 2vje_A            7 AIEPCVICQGRPKNG---CIVHGKTGHLMACFTCAKKLKKR-NKPCPVCRQPIQ   56 (64)
T ss_dssp             GGSCCTTTSSSCSCE---EEEETTEEEEEECHHHHHHHHHT-TCCCTTTCCCCC
T ss_pred             CcCCCCcCCCCCCCE---EEECCCCCChhhHHHHHHHHHHc-CCcCCCcCcchh
Confidence            467999999987665   555  99999 899999999985 779999999885

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

Probab=99.03  E-value=1.3e-10  Score=98.83  Aligned_cols=50  Identities=26%  Similarity=0.632  Sum_probs=43.3

Q ss_pred             CcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323          107 GSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE  159 (179)
Q Consensus       107 ~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~  159 (179)
                      ...|+||++.+.++   ..+||||.||..|+..|+...+.+||+||.++....
T Consensus       332 ~~~C~ICle~~~~p---v~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~~~  381 (389)
T 2y1n_A          332 FQLCKICAENDKDV---KIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTE  381 (389)
T ss_dssp             SSBCTTTSSSBCCE---EEETTCCEECHHHHHHHHHHTCSBCTTTCCBCCEEE
T ss_pred             CCCCCccCcCCCCe---EEeCCCChhhHHHHHHHHhcCCCCCCCCCCccCCce
Confidence            46999999998776   778999999999999999854789999999887543

>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=99.02  E-value=1.8e-10  Score=79.44  Aligned_cols=52  Identities=17%  Similarity=0.466  Sum_probs=43.1

Q ss_pred             cCCcccccccccccCCCceEEeC-CCCcchHHhHHHHHhcC-----CCCCCC--ccCC-CCCCc
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLD-CRHVFHKDCLDGWLHHL-----NFNCPL--CRSP-VVSEE  159 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lp-C~H~fh~~Ci~~wl~~~-----~~~CP~--Cr~~-~~~~~  159 (179)
                      ..+..|+||++.|.+|   ++++ |||.|++.||..|+...     ..+||+  |+.. +...+
T Consensus         5 ~~~~~CPI~~~~~~dP---V~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~~l~~~~   65 (94)
T 2yu4_A            5 SSGFTCPITKEEMKKP---VKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRKSD   65 (94)
T ss_dssp             SSCCBCTTTCSBCSSE---EEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCCCBCGGG
T ss_pred             CcEeECcCcCchhcCC---EEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCcccccCHhh
Confidence            4578999999999998   7886 99999999999999852     358999  9876 54433

>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=99.02  E-value=3.9e-11  Score=85.81  Aligned_cols=47  Identities=28%  Similarity=0.684  Sum_probs=41.4

Q ss_pred             CCcccccccccccCCCceEEe-CCCCcchHHhHHHHHhcCCCCCCCccCCCCCC
Q 030323          106 AGSDCMVCLCTLRDGELVRKL-DCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSE  158 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~l-pC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~  158 (179)
                      +...|+||++.+.++   ..+ +|||.||..|+..|+.   ..||+||.++...
T Consensus        21 ~~~~C~IC~~~~~~p---v~~~~CgH~fC~~Ci~~~~~---~~CP~Cr~~~~~~   68 (117)
T 1jm7_B           21 KLLRCSRCTNILREP---VCLGGCEHIFCSNCVSDCIG---TGCPVCYTPAWIQ   68 (117)
T ss_dssp             HTTSCSSSCSCCSSC---BCCCSSSCCBCTTTGGGGTT---TBCSSSCCBCSCS
T ss_pred             hCCCCCCCChHhhCc---cEeCCCCCHHHHHHHHHHhc---CCCcCCCCcCccc
Confidence            467999999999988   777 8999999999999976   6899999998654

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

Probab=98.99  E-value=1.7e-10  Score=73.83  Aligned_cols=49  Identities=20%  Similarity=0.447  Sum_probs=40.7

Q ss_pred             cCCcccccccccccCCCceEEe--CCCCc-chHHhHHHHHhcCCCCCCCccCCCCC
Q 030323          105 AAGSDCMVCLCTLRDGELVRKL--DCRHV-FHKDCLDGWLHHLNFNCPLCRSPVVS  157 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~l--pC~H~-fh~~Ci~~wl~~~~~~CP~Cr~~~~~  157 (179)
                      .....|+||++...+.   ..+  ||||. ||..|+..|... +..||+||.++..
T Consensus         5 ~~~~~C~IC~~~~~~~---~~~~~pCgH~~~C~~C~~~~~~~-~~~CPiCR~~i~~   56 (63)
T 2vje_B            5 NLLKPCSLCEKRPRDG---NIIHGRTGHLVTCFHCARRLKKA-GASCPICKKEIQL   56 (63)
T ss_dssp             GGGSBCTTTSSSBSCE---EEEETTEEEEEECHHHHHHHHHT-TCBCTTTCCBCCE
T ss_pred             CcCCCCcccCCcCCCe---EEEecCCCCHhHHHHHHHHHHHh-CCcCCCcCchhhc
Confidence            3467999999987665   455  99999 999999999876 6799999998853

>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=98.98  E-value=2.6e-10  Score=86.47  Aligned_cols=52  Identities=23%  Similarity=0.593  Sum_probs=45.2

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE  159 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~  159 (179)
                      .+...|+||++.+.++   ..++|||.||..|+..|+...+.+||+||.++...+
T Consensus        16 ~~~~~C~IC~~~~~~p---v~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~   67 (170)
T 3hcs_A           16 ESKYECPICLMALREA---VQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQ   67 (170)
T ss_dssp             CGGGBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHHCSBCTTTCCBCCGGG
T ss_pred             CCCCCCCCCChhhcCc---EECCCCCHHHHHHHHHHHHhCCCCCCCCccCcchhh
Confidence            4578999999999988   678999999999999999864569999999987653

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

Probab=98.96  E-value=3.3e-10  Score=87.02  Aligned_cols=65  Identities=9%  Similarity=0.107  Sum_probs=50.5

Q ss_pred             CCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCcchhhhhhhcccchhhc
Q 030323          106 AGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERVWNTRRRVGGDLIQW  175 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~~~  175 (179)
                      +...||||++.|.+|   +++||||.|++.||..|+...+.+||+|+.++...+...  +..+...+..|
T Consensus       105 ~~f~CPI~~elm~DP---V~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~~~L~p--N~~Lk~~Ie~~  169 (179)
T 2f42_A          105 DYLCGKISFELMREP---CITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQDQLIP--NLAMKEVIDAF  169 (179)
T ss_dssp             GGGBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCEE--CHHHHHHHHHH
T ss_pred             HhhcccCccccCCCC---eECCCCCEECHHHHHHHHHhCCCCCCCCcCCCChhhCcc--hHHHHHHHHHH
Confidence            578999999999998   888999999999999999864457999999987654332  33344444444

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

Probab=98.95  E-value=1.4e-10  Score=76.51  Aligned_cols=45  Identities=20%  Similarity=0.474  Sum_probs=38.8

Q ss_pred             CCcccccccccccCCCceEEeCCCCc-chHHhHHHHHhcCCCCCCCccCCCCCC
Q 030323          106 AGSDCMVCLCTLRDGELVRKLDCRHV-FHKDCLDGWLHHLNFNCPLCRSPVVSE  158 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~lpC~H~-fh~~Ci~~wl~~~~~~CP~Cr~~~~~~  158 (179)
                      ++..|+||++.+.++   ..+||||. ||..|+..|     ..||+||.++...
T Consensus        23 ~~~~C~iC~~~~~~~---~~~pCgH~~~C~~C~~~~-----~~CP~Cr~~i~~~   68 (74)
T 4ic3_A           23 EEKLCKICMDRNIAI---VFVPCGHLVTCKQCAEAV-----DKCPMCYTVITFK   68 (74)
T ss_dssp             HHTBCTTTSSSBCCE---EEETTCCBCCCHHHHTTC-----SBCTTTCCBCSEE
T ss_pred             cCCCCCCCCCCCCCE---EEcCCCChhHHHHhhhcC-----ccCCCcCcCccCc
Confidence            357899999998776   77899999 999999987     6899999988643

>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=98.82  E-value=1.1e-09  Score=75.20  Aligned_cols=53  Identities=23%  Similarity=0.595  Sum_probs=41.4

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcC-------CCCCCC--ccCC--CCC
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHL-------NFNCPL--CRSP--VVS  157 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~-------~~~CP~--Cr~~--~~~  157 (179)
                      .+..+|+||++.+..++.+...+|+|.||..|+..++...       ...||.  |+..  +.+
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~l~~CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~~~~~~   66 (94)
T 1wim_A            3 SGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQGHLQE   66 (94)
T ss_dssp             CSBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSCCEECH
T ss_pred             CCCcCCcccCcccccccceEcCCCCCcccHHHHHHHHHHHhhcCCcccccCccccCCCCCccCH
Confidence            3467999999998876555545799999999999988641       247999  9988  543

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

Probab=98.77  E-value=5.5e-09  Score=66.27  Aligned_cols=50  Identities=26%  Similarity=0.548  Sum_probs=38.5

Q ss_pred             cCCcccccccccccCCCceEEeCCC--C---cchHHhHHHHHhc-CCCCCCCccCCCCC
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCR--H---VFHKDCLDGWLHH-LNFNCPLCRSPVVS  157 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~--H---~fh~~Ci~~wl~~-~~~~CP~Cr~~~~~  157 (179)
                      ++...|.||++...++   ..+||.  +   .||..|+.+|+.. .+.+||+|+.++..
T Consensus         4 ~~~~~CrIC~~~~~~~---l~~PC~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~~~   59 (60)
T 1vyx_A            4 EDVPVCWICNEELGNE---RFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYNT   59 (60)
T ss_dssp             CSCCEETTTTEECSCC---CCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCCC
T ss_pred             CCCCEeEEeecCCCCc---eecCcCCCCchhhhHHHHHHHHHHhCCCCccCCCCCeeec
Confidence            4567999999984332   357865  4   8999999999985 35789999998753

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

Probab=98.76  E-value=8.3e-09  Score=66.97  Aligned_cols=46  Identities=30%  Similarity=0.635  Sum_probs=38.7

Q ss_pred             cCCcccccccccccCCCceEEeCCCCc-chHHhHHHHHhcCCCCCCCccCCCCCC
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHV-FHKDCLDGWLHHLNFNCPLCRSPVVSE  158 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~-fh~~Ci~~wl~~~~~~CP~Cr~~~~~~  158 (179)
                      .+...|.||++...+.   ..+||+|. ||..|+..     ...||+||.++...
T Consensus        13 ~~~~~C~IC~~~~~~~---v~~pCgH~~~C~~C~~~-----~~~CP~CR~~i~~~   59 (68)
T 2ea5_A           13 ENSKDCVVCQNGTVNW---VLLPCRHTCLCDGCVKY-----FQQCPMCRQFVQES   59 (68)
T ss_dssp             CCSSCCSSSSSSCCCC---EETTTTBCCSCTTHHHH-----CSSCTTTCCCCCCE
T ss_pred             CCCCCCCCcCcCCCCE---EEECCCChhhhHHHHhc-----CCCCCCCCcchhce
Confidence            4567999999987765   77899999 99999983     46899999988654

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

Probab=98.75  E-value=3.4e-09  Score=69.89  Aligned_cols=45  Identities=20%  Similarity=0.477  Sum_probs=37.6

Q ss_pred             CCcccccccccccCCCceEEeCCCCc-chHHhHHHHHhcCCCCCCCccCCCCCC
Q 030323          106 AGSDCMVCLCTLRDGELVRKLDCRHV-FHKDCLDGWLHHLNFNCPLCRSPVVSE  158 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~lpC~H~-fh~~Ci~~wl~~~~~~CP~Cr~~~~~~  158 (179)
                      ++..|+||++.+.++   ..+||||. ||..|+..     ...||+||.++...
T Consensus        24 ~~~~C~IC~~~~~~~---~~~pCgH~~~C~~C~~~-----~~~CP~Cr~~i~~~   69 (75)
T 2ecg_A           24 EEKLCKICMDRNIAI---VFVPCGHLVTCKQCAEA-----VDKCPMCYTVITFK   69 (75)
T ss_dssp             HHHSCSSSCSSCCCB---CCSSSCCCCBCHHHHHH-----CSBCTTTCCBCCCC
T ss_pred             CCCCCCcCCCCCCCE---EEecCCCHHHHHHHhhC-----CCCCccCCceecCc
Confidence            356899999998776   67899999 99999963     46899999988653

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

Probab=98.69  E-value=2.4e-09  Score=89.35  Aligned_cols=53  Identities=26%  Similarity=0.658  Sum_probs=40.2

Q ss_pred             cCCcccccccccccCCCce-----EEeCCCCcchHHhHHHHHhcCC----------CCCCCccCCCCC
Q 030323          105 AAGSDCMVCLCTLRDGELV-----RKLDCRHVFHKDCLDGWLHHLN----------FNCPLCRSPVVS  157 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~-----~~lpC~H~fh~~Ci~~wl~~~~----------~~CP~Cr~~~~~  157 (179)
                      ++..+|+||++.+.+...+     ...+|+|.||..|+.+|+.+..          ..||.||.++..
T Consensus       306 e~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pIs~  373 (381)
T 3k1l_B          306 NEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKLST  373 (381)
T ss_dssp             CSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEEEG
T ss_pred             cCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcCCc
Confidence            4678999999998763222     1235999999999999997521          369999998753

>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=98.67  E-value=2.3e-09  Score=71.63  Aligned_cols=45  Identities=29%  Similarity=0.557  Sum_probs=38.0

Q ss_pred             CcccccccccccCCCceEEeCCCCc-chHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323          107 GSDCMVCLCTLRDGELVRKLDCRHV-FHKDCLDGWLHHLNFNCPLCRSPVVSEE  159 (179)
Q Consensus       107 ~~~C~ICl~~~~~~~~~~~lpC~H~-fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~  159 (179)
                      +..|+||++.+.+.   ..+||||. ||..|+..|     ..||+||.++....
T Consensus        18 ~~~C~IC~~~~~~~---v~~pCgH~~~C~~C~~~~-----~~CP~Cr~~i~~~~   63 (79)
T 2yho_A           18 AMLCMVCCEEEINS---TFCPCGHTVCCESCAAQL-----QSCPVCRSRVEHVQ   63 (79)
T ss_dssp             HTBCTTTSSSBCCE---EEETTCBCCBCHHHHTTC-----SBCTTTCCBCCEEE
T ss_pred             CCEeEEeCcccCcE---EEECCCCHHHHHHHHHhc-----CcCCCCCchhhCeE
Confidence            56899999987765   77899999 999999865     39999999887553

>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=98.63  E-value=1e-08  Score=82.79  Aligned_cols=53  Identities=21%  Similarity=0.461  Sum_probs=44.1

Q ss_pred             CcCCcccccccccccCCCceEEe-CCCCcchHHhHHHHHhcC-CCCCCC--ccCCCCCCc
Q 030323          104 SAAGSDCMVCLCTLRDGELVRKL-DCRHVFHKDCLDGWLHHL-NFNCPL--CRSPVVSEE  159 (179)
Q Consensus       104 ~~~~~~C~ICl~~~~~~~~~~~l-pC~H~fh~~Ci~~wl~~~-~~~CP~--Cr~~~~~~~  159 (179)
                      ...+..||||++.|.+|   ++. .|||.|++.||..|+... ...||+  |+..+...+
T Consensus       178 ~~~el~CPIcl~~f~DP---Vts~~CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~l~~~d  234 (267)
T 3htk_C          178 GKIELTCPITCKPYEAP---LISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMRD  234 (267)
T ss_dssp             SBCCSBCTTTSSBCSSE---EEESSSCCEEEHHHHHHHSTTCSCEECSGGGCSCEECGGG
T ss_pred             CceeeECcCccCcccCC---eeeCCCCCcccHHHHHHHHHhCCCCCCCcccccCcCchhh
Confidence            35678999999999998   554 899999999999999752 357999  999886655

>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=98.57  E-value=2.4e-08  Score=63.49  Aligned_cols=51  Identities=24%  Similarity=0.300  Sum_probs=43.9

Q ss_pred             CcccccccccccCCCceEEe-CCCCcchHHhHHHHHhcCCCCCCCccCCCCCCcch
Q 030323          107 GSDCMVCLCTLRDGELVRKL-DCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERV  161 (179)
Q Consensus       107 ~~~C~ICl~~~~~~~~~~~l-pC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~  161 (179)
                      ...|+||++.+.++   ..+ ++||.|.+.||.+|+.. +.+||+.+.++..++..
T Consensus         3 ~~~CpIs~~~m~dP---V~~~~sG~~yer~~I~~~l~~-~~~cP~t~~~L~~~~Li   54 (61)
T 2bay_A            3 HMLCAISGKVPRRP---VLSPKSRTIFEKSLLEQYVKD-TGNDPITNEPLSIEEIV   54 (61)
T ss_dssp             -CCCTTTCSCCSSE---EEETTTTEEEEHHHHHHHHHH-HSBCTTTCCBCCGGGCE
T ss_pred             eEEecCCCCCCCCC---EEeCCCCcEEcHHHHHHHHHh-CCCCcCCcCCCChhhcE
Confidence            36899999999988   777 79999999999999987 66899999999776543

>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=98.51  E-value=2e-08  Score=84.40  Aligned_cols=45  Identities=22%  Similarity=0.583  Sum_probs=39.1

Q ss_pred             CCcccccccccccCCCceEEeCCCCc-chHHhHHHHHhcCCCCCCCccCCCCCC
Q 030323          106 AGSDCMVCLCTLRDGELVRKLDCRHV-FHKDCLDGWLHHLNFNCPLCRSPVVSE  158 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~lpC~H~-fh~~Ci~~wl~~~~~~CP~Cr~~~~~~  158 (179)
                      ++..|+||++.+.++   ..+||||. ||..|+..|     ..||+||.++...
T Consensus       294 ~~~~C~IC~~~~~~~---v~lpCgH~~fC~~C~~~~-----~~CP~CR~~i~~~  339 (345)
T 3t6p_A          294 EERTCKVCMDKEVSV---VFIPCGHLVVCQECAPSL-----RKCPICRGIIKGT  339 (345)
T ss_dssp             TTCBCTTTSSSBCCE---EEETTCCEEECTTTGGGC-----SBCTTTCCBCCEE
T ss_pred             CCCCCCccCCcCCce---EEcCCCChhHhHHHHhcC-----CcCCCCCCCccCe
Confidence            467999999998876   77899999 999999987     5899999988643

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

Probab=98.27  E-value=6.8e-07  Score=61.73  Aligned_cols=50  Identities=30%  Similarity=0.499  Sum_probs=39.7

Q ss_pred             ccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCcc
Q 030323          109 DCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEER  160 (179)
Q Consensus       109 ~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~  160 (179)
                      -|++|--.+..  ..+..||+|+||.+|+..|..+...+||.|+.++..-+.
T Consensus         3 fC~~C~~Pi~i--ygRmIPCkHvFCydCa~~~~~~~~k~Cp~C~~~V~rVe~   52 (101)
T 3vk6_A            3 FCDKCGLPIKV--YGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQRIEQ   52 (101)
T ss_dssp             BCTTTCSBCSE--EEEEETTCCEEEHHHHHHHHHTTCCBCTTTCCBCSEEEE
T ss_pred             ecCccCCCeEE--EeeeccccccHHHHHHHHHHhccCCCCcCcCCeeeeeEE
Confidence            47777766543  347889999999999999987767899999998865443

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

Probab=97.80  E-value=1.8e-05  Score=63.19  Aligned_cols=50  Identities=24%  Similarity=0.521  Sum_probs=40.5

Q ss_pred             CCcccccccccccCCCceEEeC-CCCcchHHhHHHHHhcC-CCCCCCccCCCCCC
Q 030323          106 AGSDCMVCLCTLRDGELVRKLD-CRHVFHKDCLDGWLHHL-NFNCPLCRSPVVSE  158 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~lp-C~H~fh~~Ci~~wl~~~-~~~CP~Cr~~~~~~  158 (179)
                      ....|.||.+....+   ...+ |+|.||..|+..|+... +..||.|+.+.+..
T Consensus       179 ~i~~C~iC~~iv~~g---~~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~W~~~  230 (238)
T 3nw0_A          179 AVKICNICHSLLIQG---QSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHE  230 (238)
T ss_dssp             TCCBCTTTCSBCSSC---EECSSSCCEECHHHHHHHTTTCSSCBCTTTCCBCCSC
T ss_pred             CCCcCcchhhHHhCC---cccCccChHHHHHHHHHHHHhCCCCCCCCCCCCCCCC
Confidence            367999999998876   4444 99999999999999753 35899999877554

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

Probab=95.97  E-value=0.0044  Score=42.19  Aligned_cols=35  Identities=14%  Similarity=0.340  Sum_probs=26.8

Q ss_pred             CCcccccccccccCCCceEEeCCCCcchHHhHHHH
Q 030323          106 AGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGW  140 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~w  140 (179)
                      ++..|+||.+.+..+.....++|+|.||..|+..+
T Consensus         2 ee~~C~~C~~~~~~~av~~C~~C~~~~C~~Cl~~~   36 (101)
T 2jun_A            2 EKVLCQFCDQDPAQDAVKTCVTCEVSYCDECLKAT   36 (101)
T ss_dssp             CCCBCTTCCSSSCCBCCEEETTTTEEECHHHHHHH
T ss_pred             CCCCCcCCCCCCCCCceEECCcCChHHhHHHCHHH
Confidence            35789999987443334445889999999999983

>2lri_C Autoimmune regulator; Zn binding protein domain, apeced, transcription; NMR {Homo sapiens}

Probab=94.58  E-value=0.034  Score=35.26  Aligned_cols=47  Identities=28%  Similarity=0.472  Sum_probs=33.1

Q ss_pred             cCCcccccccccccCCCceEEe-CCCCcchHHhHHHHHhcC---CCCCCCccCCC
Q 030323          105 AAGSDCMVCLCTLRDGELVRKL-DCRHVFHKDCLDGWLHHL---NFNCPLCRSPV  155 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~l-pC~H~fh~~Ci~~wl~~~---~~~CP~Cr~~~  155 (179)
                      .....|.||.+.   ++ +..- .|...||..|+.+.+...   .-.||.|+...
T Consensus        10 ~~~~~C~vC~~~---~~-ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~~   60 (66)
T 2lri_C           10 APGARCGVCGDG---TD-VLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGDV   60 (66)
T ss_dssp             CTTCCCTTTSCC---TT-CEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTCC
T ss_pred             CCCCCcCCCCCC---Ce-EEECCCCCCceecccCCCccCcCCCCCEECccccCCC
Confidence            456789999853   32 3333 499999999999877642   34799997643

>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=91.90  E-value=0.042  Score=34.27  Aligned_cols=50  Identities=20%  Similarity=0.418  Sum_probs=34.6

Q ss_pred             cCCcccccccccccCCCceEEe-CCCCcchHHhHHHHHh----cCCCCCCCccCC
Q 030323          105 AAGSDCMVCLCTLRDGELVRKL-DCRHVFHKDCLDGWLH----HLNFNCPLCRSP  154 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~l-pC~H~fh~~Ci~~wl~----~~~~~CP~Cr~~  154 (179)
                      .+...|++|...+.+....+.- .|..-||..|+.--..    .....||.|+..
T Consensus         4 ~e~~~C~~C~~~~~~~~~mI~Cd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~k   58 (64)
T 1we9_A            4 GSSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNK   58 (64)
T ss_dssp             SSCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTT
T ss_pred             CCCCCCCCCCCccCCCCCEEEccCCCCCCCccccCcChhHhcCCCcEECCCCcCc
Confidence            4577899999887544444444 4999999999874321    124679999653

>3m62_A Ubiquitin conjugation factor E4; armadillo-like repeats, UBL conjugation pathway, DNA damage, nucleus, phosphoprotein; HET: 1PE; 2.40A {Saccharomyces cerevisiae} PDB: 3m63_A* 2qiz_A 2qj0_A

Probab=90.49  E-value=0.15  Score=47.74  Aligned_cols=66  Identities=12%  Similarity=0.110  Sum_probs=51.5

Q ss_pred             cCCcccccccccccCCCceEEeCCC-CcchHHhHHHHHhcCCCCCCCccCCCCCCcchhhhhhhcccchhhcc
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCR-HVFHKDCLDGWLHHLNFNCPLCRSPVVSEERVWNTRRRVGGDLIQWF  176 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~-H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~~~~  176 (179)
                      .++..|||-++.+.+|   +++|-| +.|-+.+|.+|+.. +.+||.=|.++...+..++  ..+-..+..|.
T Consensus       889 P~~F~cPIs~~lM~DP---VilpsG~~TydR~~I~~wl~~-~~tdP~Tr~~L~~~~liPN--~~Lk~~I~~w~  955 (968)
T 3m62_A          889 PDEFLDPLMYTIMKDP---VILPASKMNIDRSTIKAHLLS-DSTDPFNRMPLKLEDVTPN--EELRQKILCFK  955 (968)
T ss_dssp             CGGGBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHHTT-CCBCTTTCCBCCGGGCEEC--HHHHHHHHHHH
T ss_pred             cHHhCCcchhhHHhCC---eEcCCCCEEECHHHHHHHHhc-CCCCCCCCCCCCccccccc--HHHHHHHHHHH
Confidence            3567899999999999   889987 68999999999997 7899999999976554333  23334555664

>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=90.46  E-value=0.35  Score=31.38  Aligned_cols=50  Identities=18%  Similarity=0.388  Sum_probs=32.7

Q ss_pred             cCCcccccccccccCCCceEEe-CCCCcchHHhHHHHHh----cCCCCCCCccCCC
Q 030323          105 AAGSDCMVCLCTLRDGELVRKL-DCRHVFHKDCLDGWLH----HLNFNCPLCRSPV  155 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~l-pC~H~fh~~Ci~~wl~----~~~~~CP~Cr~~~  155 (179)
                      .+...| ||..........+.- .|..-||..|+.--..    .....||.|+...
T Consensus        10 ~~~~~C-~C~~~~d~~~~MIqCd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~~~   64 (79)
T 1wep_A           10 LVPVYC-LCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVF   64 (79)
T ss_dssp             CCCCCS-TTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTTS
T ss_pred             CCccEE-EcCCccCCCCceEEcCCCCCcEEeeecCcccccccCCCeEECCCccccc
Confidence            345566 999877534444444 4998999999963211    1256899998754

>2lv9_A Histone-lysine N-methyltransferase MLL5; zinc finger, transcription, protein binding, NESG, northeast structural genomics consortium, SGC; NMR {Homo sapiens}

Probab=89.59  E-value=0.13  Score=35.08  Aligned_cols=48  Identities=25%  Similarity=0.467  Sum_probs=30.4

Q ss_pred             CCcccccccccccCCCceEEeCCCCcchHHhHHHHHhc--CCCCCCCccCC
Q 030323          106 AGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHH--LNFNCPLCRSP  154 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~--~~~~CP~Cr~~  154 (179)
                      +...| ||......+..+..=.|...||..|+..-...  ....||.|+..
T Consensus        27 d~vrC-iC~~~~~~~~mi~Cd~C~~w~H~~C~~~~~~~~p~~w~C~~C~~~   76 (98)
T 2lv9_A           27 DVTRC-ICGFTHDDGYMICCDKCSVWQHIDCMGIDRQHIPDTYLCERCQPR   76 (98)
T ss_dssp             CBCCC-TTSCCSCSSCEEEBTTTCBEEETTTTTCCTTSCCSSBCCTTTSSS
T ss_pred             CCEEe-ECCCccCCCcEEEcCCCCCcCcCcCCCCCccCCCCCEECCCCcCC
Confidence            34567 89876544432222249999999998753222  13579999754

>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=89.47  E-value=0.046  Score=34.29  Aligned_cols=51  Identities=14%  Similarity=0.382  Sum_probs=33.7

Q ss_pred             cCCcccccccccccC-CCceEEe-CCCCcchHHhHHHHHh------cCCCCCCCccCCC
Q 030323          105 AAGSDCMVCLCTLRD-GELVRKL-DCRHVFHKDCLDGWLH------HLNFNCPLCRSPV  155 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~-~~~~~~l-pC~H~fh~~Ci~~wl~------~~~~~CP~Cr~~~  155 (179)
                      .++..|.||...... ...+..- .|...||..|+.+-+.      ...-.||.|+...
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            457899999986432 2333333 4999999999886332      2345799886543

>2k16_A Transcription initiation factor TFIID subunit 3; protein, alternative splicing, metal-binding, nucleus, phosphoprotein, transcription regulation; NMR {Mus musculus} PDB: 2k17_A*

Probab=89.16  E-value=0.082  Score=33.98  Aligned_cols=50  Identities=20%  Similarity=0.372  Sum_probs=33.5

Q ss_pred             CCcccccccccccCCCceEEe-CCCCcchHHhHHHHHhc---CCCCCCCccCCCC
Q 030323          106 AGSDCMVCLCTLRDGELVRKL-DCRHVFHKDCLDGWLHH---LNFNCPLCRSPVV  156 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~l-pC~H~fh~~Ci~~wl~~---~~~~CP~Cr~~~~  156 (179)
                      +...|.||..... ++.++.- .|...||..|+..-...   ....||.|+..+.
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            4567999987643 3333444 49999999999854332   2457999976543

>2l5u_A Chromodomain-helicase-DNA-binding protein 4; CHD4, MI2B, MI2-beta, PHD, protein binding, peptide binding metal binding protein; NMR {Homo sapiens}

Probab=88.72  E-value=0.27  Score=30.35  Aligned_cols=45  Identities=27%  Similarity=0.602  Sum_probs=31.0

Q ss_pred             cCCcccccccccccCCCceEEe-CCCCcchHHhHHHHHhc---CCCCCCCccC
Q 030323          105 AAGSDCMVCLCTLRDGELVRKL-DCRHVFHKDCLDGWLHH---LNFNCPLCRS  153 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~l-pC~H~fh~~Ci~~wl~~---~~~~CP~Cr~  153 (179)
                      ..+..|.+|...   + .+..- .|...||..|+..-+..   ..-.||.|+.
T Consensus         9 ~~~~~C~vC~~~---g-~ll~CD~C~~~fH~~Cl~p~l~~~p~g~W~C~~C~~   57 (61)
T 2l5u_A            9 DHQDYCEVCQQG---G-EIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEK   57 (61)
T ss_dssp             CCCSSCTTTSCC---S-SEEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGG
T ss_pred             CCCCCCccCCCC---C-cEEECCCCChhhhhhccCCCCCCCCCCceECccccc
Confidence            456789999863   2 22333 48999999999975432   2346999965

>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=88.49  E-value=0.14  Score=35.34  Aligned_cols=48  Identities=25%  Similarity=0.542  Sum_probs=30.5

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhc---CCCCCCCcc
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHH---LNFNCPLCR  152 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~---~~~~CP~Cr  152 (179)
                      .++..|.||.+.-...+.+.--.|+..||..|+......   ..-.||.|+
T Consensus         5 ~~~~~C~~C~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~W~C~~C~   55 (111)
T 2ysm_A            5 SSGANCAVCDSPGDLLDQFFCTTCGQHYHGMCLDIAVTPLKRAGWQCPECK   55 (111)
T ss_dssp             CCCSCBTTTCCCCCTTTSEECSSSCCEECTTTTTCCCCTTTSTTCCCTTTC
T ss_pred             CCCCCCcCCCCCCCCcCCeECCCCCCCcChHHhCCccccccccCccCCcCC
Confidence            457899999876322222333459999999999876542   133455553

>1f62_A Transcription factor WSTF; Zn-finger; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=88.35  E-value=0.24  Score=29.20  Aligned_cols=44  Identities=30%  Similarity=0.608  Sum_probs=28.2

Q ss_pred             ccccccccccCCCceEEe-CCCCcchHHhHHHHHhc---CCCCCCCccC
Q 030323          109 DCMVCLCTLRDGELVRKL-DCRHVFHKDCLDGWLHH---LNFNCPLCRS  153 (179)
Q Consensus       109 ~C~ICl~~~~~~~~~~~l-pC~H~fh~~Ci~~wl~~---~~~~CP~Cr~  153 (179)
                      .|.||...-..+ .+..- .|...||..|+.+=+..   +.-.||.|+.
T Consensus         2 ~C~vC~~~~~~~-~ll~Cd~C~~~~H~~Cl~p~l~~~P~g~W~C~~C~~   49 (51)
T 1f62_A            2 RCKVCRKKGEDD-KLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCCS-CCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCCCCCCCCCCC-CEEECCCCChhhCcccCCCCcCCCCCCcEECcCccc
Confidence            588888653222 23333 49999999999754432   1346999965

>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=86.71  E-value=0.26  Score=37.44  Aligned_cols=50  Identities=18%  Similarity=0.424  Sum_probs=35.3

Q ss_pred             cccccccccccCCCc---eEEe-CCCCcchHHhHHHH------Hh----cCCCCCCCccCCCCC
Q 030323          108 SDCMVCLCTLRDGEL---VRKL-DCRHVFHKDCLDGW------LH----HLNFNCPLCRSPVVS  157 (179)
Q Consensus       108 ~~C~ICl~~~~~~~~---~~~l-pC~H~fh~~Ci~~w------l~----~~~~~CP~Cr~~~~~  157 (179)
                      ..|+||...+.+++.   .+.. .|..-||..|+.--      +.    .....||.|+..-++
T Consensus         3 ~~CpiC~k~Y~~~~~~~~MIqCd~C~~W~H~~Cvgi~~~~~e~~~~~pe~~~y~Cp~C~~~~~~   66 (183)
T 3lqh_A            3 NFCPLCDKCYDDDDYESKMMQCGKCDRWVHSKCENLSDEMYEILSNLPESVAYTCVNCTERHPA   66 (183)
T ss_dssp             CBCTTTCCBCTTCCTTCCEEECTTTCCEEEGGGSSCCHHHHHHHHHSHHHHCCCCTTTCCSSSC
T ss_pred             CcCCCCcCccCCcccCCCeEECCCCCcccchhccccCHHHHHHhhcCCCCCeeECcCCCCCCCH
Confidence            469999998877652   5555 49999999998521      11    015789999876544

>1weo_A Cellulose synthase, catalytic subunit (IRX3); structure genomics, ring-finger, riken structural genomics/proteomics initiative, RSGI; NMR {Arabidopsis thaliana} SCOP: g.44.1.1

Probab=85.80  E-value=1.3  Score=29.59  Aligned_cols=51  Identities=20%  Similarity=0.389  Sum_probs=37.4

Q ss_pred             CCcccccccccccCC---CceEEe-CCCCcchHHhHHHHHhcCCCCCCCccCCCC
Q 030323          106 AGSDCMVCLCTLRDG---ELVRKL-DCRHVFHKDCLDGWLHHLNFNCPLCRSPVV  156 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~---~~~~~l-pC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~  156 (179)
                      ....|.||-+.+...   +.-... -|+-..|+.|.+-=....+..||.|+....
T Consensus        15 ~~qiCqiCGD~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG~q~CpqCktrYk   69 (93)
T 1weo_A           15 DGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTRYK   69 (93)
T ss_dssp             SSCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTSCSSCTTTCCCCC
T ss_pred             CCCccccccCccccCCCCCEEEeeeccCChhhHHHHHHHHhccCccccccCCccc
Confidence            457999999986432   222222 488889999999766666889999998875

>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A

Probab=85.52  E-value=1  Score=31.12  Aligned_cols=47  Identities=28%  Similarity=0.498  Sum_probs=28.7

Q ss_pred             CCcccccccccc-----cCCCceE-EeCCCCcchHHhHHH------HHhcCCCCCCCcc
Q 030323          106 AGSDCMVCLCTL-----RDGELVR-KLDCRHVFHKDCLDG------WLHHLNFNCPLCR  152 (179)
Q Consensus       106 ~~~~C~ICl~~~-----~~~~~~~-~lpC~H~fh~~Ci~~------wl~~~~~~CP~Cr  152 (179)
                      ....|.+|+..-     ..++.+. -..|+..||..|+..      .+....-.||.|+
T Consensus         4 p~~~C~~C~~~~~~~~~g~~~~Ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~   62 (112)
T 3v43_A            4 PIPICSFCLGTKEQNREKKPEELISCADCGNSGHPSCLKFSPELTVRVKALRWQCIECK   62 (112)
T ss_dssp             CCSSBTTTCCCTTCCTTSCCCCCEECTTTCCEECHHHHTCCHHHHHHHHTSCCCCTTTC
T ss_pred             cCccccccCCchhhCcCCCchhceEhhhcCCCCCCchhcCCHHHHHHhhccccccccCC
Confidence            457899998752     1222333 335999999999952      2333345566664

>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=85.01  E-value=1.5  Score=28.98  Aligned_cols=32  Identities=28%  Similarity=0.563  Sum_probs=23.2

Q ss_pred             cCCcccccccccccCCCceEEeC---CCCcchHHhHHHH
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLD---CRHVFHKDCLDGW  140 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lp---C~H~fh~~Ci~~w  140 (179)
                      ..+..|.||-.. ...   ..+|   |+-+||..|+.+-
T Consensus        13 ~~D~~C~VC~~~-t~~---~l~pCRvC~RvfH~~CL~r~   47 (89)
T 1wil_A           13 VNDEMCDVCEVW-TAE---SLFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCSCCCTTTCCC-CSS---CCSSCSSSSSCCCHHHHHHH
T ss_pred             CCCcccCccccc-ccc---ceeccccccccccHhhcccc
Confidence            357899999743 333   2344   7899999999985

>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=84.99  E-value=0.77  Score=28.73  Aligned_cols=34  Identities=21%  Similarity=0.451  Sum_probs=24.3

Q ss_pred             cCCcccccccccccCCCceEEe--CCCCcchHHhHH
Q 030323          105 AAGSDCMVCLCTLRDGELVRKL--DCRHVFHKDCLD  138 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~l--pC~H~fh~~Ci~  138 (179)
                      .+...|++|...+.+.+..+.-  .|..-||..|+.
T Consensus         6 ~~~~~C~~C~~p~~~~~~mI~CD~~C~~WfH~~Cvg   41 (65)
T 2vpb_A            6 DPVYPCGICTNEVNDDQDAILCEASCQKWFHRICTG   41 (65)
T ss_dssp             ---CBCTTTCSBCCTTSCEEEBTTTTCCEEEHHHHT
T ss_pred             CCcCcCccCCCccCCCCCeEecccCccccCchhccC
Confidence            4577999999988665444444  588889999986

>2lbm_A Transcriptional regulator ATRX; metal binding protein-structural protein compl; HET: M3L; NMR {Homo sapiens} PDB: 2ld1_A

Probab=84.87  E-value=1.2  Score=32.42  Aligned_cols=45  Identities=22%  Similarity=0.479  Sum_probs=31.6

Q ss_pred             cCCcccccccccccCCCceEEe-CCCCcchHHhHHHHHh----------cCCCCCCCccC
Q 030323          105 AAGSDCMVCLCTLRDGELVRKL-DCRHVFHKDCLDGWLH----------HLNFNCPLCRS  153 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~l-pC~H~fh~~Ci~~wl~----------~~~~~CP~Cr~  153 (179)
                      ..+..|.+|.+.   + .+..- .|...||..|+.+-+.          ...-.||.|+.
T Consensus        61 g~~d~C~vC~~G---G-~LlcCD~Cpr~Fh~~Cl~p~l~~~~l~~i~~p~~~W~C~~C~~  116 (142)
T 2lbm_A           61 GMDEQCRWCAEG---G-NLICCDFCHNAFCKKCILRNLGRKELSTIMDENNQWYCYICHP  116 (142)
T ss_dssp             SCBCSCSSSCCC---S-SEEECSSSCCEEEHHHHHHHTCHHHHHHHHTSTTCCCCTTTCC
T ss_pred             CCCCeecccCCC---C-cEEeCCCCCCeeeHhhcCCCCChhhhhhcccCCCCCEeecccC
Confidence            346799999964   3 22333 5999999999996542          23457999964

>1wem_A Death associated transcription factor 1; structural genomics, PHD domain, death inducer- obliterator 1(DIO-1); NMR {Mus musculus} SCOP: g.50.1.2

Probab=84.54  E-value=0.45  Score=30.52  Aligned_cols=47  Identities=21%  Similarity=0.471  Sum_probs=30.5

Q ss_pred             CcccccccccccCCCceEEe-CCCCcchHHhHHHHH--------hcCCCCCCCccCCC
Q 030323          107 GSDCMVCLCTLRDGELVRKL-DCRHVFHKDCLDGWL--------HHLNFNCPLCRSPV  155 (179)
Q Consensus       107 ~~~C~ICl~~~~~~~~~~~l-pC~H~fh~~Ci~~wl--------~~~~~~CP~Cr~~~  155 (179)
                      ...| ||....... .++.- .|..-||..|+.--.        ......||.|+..-
T Consensus        16 ~~~C-~C~~~~~~~-~MI~Cd~C~~WfH~~Cvgl~~~~~~~l~~~~~~~~C~~C~~~~   71 (76)
T 1wem_A           16 ALYC-ICRQPHNNR-FMICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCTILS   71 (76)
T ss_dssp             CCCS-TTCCCCCSS-CEEECSSSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHHHS
T ss_pred             CCEE-ECCCccCCC-CEEEeCCCCCcEeCeEEccchhhhhhccCCCCeEECcCCcCcc
Confidence            4567 898876533 33333 599999999985211        12367899997543

>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=83.49  E-value=0.39  Score=36.05  Aligned_cols=47  Identities=30%  Similarity=0.543  Sum_probs=32.2

Q ss_pred             CCcccccccccccCCCceEEe-CCCCcchHHhHHHHHhc---CCCCCCCccCCCC
Q 030323          106 AGSDCMVCLCTLRDGELVRKL-DCRHVFHKDCLDGWLHH---LNFNCPLCRSPVV  156 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~l-pC~H~fh~~Ci~~wl~~---~~~~CP~Cr~~~~  156 (179)
                      .+..|.+|...   ++ +... .|...||..|+.+-+..   +.-.||.|+..-.
T Consensus         3 ~~~~C~~C~~~---g~-ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~~   53 (184)
T 3o36_A            3 NEDWCAVCQNG---GE-LLCCEKCPKVFHLSCHVPTLTNFPSGEWICTFCRDLSK   53 (184)
T ss_dssp             SCSSCTTTCCC---SS-CEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCSSS
T ss_pred             CCCccccCCCC---Ce-eeecCCCCcccCccccCCCCCCCCCCCEECccccCccc
Confidence            45689999854   32 2333 48999999998775543   2356999987543

>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=83.16  E-value=0.31  Score=30.05  Aligned_cols=48  Identities=31%  Similarity=0.571  Sum_probs=31.0

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhc---CCCCCCCccCCC
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHH---LNFNCPLCRSPV  155 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~---~~~~CP~Cr~~~  155 (179)
                      ..+..|.||.+.   ++.+..-.|...||..|+.+-+..   ..-.||.|+...
T Consensus         7 ~~~~~C~vC~~~---g~ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~~   57 (61)
T 1mm2_A            7 HHMEFCRVCKDG---GELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPA   57 (61)
T ss_dssp             SSCSSCTTTCCC---SSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTC
T ss_pred             CCCCcCCCCCCC---CCEEEcCCCCHHHcccccCCCcCcCCCCccCChhhcCch
Confidence            346789999853   222222248999999999864442   134699997643

>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=83.02  E-value=0.29  Score=36.33  Aligned_cols=48  Identities=19%  Similarity=0.506  Sum_probs=31.9

Q ss_pred             cCCcccccccccccCCCceEEe-CCCCcchHHhHHHHHh----cCCCCCCCccC
Q 030323          105 AAGSDCMVCLCTLRDGELVRKL-DCRHVFHKDCLDGWLH----HLNFNCPLCRS  153 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~l-pC~H~fh~~Ci~~wl~----~~~~~CP~Cr~  153 (179)
                      .+...| +|..........+.- .|...||..|+.--..    .....||.|+.
T Consensus         6 ~~~~~C-~C~~~~~~~~~mi~Cd~C~~WfH~~Cv~~~~~~~~~~~~~~C~~C~~   58 (174)
T 2ri7_A            6 DTKLYC-ICKTPEDESKFYIGCDRCQNWYHGRCVGILQSEAELIDEYVCPQCQS   58 (174)
T ss_dssp             -CCEET-TTTEECCTTSCEEECTTTCCEEEHHHHTCCHHHHTTCSSCCCHHHHH
T ss_pred             CCCcEe-eCCCCCCCCCCEeECCCCCchhChhhcCCchhhccCccCeecCCCcc
Confidence            456788 999876544444444 4999999999952111    22567999975

>2yql_A PHD finger protein 21A; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=82.12  E-value=0.13  Score=31.13  Aligned_cols=45  Identities=36%  Similarity=0.689  Sum_probs=28.9

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhc---CCCCCCCcc
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHH---LNFNCPLCR  152 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~---~~~~CP~Cr  152 (179)
                      ..+..|.+|.+.   ++.+..-.|...||..|+.+-+..   ..-.||.|+
T Consensus         7 ~~~~~C~vC~~~---g~ll~Cd~C~~~~H~~Cl~ppl~~~p~g~W~C~~C~   54 (56)
T 2yql_A            7 GHEDFCSVCRKS---GQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQ   54 (56)
T ss_dssp             SSCCSCSSSCCS---SCCEECSSSSCEECSSSSSSCCCSCCCSSCCCHHHH
T ss_pred             CCCCCCccCCCC---CeEEEcCCCCcceECccCCCCcCCCCCCceEChhhh
Confidence            456789999974   222222248999999999864432   123577774

>1xwh_A Autoimmune regulator; PHD domain, Zn binding domain, apeced, nucleosome, E3 ligase, transcription; NMR {Homo sapiens} PDB: 2ke1_A 2kft_A

Probab=80.79  E-value=0.18  Score=31.70  Aligned_cols=47  Identities=28%  Similarity=0.583  Sum_probs=31.4

Q ss_pred             cCCcccccccccccCCCceEEe-CCCCcchHHhHHHHHhc---CCCCCCCccCCC
Q 030323          105 AAGSDCMVCLCTLRDGELVRKL-DCRHVFHKDCLDGWLHH---LNFNCPLCRSPV  155 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~l-pC~H~fh~~Ci~~wl~~---~~~~CP~Cr~~~  155 (179)
                      ..+..|.||.+.   ++ +..- .|...||..|+.+-+..   ..-.||.|...-
T Consensus         6 ~~~~~C~vC~~~---g~-ll~CD~C~~~fH~~Cl~ppl~~~P~g~W~C~~C~~~~   56 (66)
T 1xwh_A            6 KNEDECAVCRDG---GE-LICCDGCPRAFHLACLSPPLREIPSGTWRCSSCLQAT   56 (66)
T ss_dssp             SCCCSBSSSSCC---SS-CEECSSCCCEECTTTSSSCCSSCCSSCCCCHHHHHTC
T ss_pred             CCCCCCccCCCC---CC-EEEcCCCChhhcccccCCCcCcCCCCCeECccccCcc
Confidence            357799999864   22 2333 49999999999864432   134699996543

>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=80.73  E-value=0.53  Score=36.04  Aligned_cols=46  Identities=28%  Similarity=0.478  Sum_probs=31.6

Q ss_pred             CCcccccccccccCCCceEEe-CCCCcchHHhHHHHHhc---CCCCCCCccCCC
Q 030323          106 AGSDCMVCLCTLRDGELVRKL-DCRHVFHKDCLDGWLHH---LNFNCPLCRSPV  155 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~l-pC~H~fh~~Ci~~wl~~---~~~~CP~Cr~~~  155 (179)
                      .+..|.+|...   + .+... .|...||..|+.+-+..   +.-.||.|+..-
T Consensus         6 ~~~~C~~C~~~---g-~ll~Cd~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~   55 (207)
T 3u5n_A            6 NEDWCAVCQNG---G-DLLCCEKCPKVFHLTCHVPTLLSFPSGDWICTFCRDIG   55 (207)
T ss_dssp             SCSSBTTTCCC---E-EEEECSSSSCEECTTTSSSCCSSCCSSCCCCTTTSCSS
T ss_pred             CCCCCCCCCCC---C-ceEEcCCCCCccCCccCCCCCCCCCCCCEEeCceeCcc
Confidence            46789999843   2 22333 38999999999876543   235799998754

>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=80.11  E-value=2.7  Score=29.96  Aligned_cols=44  Identities=23%  Similarity=0.495  Sum_probs=29.7

Q ss_pred             CCcccccccccccCCCceEEe-CCCCcchHHhHHHH-----Hh-----cCCCCCCCccC
Q 030323          106 AGSDCMVCLCTLRDGELVRKL-DCRHVFHKDCLDGW-----LH-----HLNFNCPLCRS  153 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~l-pC~H~fh~~Ci~~w-----l~-----~~~~~CP~Cr~  153 (179)
                      .+..|.||.+.   + .+..- .|...||..|+.+-     +.     ...-.|++|+-
T Consensus        56 ~~~~C~vC~dG---G-~LlcCd~Cpr~Fc~~Cl~~~lg~~~l~~i~~~~~~W~C~~C~~  110 (129)
T 3ql9_A           56 MDEQCRWCAEG---G-NLICCDFCHNAFCKKCILRNLGRRELSTIMDENNQWYCYICHP  110 (129)
T ss_dssp             CBSSCTTTCCC---S-EEEECSSSSCEEEHHHHHHHTCHHHHHHHTCTTSCCCCTTTCC
T ss_pred             CCCcCeecCCC---C-eeEecCCCchhhhHHHhCCCcchhHHHHhccCCCCeEcCCcCC
Confidence            46689999954   2 22222 48999999999974     21     22357999954

---

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	179
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	1e-12
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	3e-11
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	9e-11
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	2e-08
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	2e-08
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	4e-08
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	4e-08
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	6e-07
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	3e-06
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	3e-06
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	1e-05
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	1e-05
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	0.002

>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 = 58.0 bits (140), Expect = 1e-12
 Identities = 26/51 (50%), Positives = 30/51 (58%), Gaps = 2/51 (3%)

Query: 107 GSDCMVCLCTLRDGELVRKL-DCRHVFHKDCLDGWLHHLNFNCPLCRSPVV 156
           G +C VCL  L DGE  R L  C H FH +C+D WL   +  CPLCR  VV
Sbjct: 5   GVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGS-HSTCPLCRLTVV 54

>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 = 54.6 bits (131), Expect = 3e-11
 Identities = 14/52 (26%), Positives = 20/52 (38%), Gaps = 3/52 (5%)

Query: 110 CMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERV 161
           C +C    +D   V+   C H+    CL  W       CP CR  +   E +
Sbjct: 26  CKICAENDKD---VKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPI 74

>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 = 53.0 bits (127), Expect = 9e-11
 Identities = 17/54 (31%), Positives = 23/54 (42%), Gaps = 3/54 (5%)

Query: 104 SAAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVS 157
           +     C +CL    +      L C H F   C+  W+   N  CPLC+ PV S
Sbjct: 2   ATVAERCPICLEDPSNY--SMALPCLHAFCYVCITRWIRQ-NPTCPLCKVPVES 52

>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 = 46.3 bits (109), Expect = 2e-08
 Identities = 11/51 (21%), Positives = 19/51 (37%), Gaps = 1/51 (1%)

Query: 109 DCMVCLCTLRDGELVRK-LDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSE 158
           +C +C+  L   ++      C +   + C        N  CP CR P   +
Sbjct: 2   ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPED 52

>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 = 46.4 bits (110), Expect = 2e-08
 Identities = 11/50 (22%), Positives = 17/50 (34%), Gaps = 7/50 (14%)

Query: 110 CMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE 159
           C  C    +     + L C H     CL+         CP+C++P     
Sbjct: 9   CQQCQAEAKC---PKLLPCLHTLCSGCLEAS----GMQCPICQAPWPLGA 51

>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 = 46.7 bits (110), Expect = 4e-08
 Identities = 14/71 (19%), Positives = 21/71 (29%), Gaps = 1/71 (1%)

Query: 89  NKINDNCCCGQGVASSAAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNC 148
           + + DNC   +                   +   V    C H FH  C+  WL      C
Sbjct: 18  DIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT-RQVC 76

Query: 149 PLCRSPVVSEE 159
           PL       ++
Sbjct: 77  PLDNREWEFQK 87

>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 = 45.9 bits (108), Expect = 4e-08
 Identities = 12/50 (24%), Positives = 19/50 (38%), Gaps = 2/50 (4%)

Query: 108 SDCMVCLCTLRDGELVRKL--DCRHVFHKDCLDGWLHHLNFNCPLCRSPV 155
             C  C  T      ++ +   C H   + C+D        NCP C +P+
Sbjct: 4   QGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPL 53

>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 = 43.9 bits (102), Expect = 6e-07
 Identities = 12/45 (26%), Positives = 17/45 (37%), Gaps = 4/45 (8%)

Query: 115 CTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFN----CPLCRSPV 155
             L    + R   C H FH  CL     + N +    CP C++  
Sbjct: 48  KALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIY 92

>d1rmda2 g.44.1.1 (A:1-86) V(D)J recombination activating protein 1 (RAG1), dimerization domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: V(D)J recombination activating protein 1 (RAG1), dimerization domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 41.8 bits (98), Expect = 3e-06
 Identities = 14/46 (30%), Positives = 21/46 (45%), Gaps = 3/46 (6%)

Query: 110 CMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPV 155
           C +C   L D     +  C+H+F + C+   L  +   CP CR P 
Sbjct: 26  CQICEHILAD---PVETSCKHLFCRICILRCLKVMGSYCPSCRYPC 68

>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 = 42.0 bits (98), Expect = 3e-06
 Identities = 15/59 (25%), Positives = 27/59 (45%), Gaps = 5/59 (8%)

Query: 109 DCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHH--LNFNCPLCRSPVVSEERVWNTR 165
           +C +CL  +++        C H+F K C+   L+       CPLC++ +       +TR
Sbjct: 23  ECPICLELIKE---PVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQESTR 78

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]} Length = 94

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: UbcM4-interacting protein 4 (KIAA0161)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.1 bits (93), Expect = 1e-05
 Identities = 12/58 (20%), Positives = 21/58 (36%), Gaps = 7/58 (12%)

Query: 104 SAAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHH-------LNFNCPLCRSP 154
           S+  S C +CL      ++     C+ +F   CL  ++            +CP    P
Sbjct: 2   SSGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACP 59

>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 = 39.1 bits (90), Expect = 1e-05
 Identities = 11/48 (22%), Positives = 15/48 (31%), Gaps = 3/48 (6%)

Query: 110 CMVCLCTLRDGELV--RKLDCRHVFHKDCLDGWL-HHLNFNCPLCRSP 154
           C +C   L +               H+ CL  WL    N  C +C   
Sbjct: 9   CWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVV 56

>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 = 34.0 bits (77), Expect = 0.002
 Identities = 13/55 (23%), Positives = 23/55 (41%), Gaps = 5/55 (9%)

Query: 110 CMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERVWNT 164
           C  C   LR+   +    C H+F  +C+   +      CP+C +P   ++   N 
Sbjct: 25  CSRCTNILREPVCL--GGCEHIFCSNCVSDCIGT---GCPVCYTPAWIQDLKINR 74

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	179
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.67
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.54
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.51
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.5
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.48
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.43
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.42
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.38
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.33
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.29
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.29
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.29
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.28
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	99.17
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.09
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	98.94
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.66
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	93.88
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	93.65
d1wepa_	79	PHD finger protein 8 {Mouse (Mus musculus) [TaxId:	92.79
d1wewa_	78	Sumoylation ligase E3, SIZ1 {Thale cress (Arabidop	91.34
d1fp0a1	70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	90.45
d1weva_	88	PHD finger protein 22 {Mouse (Mus musculus) [TaxId	88.92
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	88.56
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	87.27
d1wema_	76	Death associated transcription factor 1, Datf1 (DI	87.13
d1weoa_	93	Cellulose synthase A catalytic subunit 7, IRX3 {Th	85.61
d1z60a1	59	TFIIH p44 subunit cysteine-rich domain {Human (Hom	81.82

>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=99.67  E-value=1.8e-17  Score=102.67  Aligned_cols=51  Identities=51%  Similarity=1.056  Sum_probs=45.4

Q ss_pred             cCCcccccccccccCCCceEEeC-CCCcchHHhHHHHHhcCCCCCCCccCCCC
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLD-CRHVFHKDCLDGWLHHLNFNCPLCRSPVV  156 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lp-C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~  156 (179)
                      +++.+|+||++.|..++.+..++ |+|.||..|+.+|+.. +.+||+||.++.
T Consensus         3 ed~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~-~~~CP~CR~~i~   54 (55)
T d1iyma_           3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGS-HSTCPLCRLTVV   54 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTT-CCSCSSSCCCSC
T ss_pred             CCCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHh-CCcCCCCCCEeE
Confidence            34568999999999988888885 9999999999999987 789999999874

>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=99.54  E-value=1.4e-15  Score=97.89  Aligned_cols=49  Identities=35%  Similarity=0.798  Sum_probs=42.0

Q ss_pred             CCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCC
Q 030323          106 AGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVS  157 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~  157 (179)
                      ....|+||++.+.++  ++.+||+|.||..|+.+|++. +.+||+||.++..
T Consensus         4 ~~d~C~IC~~~~~~~--~~~~~C~H~Fc~~Ci~~w~~~-~~~CP~CR~~i~~   52 (68)
T d1chca_           4 VAERCPICLEDPSNY--SMALPCLHAFCYVCITRWIRQ-NPTCPLCKVPVES   52 (68)
T ss_dssp             CCCCCSSCCSCCCSC--EEETTTTEEESTTHHHHHHHH-SCSTTTTCCCCCC
T ss_pred             CCCCCccCCcCccCC--cEEeCCCCcCcHHHHHHHHHh-CCcCCCCCcchHh
Confidence            356799999998754  456799999999999999997 7899999998854

>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=99.51  E-value=1.4e-15  Score=92.93  Aligned_cols=49  Identities=22%  Similarity=0.454  Sum_probs=41.2

Q ss_pred             ccccccccccCCCce-EEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCC
Q 030323          109 DCMVCLCTLRDGELV-RKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVS  157 (179)
Q Consensus       109 ~C~ICl~~~~~~~~~-~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~  157 (179)
                      +|+||+++|..++.. ..++|||.||..|+++|+...+.+||+||+++.+
T Consensus         2 eCpICl~~~~~~~~~~~~~~CgH~~c~~C~~~w~~~~~~~CP~CR~~~~~   51 (52)
T d1ur6b_           2 ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPE   51 (52)
T ss_dssp             EETTTTEECCGGGTTCCSSSSSCCCCHHHHHHHTTTSCCBCTTTCCBCSC
T ss_pred             CCcCCChhhhCCCceEEecCCCCccchHHHHHHHhhcCCCCCccCCcCCC
Confidence            799999999766543 4458999999999999998656689999998865

>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=99.50  E-value=1.1e-14  Score=92.86  Aligned_cols=54  Identities=22%  Similarity=0.412  Sum_probs=42.6

Q ss_pred             CCcccccccccccC-CC-ceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323          106 AGSDCMVCLCTLRD-GE-LVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE  159 (179)
Q Consensus       106 ~~~~C~ICl~~~~~-~~-~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~  159 (179)
                      ++..|+||++.+.. ++ ....++|||.||..||..|+.+.+.+||+||+++...+
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~C~H~fc~~Ci~~~~~~~~~~CP~CR~~i~~~~   57 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSN   57 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECTTCCCEEHHHHHHHHHTTSSSCTTTCCCCSSCC
T ss_pred             CCCCCCcCCceeecCCceEEEeCccChHhhHHHHHHHhCcCcCCCCCCCcCccccc
Confidence            46799999997543 23 34556899999999999999865678999999886544

>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=99.48  E-value=1.4e-14  Score=95.77  Aligned_cols=50  Identities=26%  Similarity=0.632  Sum_probs=43.4

Q ss_pred             CcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323          107 GSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE  159 (179)
Q Consensus       107 ~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~  159 (179)
                      ...|+||++.+.++   +.+||||.||..|+..|+..++.+||+||..+...+
T Consensus        23 ~~~C~IC~~~~~~~---~~~~CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i~~~~   72 (79)
T d1fbva4          23 FQLCKICAENDKDV---KIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTE   72 (79)
T ss_dssp             TTBCTTTSSSBCCE---ECSSSCCEECHHHHHHHHHTTCCSCTTTCCCCCCCC
T ss_pred             CCCCccCCCcCCCe---EEeCCCCeeeHHHHHHHHHHCcCcCCCCCcCccCCc
Confidence            45799999998776   788999999999999999865678999999997654

>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=99.43  E-value=6.6e-14  Score=94.26  Aligned_cols=51  Identities=27%  Similarity=0.509  Sum_probs=41.4

Q ss_pred             CCcccccccccccCCC---------------ceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCC
Q 030323          106 AGSDCMVCLCTLRDGE---------------LVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVS  157 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~---------------~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~  157 (179)
                      .+..|+||++.+..+.               .+..++|+|.||..||.+|+.. +.+||+||+++.-
T Consensus        20 ~~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~-~~~CP~CR~~~~~   85 (88)
T d3dplr1          20 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT-RQVCPLDNREWEF   85 (88)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEETTSCEEEHHHHHHHHTT-CSBCSSSCSBCCE
T ss_pred             CCCcCEEccchhhCccccccccccccccccCCeEEccccCcccHHHHHHHHHH-CCcCCCCCCcccc
Confidence            3557999988775532               3566789999999999999997 7899999998754

>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=99.42  E-value=3.5e-14  Score=95.28  Aligned_cols=53  Identities=26%  Similarity=0.619  Sum_probs=46.0

Q ss_pred             CCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCcch
Q 030323          106 AGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERV  161 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~  161 (179)
                      +...|+||++.+.++   ++++|||.||..||..|++..+.+||+||.++.+.+..
T Consensus        22 ~~l~C~IC~~~~~~p---v~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~~~~~l~   74 (86)
T d1rmda2          22 KSISCQICEHILADP---VETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLE   74 (86)
T ss_dssp             HHTBCTTTCSBCSSE---EECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCB
T ss_pred             cCcCCccCCcchhcc---eecCCCChhhHHHHHHHHhhCCCcCcccCCCCChhhcc
Confidence            356899999999888   78899999999999999987577899999998766543

>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=99.38  E-value=1.5e-13  Score=96.45  Aligned_cols=53  Identities=26%  Similarity=0.588  Sum_probs=41.5

Q ss_pred             CcccccccccccCC---------------CceEEeCCCCcchHHhHHHHHhcC----CCCCCCccCCCCCCc
Q 030323          107 GSDCMVCLCTLRDG---------------ELVRKLDCRHVFHKDCLDGWLHHL----NFNCPLCRSPVVSEE  159 (179)
Q Consensus       107 ~~~C~ICl~~~~~~---------------~~~~~lpC~H~fh~~Ci~~wl~~~----~~~CP~Cr~~~~~~~  159 (179)
                      +..|+||++.+..+               ..+..++|+|.||..||..|+...    +.+||+||..+..+.
T Consensus        25 ~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~~~~~~   96 (114)
T d1v87a_          25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEKT   96 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESSSCCEECHHHHHHHHHHTCCSSCCBCTTTCCBSSSCS
T ss_pred             cccccchhheecccccccccccccccccccceEECCCCChhhHHHHHHHHHhcCcCCCCccccccchhccCc
Confidence            56899999987542               234566899999999999999863    247999999886554

>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=99.33  E-value=1.9e-13  Score=84.43  Aligned_cols=48  Identities=23%  Similarity=0.306  Sum_probs=42.6

Q ss_pred             ccccccccccCCCceEEeC-CCCcchHHhHHHHHhcCCCCCCCccCCCCCCcc
Q 030323          109 DCMVCLCTLRDGELVRKLD-CRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEER  160 (179)
Q Consensus       109 ~C~ICl~~~~~~~~~~~lp-C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~  160 (179)
                      .|+||++.+.++   ..++ |||.||.+||.+|+.+ +.+||+||.++..++.
T Consensus         2 ~C~Ic~~~~~~P---v~~~~cGh~fc~~cI~~~l~~-~~~CP~c~~~l~~~dL   50 (56)
T d2baya1           2 LCAISGKVPRRP---VLSPKSRTIFEKSLLEQYVKD-TGNDPITNEPLSIEEI   50 (56)
T ss_dssp             CCTTTCSCCSSE---EEETTTTEEEEHHHHHHHHHH-HSBCTTTCCBCCGGGC
T ss_pred             CCccCCchHHhc---CccCCCCCcccHHHHHHHHhh-ccCCCccCCcCCHHhc
Confidence            699999999988   6675 9999999999999997 7799999999877653

>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=99.29  E-value=6.3e-13  Score=91.75  Aligned_cols=50  Identities=26%  Similarity=0.673  Sum_probs=42.8

Q ss_pred             CcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCC--CCCCCccCCCCCCc
Q 030323          107 GSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLN--FNCPLCRSPVVSEE  159 (179)
Q Consensus       107 ~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~--~~CP~Cr~~~~~~~  159 (179)
                      ...|+||++.+.++   ..++|||.||..|+..|+...+  ..||+||.++...+
T Consensus        21 ~l~CpIC~~~~~~p---v~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~   72 (103)
T d1jm7a_          21 ILECPICLELIKEP---VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRS   72 (103)
T ss_dssp             HTSCSSSCCCCSSC---CBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTT
T ss_pred             CcCCCccCchhCCe---EEcCCCCchhhHHHHHHHHHCCCCCcCcCCCCcCChhh
Confidence            46899999999988   6789999999999999997533  47999999986554

>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=99.29  E-value=1e-12  Score=86.26  Aligned_cols=67  Identities=12%  Similarity=0.283  Sum_probs=53.2

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCcchhhhhhhcccchhhcc
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERVWNTRRRVGGDLIQWF  176 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~~~~  176 (179)
                      .++..|+||++.|.++   ++++|||.||+.||..|+...+..||.|+.++...+...  +..+-+.+..|.
T Consensus         6 P~~l~CpIc~~~m~dP---V~~~cgh~fc~~ci~~~~~~~~~~cP~~~~~l~~~~l~p--N~~L~~~I~~~~   72 (78)
T d1t1ha_           6 PEYFRCPISLELMKDP---VIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLTP--NYVLKSLIALWC   72 (78)
T ss_dssp             SSSSSCTTTSCCCSSE---EEETTTEEEEHHHHHHHHTTTCCBCTTTCCBCSSCCCEE--CTTTHHHHHHHH
T ss_pred             CccCCCcCcCchhhCc---eEccCCCcchHHHHHHHHHHCCCCCCcccccCCcccccc--hHHHHHHHHHHH
Confidence            3578999999999998   778999999999999999875678999999987655332  344445555663

>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=99.29  E-value=1.8e-13  Score=84.58  Aligned_cols=47  Identities=23%  Similarity=0.587  Sum_probs=40.3

Q ss_pred             CCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323          106 AGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE  159 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~  159 (179)
                      +...|+||++.+.++   +.+||||.||..|+++|    +.+||+||.++....
T Consensus         5 ~~l~C~IC~~~~~~p---~~lpCgH~fC~~Ci~~~----~~~CP~Cr~~~~~~~   51 (56)
T d1bora_           5 QFLRCQQCQAEAKCP---KLLPCLHTLCSGCLEAS----GMQCPICQAPWPLGA   51 (56)
T ss_dssp             CCSSCSSSCSSCBCC---SCSTTSCCSBTTTCSSS----SSSCSSCCSSSSCCS
T ss_pred             CCCCCcccCcccCCC---EEecCCCHHhHHHHHcC----CCcCcCCCCcccCCC
Confidence            456999999999888   77899999999998764    568999999997654

>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=99.28  E-value=7.6e-13  Score=87.29  Aligned_cols=51  Identities=14%  Similarity=0.199  Sum_probs=45.5

Q ss_pred             CCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323          106 AGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE  159 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~  159 (179)
                      ++..|+||++.|.++   .+++|||.|+..||.+|+...+.+||.||.++...+
T Consensus         6 ~~l~CpIc~~l~~dP---v~~~cGhtfc~~ci~~~l~~~~~~cP~c~~~l~~~~   56 (80)
T d2c2la2           6 DYLCGKISFELMREP---CITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQ   56 (80)
T ss_dssp             STTBCTTTCSBCSSE---EECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGG
T ss_pred             ccccCcCcCchhhhh---cccCCcCeecHHHHHHHHhcCCccCCCccccccccc
Confidence            578999999999999   778999999999999999875778999999887654

>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=99.17  E-value=7.5e-12  Score=78.03  Aligned_cols=49  Identities=27%  Similarity=0.553  Sum_probs=38.8

Q ss_pred             cCCcccccccccccCCCceEEeCC-----CCcchHHhHHHHHhc-CCCCCCCccCCCC
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDC-----RHVFHKDCLDGWLHH-LNFNCPLCRSPVV  156 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC-----~H~fh~~Ci~~wl~~-~~~~CP~Cr~~~~  156 (179)
                      ++...|.||++.+.++   ...||     +|.||..|+..|+.. .+.+||+||+++.
T Consensus         4 ed~~~C~IC~~~~~~~---~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~~   58 (60)
T d1vyxa_           4 EDVPVCWICNEELGNE---RFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVYN   58 (60)
T ss_dssp             CSCCEETTTTEECSCC---CCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBCC
T ss_pred             CCCCCCccCCccCCCc---eeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCeee
Confidence            4577999999988765   33344     599999999999964 3568999999875

>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=99.09  E-value=5.8e-12  Score=85.85  Aligned_cols=47  Identities=28%  Similarity=0.719  Sum_probs=39.9

Q ss_pred             CcccccccccccCCCceEEe-CCCCcchHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323          107 GSDCMVCLCTLRDGELVRKL-DCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE  159 (179)
Q Consensus       107 ~~~C~ICl~~~~~~~~~~~l-pC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~  159 (179)
                      ...|+||++.|.++   ..+ +|||.||..||..|+..   .||.||.++...+
T Consensus        22 ~l~C~IC~~~~~~p---v~~~~CgH~fC~~Ci~~~~~~---~CP~Cr~~~~~~~   69 (97)
T d1jm7b_          22 LLRCSRCTNILREP---VCLGGCEHIFCSNCVSDCIGT---GCPVCYTPAWIQD   69 (97)
T ss_dssp             TTSCSSSCSCCSSC---BCCCSSSCCBCTTTGGGGTTT---BCSSSCCBCSCSS
T ss_pred             cCCCccCCchhhcC---ceeCCCCCchhHHHHHHHHhc---cccccCCcCchhh
Confidence            56999999999988   554 79999999999999753   6999999886654

>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=98.94  E-value=5e-10  Score=76.31  Aligned_cols=66  Identities=12%  Similarity=0.135  Sum_probs=50.6

Q ss_pred             cCCcccccccccccCCCceEEeCCC-CcchHHhHHHHHhcCCCCCCCccCCCCCCcchhhhhhhcccchhhcc
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCR-HVFHKDCLDGWLHHLNFNCPLCRSPVVSEERVWNTRRRVGGDLIQWF  176 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~-H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~~~~  176 (179)
                      .++..||||.+.|.++   ++++|+ |.|++.||..|+.. +.+||+|+.++...+...  +..+-..+..|.
T Consensus        20 P~~f~CPI~~~lm~dP---V~~~~~~~ty~r~~I~~~l~~-~~~~P~~~~~l~~~~L~p--N~~Lr~~I~~~~   86 (98)
T d1wgma_          20 CDEFLDPIMSTLMCDP---VVLPSSRVTVDRSTIARHLLS-DQTDPFNRSPLTMDQIRP--NTELKEKIQRWL   86 (98)
T ss_dssp             CTTTBCTTTCSBCSSE---EECTTTCCEEEHHHHHHHTTT-SCBCTTTCSBCCTTTSEE--CHHHHHHHHHHH
T ss_pred             cHHhCCcCchhHHHHH---HhcccccchhhHHHHHHHHHh-cCCcccccccccchhhcc--hHHHHHHHHHHH
Confidence            3578999999999999   888865 58999999999986 779999999987655332  333334445554

>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=98.66  E-value=4.5e-09  Score=70.50  Aligned_cols=49  Identities=22%  Similarity=0.551  Sum_probs=37.8

Q ss_pred             cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcC----C---CCCCCccC
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHL----N---FNCPLCRS  153 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~----~---~~CP~Cr~  153 (179)
                      .+...|+||++++...+....++|+|.||..|+..|+...    .   -+||.|+-
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~C   58 (94)
T d1wima_           3 SGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAAC   58 (94)
T ss_dssp             CSBCCCSSSCCCCBGGGEEEETTTTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTC
T ss_pred             CCCCcCccCCCcccCCceEEECCCCCEeCCcCHHHHHHHHHhcCCccccCCcCCCC
Confidence            4568999999998765555656799999999999998632    1   25998653

>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=0.006  Score=36.75  Aligned_cols=51  Identities=22%  Similarity=0.464  Sum_probs=35.3

Q ss_pred             cCCcccccccccccCCCceEEe-CCCCcchHHhHHHHH---hc-CCCCCCCccCCC
Q 030323          105 AAGSDCMVCLCTLRDGELVRKL-DCRHVFHKDCLDGWL---HH-LNFNCPLCRSPV  155 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~l-pC~H~fh~~Ci~~wl---~~-~~~~CP~Cr~~~  155 (179)
                      .....|.+|.+.....+..+.- .|+..||..|+..-.   .. ....||.|+..-
T Consensus         4 ~~~~~C~~C~~~~~~~~~~I~Cd~C~~w~H~~C~~~~~~~~~~~~~w~C~~C~~~~   59 (64)
T d1we9a_           4 GSSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNKS   59 (64)
T ss_dssp             SSCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHTTT
T ss_pred             CCCCcCcCcCCCCCCCCCEEEcCCCCccCCcccCCcChHHCCCCCeEECcCCcCcC
Confidence            3467999999877665554444 499999999996311   11 246799997643

>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=93.65  E-value=0.014  Score=33.34  Aligned_cols=44  Identities=30%  Similarity=0.674  Sum_probs=29.6

Q ss_pred             ccccccccccCCCceEEe-CCCCcchHHhHHHHHhcC---CCCCCCccC
Q 030323          109 DCMVCLCTLRDGELVRKL-DCRHVFHKDCLDGWLHHL---NFNCPLCRS  153 (179)
Q Consensus       109 ~C~ICl~~~~~~~~~~~l-pC~H~fh~~Ci~~wl~~~---~~~CP~Cr~  153 (179)
                      .|.||...-.. +.+..- .|...||..|++.-+...   .-.||.|+.
T Consensus         2 ~C~vC~~~~~~-~~~i~Cd~C~~~~H~~C~~p~~~~~p~~~W~C~~C~~   49 (51)
T d1f62a_           2 RCKVCRKKGED-DKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCC-SCCEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCcCcCCCCCC-CCEEEcCCCCCCCCCCCCCCCCCcCCCCCEECcCCcC
Confidence            68888765333 333333 499999999998765432   236999975

>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=92.79  E-value=0.1  Score=32.37  Aligned_cols=50  Identities=16%  Similarity=0.285  Sum_probs=32.5

Q ss_pred             CcccccccccccCCCceEEe-CCCCcchHHhHHH--HH-hc-CCCCCCCccCCCC
Q 030323          107 GSDCMVCLCTLRDGELVRKL-DCRHVFHKDCLDG--WL-HH-LNFNCPLCRSPVV  156 (179)
Q Consensus       107 ~~~C~ICl~~~~~~~~~~~l-pC~H~fh~~Ci~~--wl-~~-~~~~CP~Cr~~~~  156 (179)
                      ...+.||..........+.- .|.--||..|+..  .- .. ....||.|+....
T Consensus        11 ~pv~CiC~~~~~~~~~mI~Cd~C~~W~H~~C~g~~~~~~~~~~~~~C~~C~~~~g   65 (79)
T d1wepa_          11 VPVYCLCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVFG   65 (79)
T ss_dssp             CCCCSTTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTTSC
T ss_pred             CCeEeECCCccCCCCcEEECCCCCCcEeccccCcchhcCCCCCEEECccCcCCcC
Confidence            34555999876544444444 4999999999962  21 11 2468999987543

>d1wewa_ g.50.1.2 (A:) Sumoylation ligase E3, SIZ1 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Sumoylation ligase E3, SIZ1
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=91.34  E-value=0.034  Score=34.65  Aligned_cols=50  Identities=22%  Similarity=0.388  Sum_probs=31.3

Q ss_pred             CCcccccccccccCCCceEEe---CCCCcchHHhHHH----HHh----cCCCCCCCccCCCCC
Q 030323          106 AGSDCMVCLCTLRDGELVRKL---DCRHVFHKDCLDG----WLH----HLNFNCPLCRSPVVS  157 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~l---pC~H~fh~~Ci~~----wl~----~~~~~CP~Cr~~~~~  157 (179)
                      +...| ||......+.. +..   .|..-||..|+.-    ...    .....||.|+..-.+
T Consensus        15 ~~~~C-~C~~~~~~~~~-i~c~c~~C~~W~H~~Cvgi~~~~~~~~~~~~~~~~C~~C~~~~~p   75 (78)
T d1wewa_          15 IKVRC-VCGNSLETDSM-IQCEDPRCHVWQHVGCVILPDKPMDGNPPLPESFYCEICRLTSGP   75 (78)
T ss_dssp             CCCCC-SSCCCCCCSCE-EECSSTTTCCEEEHHHHSCCCTTTCSCSCSCSSCCCHHHHHCCSC
T ss_pred             CccEe-ECCCccCCCcE-EEEeCCCCCcCCCccccCccccccccccCCCCEEECCCCcCcCCC
Confidence            44577 89987655433 344   3888999999842    100    013679999765433

>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=90.45  E-value=0.046  Score=33.32  Aligned_cols=48  Identities=27%  Similarity=0.594  Sum_probs=31.1

Q ss_pred             CcccccccccccCCCceEEe-CCCCcchHHhHHHHHhcC---CCCCCCccCCCCCC
Q 030323          107 GSDCMVCLCTLRDGELVRKL-DCRHVFHKDCLDGWLHHL---NFNCPLCRSPVVSE  158 (179)
Q Consensus       107 ~~~C~ICl~~~~~~~~~~~l-pC~H~fh~~Ci~~wl~~~---~~~CP~Cr~~~~~~  158 (179)
                      ...|.+|.+.   ++ +..- .|...||..|+.+.+...   .-.||.|+..-..+
T Consensus         7 c~~C~~C~~~---~~-ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~~~~~~   58 (70)
T d1fp0a1           7 ATICRVCQKP---GD-LVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLPDLK   58 (70)
T ss_dssp             SSCCSSSCSS---SC-CEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCCCCSSC
T ss_pred             CCCCCCCCCc---CE-EEECCCCChhhccccCCCCcCcCCCCCEECcCCcCcCccC
Confidence            4567777642   32 3333 499999999999776532   34699997655433

>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=88.92  E-value=0.017  Score=36.81  Aligned_cols=50  Identities=22%  Similarity=0.616  Sum_probs=31.7

Q ss_pred             CCcccccccccccCC-CceEEe-CCCCcchHHhHHHHH-----hc--CCCCCCCccCCC
Q 030323          106 AGSDCMVCLCTLRDG-ELVRKL-DCRHVFHKDCLDGWL-----HH--LNFNCPLCRSPV  155 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~-~~~~~l-pC~H~fh~~Ci~~wl-----~~--~~~~CP~Cr~~~  155 (179)
                      ....|.||....... ..++.- .|...||..|+.+.+     ..  ....||.|....
T Consensus        15 ~~~~C~iC~~~~~~~~~~~v~Cd~C~~~~H~~C~~p~~~~~~~~~~~~~W~C~~C~~~~   73 (88)
T d1weva_          15 MGLACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTRQM   73 (88)
T ss_dssp             HCCSCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHHHHH
T ss_pred             CcCCccCCCCccCCCCCeEEEcCCCCCccccccCCCcccccccccCCCeEECcccCchH
Confidence            456799998754432 233333 499999999976432     11  135799996543

>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=88.56  E-value=0.041  Score=32.57  Aligned_cols=47  Identities=32%  Similarity=0.589  Sum_probs=30.3

Q ss_pred             CCcccccccccccCCCceEEeCCCCcchHHhHHHHHhc---CCCCCCCccCCC
Q 030323          106 AGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHH---LNFNCPLCRSPV  155 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~---~~~~CP~Cr~~~  155 (179)
                      .+..|.+|.+.   ++.+..=.|...||..|+...+..   ....||.|+..-
T Consensus         8 ~~~~C~~C~~~---g~lv~Cd~C~~~~H~~C~~~~~~~~~~~~W~C~~C~~~~   57 (61)
T d1mm2a_           8 HMEFCRVCKDG---GELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCPA   57 (61)
T ss_dssp             SCSSCTTTCCC---SSCBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTTC
T ss_pred             CcCCCcCCCCC---CeEEEeCCCCccCchhhcCCCcCcCCCCcEECCCCcCcc
Confidence            45579999853   322222248999999998765442   134699997543

>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=87.27  E-value=0.19  Score=31.56  Aligned_cols=32  Identities=28%  Similarity=0.590  Sum_probs=24.6

Q ss_pred             cCCcccccccccccCCCceEEeC---CCCcchHHhHHHH
Q 030323          105 AAGSDCMVCLCTLRDGELVRKLD---CRHVFHKDCLDGW  140 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~~~~~~lp---C~H~fh~~Ci~~w  140 (179)
                      ..+..|.|| +.+...   ..+|   |+.+||..|+.+-
T Consensus        13 ~~D~mC~vC-~v~t~~---~l~pCRvCtRv~H~~CL~r~   47 (89)
T d1wila_          13 VNDEMCDVC-EVWTAE---SLFPCRVCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCSCCCTTT-CCCCSS---CCSSCSSSSSCCCHHHHHHH
T ss_pred             CcCcccccc-Cccccc---ceecceeecchhhHHHHHHh
Confidence            457899999 666655   3445   6899999999986

>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=87.13  E-value=0.38  Score=29.13  Aligned_cols=48  Identities=23%  Similarity=0.549  Sum_probs=29.7

Q ss_pred             CCcccccccccccCCCceEEe-CCCCcchHHhHH------HHH--hcCCCCCCCccCCC
Q 030323          106 AGSDCMVCLCTLRDGELVRKL-DCRHVFHKDCLD------GWL--HHLNFNCPLCRSPV  155 (179)
Q Consensus       106 ~~~~C~ICl~~~~~~~~~~~l-pC~H~fh~~Ci~------~wl--~~~~~~CP~Cr~~~  155 (179)
                      ....| ||......+ .++.- .|.-.||..|+.      ...  ......||.|+..-
T Consensus        15 ~~~~C-iC~~~~~~~-~mi~Cd~C~~w~H~~Cvg~~~~~~~~~~~~~~~w~C~~C~~~~   71 (76)
T d1wema_          15 NALYC-ICRQPHNNR-FMICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCTILS   71 (76)
T ss_dssp             TCCCS-TTCCCCCSS-CEEECSSSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHHHS
T ss_pred             CcCEE-ECCCccCCC-eEEEECCCCCcCCccccCCCcccccccCCCCCcEECCCCcCcC
Confidence            34567 898765443 33334 499999999982      111  12257899996543

>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=85.61  E-value=1.2  Score=28.00  Aligned_cols=53  Identities=19%  Similarity=0.365  Sum_probs=38.1

Q ss_pred             cCCcccccccccccCC---CceEEe-CCCCcchHHhHHHHHhcCCCCCCCccCCCCC
Q 030323          105 AAGSDCMVCLCTLRDG---ELVRKL-DCRHVFHKDCLDGWLHHLNFNCPLCRSPVVS  157 (179)
Q Consensus       105 ~~~~~C~ICl~~~~~~---~~~~~l-pC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~  157 (179)
                      .....|.||-+.+...   +.-+.. -|+--.|+.|.+-=....+..||.|+.+...
T Consensus        14 ~~~q~CqiCGd~VG~~~~Ge~FVAC~eC~FPvCrpCyEYErkeG~q~CpqCkt~Ykr   70 (93)
T d1weoa_          14 LDGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTRYKR   70 (93)
T ss_dssp             CSSCBCSSSCCBCCBCSSSSBCCSCSSSCCCCCHHHHHHHHHTSCSSCTTTCCCCCC
T ss_pred             cccchhhhcccccccCCCCCEEEEecccCCccchHHHHHHHhccCccCcccCChhhh
Confidence            3467999999986432   222222 3888899999986666668899999987743

>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=81.82  E-value=0.25  Score=28.96  Aligned_cols=44  Identities=30%  Similarity=0.521  Sum_probs=29.5

Q ss_pred             CcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCc
Q 030323          107 GSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLC  151 (179)
Q Consensus       107 ~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~C  151 (179)
                      ...|--|+..+.+......-.|++.||.+|-.. +...-..||-|
T Consensus        15 ~~~C~gC~~~l~~~~~y~C~~C~~~FC~dCD~f-iHe~lh~CpgC   58 (59)
T d1z60a1          15 ERFCYGCQGELKDQHVYVCAVCQNVFCVDCDVF-VHDSLHSCPGC   58 (59)
T ss_dssp             CCEETTTTEECTTSEEECCTTTTCCBCHHHHHT-TTTTSCSSSTT
T ss_pred             CCCccCCCCcCCCCceEECcCCCCccccccchh-hhhhhcCCCCC
Confidence            467999998886552222224999999999654 22223479988