Citrus Sinensis ID: 026690

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-----
Protein Sequence
MEFYAYPSRFSMSSLSLCGNFFERVKEFCNFAVSAVIGNIFSAIFTFFFALVGTLLGAMTGALIGQETESGFVRGAAVGAISGAVFSIEVFESSLVLWQSDESGIGCLLYLIDVIASLLSGRLVRERIGPAMLSAVQSQMGAVEVSFDEAPNIFDTGLSKGLTGESVDKIPKITITDKNNIDASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL
Secondary Structure (PSIPRED)
ccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHcccccccccccccccccccccccccHHHHHccccEEEEccccccccccccccccHHcccccccEEccccccccccccccHHHHHccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHcHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHccHHHHcccHHHHHHHHHHHccHHcHHHHHHHHHcccccccccHHHHHHccEEEEEEEccccccccccccEEEHHHccccccEEccccccccccHHHHHHHHHcccccccccccc
Coil and Loop (DISEMBL)
mefyaypsrfsmsslSLCGNFFERVKEFCNFAVSAVIGNIFSAIFTFFFALVGTLLGAMTGaligqetesgfvrGAAVGAISGAVFSIEVFESSLVLwqsdesgiGCLLYLIDVIASLLSGRLVRERIGPAMLSAVQSQMGAvevsfdeapnifdtglskgltgesvdkipkititdknnidasgervscsvclqdfqlgetarslphchhmfhipcidkwllghascplcrrdl
Flexible Loop (DISEMBL)
mefyaypsrfsmsSLSLCGNFFERVKEFCNFAVSAVIGNIFSAIFTFFFALVGTLLGAMTGALIGQETESGFVRGAAVGAISGAVFSIEVFESSLVLWQSDESGIGCLLYLIDVIASLLSGRLVRERIGPAMLSAVQSQMGAVEVSFDEAPNIFDTglskgltgesvdkipkititdknnidasGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL
Low Complexity Region (SEG)
MEFYAYPSRFSMSSLSLCGNFFERVKEFCNFAVSAVIGNIFSAIFTFFFALVGTLLGAMTGALIGQETESGFVRGAAVGAISGAVFSIEVFESSLVLWQSDESGIGCLLYLIDVIASLLSGRLVRERIGPAMLSAVQSQMGAVEVSFDEAPNIFDTGLSKGLTGESVDKIPKITITDKNNIDASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL
Disordered region (IsUnstruct)
***YAYPSRFSMSSLSLCGNFFERVKEFCNFAVSAVIGNIFSAIFTFFFALVGTLLGAMTGALIGQETESGFVRGAAVGAISGAVFSIEVFESSLVLWQSDESGIGCLLYLIDVIASLLSGRLVRERIGPAMLSAVQSQMGAVEVSFDEAPNIFDTGLSKGLTGESVDKIPKITITDKNNIDASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLC****
Disordered Region (DISOPRED)
*********F***SLSLCGNFFERVKEFCNFAVSAVIGNIFSAIFTFFFALVGTLLGAMTGALIGQETESGFVRGAAVGAISGAVFSIEVFESSLVLWQSDESGIGCLLYLIDVIASLLSGRLVRERIGPAMLSAVQSQMGA*******************L*GESVDKIPKITITDKNN***SGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL
Disordered Region (DISEMBL)
MEFYAYPSRFSMSSLSLCGNFFERVKEFCNFAVSAVIGNIFSAIFTFFFALVGTLLGAMTGALIGQETESGFVRGAAVGAISGAVFSIEVFESSLVLWQSDESGIGCLLYLIDVIASLLSGRLVRERIGPAMLSAVQSQMGAVEVSFDEAPNIFDTGLSKGLTGESVDKIPKITITDKNNIDASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL
Disordered Region (DISPRO)
**FYAYPSRFSMSSLSLCGNFFERVKEFCNFAVSAVIGNIFSAIFTFFFALVGTLLGAMTGALIGQETESGFVRGAAVGAISGAVFSIEVFESSLVLWQSDESGIGCLLYLIDVIASLLSGRLVRERIGPAMLSAVQSQMGAVEVSFDEAPNIFDTGLSKGLTGESVDKIPKITITDKNNIDASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLC****
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiHHHHHHHHHHHHHHHHHHooooooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiHHHHHHHHHHHHHHHHHHHHHoooooooooooHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MEFYAYPSRFSMSSLSLCGNFFERVKEFCNFAVSAVIGNIFSAIFTFFFALVGTLLGAMTGALIGQETESGFVRGAAVGAISGAVFSIEVFESSLVLWQSDESGIGCLLYLIDVIASLLSGRLVRERIGPAMLSAVQSQMGAVEVSFDEAPNIFDTGLSKGLTGESVDKIPKITITDKNNIDASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	235	2.2.26 [Sep-21-2011]
Q8GT75	236	NEP1-interacting protein	yes	no	0.919	0.915	0.800	2e-99
Q8GT74	241	NEP1-interacting protein	no	no	0.923	0.900	0.792	1e-98
Q9FKX5	221	NEP1-interacting protein-	no	no	0.923	0.981	0.765	1e-95
Q8LBA0	223	NEP1-interacting protein-	no	no	0.885	0.932	0.364	1e-33
Q9SRQ8	356	RING-H2 finger protein AT	no	no	0.268	0.176	0.507	4e-14
Q8L9T5	304	RING-H2 finger protein AT	no	no	0.297	0.230	0.418	5e-14
Q9LS99	220	RING-H2 finger protein AT	no	no	0.336	0.359	0.407	3e-13
Q9FLC6	176	RING-H2 finger protein AT	no	no	0.357	0.477	0.397	4e-13
Q94BY6	226	RING-H2 finger protein AT	no	no	0.319	0.331	0.428	4e-13
O22755	185	RING-H2 finger protein AT	no	no	0.327	0.416	0.419	5e-13

>sp|Q8GT75|NIP1_ARATH NEP1-interacting protein 1 OS=Arabidopsis thaliana GN=NIP1 PE=1 SV=2

 Score =  362 bits (928), Expect = 2e-99,   Method: Compositional matrix adjust.
 Identities = 173/216 (80%), Positives = 192/216 (88%)

Query: 20  NFFERVKEFCNFAVSAVIGNIFSAIFTFFFALVGTLLGAMTGALIGQETESGFVRGAAVG 79
           NF ER+K+ C F +SAV+G I SA+ TFFFALVGTLLGA+TGALIGQETESGF+RGAAVG
Sbjct: 21  NFIERIKDACRFTLSAVLGTILSAVLTFFFALVGTLLGALTGALIGQETESGFIRGAAVG 80

Query: 80  AISGAVFSIEVFESSLVLWQSDESGIGCLLYLIDVIASLLSGRLVRERIGPAMLSAVQSQ 139
           AISGAVFSIEVFESSLVLW+S+ES  GCLLYLIDVI SL+SGRLVRERIGPAMLSAVQSQ
Sbjct: 81  AISGAVFSIEVFESSLVLWKSNESRFGCLLYLIDVIVSLISGRLVRERIGPAMLSAVQSQ 140

Query: 140 MGAVEVSFDEAPNIFDTGLSKGLTGESVDKIPKITITDKNNIDASGERVSCSVCLQDFQL 199
           MGAV+ +F+E  +IFDTG SKGLTG+ VDKIPKI IT KNN+DASG + SCSVCLQDFQL
Sbjct: 141 MGAVDSTFEELSSIFDTGGSKGLTGDLVDKIPKIKITGKNNLDASGNKDSCSVCLQDFQL 200

Query: 200 GETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235
           GET RSLPHCHHMFH+PCID WL  H SCP+CRRDL
Sbjct: 201 GETVRSLPHCHHMFHLPCIDNWLFRHGSCPMCRRDL 236

Intrinsic thylakoid membrane protein that fixes RPOT2 on the stromal side of the thylakoid membrane.
Arabidopsis thaliana (taxid: 3702)

>sp|Q8GT74|NIP2_ARATH NEP1-interacting protein 2 OS=Arabidopsis thaliana GN=NIP2 PE=1 SV=1

 Score =  359 bits (921), Expect = 1e-98,   Method: Compositional matrix adjust.
 Identities = 172/217 (79%), Positives = 191/217 (88%)

Query: 19  GNFFERVKEFCNFAVSAVIGNIFSAIFTFFFALVGTLLGAMTGALIGQETESGFVRGAAV 78
           GNF ER+K+ C+F VSAV+G I SAI TFFFALVGTLLGA+TGALIGQETESGF+RGAA+
Sbjct: 25  GNFVERIKDACHFLVSAVLGTIISAILTFFFALVGTLLGALTGALIGQETESGFIRGAAI 84

Query: 79  GAISGAVFSIEVFESSLVLWQSDESGIGCLLYLIDVIASLLSGRLVRERIGPAMLSAVQS 138
           GAISGAVFSIEVFESSL LW+SDESG GC LYLIDVI SLLSGRLVRERIGPAMLSAVQS
Sbjct: 85  GAISGAVFSIEVFESSLDLWKSDESGFGCFLYLIDVIVSLLSGRLVRERIGPAMLSAVQS 144

Query: 139 QMGAVEVSFDEAPNIFDTGLSKGLTGESVDKIPKITITDKNNIDASGERVSCSVCLQDFQ 198
           QMGAV+ +FD+  ++FDTG SKGLTG+ V+KIPK+TIT  NN DAS    SCSVCLQDFQ
Sbjct: 145 QMGAVDTAFDDHTSLFDTGGSKGLTGDLVEKIPKMTITGNNNTDASENTDSCSVCLQDFQ 204

Query: 199 LGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235
           LGET RSLPHCHHMFH+PCID WLL H SCP+CRRD+
Sbjct: 205 LGETVRSLPHCHHMFHLPCIDNWLLRHGSCPMCRRDI 241

Intrinsic thylakoid membrane protein that fixes RPOT2 on the stromal side of the thylakoid membrane.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FKX5|NIPL1_ARATH NEP1-interacting protein-like 1 OS=Arabidopsis thaliana GN=ATL27 PE=2 SV=1

 Score =  349 bits (895), Expect = 1e-95,   Method: Compositional matrix adjust.
 Identities = 173/226 (76%), Positives = 197/226 (87%), Gaps = 9/226 (3%)

Query: 10  FSMSSLSLCGNFFERVKEFCNFAVSAVIGNIFSAIFTFFFALVGTLLGAMTGALIGQETE 69
           +S+S +S+      R+K+  +FAVSA++ N+FSA+FTFFFALVGTLLGA+TGALIGQETE
Sbjct: 5   YSLSPISV----LHRIKDSFHFAVSALLANLFSALFTFFFALVGTLLGALTGALIGQETE 60

Query: 70  SGFVRGAAVGAISGAVFSIEVFESSLVLWQSDESGIGCLLYLIDVIASLLSGRLVRERIG 129
           SGF+RGAAVGAISGAVFSIEVFESSL+LWQSDESGIGCLLYLIDVIASLLSGRLVRERIG
Sbjct: 61  SGFIRGAAVGAISGAVFSIEVFESSLLLWQSDESGIGCLLYLIDVIASLLSGRLVRERIG 120

Query: 130 PAMLSAVQSQMGAVEVSFDEAPNIFDTGLSKGLTGESVDKIPKITITDKNNIDASGERVS 189
           PAMLSAVQSQMGAVE  F +  +IFDT +SKGLTG+S+++IPK+ IT     D S E VS
Sbjct: 121 PAMLSAVQSQMGAVESQFQDHTDIFDTAISKGLTGDSLNRIPKVRIT-----DTSPEIVS 175

Query: 190 CSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235
           CSVCLQDFQ+GET RSLPHCHHMFH+PCIDKWL  HASCPLCRR L
Sbjct: 176 CSVCLQDFQVGETVRSLPHCHHMFHLPCIDKWLRRHASCPLCRRHL 221

May be involved in the early steps of the plant defense signaling pathway.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8LBA0|NIPL2_ARATH NEP1-interacting protein-like 2 OS=Arabidopsis thaliana GN=ATL24 PE=1 SV=2

 Score =  142 bits (359), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 77/211 (36%), Positives = 127/211 (60%), Gaps = 3/211 (1%)

Query: 23  ERVKEFCNFAVSAVIGNIFSAIFTFFFALVGTLLGAMTGALIGQETESGFVRGAAVGAIS 82
           E++ +     VS +I  +FS   T  FA+ G   GA+TGA+ G+  + G +RGAA+GA++
Sbjct: 12  EQIADSTIDTVSRLIAGVFSGALTGIFAMAGAFTGAVTGAVAGRAAQYGVLRGAALGAVA 71

Query: 83  GAVFSIEVFESSLVLWQSDESGIGCLLYLIDVIASLLSGRLVRERIGPAMLSAVQSQMGA 142
           GA+ S+EV E+S   W  + SG      + D +  L  GRLV E++   M+++   Q+  
Sbjct: 72  GAILSVEVLEASRAYWYLELSGSRGPSSMADFVEQLFRGRLVDEQLMSTMINSHHWQLRI 131

Query: 143 VEVSFDEAPNIFDTGLSKGLTGESVDKIPKITITDKNNIDASGERVSCSVCLQDFQLGET 202
            +VS++E  +++    ++GL+G+S+ K+P   ++ +       +   C++CLQD + GE 
Sbjct: 132 SDVSYEEREDVYGELEARGLSGDSLRKLPCYIMSSEM---VRRQVTHCTICLQDIKTGEI 188

Query: 203 ARSLPHCHHMFHIPCIDKWLLGHASCPLCRR 233
            RSLP C H FH+ C+DKWL+ H SCP+CR+
Sbjct: 189 TRSLPKCDHTFHLVCVDKWLIRHGSCPICRQ 219

May be involved in the early steps of the plant defense signaling pathway. Does not display E3 catalytic activity.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SRQ8|ATL51_ARATH RING-H2 finger protein ATL51 OS=Arabidopsis thaliana GN=ATL51 PE=2 SV=2

 Score = 78.2 bits (191), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 32/63 (50%), Positives = 40/63 (63%)

Query: 170 IPKITITDKNNIDASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCP 229
           I  IT+     +D   E   CSVCL +FQ  E+ R LP C+H FH+PCID WL  H++CP
Sbjct: 139 IKSITVYKYRKMDGFVESSDCSVCLSEFQENESLRLLPKCNHAFHVPCIDTWLKSHSNCP 198

Query: 230 LCR 232
           LCR
Sbjct: 199 LCR 201

Arabidopsis thaliana (taxid: 3702)

>sp|Q8L9T5|ATL2_ARATH RING-H2 finger protein ATL2 OS=Arabidopsis thaliana GN=ATL2 PE=2 SV=2

 Score = 78.2 bits (191), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 31/74 (41%), Positives = 45/74 (60%), Gaps = 4/74 (5%)

Query: 159 SKGLTGESVDKIPKITITDKNNIDASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCI 218
           S+GL    +  +P  T +D+ + D     + C+VCL +F+  ET R LP+C H FH+ CI
Sbjct: 92  SRGLDPNVIKSLPVFTFSDETHKDP----IECAVCLSEFEESETGRVLPNCQHTFHVDCI 147

Query: 219 DKWLLGHASCPLCR 232
           D W   H++CPLCR
Sbjct: 148 DMWFHSHSTCPLCR 161

May be involved in the early steps of the plant defense signaling pathway.

Arabidopsis thaliana (taxid: 3702)

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

 Score = 75.5 bits (184), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 33/81 (40%), Positives = 49/81 (60%), Gaps = 2/81 (2%)

Query: 155 DTGLSKGLTGESVDKIPKITITDKNNIDASGERVSCSVCLQDFQLGETARSLPHCHHMFH 214
           D+ ++KG+  +++  +P +  + + N+   GE   C +CL DF  GE  R LP C+H FH
Sbjct: 97  DSSVNKGIKKKALKMLPVVNYSPEINLPGVGEE--CVICLSDFVAGEQLRVLPKCNHGFH 154

Query: 215 IPCIDKWLLGHASCPLCRRDL 235
           + CIDKWL  H +CP CR  L
Sbjct: 155 LRCIDKWLTQHMTCPKCRHCL 175

Arabidopsis thaliana (taxid: 3702)

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

 Score = 75.1 bits (183), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 35/88 (39%), Positives = 50/88 (56%), Gaps = 4/88 (4%)

Query: 148 DEAPNIFDTGLSKGLTGESVDKIPKITITDKNNIDASGERVSCSVCLQDFQLGETARSLP 207
           +E P   +  ++KG+   ++  IP     D  + +   +   C +CL DF  GET R LP
Sbjct: 75  NEDPVDTNANVAKGIKKRALKVIP----VDSYSPELKMKATECLICLGDFVEGETVRVLP 130

Query: 208 HCHHMFHIPCIDKWLLGHASCPLCRRDL 235
            C+H FH+ CID WLL H+SCP CR+ L
Sbjct: 131 KCNHGFHVKCIDTWLLSHSSCPTCRQSL 158

Arabidopsis thaliana (taxid: 3702)

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

 Score = 75.1 bits (183), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 33/77 (42%), Positives = 46/77 (59%), Gaps = 2/77 (2%)

Query: 159 SKGLTGESVDKIPKITITDKNNIDASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCI 218
           +KG+  +++   P ++ + + N+   GE   C +CL DF  GE  R LP CHH FH+ CI
Sbjct: 107 NKGINKKALRMFPVVSYSPEMNLPGLGEE--CVICLSDFVSGEQIRMLPKCHHGFHVRCI 164

Query: 219 DKWLLGHASCPLCRRDL 235
           DKWL  H +CP CR  L
Sbjct: 165 DKWLQQHLTCPKCRHCL 181

Arabidopsis thaliana (taxid: 3702)

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

 Score = 74.7 bits (182), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 34/81 (41%), Positives = 48/81 (59%), Gaps = 4/81 (4%)

Query: 159 SKGLTGESVDKIPKITITDKNNIDAS----GERVSCSVCLQDFQLGETARSLPHCHHMFH 214
           +KGL  +++  +P+ T T   +   +    G+   C++CL DF  GE  R LP C H FH
Sbjct: 67  NKGLKKKALQSLPRSTFTAAESTSGAAAEEGDSTECAICLTDFADGEEIRVLPLCGHSFH 126

Query: 215 IPCIDKWLLGHASCPLCRRDL 235
           + CIDKWL+  +SCP CRR L
Sbjct: 127 VECIDKWLVSRSSCPSCRRIL 147

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	235
255579580	235	RING-H2 finger protein ATL4M, putative [	1.0	1.0	0.876	1e-117
225468578	235	PREDICTED: NEP1-interacting protein 1 [V	0.995	0.995	0.847	1e-111
224133604	224	predicted protein [Populus trichocarpa]	0.953	1.0	0.875	1e-109
224117248	224	predicted protein [Populus trichocarpa]	0.948	0.995	0.865	1e-108
449456847	235	PREDICTED: NEP1-interacting protein 1-li	1.0	1.0	0.821	1e-105
301070456	241	plastid NEP interaction protein [Nicotia	1.0	0.975	0.767	1e-102
388495990	237	unknown [Lotus japonicus]	1.0	0.991	0.789	1e-102
157887047	235	NEP1-interacting protein [Spinacia olera	1.0	1.0	0.778	1e-102
351727597	242	uncharacterized protein LOC100306109 [Gl	0.978	0.950	0.798	1e-101
356496604	256	PREDICTED: LOW QUALITY PROTEIN: NEP1-int	0.978	0.898	0.789	1e-100

>gi|255579580|ref|XP_002530631.1| RING-H2 finger protein ATL4M, putative [Ricinus communis] gi|223529804|gb|EEF31739.1| RING-H2 finger protein ATL4M, putative [Ricinus communis]

 Score =  426 bits (1094), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 206/235 (87%), Positives = 219/235 (93%)

Query: 1   MEFYAYPSRFSMSSLSLCGNFFERVKEFCNFAVSAVIGNIFSAIFTFFFALVGTLLGAMT 60
           MEFY YPSRFSMSSL   G+F E++KE CNFAVSAVIGNIFSAIFTFFFALVGTLLGAMT
Sbjct: 1   MEFYPYPSRFSMSSLPFFGDFVEKIKEVCNFAVSAVIGNIFSAIFTFFFALVGTLLGAMT 60

Query: 61  GALIGQETESGFVRGAAVGAISGAVFSIEVFESSLVLWQSDESGIGCLLYLIDVIASLLS 120
           GALIGQETESGFVRGAAVGAISGAVFSIEVFESSL+LWQSDESGIGCLLYLIDVIASLLS
Sbjct: 61  GALIGQETESGFVRGAAVGAISGAVFSIEVFESSLLLWQSDESGIGCLLYLIDVIASLLS 120

Query: 121 GRLVRERIGPAMLSAVQSQMGAVEVSFDEAPNIFDTGLSKGLTGESVDKIPKITITDKNN 180
           GRLVRERIGPAMLSAVQSQMGAVE SF+E  NIFDTG +KGLTG++V+KIPKI IT  N 
Sbjct: 121 GRLVRERIGPAMLSAVQSQMGAVETSFEEVQNIFDTGGAKGLTGDTVEKIPKIKITSNNT 180

Query: 181 IDASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235
           IDASGE+V+CSVCLQDFQ+GET RSLPHCHHMFH+PCIDKWLL HASCPLCRRDL
Sbjct: 181 IDASGEKVACSVCLQDFQVGETVRSLPHCHHMFHLPCIDKWLLRHASCPLCRRDL 235

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225468578|ref|XP_002263471.1| PREDICTED: NEP1-interacting protein 1 [Vitis vinifera] gi|296084057|emb|CBI24445.3| unnamed protein product [Vitis vinifera]

 Score =  405 bits (1040), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 200/236 (84%), Positives = 214/236 (90%), Gaps = 2/236 (0%)

Query: 1   MEFYAYPSR-FSMSSLSLCGNFFERVKEFCNFAVSAVIGNIFSAIFTFFFALVGTLLGAM 59
           MEFYAYPS  +S  S S   N   RV++F +FA SA++GN+FSAIFTFFFALVGT+LGAM
Sbjct: 1   MEFYAYPSHSYSWPSFSF-ANLVGRVRDFFSFAFSAILGNVFSAIFTFFFALVGTMLGAM 59

Query: 60  TGALIGQETESGFVRGAAVGAISGAVFSIEVFESSLVLWQSDESGIGCLLYLIDVIASLL 119
           TGALIGQETESGFVRGAAVGAISGAVFSIEVFESSLVLWQSDESGIGCLLYLIDVI SLL
Sbjct: 60  TGALIGQETESGFVRGAAVGAISGAVFSIEVFESSLVLWQSDESGIGCLLYLIDVIVSLL 119

Query: 120 SGRLVRERIGPAMLSAVQSQMGAVEVSFDEAPNIFDTGLSKGLTGESVDKIPKITITDKN 179
           SGRLVRERIGPAMLSAVQSQMGAVEVS+DE PNIFDTG +KGL G+SV+KIPKITIT  N
Sbjct: 120 SGRLVRERIGPAMLSAVQSQMGAVEVSYDEVPNIFDTGGAKGLPGDSVEKIPKITITSDN 179

Query: 180 NIDASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235
           N DASGE+VSCSVCLQDFQLGET RSLPHCHHMFH+PCIDKWLLGH SCPLCRRDL
Sbjct: 180 NGDASGEKVSCSVCLQDFQLGETVRSLPHCHHMFHLPCIDKWLLGHGSCPLCRRDL 235

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224133604|ref|XP_002327636.1| predicted protein [Populus trichocarpa] gi|222836721|gb|EEE75114.1| predicted protein [Populus trichocarpa]

 Score =  401 bits (1031), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 196/224 (87%), Positives = 208/224 (92%)

Query: 12  MSSLSLCGNFFERVKEFCNFAVSAVIGNIFSAIFTFFFALVGTLLGAMTGALIGQETESG 71
           MSSL   GNF ++VKE CNF VSA+IGNIFSAIFTFFFALVGTLLGAMTGALIGQETESG
Sbjct: 1   MSSLCSFGNFVDKVKEVCNFVVSAIIGNIFSAIFTFFFALVGTLLGAMTGALIGQETESG 60

Query: 72  FVRGAAVGAISGAVFSIEVFESSLVLWQSDESGIGCLLYLIDVIASLLSGRLVRERIGPA 131
           FVRGAAVGAISGAVFSIEVFESSLVLWQSDESGIGC+LYLIDVIASLLSGRLVRERIGPA
Sbjct: 61  FVRGAAVGAISGAVFSIEVFESSLVLWQSDESGIGCVLYLIDVIASLLSGRLVRERIGPA 120

Query: 132 MLSAVQSQMGAVEVSFDEAPNIFDTGLSKGLTGESVDKIPKITITDKNNIDASGERVSCS 191
           MLSAVQSQMGAVE +F+E PNIFDTG SKGL G+S++KIPKI IT  NN+D SGE+VSCS
Sbjct: 121 MLSAVQSQMGAVETNFEEIPNIFDTGGSKGLPGDSLEKIPKIRITSNNNVDESGEKVSCS 180

Query: 192 VCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235
           VCLQDFQLGET RSLPHCHHMFH+PCIDKWLL HASCPLCRRDL
Sbjct: 181 VCLQDFQLGETVRSLPHCHHMFHLPCIDKWLLRHASCPLCRRDL 224

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224117248|ref|XP_002331758.1| predicted protein [Populus trichocarpa] gi|222874455|gb|EEF11586.1| predicted protein [Populus trichocarpa]

 Score =  396 bits (1018), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 193/223 (86%), Positives = 206/223 (92%)

Query: 12  MSSLSLCGNFFERVKEFCNFAVSAVIGNIFSAIFTFFFALVGTLLGAMTGALIGQETESG 71
           MSSLS  GNF E+VKE CN AVSA+IGNIFSAIFTFFFALVG LLGAMTGALIGQETESG
Sbjct: 1   MSSLSSFGNFVEKVKELCNLAVSAIIGNIFSAIFTFFFALVGALLGAMTGALIGQETESG 60

Query: 72  FVRGAAVGAISGAVFSIEVFESSLVLWQSDESGIGCLLYLIDVIASLLSGRLVRERIGPA 131
           FVRGAAVGAISGAVFSIEVFESSLVLWQSDESGIGC+LYLIDVIASLLSGRLVRERIGPA
Sbjct: 61  FVRGAAVGAISGAVFSIEVFESSLVLWQSDESGIGCVLYLIDVIASLLSGRLVRERIGPA 120

Query: 132 MLSAVQSQMGAVEVSFDEAPNIFDTGLSKGLTGESVDKIPKITITDKNNIDASGERVSCS 191
           MLSAVQSQMGAVE +F+E  NIF+TG SKGL G+S++KIPKI IT  NN DA+GE+V+CS
Sbjct: 121 MLSAVQSQMGAVETNFEEITNIFNTGGSKGLPGDSLEKIPKIKITSNNNGDATGEKVACS 180

Query: 192 VCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD 234
           VCLQDFQLGET RSLPHCHHMFH+PCIDKWLL HASCPLCRRD
Sbjct: 181 VCLQDFQLGETVRSLPHCHHMFHLPCIDKWLLKHASCPLCRRD 223

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449456847|ref|XP_004146160.1| PREDICTED: NEP1-interacting protein 1-like [Cucumis sativus] gi|449533956|ref|XP_004173936.1| PREDICTED: NEP1-interacting protein 1-like [Cucumis sativus]

 Score =  385 bits (989), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 193/235 (82%), Positives = 209/235 (88%)

Query: 1   MEFYAYPSRFSMSSLSLCGNFFERVKEFCNFAVSAVIGNIFSAIFTFFFALVGTLLGAMT 60
           M+F A P RFS SS    GN FERV+E C +AVSA++GNI SAIFTFFFALVGTLLGAMT
Sbjct: 1   MDFIANPFRFSSSSSPSFGNLFERVREICCYAVSAILGNILSAIFTFFFALVGTLLGAMT 60

Query: 61  GALIGQETESGFVRGAAVGAISGAVFSIEVFESSLVLWQSDESGIGCLLYLIDVIASLLS 120
           GALIGQETESGFVRGAAVGAISGAVFSIEVFESSLVLWQSDESGIGCLLYLIDVIASLLS
Sbjct: 61  GALIGQETESGFVRGAAVGAISGAVFSIEVFESSLVLWQSDESGIGCLLYLIDVIASLLS 120

Query: 121 GRLVRERIGPAMLSAVQSQMGAVEVSFDEAPNIFDTGLSKGLTGESVDKIPKITITDKNN 180
           GRLVRERIGPA+LSAVQSQMGA E SFD+ PNIFDT  +KGL G+SV+KIPKI ++  N+
Sbjct: 121 GRLVRERIGPAILSAVQSQMGATETSFDDIPNIFDTSSAKGLPGDSVEKIPKIVVSKNNS 180

Query: 181 IDASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235
           +DA GERV CSVCLQDFQLGET RSLP+CHHMFH+PCIDKWLL H SCPLCRRDL
Sbjct: 181 VDAYGERVCCSVCLQDFQLGETVRSLPYCHHMFHLPCIDKWLLTHGSCPLCRRDL 235

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|301070456|gb|ADK55590.1| plastid NEP interaction protein [Nicotiana benthamiana]

 Score =  375 bits (964), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 185/241 (76%), Positives = 204/241 (84%), Gaps = 6/241 (2%)

Query: 1   MEFYAYPSR------FSMSSLSLCGNFFERVKEFCNFAVSAVIGNIFSAIFTFFFALVGT 54
           MEFYAYPSR          S    G+  +R K+    AVS ++GN+FSAIFTFFFALVGT
Sbjct: 1   MEFYAYPSRALPSSSSPSFSSFSIGDLVDRAKDCFCLAVSTIVGNVFSAIFTFFFALVGT 60

Query: 55  LLGAMTGALIGQETESGFVRGAAVGAISGAVFSIEVFESSLVLWQSDESGIGCLLYLIDV 114
           LLGAMTGALIGQETESGFVRGAAVGAISGAVFS+EVFESSL+LWQSDESGIGC+LYLIDV
Sbjct: 61  LLGAMTGALIGQETESGFVRGAAVGAISGAVFSLEVFESSLLLWQSDESGIGCVLYLIDV 120

Query: 115 IASLLSGRLVRERIGPAMLSAVQSQMGAVEVSFDEAPNIFDTGLSKGLTGESVDKIPKIT 174
           IASLLSGRLVRERIGPAMLSAVQSQMGAVE +++E PNIFDTG +KGL G+SV+KIPKI 
Sbjct: 121 IASLLSGRLVRERIGPAMLSAVQSQMGAVETAYEEIPNIFDTGGAKGLPGDSVEKIPKII 180

Query: 175 ITDKNNIDASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD 234
           I + N++D SGERVSCSVCLQD QLGET R LP CHHMFH+PCID WLL H SCPLCRRD
Sbjct: 181 IANDNDMDGSGERVSCSVCLQDLQLGETVRCLPQCHHMFHLPCIDTWLLRHGSCPLCRRD 240

Query: 235 L 235
           L
Sbjct: 241 L 241

Source: Nicotiana benthamiana

Species: Nicotiana benthamiana

Genus: Nicotiana

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388495990|gb|AFK36061.1| unknown [Lotus japonicus]

 Score =  375 bits (964), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 187/237 (78%), Positives = 199/237 (83%), Gaps = 2/237 (0%)

Query: 1   MEFYAYPSRFSMSSLSLCGNFFERVKEFCNFAVSAVIGNIFSAIFTFFFALVGTLLGAMT 60
           M+F   PS    S     GN  ++VK+ CN A+SA+IGNI SAI TF FALVGTLLG MT
Sbjct: 1   MDFLPNPSPSRPSLFGSFGNLVDKVKQICNLAISAIIGNILSAILTFCFALVGTLLGVMT 60

Query: 61  GALIGQETESGFVRGAAVGAISGAVFSIEVFESSLVLWQSDESGIGCLLYLIDVIASLLS 120
           GALIGQETESGF+RGAAVGAIS AVFSIEVFESSLVLW SDESGIGCLLYLIDVI SLLS
Sbjct: 61  GALIGQETESGFIRGAAVGAISRAVFSIEVFESSLVLWHSDESGIGCLLYLIDVIGSLLS 120

Query: 121 GRLVRERIGPAMLSAVQSQMGAVEVSFDEAPNIFDTGL--SKGLTGESVDKIPKITITDK 178
           GRLVRERIGPAMLSAVQSQMGAVE  FDE  NIFDTG   +KGL+G+SV+KIPKI IT  
Sbjct: 121 GRLVRERIGPAMLSAVQSQMGAVETGFDEVQNIFDTGCGGAKGLSGDSVEKIPKIKITTD 180

Query: 179 NNIDASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235
           NN DASGERVSCSVCLQDFQLGET RSLPHCHHMFH+PCIDKWL  H SCPLCRRDL
Sbjct: 181 NNADASGERVSCSVCLQDFQLGETVRSLPHCHHMFHLPCIDKWLFRHGSCPLCRRDL 237

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|157887047|emb|CAP03014.1| NEP1-interacting protein [Spinacia oleracea]

 Score =  375 bits (964), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 183/235 (77%), Positives = 207/235 (88%)

Query: 1   MEFYAYPSRFSMSSLSLCGNFFERVKEFCNFAVSAVIGNIFSAIFTFFFALVGTLLGAMT 60
           MEFY+YPS+   SS S+  +  E+++   +FAVS  +G++FSA FTF FALVGTLLGAMT
Sbjct: 1   MEFYSYPSQRIASSSSILCDLGEKIRGTLSFAVSVTLGSLFSAFFTFCFALVGTLLGAMT 60

Query: 61  GALIGQETESGFVRGAAVGAISGAVFSIEVFESSLVLWQSDESGIGCLLYLIDVIASLLS 120
           GALIGQETESGFVRGAA+GAISGAVFSIEVFESS+VLW+SDESGIGC+LYLIDVIASLLS
Sbjct: 61  GALIGQETESGFVRGAAIGAISGAVFSIEVFESSVVLWRSDESGIGCILYLIDVIASLLS 120

Query: 121 GRLVRERIGPAMLSAVQSQMGAVEVSFDEAPNIFDTGLSKGLTGESVDKIPKITITDKNN 180
           GRLVRERIGPAMLSAVQSQMGAVE +F++  NIFDTG  KGL+G+ V+KIPKI IT  NN
Sbjct: 121 GRLVRERIGPAMLSAVQSQMGAVETNFEDITNIFDTGSVKGLSGDLVEKIPKIKITKNNN 180

Query: 181 IDASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235
            DASGERVSCSVCLQDFQ+GET RSLP CHH+FH+PCIDKWLL HASCPLCRRDL
Sbjct: 181 NDASGERVSCSVCLQDFQIGETVRSLPDCHHLFHLPCIDKWLLKHASCPLCRRDL 235

Source: Spinacia oleracea

Species: Spinacia oleracea

Genus: Spinacia

Family: Amaranthaceae

Order: Caryophyllales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351727597|ref|NP_001237678.1| uncharacterized protein LOC100306109 [Glycine max] gi|255627575|gb|ACU14132.1| unknown [Glycine max]

 Score =  372 bits (954), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 186/233 (79%), Positives = 198/233 (84%), Gaps = 3/233 (1%)

Query: 1   MEFYAYPSRFSMSSLSLCGNFFERVKEFCNFAVSAVIGNIFSAIFTFFFALVGTLLGAMT 60
           M+F   P     S+     NF ERVK+    A SAVIGNIFSAI TF FALVGTLLGA+T
Sbjct: 1   MDFALNPCPLRSSTFV---NFVERVKQLGTLAFSAVIGNIFSAILTFCFALVGTLLGALT 57

Query: 61  GALIGQETESGFVRGAAVGAISGAVFSIEVFESSLVLWQSDESGIGCLLYLIDVIASLLS 120
           GALIGQETESGF+RGAAVGAISGAVFSIEVFESSLVLWQSDESGIGC+LYLIDVIASLLS
Sbjct: 58  GALIGQETESGFIRGAAVGAISGAVFSIEVFESSLVLWQSDESGIGCVLYLIDVIASLLS 117

Query: 121 GRLVRERIGPAMLSAVQSQMGAVEVSFDEAPNIFDTGLSKGLTGESVDKIPKITITDKNN 180
           GRLVRERIGPAMLSAVQSQMGAVE SFDE  NIFDTG SKGL+G+ V+KIPKI IT  NN
Sbjct: 118 GRLVRERIGPAMLSAVQSQMGAVEASFDEVQNIFDTGGSKGLSGDLVEKIPKIKITTDNN 177

Query: 181 IDASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRR 233
            DASG+RVSCSVCLQDF LGET RSLPHCHHMFH+PCIDKWL  H SCPLCR+
Sbjct: 178 FDASGDRVSCSVCLQDFMLGETVRSLPHCHHMFHLPCIDKWLFRHGSCPLCRK 230

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356496604|ref|XP_003517156.1| PREDICTED: LOW QUALITY PROTEIN: NEP1-interacting protein 1-like [Glycine max]

 Score =  370 bits (949), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 184/233 (78%), Positives = 196/233 (84%), Gaps = 3/233 (1%)

Query: 1   MEFYAYPSRFSMSSLSLCGNFFERVKEFCNFAVSAVIGNIFSAIFTFFFALVGTLLGAMT 60
           M+F   P     SS     N  ER+K+    AVSAVIGNIFSAI TF FALVGTLLGA+T
Sbjct: 1   MDFAPNPCPLRSSSFV---NLVERIKQLGTLAVSAVIGNIFSAILTFCFALVGTLLGALT 57

Query: 61  GALIGQETESGFVRGAAVGAISGAVFSIEVFESSLVLWQSDESGIGCLLYLIDVIASLLS 120
           GALIGQETESGF+RGAAVGAISGAVFSIEVFESSLVLWQSDESGIGC+LYLIDVI SLLS
Sbjct: 58  GALIGQETESGFIRGAAVGAISGAVFSIEVFESSLVLWQSDESGIGCVLYLIDVIVSLLS 117

Query: 121 GRLVRERIGPAMLSAVQSQMGAVEVSFDEAPNIFDTGLSKGLTGESVDKIPKITITDKNN 180
           GRLVRERIGPAM SAVQSQMGAVE SFDE  NIFDTG SKGL+G+ VDKIPKI IT  NN
Sbjct: 118 GRLVRERIGPAMFSAVQSQMGAVETSFDEVQNIFDTGGSKGLSGDLVDKIPKIKITTDNN 177

Query: 181 IDASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRR 233
           +DASG+RVSCSVCLQDF LGET RSLPHCHHMFH+PCIDKWL  H SCPLC +
Sbjct: 178 VDASGDRVSCSVCLQDFMLGETVRSLPHCHHMFHLPCIDKWLFRHGSCPLCXK 230

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	235
TAIR|locus:2125364	236	AT4G35840 [Arabidopsis thalian	0.953	0.949	0.781	3e-92
TAIR|locus:2156867	245	AT5G66070 [Arabidopsis thalian	0.574	0.551	0.776	3.6e-50
TAIR|locus:2019110	223	AT1G74410 [Arabidopsis thalian	0.885	0.932	0.364	1.5e-37
TAIR|locus:4010713762	223	AT3G20395 [Arabidopsis thalian	0.817	0.860	0.315	5.2e-26
TAIR|locus:2830088	220	AT3G18773 [Arabidopsis thalian	0.370	0.395	0.384	5.4e-15
TAIR|locus:2096444	356	AT3G03550 [Arabidopsis thalian	0.293	0.193	0.478	7.3e-15
TAIR|locus:2089398	304	ATL2 "TOXICOS EN LEVADURA 2" [	0.370	0.286	0.387	9.8e-15
TAIR|locus:2028411	226	AT1G49200 [Arabidopsis thalian	0.319	0.331	0.428	1.1e-14
TAIR|locus:2053863	185	RHA3A "RING-H2 finger A3A" [Ar	0.327	0.416	0.419	1.4e-14
TAIR|locus:2153554	176	DAF "DEFECTIVE IN ANTHER DEHIS	0.357	0.477	0.397	3e-14

TAIR|locus:2125364 AT4G35840 [Arabidopsis thaliana (taxid:3702)]

 Score = 919 (328.6 bits), Expect = 3.0e-92, P = 3.0e-92
 Identities = 175/224 (78%), Positives = 195/224 (87%)

Query:    12 MSSLSLCGNFFERVKEFCNFAVSAVIGNIFSAIFTFFFALVGTLLGAMTGALIGQETESG 71
             +SS     NF ER+K+ C F +SAV+G I SA+ TFFFALVGTLLGA+TGALIGQETESG
Sbjct:    13 ISSCPSLENFIERIKDACRFTLSAVLGTILSAVLTFFFALVGTLLGALTGALIGQETESG 72

Query:    72 FVRGAAVGAISGAVFSIEVFESSLVLWQSDESGIGCLLYLIDVIASLLSGRLVRERIGPA 131
             F+RGAAVGAISGAVFSIEVFESSLVLW+S+ES  GCLLYLIDVI SL+SGRLVRERIGPA
Sbjct:    73 FIRGAAVGAISGAVFSIEVFESSLVLWKSNESRFGCLLYLIDVIVSLISGRLVRERIGPA 132

Query:   132 MLSAVQSQMGAVEVSFDEAPNIFDTGLSKGLTGESVDKIPKITITDKNNIDASGERVSCS 191
             MLSAVQSQMGAV+ +F+E  +IFDTG SKGLTG+ VDKIPKI IT KNN+DASG + SCS
Sbjct:   133 MLSAVQSQMGAVDSTFEELSSIFDTGGSKGLTGDLVDKIPKIKITGKNNLDASGNKDSCS 192

Query:   192 VCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235
             VCLQDFQLGET RSLPHCHHMFH+PCID WL  H SCP+CRRDL
Sbjct:   193 VCLQDFQLGETVRSLPHCHHMFHLPCIDNWLFRHGSCPMCRRDL 236

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2156867 AT5G66070 [Arabidopsis thaliana (taxid:3702)]

 Score = 522 (188.8 bits), Expect = 3.6e-50, P = 3.6e-50
 Identities = 108/139 (77%), Positives = 124/139 (89%)

Query:    10 FSMSSLSLCGNFFERVKEFCNFAVSAVIGNIFSAIFTFFFALVGTLLGAMTGALIGQETE 69
             +S+S +S+      R+K+  +FAVSA++ N+FSA+FTFFFALVGTLLGA+TGALIGQETE
Sbjct:     5 YSLSPISV----LHRIKDSFHFAVSALLANLFSALFTFFFALVGTLLGALTGALIGQETE 60

Query:    70 SGFVRGAAVGAISGAVFSIEVFESSLVLWQSDESGIGCLLYLIDVIASLLSGRLVRERIG 129
             SGF+RGAAVGAISGAVFSIEVFESSL+LWQSDESGIGCLLYLIDVIASLLSGRLVRERIG
Sbjct:    61 SGFIRGAAVGAISGAVFSIEVFESSLLLWQSDESGIGCLLYLIDVIASLLSGRLVRERIG 120

Query:   130 PAMLSAVQSQMGAVEVSFD 148
             PAMLSAVQSQ+    + FD
Sbjct:   121 PAMLSAVQSQVQLPFLFFD 139

GO:0005739 "mitochondrion" evidence=ISM

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

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

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

GO:0035556 "intracellular signal transduction" evidence=RCA

TAIR|locus:2019110 AT1G74410 [Arabidopsis thaliana (taxid:3702)]

 Score = 403 (146.9 bits), Expect = 1.5e-37, P = 1.5e-37
 Identities = 77/211 (36%), Positives = 127/211 (60%)

Query:    23 ERVKEFCNFAVSAVIGNIFSAIFTFFFALVGTLLGAMTGALIGQETESGFVRGAAVGAIS 82
             E++ +     VS +I  +FS   T  FA+ G   GA+TGA+ G+  + G +RGAA+GA++
Sbjct:    12 EQIADSTIDTVSRLIAGVFSGALTGIFAMAGAFTGAVTGAVAGRAAQYGVLRGAALGAVA 71

Query:    83 GAVFSIEVFESSLVLWQSDESGIGCLLYLIDVIASLLSGRLVRERIGPAMLSAVQSQMGA 142
             GA+ S+EV E+S   W  + SG      + D +  L  GRLV E++   M+++   Q+  
Sbjct:    72 GAILSVEVLEASRAYWYLELSGSRGPSSMADFVEQLFRGRLVDEQLMSTMINSHHWQLRI 131

Query:   143 VEVSFDEAPNIFDTGLSKGLTGESVDKIPKITITDKNNIDASGERVSCSVCLQDFQLGET 202
              +VS++E  +++    ++GL+G+S+ K+P   ++ +       +   C++CLQD + GE 
Sbjct:   132 SDVSYEEREDVYGELEARGLSGDSLRKLPCYIMSSEM---VRRQVTHCTICLQDIKTGEI 188

Query:   203 ARSLPHCHHMFHIPCIDKWLLGHASCPLCRR 233
              RSLP C H FH+ C+DKWL+ H SCP+CR+
Sbjct:   189 TRSLPKCDHTFHLVCVDKWLIRHGSCPICRQ 219

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

GO:0010200 "response to chitin" evidence=IEP

TAIR|locus:4010713762 AT3G20395 [Arabidopsis thaliana (taxid:3702)]

 Score = 294 (108.6 bits), Expect = 5.2e-26, P = 5.2e-26
 Identities = 65/206 (31%), Positives = 110/206 (53%)

Query:    31 FAVSAVIGNIFSAIFTFFFALVGTLLGAMTGALIGQETESGFVRGAAVGAISGAVFSIEV 90
             F +S  I       F F  A    ++ A+ GA+ G  T+ GF++G+ +G ++G + ++++
Sbjct:    24 FKMSRTIKRALLGSFIFILASASVVVAAIVGAIEGHTTDIGFLQGSVLGVVAGVITAVQL 83

Query:    91 FESSLVLWQSDESGIGCLLYLIDVIASLLSGRLVRERIGPAMLSAVQSQMGAVEVSFDEA 150
             F   L    SD+      L  + ++  +++G+ +   + P +L A Q Q+ A++ S+ E+
Sbjct:    84 FGPVL---HSDQP-----LSKVALLRRVVNGKAIMGLVRPFVLKAYQWQIIALDTSYMES 135

Query:   151 PNIFDTGLSK-GLTGESVDKIPKITITDKNNIDASGERVSCSVCLQDFQLGETARSLPHC 209
              N++D    K GL+  S+  IP        N      + SCS+CLQD++ GE  R L  C
Sbjct:   136 SNLYDFNHEKKGLSKSSIQNIPMFY-----NRSEHQTKSSCSICLQDWEEGEVGRKLARC 190

Query:   210 HHMFHIPCIDKWLLGHASCPLCRRDL 235
              H FH+ CID+WLL   +CP+CR  L
Sbjct:   191 GHTFHMNCIDEWLLRQETCPICRDHL 216

GO:0008270 "zinc ion binding" evidence=IEA

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

 Score = 190 (71.9 bits), Expect = 5.4e-15, P = 5.4e-15
 Identities = 35/91 (38%), Positives = 52/91 (57%)

Query:   145 VSFDEAPNIFDTGLSKGLTGESVDKIPKITITDKNNIDASGERVSCSVCLQDFQLGETAR 204
             +S    P   D+ ++KG+  +++  +P +  + + N+   GE   C +CL DF  GE  R
Sbjct:    89 ISIPSTPR--DSSVNKGIKKKALKMLPVVNYSPEINLPGVGEE--CVICLSDFVAGEQLR 144

Query:   205 SLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235
              LP C+H FH+ CIDKWL  H +CP CR  L
Sbjct:   145 VLPKCNHGFHLRCIDKWLTQHMTCPKCRHCL 175

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

TAIR|locus:2096444 AT3G03550 [Arabidopsis thaliana (taxid:3702)]

 Score = 193 (73.0 bits), Expect = 7.3e-15, P = 7.3e-15
 Identities = 34/71 (47%), Positives = 45/71 (63%)

Query:   164 GESVDK--IPKITITDKNNIDASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKW 221
             G+ +D+  I  IT+     +D   E   CSVCL +FQ  E+ R LP C+H FH+PCID W
Sbjct:   131 GDGLDESLIKSITVYKYRKMDGFVESSDCSVCLSEFQENESLRLLPKCNHAFHVPCIDTW 190

Query:   222 LLGHASCPLCR 232
             L  H++CPLCR
Sbjct:   191 LKSHSNCPLCR 201

GO:0005634 "nucleus" evidence=ISM

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

GO:0080167 "response to karrikin" evidence=IEP

TAIR|locus:2089398 ATL2 "TOXICOS EN LEVADURA 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 189 (71.6 bits), Expect = 9.8e-15, P = 9.8e-15
 Identities = 36/93 (38%), Positives = 52/93 (55%)

Query:   142 AVEVSFDEAPNIFDTGL--SKGLTGESVDKIPKITITDKNNIDASGERVSCSVCLQDFQL 199
             A  V F   P+   T +  S+GL    +  +P  T +D+ + D     + C+VCL +F+ 
Sbjct:    73 ATMVFFTADPSTAATSVVASRGLDPNVIKSLPVFTFSDETHKDP----IECAVCLSEFEE 128

Query:   200 GETARSLPHCHHMFHIPCIDKWLLGHASCPLCR 232
              ET R LP+C H FH+ CID W   H++CPLCR
Sbjct:   129 SETGRVLPNCQHTFHVDCIDMWFHSHSTCPLCR 161

GO:0005634 "nucleus" evidence=ISM

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

GO:0006952 "defense response" evidence=IDA

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

GO:0000165 "MAPK cascade" evidence=RCA

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

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

GO:0009595 "detection of biotic stimulus" evidence=RCA

GO:0009611 "response to wounding" evidence=RCA

GO:0009612 "response to mechanical stimulus" evidence=RCA

GO:0009697 "salicylic acid biosynthetic process" evidence=RCA

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

GO:0009862 "systemic acquired resistance, salicylic acid mediated signaling pathway" evidence=RCA

GO:0009867 "jasmonic acid mediated signaling pathway" evidence=RCA

GO:0010310 "regulation of hydrogen peroxide metabolic process" evidence=RCA

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

GO:0031348 "negative regulation of defense response" evidence=RCA

GO:0035556 "intracellular signal transduction" evidence=RCA

GO:0042742 "defense response to bacterium" evidence=RCA

GO:0043900 "regulation of multi-organism process" evidence=RCA

GO:0050832 "defense response to fungus" evidence=RCA

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

 Score = 187 (70.9 bits), Expect = 1.1e-14, P = 1.1e-14
 Identities = 33/77 (42%), Positives = 46/77 (59%)

Query:   159 SKGLTGESVDKIPKITITDKNNIDASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCI 218
             +KG+  +++   P ++ + + N+   GE   C +CL DF  GE  R LP CHH FH+ CI
Sbjct:   107 NKGINKKALRMFPVVSYSPEMNLPGLGEE--CVICLSDFVSGEQIRMLPKCHHGFHVRCI 164

Query:   219 DKWLLGHASCPLCRRDL 235
             DKWL  H +CP CR  L
Sbjct:   165 DKWLQQHLTCPKCRHCL 181

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

TAIR|locus:2053863 RHA3A "RING-H2 finger A3A" [Arabidopsis thaliana (taxid:3702)]

 Score = 186 (70.5 bits), Expect = 1.4e-14, P = 1.4e-14
 Identities = 34/81 (41%), Positives = 48/81 (59%)

Query:   159 SKGLTGESVDKIPKITITDKNNIDAS----GERVSCSVCLQDFQLGETARSLPHCHHMFH 214
             +KGL  +++  +P+ T T   +   +    G+   C++CL DF  GE  R LP C H FH
Sbjct:    67 NKGLKKKALQSLPRSTFTAAESTSGAAAEEGDSTECAICLTDFADGEEIRVLPLCGHSFH 126

Query:   215 IPCIDKWLLGHASCPLCRRDL 235
             + CIDKWL+  +SCP CRR L
Sbjct:   127 VECIDKWLVSRSSCPSCRRIL 147

GO:0005634 "nucleus" evidence=ISM

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

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

 Score = 183 (69.5 bits), Expect = 3.0e-14, P = 3.0e-14
 Identities = 35/88 (39%), Positives = 50/88 (56%)

Query:   148 DEAPNIFDTGLSKGLTGESVDKIPKITITDKNNIDASGERVSCSVCLQDFQLGETARSLP 207
             +E P   +  ++KG+   ++  IP     D  + +   +   C +CL DF  GET R LP
Sbjct:    75 NEDPVDTNANVAKGIKKRALKVIP----VDSYSPELKMKATECLICLGDFVEGETVRVLP 130

Query:   208 HCHHMFHIPCIDKWLLGHASCPLCRRDL 235
              C+H FH+ CID WLL H+SCP CR+ L
Sbjct:   131 KCNHGFHVKCIDTWLLSHSSCPTCRQSL 158

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9FKX5	NIPL1_ARATH	No assigned EC number	0.7654	0.9234	0.9819	no	no
Q8GT75	NIP1_ARATH	No assigned EC number	0.8009	0.9191	0.9152	yes	no
Q8GT74	NIP2_ARATH	No assigned EC number	0.7926	0.9234	0.9004	no	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

Your Input: GSVIVG00013721001 SubName- Full=Chromosome undetermined scaffold_533, whole genome shotgun sequence; (235 aa) (Vitis vinifera)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	235
pfam13639	46	pfam13639, zf-RING_2, Ring finger domain	1e-15
cd00162	45	cd00162, RING, RING-finger (Really Interesting New	3e-12
COG5540	374	COG5540, COG5540, RING-finger-containing ubiquitin	8e-11
smart00184	40	smart00184, RING, Ring finger	8e-08
pfam13923	45	pfam13923, zf-C3HC4_2, Zinc finger, C3HC4 type (RI	5e-07
pfam12678	73	pfam12678, zf-rbx1, RING-H2 zinc finger	2e-06
PHA02929	238	PHA02929, PHA02929, N1R/p28-like protein; Provisio	3e-06
COG5194	88	COG5194, APC11, Component of SCF ubiquitin ligase	2e-05
pfam00097	40	pfam00097, zf-C3HC4, Zinc finger, C3HC4 type (RING	1e-04
pfam13436	116	pfam13436, Gly-zipper_OmpA, Glycine-zipper contain	2e-04
pfam13441	45	pfam13441, Gly-zipper_YMGG, YMGG-like Gly-zipper	2e-04
pfam12861	85	pfam12861, zf-Apc11, Anaphase-promoting complex su	4e-04
pfam13488	46	pfam13488, Gly-zipper_Omp, Glycine zipper	6e-04
COG5219	1525	COG5219, COG5219, Uncharacterized conserved protei	7e-04
COG5243	491	COG5243, HRD1, HRD ubiquitin ligase complex, ER me	0.003

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

 Score = 67.8 bits (166), Expect = 1e-15
 Identities = 22/46 (47%), Positives = 28/46 (60%), Gaps = 1/46 (2%)

Query: 189 SCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD 234
            C +CL +F+ GE    LP C H+FH  C+DKWL    +CPLCR  
Sbjct: 2   ECPICLDEFEPGEEVVVLP-CGHVFHKECLDKWLRSSNTCPLCRAP 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 = 59.0 bits (143), Expect = 3e-12
 Identities = 20/47 (42%), Positives = 26/47 (55%), Gaps = 4/47 (8%)

Query: 190 CSVCLQDFQLGETARSLPHCHHMFHIPCIDKWL-LGHASCPLCRRDL 235
           C +CL++F        L  C H+F   CIDKWL  G  +CPLCR  +
Sbjct: 2   CPICLEEF---REPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45

Length = 45

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

 Score = 60.8 bits (147), Expect = 8e-11
 Identities = 22/49 (44%), Positives = 33/49 (67%), Gaps = 2/49 (4%)

Query: 188 VSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHA-SCPLCRRDL 235
           V C++C+ +F   +  R LP C H FH+ C+DKWLLG++  CP+CR  +
Sbjct: 324 VECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAI 371

Length = 374

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

 Score = 47.1 bits (112), Expect = 8e-08
 Identities = 17/43 (39%), Positives = 25/43 (58%), Gaps = 4/43 (9%)

Query: 190 CSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLL-GHASCPLC 231
           C +CL+++   +    LP C H F   CI KWL  G+ +CP+C
Sbjct: 1   CPICLEEYL--KDPVILP-CGHTFCRSCIRKWLESGNNTCPIC 40

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

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

 Score = 44.8 bits (106), Expect = 5e-07
 Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 3/48 (6%)

Query: 186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRR 233
           E + C +CL   +  +     P C H+F   CI ++L   + CP+CR 
Sbjct: 1   EELECPICLDLLR--DPVVLTP-CGHVFCRECILRYLKKKSKCPICRT 45

Length = 45

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

 Score = 44.0 bits (104), Expect = 2e-06
 Identities = 17/52 (32%), Positives = 23/52 (44%), Gaps = 9/52 (17%)

Query: 190 CSVCLQDF--------QLGETAR-SLPHCHHMFHIPCIDKWLLGHASCPLCR 232
           C++C   F          G+        C H FH+ CI +WL    +CPLCR
Sbjct: 22  CAICRNHFDGTCPECKSPGDDCPVVWGECGHAFHLHCISRWLKTRNTCPLCR 73

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

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

 Score = 46.3 bits (110), Expect = 3e-06
 Identities = 16/47 (34%), Positives = 25/47 (53%), Gaps = 4/47 (8%)

Query: 190 CSVCLQDFQLGETARS----LPHCHHMFHIPCIDKWLLGHASCPLCR 232
           C++C++     E        L +C+H+F I CID W     +CP+CR
Sbjct: 177 CAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCR 223

Length = 238

>gnl|CDD|227521 COG5194, APC11, Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]

 Score = 41.4 bits (97), Expect = 2e-05
 Identities = 12/25 (48%), Positives = 15/25 (60%)

Query: 209 CHHMFHIPCIDKWLLGHASCPLCRR 233
           C+H FH  CI +WL     CPL R+
Sbjct: 54  CNHAFHDHCIYRWLDTKGVCPLDRQ 78

Length = 88

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

 Score = 38.6 bits (90), Expect = 1e-04
 Identities = 17/43 (39%), Positives = 25/43 (58%), Gaps = 4/43 (9%)

Query: 190 CSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLL-GHASCPLC 231
           C +CL++ +  +    LP C H+F   CI  WL  G+ +CPLC
Sbjct: 1   CPICLEEPK--DPVTILP-CGHLFCSKCILSWLESGNVTCPLC 40

The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid. Many proteins containing a RING finger play a key role in the ubiquitination pathway. Length = 40

>gnl|CDD|222127 pfam13436, Gly-zipper_OmpA, Glycine-zipper containing OmpA-like membrane domain

 Score = 39.6 bits (93), Expect = 2e-04
 Identities = 16/35 (45%), Positives = 18/35 (51%), Gaps = 1/35 (2%)

Query: 50 ALVGTLLGAMTGALIGQETESGFVRGAAVGAISGA 84
          A VG   GA  GA  G   + G   GAA GA+ GA
Sbjct: 54 AAVGAAAGAAAGAAAGGGGD-GAAIGAAAGALVGA 87

Length = 116

>gnl|CDD|222132 pfam13441, Gly-zipper_YMGG, YMGG-like Gly-zipper

 Score = 37.5 bits (88), Expect = 2e-04
 Identities = 16/36 (44%), Positives = 20/36 (55%), Gaps = 5/36 (13%)

Query: 50 ALVGTLLGAMTGALIGQETESGFVRGAAVGAISGAV 85
          A +G   GA  GA  G     G  RGAA+GA +GA+
Sbjct: 7  AAIGAAAGAAVGAATG-----GGGRGAAIGAAAGAL 37

Length = 45

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

 Score = 37.8 bits (88), Expect = 4e-04
 Identities = 14/28 (50%), Positives = 17/28 (60%), Gaps = 3/28 (10%)

Query: 209 CHHMFHIPCIDKWLLGHAS---CPLCRR 233
           C H FH+ CI KWL    S   CP+CR+
Sbjct: 52  CKHNFHMHCILKWLATETSKGLCPMCRQ 79

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

>gnl|CDD|205666 pfam13488, Gly-zipper_Omp, Glycine zipper

 Score = 36.3 bits (85), Expect = 6e-04
 Identities = 14/34 (41%), Positives = 19/34 (55%), Gaps = 1/34 (2%)

Query: 52 VGTLLGAMTGALIGQETESGFVRGAAVGAISGAV 85
          +G  +GA  GA IG     G  +GA +GA  GA+
Sbjct: 1  IGAAIGAAAGAAIGAAA-GGAGKGALIGAAVGAL 33

Length = 46

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

 Score = 40.0 bits (93), Expect = 7e-04
 Identities = 24/64 (37%), Positives = 30/64 (46%), Gaps = 12/64 (18%)

Query: 178  KNNIDA--SGERVSCSVCLQDFQLGETARSLPH-----CHHMFHIPCIDKWLL--GHASC 228
            K NID   SG    C++C     L    RSLP      C + FH  C+ KW      ++C
Sbjct: 1459 KKNIDEKFSGHE-ECAICY--SVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNC 1515

Query: 229  PLCR 232
            PLCR
Sbjct: 1516 PLCR 1519

Length = 1525

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

 Score = 38.0 bits (88), Expect = 0.003
 Identities = 18/63 (28%), Positives = 31/63 (49%), Gaps = 12/63 (19%)

Query: 183 ASGERVSCSVCLQDF----------QLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCR 232
            + +R  C++C+ +            L  T + LP C H+ H+ C+  WL    +CP+CR
Sbjct: 284 TNSDRT-CTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICR 341

Query: 233 RDL 235
           R +
Sbjct: 342 RPV 344

Length = 491

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	235
KOG4628	348	consensus Predicted E3 ubiquitin ligase [Posttrans	99.7
PF13639	44	zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C	99.64
PHA02929	238	N1R/p28-like protein; Provisional	99.47
PF12678	73	zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766	99.41
COG5540	374	RING-finger-containing ubiquitin ligase [Posttrans	99.35
COG5243	491	HRD1 HRD ubiquitin ligase complex, ER membrane com	99.34
PF12861	85	zf-Apc11: Anaphase-promoting complex subunit 11 RI	99.19
PF13920	50	zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger);	99.19
cd00162	45	RING RING-finger (Really Interesting New Gene) dom	99.17
PLN03208	193	E3 ubiquitin-protein ligase RMA2; Provisional	99.15
PF13923	39	zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger);	99.09
KOG0317	293	consensus Predicted E3 ubiquitin ligase, integral	99.07
PHA02926	242	zinc finger-like protein; Provisional	99.05
KOG0320	187	consensus Predicted E3 ubiquitin ligase [Posttrans	98.98
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	98.98
PF14634	44	zf-RING_5: zinc-RING finger domain	98.94
PF15227	42	zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB:	98.9
KOG0823	230	consensus Predicted E3 ubiquitin ligase [Posttrans	98.89
smart00504	63	Ubox Modified RING finger domain. Modified RING fi	98.89
smart00184	39	RING Ring finger. E3 ubiquitin-protein ligase acti	98.89
PF00097	41	zf-C3HC4: Zinc finger, C3HC4 type (RING finger); I	98.85
COG5194	88	APC11 Component of SCF ubiquitin ligase and anapha	98.81
KOG1493	84	consensus Anaphase-promoting complex (APC), subuni	98.79
TIGR00599	397	rad18 DNA repair protein rad18. This family is bas	98.73
smart00744	49	RINGv The RING-variant domain is a C4HC3 zinc-fing	98.62
KOG0828	636	consensus Predicted E3 ubiquitin ligase [Posttrans	98.59
KOG1734	328	consensus Predicted RING-containing E3 ubiquitin l	98.52
PF11793	70	FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.	98.45
KOG2930	114	consensus SCF ubiquitin ligase, Rbx1 component [Po	98.44
PF13445	43	zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.	98.43
COG5574	271	PEX10 RING-finger-containing E3 ubiquitin ligase [	98.42
KOG2164	513	consensus Predicted E3 ubiquitin ligase [Posttrans	98.4
PF04564	73	U-box: U-box domain; InterPro: IPR003613 Quality c	98.35
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	98.34
KOG0287	442	consensus Postreplication repair protein RAD18 [Re	98.26
COG5219	1525	Uncharacterized conserved protein, contains RING Z	98.22
COG5432	391	RAD18 RING-finger-containing E3 ubiquitin ligase [	98.21
KOG1039	344	consensus Predicted E3 ubiquitin ligase [Posttrans	98.0
KOG4265	349	consensus Predicted E3 ubiquitin ligase [Posttrans	97.97
PF14835	65	zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM	97.89
KOG0311	381	consensus Predicted E3 ubiquitin ligase [Posttrans	97.82
KOG0825	1134	consensus PHD Zn-finger protein [General function	97.81
KOG4172	62	consensus Predicted E3 ubiquitin ligase [Posttrans	97.79
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	97.62
KOG4445	368	consensus Uncharacterized conserved protein, conta	97.6
PF11789	57	zf-Nse: Zinc-finger of the MIZ type in Nse subunit	97.45
PF12906	47	RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.	97.37
KOG0297	391	consensus TNF receptor-associated factor [Signal t	97.31
KOG4159	398	consensus Predicted E3 ubiquitin ligase [Posttrans	97.25
KOG1785	563	consensus Tyrosine kinase negative regulator CBL [	97.23
KOG1941	518	consensus Acetylcholine receptor-associated protei	97.23
KOG1428	3738	consensus Inhibitor of type V adenylyl cyclases/Ne	97.06
PHA02825	162	LAP/PHD finger-like protein; Provisional	96.98
KOG2879	298	consensus Predicted E3 ubiquitin ligase [Posttrans	96.9
KOG3970	299	consensus Predicted E3 ubiquitin ligase [Posttrans	96.89
PHA03096	284	p28-like protein; Provisional	96.83
PF13436	118	Gly-zipper_OmpA: Glycine-zipper containing OmpA-li	96.8
PF05883	134	Baculo_RING: Baculovirus U-box/Ring-like domain; I	96.76
KOG0801	205	consensus Predicted E3 ubiquitin ligase [Posttrans	96.75
PF14570	48	zf-RING_4: RING/Ubox like zinc-binding domain; PDB	96.71
KOG2660	331	consensus Locus-specific chromosome binding protei	96.63
KOG1952	950	consensus Transcription factor NF-X1, contains NFX	96.61
PF10367	109	Vps39_2: Vacuolar sorting protein 39 domain 2; Int	96.56
PF13441	45	Gly-zipper_YMGG: YMGG-like Gly-zipper	96.41
KOG0826	357	consensus Predicted E3 ubiquitin ligase involved i	96.33
PF13488	46	Gly-zipper_Omp: Glycine zipper	96.32
KOG1814	445	consensus Predicted E3 ubiquitin ligase [Posttrans	96.31
COG5152	259	Uncharacterized conserved protein, contains RING a	96.23
KOG1002	791	consensus Nucleotide excision repair protein RAD16	96.21
KOG3039	303	consensus Uncharacterized conserved protein [Funct	96.12
KOG1571	355	consensus Predicted E3 ubiquitin ligase [Posttrans	96.12
KOG4692	489	consensus Predicted E3 ubiquitin ligase [Posttrans	96.03
PF05433	42	Rick_17kDa_Anti: Glycine zipper 2TM domain; InterP	95.88
PF13436	118	Gly-zipper_OmpA: Glycine-zipper containing OmpA-li	95.82
PF13441	45	Gly-zipper_YMGG: YMGG-like Gly-zipper	95.77
KOG0827	465	consensus Predicted E3 ubiquitin ligase [Posttrans	95.74
KOG1813	313	consensus Predicted E3 ubiquitin ligase [Posttrans	95.71
KOG3268	234	consensus Predicted E3 ubiquitin ligase [Posttrans	95.64
PF13488	46	Gly-zipper_Omp: Glycine zipper	95.56
COG5222	427	Uncharacterized conserved protein, contains RING Z	95.27
PRK10510	219	putative outer membrane lipoprotein; Provisional	95.14
PF08746	43	zf-RING-like: RING-like domain; InterPro: IPR01485	95.1
COG5236	493	Uncharacterized conserved protein, contains RING Z	95.05
COG5183	1175	SSM4 Protein involved in mRNA turnover and stabili	94.82
KOG1609	323	consensus Protein involved in mRNA turnover and st	94.61
PF14447	55	Prok-RING_4: Prokaryotic RING finger family 4	94.57
KOG1940	276	consensus Zn-finger protein [General function pred	94.53
PF14446	54	Prok-RING_1: Prokaryotic RING finger family 1	94.5
PF04641	260	Rtf2: Rtf2 RING-finger	94.16
PF10272	358	Tmpp129: Putative transmembrane protein precursor;	93.92
KOG3053	293	consensus Uncharacterized conserved protein [Funct	93.27
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	93.17
KOG4275	350	consensus Predicted E3 ubiquitin ligase [Posttrans	92.87
PRK10510	219	putative outer membrane lipoprotein; Provisional	92.86
PRK11280	170	hypothetical protein; Provisional	92.78
KOG1001	674	consensus Helicase-like transcription factor HLTF/	92.54
COG5175	480	MOT2 Transcriptional repressor [Transcription]	92.45
KOG2034	911	consensus Vacuolar sorting protein PEP3/VPS18 [Int	92.41
PRK10540	72	lipoprotein; Provisional	92.03
TIGR03789	239	pdsO proteobacterial sortase system OmpA family pr	91.91
KOG3002	299	consensus Zn finger protein [General function pred	91.8
PF03854	50	zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc	90.91
PF06897	102	DUF1269: Protein of unknown function (DUF1269); In	90.86
PF06897	102	DUF1269: Protein of unknown function (DUF1269); In	90.35
KOG0825	1134	consensus PHD Zn-finger protein [General function	90.24
PLN02720	140	complex II	90.13
KOG2932	389	consensus E3 ubiquitin ligase involved in ubiquiti	89.99
KOG0298	1394	consensus DEAD box-containing helicase-like transc	89.77
KOG3005	276	consensus GIY-YIG type nuclease [General function	88.85
smart00132	39	LIM Zinc-binding domain present in Lin-11, Isl-1,	88.71
PF05433	42	Rick_17kDa_Anti: Glycine zipper 2TM domain; InterP	88.16
KOG2817	394	consensus Predicted E3 ubiquitin ligase [Posttrans	88.13
KOG1812	384	consensus Predicted E3 ubiquitin ligase [Posttrans	87.65
KOG0802	543	consensus E3 ubiquitin ligase [Posttranslational m	86.82
PF02891	50	zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR0041	86.69
KOG3899	381	consensus Uncharacterized conserved protein [Funct	86.58
COG4803	170	Predicted membrane protein [Function unknown]	85.59
KOG1829	580	consensus Uncharacterized conserved protein, conta	85.16
PF10571	26	UPF0547: Uncharacterised protein family UPF0547; I	84.99
KOG0309	1081	consensus Conserved WD40 repeat-containing protein	84.82
PF05818	215	TraT: Enterobacterial TraT complement resistance p	84.8
PF13901	202	DUF4206: Domain of unknown function (DUF4206)	84.7
PF05290	140	Baculo_IE-1: Baculovirus immediate-early protein (	84.52
KOG4362	684	consensus Transcriptional regulator BRCA1 [Replica	83.48
PF07975	51	C1_4: TFIIH C1-like domain; InterPro: IPR004595 Al	83.44
PF13719	37	zinc_ribbon_5: zinc-ribbon domain	82.34
COG4803	170	Predicted membrane protein [Function unknown]	81.9
PRK11677	134	hypothetical protein; Provisional	81.3

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

Probab=99.70  E-value=5.6e-18  Score=154.13  Aligned_cols=73  Identities=40%  Similarity=0.939  Sum_probs=63.4

Q ss_pred             CCCCCHHHHhcCCceeeccCCCcCCCCCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCC-CCCccCCC
Q 026690          159 SKGLTGESVDKIPKITITDKNNIDASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHAS-CPLCRRDL  235 (235)
Q Consensus       159 ~~gls~~~i~~lp~~~~~~~~~~~~~~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~s-CPlCR~~v  235 (235)
                      .+.+.++.++++|..+++...+.+..   ..|+||+|+|++||++|.|| |+|.||..||++||.++.+ ||+||+++
T Consensus       204 ~~r~~k~~l~~~p~~~f~~~~~~~~~---~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di  277 (348)
T KOG4628|consen  204 RNRLIKRLLKKLPVRTFTKGDDEDAT---DTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDI  277 (348)
T ss_pred             hhhhHHHHHhhCCcEEeccccccCCC---ceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcC
Confidence            55788999999999999876443222   58999999999999999999 9999999999999998865 99999864

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

Probab=99.64  E-value=6.8e-17  Score=105.64  Aligned_cols=43  Identities=49%  Similarity=1.247  Sum_probs=40.8

Q ss_pred             cCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCcc
Q 026690          189 SCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCR  232 (235)
Q Consensus       189 ~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR  232 (235)
                      +|+||+++|..++.+..++ |+|+||.+||.+|++++++||+||
T Consensus         2 ~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~~~~~~~~CP~CR   44 (44)
T PF13639_consen    2 ECPICLEEFEDGEKVVKLP-CGHVFHRSCIKEWLKRNNSCPVCR   44 (44)
T ss_dssp             CETTTTCBHHTTSCEEEET-TSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred             CCcCCChhhcCCCeEEEcc-CCCeeCHHHHHHHHHhCCcCCccC
Confidence            6999999999999999999 999999999999999999999998

...

>PHA02929 N1R/p28-like protein; Provisional

Probab=99.47  E-value=3.8e-14  Score=123.82  Aligned_cols=77  Identities=23%  Similarity=0.543  Sum_probs=58.4

Q ss_pred             CCCCCCHHHHhcCCceeeccCCCcCCCCCCccCccccccccCCCc----eeecCCCCCcccHhhHHHHHhcCCCCCCccC
Q 026690          158 LSKGLTGESVDKIPKITITDKNNIDASGERVSCSVCLQDFQLGET----ARSLPHCHHMFHIPCIDKWLLGHASCPLCRR  233 (235)
Q Consensus       158 ~~~gls~~~i~~lp~~~~~~~~~~~~~~e~~~C~ICle~f~~ge~----v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~  233 (235)
                      ..++.+++.++.+|..........+ ..++.+|+||++.+...+.    +..++.|+|.||.+||.+|++++.+||+||.
T Consensus       146 ~k~~~~~~~i~~lp~vl~~~e~~~~-~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~  224 (238)
T PHA02929        146 KKGKNYKKFLKTIPSVLSEYEKLYN-RSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRT  224 (238)
T ss_pred             HhcchhHHHHHhcchhhhhhhhhhc-CCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCC
Confidence            3566788899999988654332222 2345799999999876441    3456669999999999999999999999998


Q ss_pred             CC
Q 026690          234 DL  235 (235)
Q Consensus       234 ~v  235 (235)
                      ++
T Consensus       225 ~~  226 (238)
T PHA02929        225 PF  226 (238)
T ss_pred             Ee
Confidence            64

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

Probab=99.41  E-value=1.8e-13  Score=99.13  Aligned_cols=45  Identities=36%  Similarity=0.902  Sum_probs=35.3

Q ss_pred             CccCccccccccCC----------CceeecCCCCCcccHhhHHHHHhcCCCCCCcc
Q 026690          187 RVSCSVCLQDFQLG----------ETARSLPHCHHMFHIPCIDKWLLGHASCPLCR  232 (235)
Q Consensus       187 ~~~C~ICle~f~~g----------e~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR  232 (235)
                      +..|+||++++...          -.+...+ |+|.||..||.+||+.+.+||+||
T Consensus        19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR   73 (73)
T PF12678_consen   19 DDNCAICREPLEDPCPECQAPQDECPIVWGP-CGHIFHFHCISQWLKQNNTCPLCR   73 (73)
T ss_dssp             CSBETTTTSBTTSTTCCHHHCTTTS-EEEET-TSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred             CCcccccChhhhChhhhhcCCccccceEecc-cCCCEEHHHHHHHHhcCCcCCCCC
Confidence            34699999999422          2334445 999999999999999999999998

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....

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

Probab=99.35  E-value=3.9e-13  Score=119.49  Aligned_cols=49  Identities=43%  Similarity=1.132  Sum_probs=45.4

Q ss_pred             CCccCccccccccCCCceeecCCCCCcccHhhHHHHHh-cCCCCCCccCCC
Q 026690          186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLL-GHASCPLCRRDL  235 (235)
Q Consensus       186 e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~-~~~sCPlCR~~v  235 (235)
                      ...+|+||+++|..+++++.+| |+|.||..|+++|+. -++.||+||.++
T Consensus       322 ~GveCaICms~fiK~d~~~vlP-C~H~FH~~Cv~kW~~~y~~~CPvCrt~i  371 (374)
T COG5540         322 KGVECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAI  371 (374)
T ss_pred             CCceEEEEhhhhcccceEEEec-cCceechhHHHHHHhhhcccCCccCCCC
Confidence            3478999999999999999999 999999999999999 678999999875

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

Probab=99.34  E-value=4e-13  Score=122.22  Aligned_cols=51  Identities=33%  Similarity=1.051  Sum_probs=44.0

Q ss_pred             CCCCccCcccccc-ccCC---------CceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          184 SGERVSCSVCLQD-FQLG---------ETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       184 ~~e~~~C~ICle~-f~~g---------e~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      ..+|..|.||+++ |..+         .++++|| |||+||.+|++.|++++.+||+||.++
T Consensus       284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPICr~p~  344 (491)
T COG5243         284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRPV  344 (491)
T ss_pred             cCCCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcccCcc
Confidence            3456799999999 5554         2468899 999999999999999999999999984

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

Probab=99.19  E-value=1.3e-11  Score=91.40  Aligned_cols=49  Identities=35%  Similarity=0.859  Sum_probs=38.6

Q ss_pred             CCccCccccccccC--------CC-ceeecCCCCCcccHhhHHHHHhc---CCCCCCccCC
Q 026690          186 ERVSCSVCLQDFQL--------GE-TARSLPHCHHMFHIPCIDKWLLG---HASCPLCRRD  234 (235)
Q Consensus       186 e~~~C~ICle~f~~--------ge-~v~~Lp~C~H~FH~~CI~~WL~~---~~sCPlCR~~  234 (235)
                      +++.|.||+..|+.        |+ -......|+|.||..||.+||..   ++.||+||++
T Consensus        20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~   80 (85)
T PF12861_consen   20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQP   80 (85)
T ss_pred             CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCe
Confidence            35789999999982        22 23345579999999999999985   5689999986

>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=99.19  E-value=1.4e-11  Score=82.54  Aligned_cols=45  Identities=29%  Similarity=0.825  Sum_probs=39.2

Q ss_pred             CccCccccccccCCCceeecCCCCCc-ccHhhHHHHHhcCCCCCCccCCC
Q 026690          187 RVSCSVCLQDFQLGETARSLPHCHHM-FHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       187 ~~~C~ICle~f~~ge~v~~Lp~C~H~-FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      +..|.||++....   +..+| |+|. |+..|+.+|++++..||+||++|
T Consensus         2 ~~~C~iC~~~~~~---~~~~p-CgH~~~C~~C~~~~~~~~~~CP~Cr~~i   47 (50)
T PF13920_consen    2 DEECPICFENPRD---VVLLP-CGHLCFCEECAERLLKRKKKCPICRQPI   47 (50)
T ss_dssp             HSB-TTTSSSBSS---EEEET-TCEEEEEHHHHHHHHHTTSBBTTTTBB-
T ss_pred             cCCCccCCccCCc---eEEeC-CCChHHHHHHhHHhcccCCCCCcCChhh
Confidence            4689999998764   78888 9999 99999999999999999999875

...

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

Probab=99.17  E-value=2.6e-11  Score=77.43  Aligned_cols=44  Identities=48%  Similarity=1.204  Sum_probs=36.9

Q ss_pred             cCccccccccCCCceeecCCCCCcccHhhHHHHHhc-CCCCCCccCCC
Q 026690          189 SCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG-HASCPLCRRDL  235 (235)
Q Consensus       189 ~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~-~~sCPlCR~~v  235 (235)
                      +|+||++.+.  +.+...+ |+|.||..|+++|+++ +..||+||.++
T Consensus         1 ~C~iC~~~~~--~~~~~~~-C~H~~c~~C~~~~~~~~~~~Cp~C~~~~   45 (45)
T cd00162           1 ECPICLEEFR--EPVVLLP-CGHVFCRSCIDKWLKSGKNTCPLCRTPI   45 (45)
T ss_pred             CCCcCchhhh--CceEecC-CCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence            5999999982  3455555 9999999999999997 77899999875

>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional

Probab=99.15  E-value=3.6e-11  Score=101.69  Aligned_cols=48  Identities=35%  Similarity=0.944  Sum_probs=38.9

Q ss_pred             CCCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhc----------------CCCCCCccCCC
Q 026690          184 SGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG----------------HASCPLCRRDL  235 (235)
Q Consensus       184 ~~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~----------------~~sCPlCR~~v  235 (235)
                      ..++.+|+||++.+++   ...++ |+|.||..||.+|+..                +.+||+||.++
T Consensus        15 ~~~~~~CpICld~~~d---PVvT~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~I   78 (193)
T PLN03208         15 SGGDFDCNICLDQVRD---PVVTL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDV   78 (193)
T ss_pred             CCCccCCccCCCcCCC---cEEcC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcC
Confidence            3456799999999864   55567 9999999999999852                35799999875

>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=99.09  E-value=6.4e-11  Score=75.37  Aligned_cols=39  Identities=36%  Similarity=0.978  Sum_probs=32.8

Q ss_pred             CccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCc
Q 026690          190 CSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLC  231 (235)
Q Consensus       190 C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlC  231 (235)
                      |+||++.+..  .+..++ |||.||.+||.+|++++.+||+|
T Consensus         1 C~iC~~~~~~--~~~~~~-CGH~fC~~C~~~~~~~~~~CP~C   39 (39)
T PF13923_consen    1 CPICLDELRD--PVVVTP-CGHSFCKECIEKYLEKNPKCPVC   39 (39)
T ss_dssp             ETTTTSB-SS--EEEECT-TSEEEEHHHHHHHHHCTSB-TTT
T ss_pred             CCCCCCcccC--cCEECC-CCCchhHHHHHHHHHCcCCCcCC
Confidence            8999999886  335666 99999999999999999999998

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

Probab=99.07  E-value=7.3e-11  Score=104.51  Aligned_cols=46  Identities=37%  Similarity=0.906  Sum_probs=41.0

Q ss_pred             CCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       186 e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      .+..|.+||+....   ...+| |||+||..||..|...+..||+||.+.
T Consensus       238 a~~kC~LCLe~~~~---pSaTp-CGHiFCWsCI~~w~~ek~eCPlCR~~~  283 (293)
T KOG0317|consen  238 ATRKCSLCLENRSN---PSATP-CGHIFCWSCILEWCSEKAECPLCREKF  283 (293)
T ss_pred             CCCceEEEecCCCC---CCcCc-CcchHHHHHHHHHHccccCCCcccccC
Confidence            34789999998765   77889 999999999999999999999999863

>PHA02926 zinc finger-like protein; Provisional

Probab=99.05  E-value=1.1e-10  Score=100.32  Aligned_cols=50  Identities=28%  Similarity=0.744  Sum_probs=39.3

Q ss_pred             CCCccCccccccccCC-----CceeecCCCCCcccHhhHHHHHhcC------CCCCCccCC
Q 026690          185 GERVSCSVCLQDFQLG-----ETARSLPHCHHMFHIPCIDKWLLGH------ASCPLCRRD  234 (235)
Q Consensus       185 ~e~~~C~ICle~f~~g-----e~v~~Lp~C~H~FH~~CI~~WL~~~------~sCPlCR~~  234 (235)
                      .++.+|+||+|..-+.     .....|+.|+|.||..||.+|.+.+      .+||+||..
T Consensus       168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~  228 (242)
T PHA02926        168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTR  228 (242)
T ss_pred             cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcce
Confidence            3457999999986432     2356788899999999999999753      459999975

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

Probab=98.98  E-value=3.6e-10  Score=93.90  Aligned_cols=50  Identities=26%  Similarity=0.650  Sum_probs=40.9

Q ss_pred             CCCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          184 SGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       184 ~~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      ......|||||+.+.+...  .-.+|||+||..||+.-++....||+||..|
T Consensus       128 ~~~~~~CPiCl~~~sek~~--vsTkCGHvFC~~Cik~alk~~~~CP~C~kkI  177 (187)
T KOG0320|consen  128 KEGTYKCPICLDSVSEKVP--VSTKCGHVFCSQCIKDALKNTNKCPTCRKKI  177 (187)
T ss_pred             cccccCCCceecchhhccc--cccccchhHHHHHHHHHHHhCCCCCCccccc
Confidence            3345789999999986433  3346999999999999999999999999643

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

Probab=98.98  E-value=1.4e-10  Score=112.48  Aligned_cols=48  Identities=33%  Similarity=0.969  Sum_probs=43.7

Q ss_pred             CCccCccccccccCCCc--eeecCCCCCcccHhhHHHHHhcCCCCCCccCC
Q 026690          186 ERVSCSVCLQDFQLGET--ARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD  234 (235)
Q Consensus       186 e~~~C~ICle~f~~ge~--v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~  234 (235)
                      .+..|+||+|++..++.  +.++| |+|+||..|+.+|++++++||+||..
T Consensus       290 ~~~~C~IC~e~l~~~~~~~~~rL~-C~Hifh~~CL~~W~er~qtCP~CR~~  339 (543)
T KOG0802|consen  290 SDELCIICLEELHSGHNITPKRLP-CGHIFHDSCLRSWFERQQTCPTCRTV  339 (543)
T ss_pred             cCCeeeeechhhccccccccceee-cccchHHHHHHHHHHHhCcCCcchhh
Confidence            46789999999998765  78899 99999999999999999999999973

>PF14634 zf-RING_5: zinc-RING finger domain

Probab=98.94  E-value=7.2e-10  Score=72.38  Aligned_cols=44  Identities=27%  Similarity=0.806  Sum_probs=38.6

Q ss_pred             cCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccC
Q 026690          189 SCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRR  233 (235)
Q Consensus       189 ~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~  233 (235)
                      +|+||+++|...+..+.++ |+|+|+..|+.++......||+||+
T Consensus         1 ~C~~C~~~~~~~~~~~l~~-CgH~~C~~C~~~~~~~~~~CP~C~k   44 (44)
T PF14634_consen    1 HCNICFEKYSEERRPRLTS-CGHIFCEKCLKKLKGKSVKCPICRK   44 (44)
T ss_pred             CCcCcCccccCCCCeEEcc-cCCHHHHHHHHhhcCCCCCCcCCCC
Confidence            5999999996666777777 9999999999999867789999985

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

Probab=98.90  E-value=1e-09  Score=71.22  Aligned_cols=38  Identities=39%  Similarity=0.915  Sum_probs=30.1

Q ss_pred             CccccccccCCCceeecCCCCCcccHhhHHHHHhcC----CCCCCc
Q 026690          190 CSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGH----ASCPLC  231 (235)
Q Consensus       190 C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~----~sCPlC  231 (235)
                      |+||++.|++   +..++ |||.|+..||.+|++++    ..||.|
T Consensus         1 CpiC~~~~~~---Pv~l~-CGH~FC~~Cl~~~~~~~~~~~~~CP~C   42 (42)
T PF15227_consen    1 CPICLDLFKD---PVSLP-CGHSFCRSCLERLWKEPSGSGFSCPEC   42 (42)
T ss_dssp             ETTTTSB-SS---EEE-S-SSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred             CCccchhhCC---ccccC-CcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence            8999999997   88898 99999999999999854    369998

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

Probab=98.89  E-value=1.1e-09  Score=94.58  Aligned_cols=48  Identities=29%  Similarity=0.819  Sum_probs=38.1

Q ss_pred             CCCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhc---CCCCCCccCCC
Q 026690          184 SGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG---HASCPLCRRDL  235 (235)
Q Consensus       184 ~~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~---~~sCPlCR~~v  235 (235)
                      .....+|.|||+.-++   ..+.. |||.||..||-+||..   +..||+||..|
T Consensus        44 ~~~~FdCNICLd~akd---PVvTl-CGHLFCWpClyqWl~~~~~~~~cPVCK~~V   94 (230)
T KOG0823|consen   44 DGGFFDCNICLDLAKD---PVVTL-CGHLFCWPCLYQWLQTRPNSKECPVCKAEV   94 (230)
T ss_pred             CCCceeeeeeccccCC---CEEee-cccceehHHHHHHHhhcCCCeeCCcccccc
Confidence            3456799999998653   44445 9999999999999984   44699999764

>smart00504 Ubox Modified RING finger domain

Probab=98.89  E-value=1.8e-09  Score=74.95  Aligned_cols=44  Identities=27%  Similarity=0.569  Sum_probs=39.0

Q ss_pred             ccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          188 VSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       188 ~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      ..|+||++.++.   ...+| |||+|++.||.+|++++.+||+|+.++
T Consensus         2 ~~Cpi~~~~~~~---Pv~~~-~G~v~~~~~i~~~~~~~~~cP~~~~~~   45 (63)
T smart00504        2 FLCPISLEVMKD---PVILP-SGQTYERRAIEKWLLSHGTDPVTGQPL   45 (63)
T ss_pred             cCCcCCCCcCCC---CEECC-CCCEEeHHHHHHHHHHCCCCCCCcCCC
Confidence            479999999886   56677 999999999999999999999999764

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

>smart00184 RING Ring finger

Probab=98.89  E-value=1.5e-09  Score=66.81  Aligned_cols=38  Identities=45%  Similarity=1.253  Sum_probs=33.1

Q ss_pred             CccccccccCCCceeecCCCCCcccHhhHHHHHh-cCCCCCCc
Q 026690          190 CSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLL-GHASCPLC  231 (235)
Q Consensus       190 C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~-~~~sCPlC  231 (235)
                      |+||++..   +....++ |+|.||..|+++|+. .+.+||+|
T Consensus         1 C~iC~~~~---~~~~~~~-C~H~~c~~C~~~~~~~~~~~CP~C   39 (39)
T smart00184        1 CPICLEEL---KDPVVLP-CGHTFCRSCIRKWLKSGNNTCPIC   39 (39)
T ss_pred             CCcCccCC---CCcEEec-CCChHHHHHHHHHHHhCcCCCCCC
Confidence            89999983   3577788 999999999999998 67789998

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)

>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=98.85  E-value=2.1e-09  Score=68.72  Aligned_cols=39  Identities=46%  Similarity=1.149  Sum_probs=33.2

Q ss_pred             CccccccccCCCceeecCCCCCcccHhhHHHHHh--cCCCCCCc
Q 026690          190 CSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLL--GHASCPLC  231 (235)
Q Consensus       190 C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~--~~~sCPlC  231 (235)
                      |+||++.+..  .+..++ |+|.||..||.+|++  ....||+|
T Consensus         1 C~iC~~~~~~--~~~~~~-C~H~fC~~C~~~~~~~~~~~~CP~C   41 (41)
T PF00097_consen    1 CPICLEPFED--PVILLP-CGHSFCRDCLRKWLENSGSVKCPLC   41 (41)
T ss_dssp             ETTTSSBCSS--EEEETT-TSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred             CCcCCccccC--CCEEec-CCCcchHHHHHHHHHhcCCccCCcC
Confidence            8999999885  224677 999999999999999  56689998

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 ....

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

Probab=98.81  E-value=2.2e-09  Score=78.09  Aligned_cols=32  Identities=38%  Similarity=0.769  Sum_probs=27.8

Q ss_pred             eeecCCCCCcccHhhHHHHHhcCCCCCCccCC
Q 026690          203 ARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD  234 (235)
Q Consensus       203 v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~  234 (235)
                      +..-..|+|.||..||.+||..++.||++|++
T Consensus        48 ~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~   79 (88)
T COG5194          48 PVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQT   79 (88)
T ss_pred             eEEEEecchHHHHHHHHHHHhhCCCCCCCCce
Confidence            33344599999999999999999999999985

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

Probab=98.79  E-value=9.3e-10  Score=79.39  Aligned_cols=48  Identities=33%  Similarity=0.820  Sum_probs=37.6

Q ss_pred             CccCccccccccC---------CCceeecCCCCCcccHhhHHHHHh---cCCCCCCccCC
Q 026690          187 RVSCSVCLQDFQL---------GETARSLPHCHHMFHIPCIDKWLL---GHASCPLCRRD  234 (235)
Q Consensus       187 ~~~C~ICle~f~~---------ge~v~~Lp~C~H~FH~~CI~~WL~---~~~sCPlCR~~  234 (235)
                      +..|-||...|..         ++-+.++..|.|.||..||.+|+.   .+..||+||++
T Consensus        20 ~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~   79 (84)
T KOG1493|consen   20 DETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQT   79 (84)
T ss_pred             CCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchhe
Confidence            3489999999873         233445556999999999999997   45679999985

>TIGR00599 rad18 DNA repair protein rad18

Probab=98.73  E-value=7.8e-09  Score=96.54  Aligned_cols=47  Identities=30%  Similarity=0.731  Sum_probs=40.5

Q ss_pred             CCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      .....|+||++.|..   ...+| |+|.||..||..|+..+..||+||.++
T Consensus        24 e~~l~C~IC~d~~~~---Pvitp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~   70 (397)
T TIGR00599        24 DTSLRCHICKDFFDV---PVLTS-CSHTFCSLCIRRCLSNQPKCPLCRAED   70 (397)
T ss_pred             ccccCCCcCchhhhC---ccCCC-CCCchhHHHHHHHHhCCCCCCCCCCcc
Confidence            345799999999974   45677 999999999999999988999999863

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

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

Probab=98.62  E-value=2.7e-08  Score=66.64  Aligned_cols=42  Identities=21%  Similarity=0.751  Sum_probs=33.7

Q ss_pred             cCccccccccCCCceeecCCCC-----CcccHhhHHHHHhc--CCCCCCcc
Q 026690          189 SCSVCLQDFQLGETARSLPHCH-----HMFHIPCIDKWLLG--HASCPLCR  232 (235)
Q Consensus       189 ~C~ICle~f~~ge~v~~Lp~C~-----H~FH~~CI~~WL~~--~~sCPlCR  232 (235)
                      .|.||++ ...++.....| |.     |.+|..|+++|+..  +.+||+|+
T Consensus         1 ~CrIC~~-~~~~~~~l~~P-C~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~   49 (49)
T smart00744        1 ICRICHD-EGDEGDPLVSP-CRCKGSLKYVHQECLERWINESGNKTCEICK   49 (49)
T ss_pred             CccCCCC-CCCCCCeeEec-cccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence            4899999 44455566788 86     99999999999974  45899995

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

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

Probab=98.59  E-value=1.7e-08  Score=95.03  Aligned_cols=49  Identities=33%  Similarity=0.840  Sum_probs=38.6

Q ss_pred             CCccCccccccccCCC-----c---------eeecCCCCCcccHhhHHHHHh-cCCCCCCccCCC
Q 026690          186 ERVSCSVCLQDFQLGE-----T---------ARSLPHCHHMFHIPCIDKWLL-GHASCPLCRRDL  235 (235)
Q Consensus       186 e~~~C~ICle~f~~ge-----~---------v~~Lp~C~H~FH~~CI~~WL~-~~~sCPlCR~~v  235 (235)
                      ...+|+||++++..-.     .         ....| |+|+||..|+.+|+. .+-.||+||.++
T Consensus       570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tP-C~HifH~~CL~~WMd~ykl~CPvCR~pL  633 (636)
T KOG0828|consen  570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTP-CHHIFHRQCLLQWMDTYKLICPVCRCPL  633 (636)
T ss_pred             ccccceEeccccceeeccCcchhhhhhhhccccccc-hHHHHHHHHHHHHHhhhcccCCccCCCC
Confidence            3468999999977321     1         12357 999999999999999 666999999975

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

Probab=98.52  E-value=2.7e-08  Score=87.61  Aligned_cols=48  Identities=31%  Similarity=0.847  Sum_probs=40.9

Q ss_pred             CCccCccccccccCCC-------ceeecCCCCCcccHhhHHHHHh--cCCCCCCccCC
Q 026690          186 ERVSCSVCLQDFQLGE-------TARSLPHCHHMFHIPCIDKWLL--GHASCPLCRRD  234 (235)
Q Consensus       186 e~~~C~ICle~f~~ge-------~v~~Lp~C~H~FH~~CI~~WL~--~~~sCPlCR~~  234 (235)
                      ++..|+||-+.+...+       +..+|. |+|.||..||..|-.  ++++||.|+..
T Consensus       223 ~d~vCaVCg~~~~~s~~eegvienty~Ls-CnHvFHEfCIrGWcivGKkqtCPYCKek  279 (328)
T KOG1734|consen  223 SDSVCAVCGQQIDVSVDEEGVIENTYKLS-CNHVFHEFCIRGWCIVGKKQTCPYCKEK  279 (328)
T ss_pred             CcchhHhhcchheeecchhhhhhhheeee-cccchHHHhhhhheeecCCCCCchHHHH
Confidence            4568999999887654       667888 999999999999964  88999999864

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

Probab=98.45  E-value=3.6e-08  Score=70.80  Aligned_cols=49  Identities=29%  Similarity=0.830  Sum_probs=23.0

Q ss_pred             CccCcccccccc-CCCc-eeec--CCCCCcccHhhHHHHHhc-----------CCCCCCccCCC
Q 026690          187 RVSCSVCLQDFQ-LGET-ARSL--PHCHHMFHIPCIDKWLLG-----------HASCPLCRRDL  235 (235)
Q Consensus       187 ~~~C~ICle~f~-~ge~-v~~L--p~C~H~FH~~CI~~WL~~-----------~~sCPlCR~~v  235 (235)
                      +.+|.||++... .++. ....  ++|++.||..||.+||+.           .++||.|+.+|
T Consensus         2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i   65 (70)
T PF11793_consen    2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPI   65 (70)
T ss_dssp             --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEE
T ss_pred             CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCee
Confidence            358999999876 3332 2333  379999999999999972           12599999864

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

Probab=98.44  E-value=6.6e-08  Score=73.66  Aligned_cols=48  Identities=29%  Similarity=0.744  Sum_probs=36.1

Q ss_pred             CccCcccccccc-------------CCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCC
Q 026690          187 RVSCSVCLQDFQ-------------LGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD  234 (235)
Q Consensus       187 ~~~C~ICle~f~-------------~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~  234 (235)
                      -+.|+||..-+.             .+|-+..=..|+|.||..||.+||++++.||+|.++
T Consensus        46 vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~e  106 (114)
T KOG2930|consen   46 VDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKE  106 (114)
T ss_pred             echhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcc
Confidence            457999985432             223233334599999999999999999999999764

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

Probab=98.43  E-value=1.6e-07  Score=61.28  Aligned_cols=38  Identities=32%  Similarity=0.799  Sum_probs=22.9

Q ss_pred             CccccccccCC-CceeecCCCCCcccHhhHHHHHhcC----CCCC
Q 026690          190 CSVCLQDFQLG-ETARSLPHCHHMFHIPCIDKWLLGH----ASCP  229 (235)
Q Consensus       190 C~ICle~f~~g-e~v~~Lp~C~H~FH~~CI~~WL~~~----~sCP  229 (235)
                      |+||+| |... ..+..|| |||+|+.+||++++++.    -.||
T Consensus         1 CpIc~e-~~~~~n~P~~L~-CGH~~c~~cl~~l~~~~~~~~~kCP   43 (43)
T PF13445_consen    1 CPICKE-FSTEENPPMVLP-CGHVFCKDCLQKLSKKSDRNRFKCP   43 (43)
T ss_dssp             -TTT-----TTSS-EEE-S-SS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred             CCcccc-ccCCCCCCEEEe-CccHHHHHHHHHHHhcCCCCeeeCc
Confidence            899999 7554 4568899 99999999999999854    2587

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

Probab=98.42  E-value=9.7e-08  Score=83.91  Aligned_cols=45  Identities=31%  Similarity=0.893  Sum_probs=38.7

Q ss_pred             CccCccccccccCCCceeecCCCCCcccHhhHHH-HHhcCCC-CCCccCCC
Q 026690          187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDK-WLLGHAS-CPLCRRDL  235 (235)
Q Consensus       187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~-WL~~~~s-CPlCR~~v  235 (235)
                      +..|+||++....   ...+| |||+||..||.. |-+++.- ||+||+.+
T Consensus       215 d~kC~lC~e~~~~---ps~t~-CgHlFC~~Cl~~~~t~~k~~~CplCRak~  261 (271)
T COG5574         215 DYKCFLCLEEPEV---PSCTP-CGHLFCLSCLLISWTKKKYEFCPLCRAKV  261 (271)
T ss_pred             ccceeeeecccCC---ccccc-ccchhhHHHHHHHHHhhccccCchhhhhc
Confidence            5689999998765   77788 999999999999 9887765 99999853

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

Probab=98.40  E-value=1.5e-07  Score=89.25  Aligned_cols=45  Identities=33%  Similarity=0.874  Sum_probs=35.7

Q ss_pred             CccCccccccccCCCceeecCCCCCcccHhhHHHHHh-----cCCCCCCccCCC
Q 026690          187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLL-----GHASCPLCRRDL  235 (235)
Q Consensus       187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~-----~~~sCPlCR~~v  235 (235)
                      +..|||||+....    ..+..|||+||-.||-+++.     +...||+||..|
T Consensus       186 ~~~CPICL~~~~~----p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I  235 (513)
T KOG2164|consen  186 DMQCPICLEPPSV----PVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTI  235 (513)
T ss_pred             CCcCCcccCCCCc----ccccccCceeeHHHHHHHHhhhcccCCccCCchhhhc
Confidence            5689999999763    33444999999999999886     345799999754

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

Probab=98.35  E-value=3.3e-07  Score=66.14  Aligned_cols=46  Identities=22%  Similarity=0.465  Sum_probs=36.7

Q ss_pred             CCccCccccccccCCCceeecCCCCCcccHhhHHHHHhc-CCCCCCccCCC
Q 026690          186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG-HASCPLCRRDL  235 (235)
Q Consensus       186 e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~-~~sCPlCR~~v  235 (235)
                      +...|+|+.+-+.+   ...+| +||+|.+.||++|+++ +.+||+||.++
T Consensus         3 ~~f~CpIt~~lM~d---PVi~~-~G~tyer~~I~~~l~~~~~~~P~t~~~l   49 (73)
T PF04564_consen    3 DEFLCPITGELMRD---PVILP-SGHTYERSAIERWLEQNGGTDPFTRQPL   49 (73)
T ss_dssp             GGGB-TTTSSB-SS---EEEET-TSEEEEHHHHHHHHCTTSSB-TTT-SB-
T ss_pred             cccCCcCcCcHhhC---ceeCC-cCCEEcHHHHHHHHHcCCCCCCCCCCcC
Confidence            34789999999986   77889 9999999999999998 88999998764

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 ....

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

Probab=98.34  E-value=1.7e-07  Score=87.59  Aligned_cols=46  Identities=39%  Similarity=0.925  Sum_probs=38.4

Q ss_pred             CCCccCccccccccCCCc-eeecCCCCCcccHhhHHHHHhcCCCCCCccC
Q 026690          185 GERVSCSVCLQDFQLGET-ARSLPHCHHMFHIPCIDKWLLGHASCPLCRR  233 (235)
Q Consensus       185 ~e~~~C~ICle~f~~ge~-v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~  233 (235)
                      .|-++||||||.+..... ++... |.|.||-.|+.+|  ...+||+||.
T Consensus       173 tELPTCpVCLERMD~s~~gi~t~~-c~Hsfh~~cl~~w--~~~scpvcR~  219 (493)
T KOG0804|consen  173 TELPTCPVCLERMDSSTTGILTIL-CNHSFHCSCLMKW--WDSSCPVCRY  219 (493)
T ss_pred             ccCCCcchhHhhcCccccceeeee-cccccchHHHhhc--ccCcChhhhh
Confidence            456799999999886543 34455 9999999999999  7889999996

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

Probab=98.26  E-value=3e-07  Score=83.38  Aligned_cols=45  Identities=31%  Similarity=0.789  Sum_probs=40.8

Q ss_pred             CccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      -..|-||.+-|..   +.+.| |+|.||.-||...|..+..||.|+.++
T Consensus        23 lLRC~IC~eyf~i---p~itp-CsHtfCSlCIR~~L~~~p~CP~C~~~~   67 (442)
T KOG0287|consen   23 LLRCGICFEYFNI---PMITP-CSHTFCSLCIRKFLSYKPQCPTCCVTV   67 (442)
T ss_pred             HHHHhHHHHHhcC---ceecc-ccchHHHHHHHHHhccCCCCCceeccc
Confidence            4689999999986   77788 999999999999999999999998753

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

Probab=98.22  E-value=3.1e-07  Score=92.16  Aligned_cols=51  Identities=25%  Similarity=0.863  Sum_probs=39.3

Q ss_pred             CCCccCccccccccC-CC--ceeecCCCCCcccHhhHHHHHhc--CCCCCCccCCC
Q 026690          185 GERVSCSVCLQDFQL-GE--TARSLPHCHHMFHIPCIDKWLLG--HASCPLCRRDL  235 (235)
Q Consensus       185 ~e~~~C~ICle~f~~-ge--~v~~Lp~C~H~FH~~CI~~WL~~--~~sCPlCR~~v  235 (235)
                      ..-.+|+||+..+.. +.  .-..+|.|+|.||..|+-+|++.  +++||+||.++
T Consensus      1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRsei 1522 (1525)
T COG5219        1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEI 1522 (1525)
T ss_pred             CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCcccccc
Confidence            345689999988762 21  22456679999999999999984  66899999874

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

Probab=98.21  E-value=6.2e-07  Score=79.94  Aligned_cols=44  Identities=30%  Similarity=0.711  Sum_probs=38.3

Q ss_pred             CccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCC
Q 026690          187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD  234 (235)
Q Consensus       187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~  234 (235)
                      -..|-||-+-|..   ....+ |||.||.-||...|..|..||+||.+
T Consensus        25 ~lrC~IC~~~i~i---p~~Tt-CgHtFCslCIR~hL~~qp~CP~Cr~~   68 (391)
T COG5432          25 MLRCRICDCRISI---PCETT-CGHTFCSLCIRRHLGTQPFCPVCRED   68 (391)
T ss_pred             HHHhhhhhheeec---ceecc-cccchhHHHHHHHhcCCCCCcccccc
Confidence            4689999999884   44455 99999999999999999999999975

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

Probab=98.00  E-value=2.9e-06  Score=78.01  Aligned_cols=50  Identities=32%  Similarity=0.833  Sum_probs=39.4

Q ss_pred             CCCccCccccccccCCC----ceeecCCCCCcccHhhHHHHH--hc-----CCCCCCccCC
Q 026690          185 GERVSCSVCLQDFQLGE----TARSLPHCHHMFHIPCIDKWL--LG-----HASCPLCRRD  234 (235)
Q Consensus       185 ~e~~~C~ICle~f~~ge----~v~~Lp~C~H~FH~~CI~~WL--~~-----~~sCPlCR~~  234 (235)
                      ..+..|.||++.....-    ...++|+|.|.||..||.+|-  .+     ...||.||.+
T Consensus       159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~  219 (344)
T KOG1039|consen  159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVP  219 (344)
T ss_pred             cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCc
Confidence            34678999999876432    235678999999999999998  34     4689999975

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

Probab=97.97  E-value=4.2e-06  Score=76.50  Aligned_cols=47  Identities=26%  Similarity=0.712  Sum_probs=40.8

Q ss_pred             CCCccCccccccccCCCceeecCCCCCc-ccHhhHHHHHhcCCCCCCccCCC
Q 026690          185 GERVSCSVCLQDFQLGETARSLPHCHHM-FHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~-FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      ++..+|-||+.+-.+   +.+|| |.|. .|..|-+.---+++.||+||+++
T Consensus       288 ~~gkeCVIClse~rd---t~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi  335 (349)
T KOG4265|consen  288 ESGKECVICLSESRD---TVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPI  335 (349)
T ss_pred             cCCCeeEEEecCCcc---eEEec-chhhehhHhHHHHHHHhhcCCCccccch
Confidence            345689999999776   88899 9997 79999998877899999999975

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

Probab=97.89  E-value=2.7e-06  Score=59.78  Aligned_cols=43  Identities=28%  Similarity=0.755  Sum_probs=22.9

Q ss_pred             CccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCC
Q 026690          187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD  234 (235)
Q Consensus       187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~  234 (235)
                      ...|++|.+-++.   +..+..|.|+|+..||.+-+..  .||+|+.+
T Consensus         7 lLrCs~C~~~l~~---pv~l~~CeH~fCs~Ci~~~~~~--~CPvC~~P   49 (65)
T PF14835_consen    7 LLRCSICFDILKE---PVCLGGCEHIFCSSCIRDCIGS--ECPVCHTP   49 (65)
T ss_dssp             TTS-SSS-S--SS----B---SSS--B-TTTGGGGTTT--B-SSS--B
T ss_pred             hcCCcHHHHHhcC---CceeccCccHHHHHHhHHhcCC--CCCCcCCh
Confidence            4689999999875   5556679999999999885543  49999875

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

Probab=97.82  E-value=2.2e-06  Score=78.23  Aligned_cols=47  Identities=36%  Similarity=0.765  Sum_probs=39.9

Q ss_pred             CCccCccccccccCCCceeecCCCCCcccHhhHHHHHh-cCCCCCCccCCC
Q 026690          186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLL-GHASCPLCRRDL  235 (235)
Q Consensus       186 e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~-~~~sCPlCR~~v  235 (235)
                      .+..|+|||+-++.   .+..+.|.|.||.+||.+-++ .+++||.||+.+
T Consensus        42 ~~v~c~icl~llk~---tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l   89 (381)
T KOG0311|consen   42 IQVICPICLSLLKK---TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKL   89 (381)
T ss_pred             hhhccHHHHHHHHh---hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhc
Confidence            35789999999886   566667999999999999998 577899999853

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

Probab=97.81  E-value=4e-06  Score=83.01  Aligned_cols=46  Identities=22%  Similarity=0.496  Sum_probs=40.7

Q ss_pred             ccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCC
Q 026690          188 VSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD  234 (235)
Q Consensus       188 ~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~  234 (235)
                      ..|++|+..|..+......+ |.|+||..||+.|-+.-++||+||.+
T Consensus       124 ~~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~E  169 (1134)
T KOG0825|consen  124 NQCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGE  169 (1134)
T ss_pred             hhhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhh
Confidence            47999999988776666667 99999999999999999999999975

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

Probab=97.79  E-value=4.9e-06  Score=56.59  Aligned_cols=44  Identities=25%  Similarity=0.610  Sum_probs=32.5

Q ss_pred             ccCccccccccCCCceeecCCCCCc-ccHhhH-HHHHhcCCCCCCccCCC
Q 026690          188 VSCSVCLQDFQLGETARSLPHCHHM-FHIPCI-DKWLLGHASCPLCRRDL  235 (235)
Q Consensus       188 ~~C~ICle~f~~ge~v~~Lp~C~H~-FH~~CI-~~WL~~~~sCPlCR~~v  235 (235)
                      .+|.||+|.-.  +.+..+  |||+ .|.+|- ..|-..+..||+||++|
T Consensus         8 dECTICye~pv--dsVlYt--CGHMCmCy~Cg~rl~~~~~g~CPiCRapi   53 (62)
T KOG4172|consen    8 DECTICYEHPV--DSVLYT--CGHMCMCYACGLRLKKALHGCCPICRAPI   53 (62)
T ss_pred             cceeeeccCcc--hHHHHH--cchHHhHHHHHHHHHHccCCcCcchhhHH
Confidence            68999999754  334333  9997 578884 45545899999999874

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

Probab=97.62  E-value=1.9e-05  Score=78.20  Aligned_cols=45  Identities=27%  Similarity=0.671  Sum_probs=37.3

Q ss_pred             CCccCccccccccCCCceeecCCCCCcccHhhHHHHHh-cCCCCCCccCC
Q 026690          186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLL-GHASCPLCRRD  234 (235)
Q Consensus       186 e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~-~~~sCPlCR~~  234 (235)
                      +-..||+|-..+++    .++++|+|.||..||.+-+. ++..||.|..+
T Consensus       642 ~~LkCs~Cn~R~Kd----~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~a  687 (698)
T KOG0978|consen  642 ELLKCSVCNTRWKD----AVITKCGHVFCEECVQTRYETRQRKCPKCNAA  687 (698)
T ss_pred             hceeCCCccCchhh----HHHHhcchHHHHHHHHHHHHHhcCCCCCCCCC
Confidence            34689999988874    34556999999999999987 77899999765

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

Probab=97.60  E-value=1.9e-05  Score=70.77  Aligned_cols=77  Identities=16%  Similarity=0.380  Sum_probs=51.1

Q ss_pred             CcccCCcccccCCCCCCCHHHHhcCCceee---ccC---------------CCcCCCCCCccCccccccccCCCceeecC
Q 026690          146 SFDEAPNIFDTGLSKGLTGESVDKIPKITI---TDK---------------NNIDASGERVSCSVCLQDFQLGETARSLP  207 (235)
Q Consensus       146 ~~~e~~d~~~~~~~~gls~~~i~~lp~~~~---~~~---------------~~~~~~~e~~~C~ICle~f~~ge~v~~Lp  207 (235)
                      .|......+....++|+.+..++.|....-   +..               --.+..-....|.|||--|..++...+.+
T Consensus        56 gYP~esPtvtl~nPRGl~d~~~~~i~~~~~~iikq~~g~pii~~lie~~~e~LT~nn~p~gqCvICLygfa~~~~ft~T~  135 (368)
T KOG4445|consen   56 GYPAESPTVTLSNPRGLGDPEFREIQRQIQEIIKQNSGMPIICQLIEHCSEFLTENNHPNGQCVICLYGFASSPAFTVTA  135 (368)
T ss_pred             CCCCcCCceEecCCCCCCcHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHHHcccCCCCCCceEEEEEeecCCCceeeeh
Confidence            344445555556778888777665533210   000               00111223458999999999999899899


Q ss_pred             CCCCcccHhhHHHHHh
Q 026690          208 HCHHMFHIPCIDKWLL  223 (235)
Q Consensus       208 ~C~H~FH~~CI~~WL~  223 (235)
                       |.|+||..|+.++|.
T Consensus       136 -C~Hy~H~~ClaRyl~  150 (368)
T KOG4445|consen  136 -CDHYMHFACLARYLT  150 (368)
T ss_pred             -hHHHHHHHHHHHHHH
Confidence             999999999988873

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

Probab=97.45  E-value=7.4e-05  Score=51.54  Aligned_cols=41  Identities=27%  Similarity=0.618  Sum_probs=27.6

Q ss_pred             CccCccccccccCCCceeecCCCCCcccHhhHHHHHhc--CCCCCC
Q 026690          187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG--HASCPL  230 (235)
Q Consensus       187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~--~~sCPl  230 (235)
                      ...|||.++.|++  .++... |+|+|-++.|.+|+.+  +..||+
T Consensus        11 ~~~CPiT~~~~~~--PV~s~~-C~H~fek~aI~~~i~~~~~~~CPv   53 (57)
T PF11789_consen   11 SLKCPITLQPFED--PVKSKK-CGHTFEKEAILQYIQRNGSKRCPV   53 (57)
T ss_dssp             -SB-TTTSSB-SS--EEEESS-S--EEEHHHHHHHCTTTS-EE-SC
T ss_pred             ccCCCCcCChhhC--CcCcCC-CCCeecHHHHHHHHHhcCCCCCCC
Confidence            4689999999984  445444 9999999999999943  446998

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

Probab=97.37  E-value=0.00011  Score=48.62  Aligned_cols=40  Identities=30%  Similarity=0.965  Sum_probs=28.2

Q ss_pred             CccccccccCCCceeecCCCC-----CcccHhhHHHHHh--cCCCCCCc
Q 026690          190 CSVCLQDFQLGETARSLPHCH-----HMFHIPCIDKWLL--GHASCPLC  231 (235)
Q Consensus       190 C~ICle~f~~ge~v~~Lp~C~-----H~FH~~CI~~WL~--~~~sCPlC  231 (235)
                      |-||+++-..++ ..+.| |+     .+.|..|+++|+.  .+.+|++|
T Consensus         1 CrIC~~~~~~~~-~li~p-C~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C   47 (47)
T PF12906_consen    1 CRICLEGEEEDE-PLISP-CRCKGSMKYVHRSCLERWIRESGNRKCEIC   47 (47)
T ss_dssp             ETTTTEE-SSSS--EE-S-SS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred             CeEeCCcCCCCC-ceecc-cccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence            789999877655 44566 55     5899999999998  45679998

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

Probab=97.31  E-value=0.00011  Score=69.03  Aligned_cols=48  Identities=29%  Similarity=0.737  Sum_probs=39.6

Q ss_pred             CCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      .++..|++|...+.+   ....+.|+|.||..|+.+|+..+..||.||+++
T Consensus        19 ~~~l~C~~C~~vl~~---p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~   66 (391)
T KOG0297|consen   19 DENLLCPICMSVLRD---PVQTTTCGHRFCAGCLLESLSNHQKCPVCRQEL   66 (391)
T ss_pred             cccccCccccccccC---CCCCCCCCCcccccccchhhccCcCCccccccc
Confidence            456899999999885   222224999999999999999999999998753

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

Probab=97.25  E-value=0.00014  Score=68.20  Aligned_cols=46  Identities=35%  Similarity=0.834  Sum_probs=40.1

Q ss_pred             CCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       186 e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      .+..|.||+.-+..   ...+| |||.||..||++-+.++..||.||.++
T Consensus        83 sef~c~vc~~~l~~---pv~tp-cghs~c~~Cl~r~ld~~~~cp~Cr~~l  128 (398)
T KOG4159|consen   83 SEFECCVCSRALYP---PVVTP-CGHSFCLECLDRSLDQETECPLCRDEL  128 (398)
T ss_pred             chhhhhhhHhhcCC---Ccccc-ccccccHHHHHHHhccCCCCccccccc
Confidence            35789999888875   66778 999999999999989899999999864

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

Probab=97.23  E-value=0.0001  Score=68.59  Aligned_cols=43  Identities=26%  Similarity=0.869  Sum_probs=36.3

Q ss_pred             cCccccccccCCCceeecCCCCCcccHhhHHHHHhc--CCCCCCccCCC
Q 026690          189 SCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG--HASCPLCRRDL  235 (235)
Q Consensus       189 ~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~--~~sCPlCR~~v  235 (235)
                      -|-||-|.=+   .+++-| |||..|..|+..|-..  .++||.||-+|
T Consensus       371 LCKICaendK---dvkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEI  415 (563)
T KOG1785|consen  371 LCKICAENDK---DVKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEI  415 (563)
T ss_pred             HHHHhhccCC---Cccccc-ccchHHHHHHHhhcccCCCCCCCceeeEe
Confidence            6999988644   488899 9999999999999753  56899999764

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

Probab=97.23  E-value=0.0001  Score=68.30  Aligned_cols=45  Identities=38%  Similarity=0.960  Sum_probs=38.2

Q ss_pred             CccCccccccccCC-CceeecCCCCCcccHhhHHHHHhcCC--CCCCcc
Q 026690          187 RVSCSVCLQDFQLG-ETARSLPHCHHMFHIPCIDKWLLGHA--SCPLCR  232 (235)
Q Consensus       187 ~~~C~ICle~f~~g-e~v~~Lp~C~H~FH~~CI~~WL~~~~--sCPlCR  232 (235)
                      ..-|..|-|.+-.. +....|| |.|+||..|+...|.++.  +||.||
T Consensus       365 ~L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~Cr  412 (518)
T KOG1941|consen  365 ELYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCR  412 (518)
T ss_pred             hhhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHH
Confidence            45799999988754 4577899 999999999999998654  799998

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

Probab=97.06  E-value=0.00035  Score=73.36  Aligned_cols=51  Identities=27%  Similarity=0.714  Sum_probs=40.9

Q ss_pred             CCCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCC----------CCCCccCCC
Q 026690          184 SGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHA----------SCPLCRRDL  235 (235)
Q Consensus       184 ~~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~----------sCPlCR~~v  235 (235)
                      .+.++.|-||..+--.......|. |+|+||..|...-|+++.          +||+|+.+|
T Consensus      3483 QD~DDmCmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~I 3543 (3738)
T KOG1428|consen 3483 QDADDMCMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKI 3543 (3738)
T ss_pred             cccCceEEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchh
Confidence            445678999999877667778888 999999999987776432          699999864

>PHA02825 LAP/PHD finger-like protein; Provisional

Probab=96.98  E-value=0.00076  Score=55.57  Aligned_cols=49  Identities=18%  Similarity=0.589  Sum_probs=32.5

Q ss_pred             CCCCccCccccccccCCCceeecC--CCCCcccHhhHHHHHhc--CCCCCCccCC
Q 026690          184 SGERVSCSVCLQDFQLGETARSLP--HCHHMFHIPCIDKWLLG--HASCPLCRRD  234 (235)
Q Consensus       184 ~~e~~~C~ICle~f~~ge~v~~Lp--~C~H~FH~~CI~~WL~~--~~sCPlCR~~  234 (235)
                      +..+..|-||.++-..  ...-..  .=-...|.+|+++|+..  +.+||+|+.+
T Consensus         5 s~~~~~CRIC~~~~~~--~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~   57 (162)
T PHA02825          5 SLMDKCCWICKDEYDV--VTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGP   57 (162)
T ss_pred             CCCCCeeEecCCCCCC--ccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCe
Confidence            3456789999988432  222111  00027799999999984  4579999875

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

Probab=96.90  E-value=0.00093  Score=59.45  Aligned_cols=47  Identities=26%  Similarity=0.619  Sum_probs=35.5

Q ss_pred             CCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcC--CCCCCccCC
Q 026690          185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGH--ASCPLCRRD  234 (235)
Q Consensus       185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~--~sCPlCR~~  234 (235)
                      ..+.+|++|-++-..   +....+|+|+||+.||..-....  -+||.|-.+
T Consensus       237 t~~~~C~~Cg~~Pti---P~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~  285 (298)
T KOG2879|consen  237 TSDTECPVCGEPPTI---PHVIGKCGHIYCYYCIATSRLWDASFTCPLCGEN  285 (298)
T ss_pred             cCCceeeccCCCCCC---CeeeccccceeehhhhhhhhcchhhcccCccCCC
Confidence            446799999887443   33333499999999999876643  589999765

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

Probab=96.89  E-value=0.00083  Score=58.33  Aligned_cols=49  Identities=27%  Similarity=0.745  Sum_probs=41.2

Q ss_pred             CCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhc--------CCCCCCccCCC
Q 026690          185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG--------HASCPLCRRDL  235 (235)
Q Consensus       185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~--------~~sCPlCR~~v  235 (235)
                      +.+..|..|-..+..||.+|..  |-|.||..|+++|-.+        ...||-|.++|
T Consensus        48 DY~pNC~LC~t~La~gdt~RLv--CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~ei  104 (299)
T KOG3970|consen   48 DYNPNCRLCNTPLASGDTTRLV--CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEI  104 (299)
T ss_pred             CCCCCCceeCCccccCcceeeh--hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCcc
Confidence            3456899999999999999854  9999999999999763        23699998765

>PHA03096 p28-like protein; Provisional

Probab=96.83  E-value=0.0006  Score=61.44  Aligned_cols=46  Identities=28%  Similarity=0.598  Sum_probs=35.5

Q ss_pred             ccCccccccccCC----CceeecCCCCCcccHhhHHHHHhc---CCCCCCccC
Q 026690          188 VSCSVCLQDFQLG----ETARSLPHCHHMFHIPCIDKWLLG---HASCPLCRR  233 (235)
Q Consensus       188 ~~C~ICle~f~~g----e~v~~Lp~C~H~FH~~CI~~WL~~---~~sCPlCR~  233 (235)
                      ..|.||++.....    .....|+.|.|.|+..||..|-..   +.+||.||.
T Consensus       179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~  231 (284)
T PHA03096        179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR  231 (284)
T ss_pred             hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence            5799999987743    345679999999999999999863   335666653

>PF13436 Gly-zipper_OmpA: Glycine-zipper containing OmpA-like membrane domain

Probab=96.80  E-value=0.0012  Score=51.97  Aligned_cols=39  Identities=41%  Similarity=0.555  Sum_probs=29.2

Q ss_pred             HHHHHHHHHHHHHhhcccccccchhhhhhhhhHhhHHhhh
Q 026690           50 ALVGTLLGAMTGALIGQETESGFVRGAAVGAISGAVFSIE   89 (235)
Q Consensus        50 a~~g~~~ga~~ga~~g~~~~~g~~~ga~~gai~gav~s~e   89 (235)
                      +++|+++||++|+++|- ..+|.+.||++||+.|++....
T Consensus        56 a~~GA~~GA~~Ga~~G~-~~~ga~~GAa~Ga~~G~~~g~~   94 (118)
T PF13436_consen   56 AAIGAAAGAAIGAIIGG-NGRGAAIGAAAGAAVGAAAGAA   94 (118)
T ss_pred             HHHHHHHHHHHHhhcCC-CccchHHHHHHHHHHHHHhhhh
Confidence            55677777777777776 5567888888888888886544

>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=96.76  E-value=0.00069  Score=54.41  Aligned_cols=36  Identities=19%  Similarity=0.524  Sum_probs=30.9

Q ss_pred             CccCccccccccCCCceeecCCCC------CcccHhhHHHHHh
Q 026690          187 RVSCSVCLQDFQLGETARSLPHCH------HMFHIPCIDKWLL  223 (235)
Q Consensus       187 ~~~C~ICle~f~~ge~v~~Lp~C~------H~FH~~CI~~WL~  223 (235)
                      ..+|.||++.+..++.+..++ |+      |+||.+|+++|-+
T Consensus        26 ~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~~   67 (134)
T PF05883_consen   26 TVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWRR   67 (134)
T ss_pred             CeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHHh
Confidence            468999999999867777777 77      9999999999943

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.

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

Probab=96.75  E-value=0.0004  Score=57.41  Aligned_cols=31  Identities=32%  Similarity=0.882  Sum_probs=27.7

Q ss_pred             CCCCccCccccccccCCCceeecCCCCCcccH
Q 026690          184 SGERVSCSVCLQDFQLGETARSLPHCHHMFHI  215 (235)
Q Consensus       184 ~~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~  215 (235)
                      .++..+|.||||+++.|+++..|| |-.+||+
T Consensus       174 ~ddkGECvICLEdL~~GdtIARLP-CLCIYHK  204 (205)
T KOG0801|consen  174 KDDKGECVICLEDLEAGDTIARLP-CLCIYHK  204 (205)
T ss_pred             cccCCcEEEEhhhccCCCceeccc-eEEEeec
Confidence            344568999999999999999999 9999996

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

Probab=96.71  E-value=0.0014  Score=43.61  Aligned_cols=44  Identities=20%  Similarity=0.485  Sum_probs=23.2

Q ss_pred             CccccccccCCC-ceeecCCCCCcccHhhHHHHHh-cCCCCCCccCC
Q 026690          190 CSVCLQDFQLGE-TARSLPHCHHMFHIPCIDKWLL-GHASCPLCRRD  234 (235)
Q Consensus       190 C~ICle~f~~ge-~v~~Lp~C~H~FH~~CI~~WL~-~~~sCPlCR~~  234 (235)
                      ||+|.+++...+ ...-.+ |++..+..|..+-++ .++.||-||++
T Consensus         1 cp~C~e~~d~~d~~~~PC~-Cgf~IC~~C~~~i~~~~~g~CPgCr~~   46 (48)
T PF14570_consen    1 CPLCDEELDETDKDFYPCE-CGFQICRFCYHDILENEGGRCPGCREP   46 (48)
T ss_dssp             -TTTS-B--CCCTT--SST-TS----HHHHHHHTTSS-SB-TTT--B
T ss_pred             CCCcccccccCCCccccCc-CCCcHHHHHHHHHHhccCCCCCCCCCC
Confidence            799999994333 344445 999999999888886 58899999986

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

Probab=96.63  E-value=0.00045  Score=62.79  Aligned_cols=47  Identities=28%  Similarity=0.598  Sum_probs=38.7

Q ss_pred             CCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCC
Q 026690          185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD  234 (235)
Q Consensus       185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~  234 (235)
                      .....|.+|---|.+..+   .+.|-|.||..||.+.|....+||.|...
T Consensus        13 n~~itC~LC~GYliDATT---I~eCLHTFCkSCivk~l~~~~~CP~C~i~   59 (331)
T KOG2660|consen   13 NPHITCRLCGGYLIDATT---ITECLHTFCKSCIVKYLEESKYCPTCDIV   59 (331)
T ss_pred             ccceehhhccceeecchh---HHHHHHHHHHHHHHHHHHHhccCCcccee
Confidence            345789999988886333   33499999999999999999999999753

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

Probab=96.61  E-value=0.001  Score=66.85  Aligned_cols=50  Identities=30%  Similarity=0.767  Sum_probs=41.6

Q ss_pred             CCCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhc-------CCCCCCccC
Q 026690          184 SGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG-------HASCPLCRR  233 (235)
Q Consensus       184 ~~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~-------~~sCPlCR~  233 (235)
                      .....+|.||.+.+.....+.....|-|+||..||.+|-++       ...||.|+.
T Consensus       188 ~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs  244 (950)
T KOG1952|consen  188 SNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS  244 (950)
T ss_pred             hcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence            44567999999999998888887789999999999999873       125999973

>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=96.56  E-value=0.0009  Score=50.62  Aligned_cols=32  Identities=34%  Similarity=0.734  Sum_probs=26.9

Q ss_pred             CCccCccccccccCCCceeecCCCCCcccHhhHH
Q 026690          186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCID  219 (235)
Q Consensus       186 e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~  219 (235)
                      ++..|++|-+.+.. ......| |+|+||..|++
T Consensus        77 ~~~~C~vC~k~l~~-~~f~~~p-~~~v~H~~C~~  108 (109)
T PF10367_consen   77 ESTKCSVCGKPLGN-SVFVVFP-CGHVVHYSCIK  108 (109)
T ss_pred             CCCCccCcCCcCCC-ceEEEeC-CCeEEeccccc
Confidence            34679999999976 5667788 99999999985

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

>PF13441 Gly-zipper_YMGG: YMGG-like Gly-zipper

Probab=96.41  E-value=0.0034  Score=41.19  Aligned_cols=36  Identities=44%  Similarity=0.657  Sum_probs=21.3

Q ss_pred             HHHHHHHHHHHHHHhhcccccccchhhhhhhhhHhhH
Q 026690           49 FALVGTLLGAMTGALIGQETESGFVRGAAVGAISGAV   85 (235)
Q Consensus        49 fa~~g~~~ga~~ga~~g~~~~~g~~~ga~~gai~gav   85 (235)
                      -|+.|+..||++|+++| ....|-+-|+++|+++|++
T Consensus         6 GA~iGA~~GA~iG~~~g-~~~~GA~iGA~~Ga~~G~~   41 (45)
T PF13441_consen    6 GAAIGAAAGAVIGAIIG-NGGKGAAIGAAAGALAGAA   41 (45)
T ss_pred             HHHHHHHHHHHHHHhhC-CCcccchhhhhhhhhhhhh
Confidence            46678888888888888 2223334444444444443

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

Probab=96.33  E-value=0.0026  Score=57.93  Aligned_cols=46  Identities=28%  Similarity=0.594  Sum_probs=36.3

Q ss_pred             CCCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCcc
Q 026690          184 SGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCR  232 (235)
Q Consensus       184 ~~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR  232 (235)
                      ..+...||||+..-+. +.+...  -|-+||+.||-+++.+++.||+=.
T Consensus       297 ~~~~~~CpvClk~r~N-ptvl~v--SGyVfCY~Ci~~Yv~~~~~CPVT~  342 (357)
T KOG0826|consen  297 PPDREVCPVCLKKRQN-PTVLEV--SGYVFCYPCIFSYVVNYGHCPVTG  342 (357)
T ss_pred             CCccccChhHHhccCC-CceEEe--cceEEeHHHHHHHHHhcCCCCccC
Confidence            4456789999998775 333333  599999999999999999999843

>PF13488 Gly-zipper_Omp: Glycine zipper

Probab=96.32  E-value=0.0048  Score=40.69  Aligned_cols=35  Identities=43%  Similarity=0.596  Sum_probs=19.5

Q ss_pred             HHHHHHHHHHHhhcccccccchhhhhhhhhHhhHHh
Q 026690           52 VGTLLGAMTGALIGQETESGFVRGAAVGAISGAVFS   87 (235)
Q Consensus        52 ~g~~~ga~~ga~~g~~~~~g~~~ga~~gai~gav~s   87 (235)
                      .|+++|+++|++.| .+..|-+-|+++|++.|+.+.
T Consensus         5 iGA~~Ga~iG~~~g-~~~~ga~iGa~vGa~~G~~ig   39 (46)
T PF13488_consen    5 IGAAAGAAIGAATG-GPGKGAAIGAAVGAAVGAAIG   39 (46)
T ss_pred             HHHHHHHHHHHHhC-CchhhHHHHHHHHHHHHHHHH
Confidence            34444444444444 124566667777777776644

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

Probab=96.31  E-value=0.0022  Score=59.94  Aligned_cols=45  Identities=22%  Similarity=0.607  Sum_probs=37.4

Q ss_pred             CccCccccccccCCCceeecCCCCCcccHhhHHHHHhc--------CCCCCCcc
Q 026690          187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG--------HASCPLCR  232 (235)
Q Consensus       187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~--------~~sCPlCR  232 (235)
                      ..+|.||+++....+....+| |+|+||+.|+..+...        .-.||-|+
T Consensus       184 lf~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~  236 (445)
T KOG1814|consen  184 LFDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPK  236 (445)
T ss_pred             cccceeeehhhcCcceeeecc-cchHHHHHHHHHHHHHhhhcceeeeecCCCCC
Confidence            468999999988768889999 9999999999999862        23587654

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

Probab=96.23  E-value=0.0017  Score=55.40  Aligned_cols=42  Identities=21%  Similarity=0.571  Sum_probs=36.2

Q ss_pred             ccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccC
Q 026690          188 VSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRR  233 (235)
Q Consensus       188 ~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~  233 (235)
                      ..|.||.++|+.   +.... |||.||..|...=+++...|-+|..
T Consensus       197 F~C~iCKkdy~s---pvvt~-CGH~FC~~Cai~~y~kg~~C~~Cgk  238 (259)
T COG5152         197 FLCGICKKDYES---PVVTE-CGHSFCSLCAIRKYQKGDECGVCGK  238 (259)
T ss_pred             eeehhchhhccc---hhhhh-cchhHHHHHHHHHhccCCcceecch
Confidence            489999999985   55455 9999999999988889999999965

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

Probab=96.21  E-value=0.0024  Score=61.49  Aligned_cols=46  Identities=26%  Similarity=0.668  Sum_probs=35.5

Q ss_pred             CCCccCccccccccCCCceeecCCCCCcccHhhHHHHHh-----cCCCCCCccCC
Q 026690          185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLL-----GHASCPLCRRD  234 (235)
Q Consensus       185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~-----~~~sCPlCR~~  234 (235)
                      .+...|.+|-++-++   ..... |+|.||.-||.++..     .+-+||.|...
T Consensus       534 k~~~~C~lc~d~aed---~i~s~-ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~  584 (791)
T KOG1002|consen  534 KGEVECGLCHDPAED---YIESS-CHHKFCRLCIKEYVESFMENNNVTCPVCHIG  584 (791)
T ss_pred             cCceeecccCChhhh---hHhhh-hhHHHHHHHHHHHHHhhhcccCCCCcccccc
Confidence            345689999987553   44455 999999999999886     34589999754

>KOG3039 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.12  E-value=0.0063  Score=53.59  Aligned_cols=49  Identities=18%  Similarity=0.321  Sum_probs=42.6

Q ss_pred             CccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      ...||||.+.+........|..|||+|+++|+++.++....||+|-.++
T Consensus       221 ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~pl  269 (303)
T KOG3039|consen  221 RYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPL  269 (303)
T ss_pred             ceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcC
Confidence            3579999999998777777777999999999999999999999997653

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

Probab=96.12  E-value=0.0032  Score=57.93  Aligned_cols=44  Identities=30%  Similarity=0.625  Sum_probs=33.3

Q ss_pred             CCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      .....|.||+++.+.   ...+| |||+-+  |..-- +...+||+||+.+
T Consensus       303 ~~p~lcVVcl~e~~~---~~fvp-cGh~cc--ct~cs-~~l~~CPvCR~rI  346 (355)
T KOG1571|consen  303 PQPDLCVVCLDEPKS---AVFVP-CGHVCC--CTLCS-KHLPQCPVCRQRI  346 (355)
T ss_pred             CCCCceEEecCCccc---eeeec-CCcEEE--chHHH-hhCCCCchhHHHH
Confidence            345689999999876   77889 999976  76654 3344599999853

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

Probab=96.03  E-value=0.0046  Score=56.97  Aligned_cols=47  Identities=26%  Similarity=0.564  Sum_probs=38.3

Q ss_pred             CCCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCC
Q 026690          184 SGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD  234 (235)
Q Consensus       184 ~~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~  234 (235)
                      ..|+..||||+-.--   .....| |+|.=|+.||.+-|-....|=.|+..
T Consensus       419 ~sEd~lCpICyA~pi---~Avf~P-C~H~SC~~CI~qHlmN~k~CFfCktT  465 (489)
T KOG4692|consen  419 DSEDNLCPICYAGPI---NAVFAP-CSHRSCYGCITQHLMNCKRCFFCKTT  465 (489)
T ss_pred             CcccccCcceecccc---hhhccC-CCCchHHHHHHHHHhcCCeeeEecce
Confidence            356789999986422   255667 99999999999999999999999864

>PF05433 Rick_17kDa_Anti: Glycine zipper 2TM domain; InterPro: IPR008816 This domain includes a putative two transmembrane alpha-helical region that contains glycine zipper motifs []

Probab=95.88  E-value=0.0064  Score=39.35  Aligned_cols=37  Identities=38%  Similarity=0.671  Sum_probs=24.9

Q ss_pred             HHHHHHHHHHhhccc--ccccchhhhhhhhhHhhHHhhh
Q 026690           53 GTLLGAMTGALIGQE--TESGFVRGAAVGAISGAVFSIE   89 (235)
Q Consensus        53 g~~~ga~~ga~~g~~--~~~g~~~ga~~gai~gav~s~e   89 (235)
                      |+++|+++|+++|..  ..++=..++.+||+.|+++.=+
T Consensus         2 G~~~Ga~~Ga~~G~~ig~~~g~~~g~~~Ga~~Ga~~G~~   40 (42)
T PF05433_consen    2 GALIGAAVGAVAGSQIGGGNGRTLGAVAGAVAGALIGNQ   40 (42)
T ss_pred             chHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHHHHhh
Confidence            455555555555554  3567778899999999887543

The domain is found in several Rickettsia genus specific 17 kDa surface antigen proteins [].; GO: 0019867 outer membrane

>PF13436 Gly-zipper_OmpA: Glycine-zipper containing OmpA-like membrane domain

Probab=95.82  E-value=0.0085  Score=47.20  Aligned_cols=40  Identities=38%  Similarity=0.469  Sum_probs=34.2

Q ss_pred             HHHHHHHHHHHHHHhhcccccccchhhhhhhhhHhhHHhhh
Q 026690           49 FALVGTLLGAMTGALIGQETESGFVRGAAVGAISGAVFSIE   89 (235)
Q Consensus        49 fa~~g~~~ga~~ga~~g~~~~~g~~~ga~~gai~gav~s~e   89 (235)
                      =+..|+++||++||++|..... --+|+.+||.+|+++..=
T Consensus        51 ~~~~ga~~GA~~GA~~Ga~~G~-~~~ga~~GAa~Ga~~G~~   90 (118)
T PF13436_consen   51 NTAGGAAIGAAAGAAIGAIIGG-NGRGAAIGAAAGAAVGAA   90 (118)
T ss_pred             hHHHHHHHHHHHHHHHHhhcCC-CccchHHHHHHHHHHHHH
Confidence            4569999999999999998877 678999999999997543

>PF13441 Gly-zipper_YMGG: YMGG-like Gly-zipper

Probab=95.77  E-value=0.0069  Score=39.77  Aligned_cols=36  Identities=39%  Similarity=0.574  Sum_probs=32.1

Q ss_pred             HHHHHHHHHHHHhhcccccccchhhhhhhhhHhhHHh
Q 026690           51 LVGTLLGAMTGALIGQETESGFVRGAAVGAISGAVFS   87 (235)
Q Consensus        51 ~~g~~~ga~~ga~~g~~~~~g~~~ga~~gai~gav~s   87 (235)
                      .-|+.+||.+|+++|.... .-.+||.+||.+|++..
T Consensus         4 ~~GA~iGA~~GA~iG~~~g-~~~~GA~iGA~~Ga~~G   39 (45)
T PF13441_consen    4 VRGAAIGAAAGAVIGAIIG-NGGKGAAIGAAAGALAG   39 (45)
T ss_pred             hhHHHHHHHHHHHHHHhhC-CCcccchhhhhhhhhhh
Confidence            5689999999999999998 67789999999999864

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

Probab=95.74  E-value=0.0007  Score=62.84  Aligned_cols=47  Identities=30%  Similarity=0.722  Sum_probs=41.2

Q ss_pred             ccCccccccccCC-CceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          188 VSCSVCLQDFQLG-ETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       188 ~~C~ICle~f~~g-e~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      ..|+||.++++.. ++...+- |+|.+|.+||.+||..+..||-||++|
T Consensus       197 ~sl~I~~~slK~~y~k~~~~~-~g~~~~~~kL~k~L~~~~kl~~~~rel  244 (465)
T KOG0827|consen  197 GSLSICFESLKQNYDKISAIV-CGHIYHHGKLSKWLATKRKLPSCRREL  244 (465)
T ss_pred             hhhHhhHHHHHHHHHHHHHHh-hcccchhhHHHHHHHHHHHhHHHHhhh
Confidence            4799999999876 5666666 999999999999999999999999864

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

Probab=95.71  E-value=0.0038  Score=56.13  Aligned_cols=43  Identities=23%  Similarity=0.469  Sum_probs=36.5

Q ss_pred             ccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCC
Q 026690          188 VSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD  234 (235)
Q Consensus       188 ~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~  234 (235)
                      ..|-||.+.|..   ..+.. |+|+||..|-.+-+++...|++|-+.
T Consensus       242 f~c~icr~~f~~---pVvt~-c~h~fc~~ca~~~~qk~~~c~vC~~~  284 (313)
T KOG1813|consen  242 FKCFICRKYFYR---PVVTK-CGHYFCEVCALKPYQKGEKCYVCSQQ  284 (313)
T ss_pred             cccccccccccc---chhhc-CCceeehhhhccccccCCcceecccc
Confidence            469999999985   44444 99999999999988999999999764

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

Probab=95.64  E-value=0.0088  Score=50.35  Aligned_cols=49  Identities=27%  Similarity=0.678  Sum_probs=31.8

Q ss_pred             CccCccccccccCCCc---eeecCCCCCcccHhhHHHHHhc-----C------CCCCCccCCC
Q 026690          187 RVSCSVCLQDFQLGET---ARSLPHCHHMFHIPCIDKWLLG-----H------ASCPLCRRDL  235 (235)
Q Consensus       187 ~~~C~ICle~f~~ge~---v~~Lp~C~H~FH~~CI~~WL~~-----~------~sCPlCR~~v  235 (235)
                      ...|.||+---..|..   +.--..|+.-||.-|+..||+.     +      +.||.|-.+|
T Consensus       165 ~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pi  227 (234)
T KOG3268|consen  165 LGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPI  227 (234)
T ss_pred             hhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcc
Confidence            3457777643333322   1222249999999999999972     1      2599998764

>PF13488 Gly-zipper_Omp: Glycine zipper

Probab=95.56  E-value=0.0099  Score=39.21  Aligned_cols=35  Identities=46%  Similarity=0.707  Sum_probs=29.3

Q ss_pred             HHHHHHHHHHHhhcccccccchhhhhhhhhHhhHHh
Q 026690           52 VGTLLGAMTGALIGQETESGFVRGAAVGAISGAVFS   87 (235)
Q Consensus        52 ~g~~~ga~~ga~~g~~~~~g~~~ga~~gai~gav~s   87 (235)
                      .|+.+||++|+++|..+. +=.+|+.+||..|+++.
T Consensus         1 ~Ga~iGA~~Ga~iG~~~g-~~~~ga~iGa~vGa~~G   35 (46)
T PF13488_consen    1 IGAAIGAAAGAAIGAATG-GPGKGAAIGAAVGAAVG   35 (46)
T ss_pred             CcHHHHHHHHHHHHHHhC-CchhhHHHHHHHHHHHH
Confidence            388999999999999886 44788999999998864

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

Probab=95.27  E-value=0.011  Score=53.47  Aligned_cols=43  Identities=33%  Similarity=0.703  Sum_probs=34.1

Q ss_pred             ccCccccccccCCCceeecCCCCCcccHhhHHHHHh-cCCCCCCccC
Q 026690          188 VSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLL-GHASCPLCRR  233 (235)
Q Consensus       188 ~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~-~~~sCPlCR~  233 (235)
                      ..|+.|-.-...   ....|.|+|.||.+||..-|. ....||.|.+
T Consensus       275 LkCplc~~Llrn---p~kT~cC~~~fc~eci~~al~dsDf~CpnC~r  318 (427)
T COG5222         275 LKCPLCHCLLRN---PMKTPCCGHTFCDECIGTALLDSDFKCPNCSR  318 (427)
T ss_pred             ccCcchhhhhhC---cccCccccchHHHHHHhhhhhhccccCCCccc
Confidence            689999877654   444577999999999998876 5668999943

>PRK10510 putative outer membrane lipoprotein; Provisional

Probab=95.14  E-value=0.032  Score=48.42  Aligned_cols=40  Identities=38%  Similarity=0.432  Sum_probs=25.0

Q ss_pred             HHHHHHHHHHHHHHhhccc--ccccchhhhhhhhhHhhHHhh
Q 026690           49 FALVGTLLGAMTGALIGQE--TESGFVRGAAVGAISGAVFSI   88 (235)
Q Consensus        49 fa~~g~~~ga~~ga~~g~~--~~~g~~~ga~~gai~gav~s~   88 (235)
                      =|++|+++||++|+++|-.  ...|-+-||++||.+|+....
T Consensus        38 ga~~Ga~~Ga~~G~~~g~~~~~~~~a~~ga~~G~~~G~~~g~   79 (219)
T PRK10510         38 GAGIGSLVGAGIGALSSSKKDRGKGALIGAAAGAALGGGVGY   79 (219)
T ss_pred             hhHHHHHHHHHHHhhhcCCCcccchhhhHhHHHhhhhhhhhh
Confidence            3566677777777766521  123566677777777777653

>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=95.10  E-value=0.015  Score=37.75  Aligned_cols=41  Identities=24%  Similarity=0.697  Sum_probs=23.2

Q ss_pred             CccccccccCCCceeecCCCCCcccHhhHHHHHhcCC--CCCCc
Q 026690          190 CSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHA--SCPLC  231 (235)
Q Consensus       190 C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~--sCPlC  231 (235)
                      |.+|.+-...|..=... .|+=.+|..|++.+++.+.  .||.|
T Consensus         1 C~~C~~iv~~G~~C~~~-~C~~r~H~~C~~~y~r~~~~~~CP~C   43 (43)
T PF08746_consen    1 CEACKEIVTQGQRCSNR-DCNVRLHDDCFKKYFRHRSNPKCPNC   43 (43)
T ss_dssp             -TTT-SB-SSSEE-SS---S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred             CcccchhHeeeccCCCC-ccCchHHHHHHHHHHhcCCCCCCcCC
Confidence            66777776654433322 4999999999999998665  79988

; PDB: 3NW0_A 2CT0_A.

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

Probab=95.05  E-value=0.02  Score=52.71  Aligned_cols=49  Identities=29%  Similarity=0.734  Sum_probs=38.5

Q ss_pred             CCCCCCccCccccccccCCCceeecCCCCCcccHhhHHHH--HhcCCCCCCccCC
Q 026690          182 DASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKW--LLGHASCPLCRRD  234 (235)
Q Consensus       182 ~~~~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~W--L~~~~sCPlCR~~  234 (235)
                      +..++...|-||-+...-   ...+| |+|..|-.|-.+-  |-++..||+||.+
T Consensus        56 dtDEen~~C~ICA~~~TY---s~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE  106 (493)
T COG5236          56 DTDEENMNCQICAGSTTY---SARYP-CGHQICHACAVRLRALYMQKGCPLCRTE  106 (493)
T ss_pred             ccccccceeEEecCCceE---EEecc-CCchHHHHHHHHHHHHHhccCCCccccc
Confidence            444556689999988764   67788 9999999997653  4578899999974

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

Probab=94.82  E-value=0.022  Score=57.42  Aligned_cols=51  Identities=20%  Similarity=0.602  Sum_probs=37.1

Q ss_pred             CCCCccCccccccccCCCceeecCCCC---CcccHhhHHHHHh--cCCCCCCccCC
Q 026690          184 SGERVSCSVCLQDFQLGETARSLPHCH---HMFHIPCIDKWLL--GHASCPLCRRD  234 (235)
Q Consensus       184 ~~e~~~C~ICle~f~~ge~v~~Lp~C~---H~FH~~CI~~WL~--~~~sCPlCR~~  234 (235)
                      .+++..|.||..+=..++..-.--+|.   .+.|.+|+.+|+.  .+..|-+|+.+
T Consensus         9 N~d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~   64 (1175)
T COG5183           9 NEDKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYE   64 (1175)
T ss_pred             CccchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecce
Confidence            345578999998866655544221233   7899999999998  45679999875

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

Probab=94.61  E-value=0.025  Score=50.56  Aligned_cols=47  Identities=23%  Similarity=0.704  Sum_probs=35.5

Q ss_pred             CccCccccccccCCCc-eeecCCCC-----CcccHhhHHHHHh--cCCCCCCccCC
Q 026690          187 RVSCSVCLQDFQLGET-ARSLPHCH-----HMFHIPCIDKWLL--GHASCPLCRRD  234 (235)
Q Consensus       187 ~~~C~ICle~f~~ge~-v~~Lp~C~-----H~FH~~CI~~WL~--~~~sCPlCR~~  234 (235)
                      ...|.||.++...... ....| |.     +..|..|++.|+.  .+..|.+|...
T Consensus        78 ~~~cRIc~~~~~~~~~~~l~~p-C~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~  132 (323)
T KOG1609|consen   78 GPICRICHEEDEESNGLLLISP-CSCKGSLAYVHRSCLEKWFSIKGNITCEICKSF  132 (323)
T ss_pred             CCcEEEEecccccccccccccC-ccccCcHHHHHHHHHHhhhccccCeeeeccccc
Confidence            4689999998764332 34455 65     8889999999998  55679999763

>PF14447 Prok-RING_4: Prokaryotic RING finger family 4

Probab=94.57  E-value=0.017  Score=39.50  Aligned_cols=32  Identities=25%  Similarity=0.634  Sum_probs=26.1

Q ss_pred             CceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          201 ETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       201 e~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      .+-..+| |+|+.+..|.+-+  +-+-||+|.+++
T Consensus        18 ~~~~~~p-CgH~I~~~~f~~~--rYngCPfC~~~~   49 (55)
T PF14447_consen   18 TKGTVLP-CGHLICDNCFPGE--RYNGCPFCGTPF   49 (55)
T ss_pred             ccccccc-ccceeeccccChh--hccCCCCCCCcc
Confidence            3456788 9999999999875  778899997754

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

Probab=94.53  E-value=0.022  Score=51.20  Aligned_cols=45  Identities=27%  Similarity=0.730  Sum_probs=38.2

Q ss_pred             ccCccccccccCCC-ceeecCCCCCcccHhhHHHHHhcCCCCCCccC
Q 026690          188 VSCSVCLQDFQLGE-TARSLPHCHHMFHIPCIDKWLLGHASCPLCRR  233 (235)
Q Consensus       188 ~~C~ICle~f~~ge-~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~  233 (235)
                      ..||||.+.+-... .+..++ |+|.-|..|..+....+-+||+|..
T Consensus       159 ~ncPic~e~l~~s~~~~~~~~-CgH~~h~~cf~e~~~~~y~CP~C~~  204 (276)
T KOG1940|consen  159 FNCPICKEYLFLSFEDAGVLK-CGHYMHSRCFEEMICEGYTCPICSK  204 (276)
T ss_pred             CCCchhHHHhccccccCCccC-cccchHHHHHHHHhccCCCCCcccc
Confidence            45999999977665 456677 9999999999999988899999975

>PF14446 Prok-RING_1: Prokaryotic RING finger family 1

Probab=94.50  E-value=0.043  Score=37.38  Aligned_cols=34  Identities=29%  Similarity=0.691  Sum_probs=30.5

Q ss_pred             CccCccccccccCCCceeecCCCCCcccHhhHHH
Q 026690          187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDK  220 (235)
Q Consensus       187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~  220 (235)
                      ...|++|-+.|+.++.+.+.|.|+-.+|++|-++
T Consensus         5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~   38 (54)
T PF14446_consen    5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK   38 (54)
T ss_pred             CccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence            4579999999998899999999999999999763

>PF04641 Rtf2: Rtf2 RING-finger

Probab=94.16  E-value=0.053  Score=48.16  Aligned_cols=49  Identities=20%  Similarity=0.426  Sum_probs=38.5

Q ss_pred             CCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCC
Q 026690          185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD  234 (235)
Q Consensus       185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~  234 (235)
                      .....|||...+|........+-.|||+|-..+|++- .....||+|-.+
T Consensus       111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~  159 (260)
T PF04641_consen  111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKP  159 (260)
T ss_pred             CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCc
Confidence            4457899999999766565555449999999999997 235679999765

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

Probab=93.92  E-value=0.091  Score=48.92  Aligned_cols=26  Identities=38%  Similarity=1.206  Sum_probs=20.4

Q ss_pred             CCCcccHhhHHHHHh-------------cCCCCCCccCC
Q 026690          209 CHHMFHIPCIDKWLL-------------GHASCPLCRRD  234 (235)
Q Consensus       209 C~H~FH~~CI~~WL~-------------~~~sCPlCR~~  234 (235)
                      |.-+.|.+|+-+|+.             ++..||+||+.
T Consensus       311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~  349 (358)
T PF10272_consen  311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAK  349 (358)
T ss_pred             ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccc
Confidence            556778999999985             23369999985

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

>KOG3053 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.27  E-value=0.035  Score=49.19  Aligned_cols=49  Identities=24%  Similarity=0.676  Sum_probs=34.5

Q ss_pred             CCCccCccccccccCCCce-eecCCCC-----CcccHhhHHHHHhcCC--------CCCCccCC
Q 026690          185 GERVSCSVCLQDFQLGETA-RSLPHCH-----HMFHIPCIDKWLLGHA--------SCPLCRRD  234 (235)
Q Consensus       185 ~e~~~C~ICle~f~~ge~v-~~Lp~C~-----H~FH~~CI~~WL~~~~--------sCPlCR~~  234 (235)
                      +.+..|=||+..=++.... -+-| |.     |-.|..|+..|...++        +||-|+.+
T Consensus        18 e~eR~CWiCF~TdeDn~~a~WV~P-CrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTE   80 (293)
T KOG3053|consen   18 ELERCCWICFATDEDNRLAAWVHP-CRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTE   80 (293)
T ss_pred             ccceeEEEEeccCcccchhhhccc-ccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcch
Confidence            3446799998765443322 3345 64     9999999999997433        69999865

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

Probab=93.17  E-value=0.041  Score=55.79  Aligned_cols=42  Identities=26%  Similarity=0.612  Sum_probs=31.9

Q ss_pred             CccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCC
Q 026690          187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD  234 (235)
Q Consensus       187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~  234 (235)
                      ...|+.|--.++.   +.+--.|+|.||..|+.   .+...||-|+-+
T Consensus       840 ~skCs~C~~~Ldl---P~VhF~CgHsyHqhC~e---~~~~~CP~C~~e  881 (933)
T KOG2114|consen  840 VSKCSACEGTLDL---PFVHFLCGHSYHQHCLE---DKEDKCPKCLPE  881 (933)
T ss_pred             eeeecccCCcccc---ceeeeecccHHHHHhhc---cCcccCCccchh
Confidence            3589999887764   22222499999999999   567789999853

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

Probab=92.87  E-value=0.016  Score=52.26  Aligned_cols=40  Identities=30%  Similarity=0.700  Sum_probs=28.9

Q ss_pred             CccCccccccccCCCceeecCCCCCcc-cHhhHHHHHhcCCCCCCccCC
Q 026690          187 RVSCSVCLQDFQLGETARSLPHCHHMF-HIPCIDKWLLGHASCPLCRRD  234 (235)
Q Consensus       187 ~~~C~ICle~f~~ge~v~~Lp~C~H~F-H~~CI~~WL~~~~sCPlCR~~  234 (235)
                      +.-|.||++.-.+   -..|+ |||.. |..|=.    +-+.||+||+.
T Consensus       300 ~~LC~ICmDaP~D---CvfLe-CGHmVtCt~CGk----rm~eCPICRqy  340 (350)
T KOG4275|consen  300 RRLCAICMDAPRD---CVFLE-CGHMVTCTKCGK----RMNECPICRQY  340 (350)
T ss_pred             HHHHHHHhcCCcc---eEEee-cCcEEeehhhcc----ccccCchHHHH
Confidence            4579999997553   56688 99976 555544    33489999974

>PRK10510 putative outer membrane lipoprotein; Provisional

Probab=92.86  E-value=0.14  Score=44.40  Aligned_cols=37  Identities=35%  Similarity=0.520  Sum_probs=29.4

Q ss_pred             HHHHHHHHHHHhhccccccc--chhhhhhhhhHhhHHhh
Q 026690           52 VGTLLGAMTGALIGQETESG--FVRGAAVGAISGAVFSI   88 (235)
Q Consensus        52 ~g~~~ga~~ga~~g~~~~~g--~~~ga~~gai~gav~s~   88 (235)
                      .|+.+||++||++|..+.+.  -.+|+++||..|+++.-
T Consensus        37 ~ga~~Ga~~Ga~~G~~~g~~~~~~~~a~~ga~~G~~~G~   75 (219)
T PRK10510         37 IGAGIGSLVGAGIGALSSSKKDRGKGALIGAAAGAALGG   75 (219)
T ss_pred             hhhHHHHHHHHHHHhhhcCCCcccchhhhHhHHHhhhhh
Confidence            48999999999999987642  35678888888887654

>PRK11280 hypothetical protein; Provisional

Probab=92.78  E-value=0.096  Score=43.85  Aligned_cols=40  Identities=25%  Similarity=0.489  Sum_probs=26.6

Q ss_pred             HHHHHHHHHHHhhccccc--ccchhhhhhhhhHhhHHhhhhh
Q 026690           52 VGTLLGAMTGALIGQETE--SGFVRGAAVGAISGAVFSIEVF   91 (235)
Q Consensus        52 ~g~~~ga~~ga~~g~~~~--~g~~~ga~~gai~gav~s~e~~   91 (235)
                      .|+++||++|+++|..-.  +|=.-++.+||++|+++.=++-
T Consensus        66 ~Gtv~Gav~Gg~~G~~iGgG~Gr~~at~~Ga~~G~~~G~~i~  107 (170)
T PRK11280         66 AGSVLGAVAGGVLGHQFGGGRGKDVATVAGALGGGYAGNQIQ  107 (170)
T ss_pred             hhHHHHHHHHHHhhhhccCCCccHHHHHHHHHHHHHHHHHHH
Confidence            477777777777777633  3333467788888888765543

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

Probab=92.54  E-value=0.046  Score=54.85  Aligned_cols=42  Identities=31%  Similarity=0.693  Sum_probs=32.7

Q ss_pred             ccCccccccccCCCceeecCCCCCcccHhhHHHHHhc--CCCCCCccCC
Q 026690          188 VSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG--HASCPLCRRD  234 (235)
Q Consensus       188 ~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~--~~sCPlCR~~  234 (235)
                      ..|+||++    -+.....+ |+|.||.+|+.+-+..  ...||+||..
T Consensus       455 ~~c~ic~~----~~~~~it~-c~h~~c~~c~~~~i~~~~~~~~~~cr~~  498 (674)
T KOG1001|consen  455 HWCHICCD----LDSFFITR-CGHDFCVECLKKSIQQSENAPCPLCRNV  498 (674)
T ss_pred             cccccccc----cccceeec-ccchHHHHHHHhccccccCCCCcHHHHH
Confidence            68999999    23355555 9999999999998874  2369999863

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=92.45  E-value=0.09  Score=48.46  Aligned_cols=49  Identities=22%  Similarity=0.571  Sum_probs=34.9

Q ss_pred             CCCccCccccccccCCCce-eecCCCCCcccHhhHHHHHh-cCCCCCCccCC
Q 026690          185 GERVSCSVCLQDFQLGETA-RSLPHCHHMFHIPCIDKWLL-GHASCPLCRRD  234 (235)
Q Consensus       185 ~e~~~C~ICle~f~~ge~v-~~Lp~C~H~FH~~CI~~WL~-~~~sCPlCR~~  234 (235)
                      +|++-||.|+|++...|+- .-.| ||-..|.-|...--+ -++.||-||+.
T Consensus        12 deed~cplcie~mditdknf~pc~-cgy~ic~fc~~~irq~lngrcpacrr~   62 (480)
T COG5175          12 DEEDYCPLCIEPMDITDKNFFPCP-CGYQICQFCYNNIRQNLNGRCPACRRK   62 (480)
T ss_pred             cccccCcccccccccccCCcccCC-cccHHHHHHHHHHHhhccCCChHhhhh
Confidence            3445699999999876654 4456 998877777554322 46789999973

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

Probab=92.41  E-value=0.058  Score=54.91  Aligned_cols=36  Identities=25%  Similarity=0.609  Sum_probs=29.1

Q ss_pred             CCCccCccccccccCCCceeecCCCCCcccHhhHHHHH
Q 026690          185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWL  222 (235)
Q Consensus       185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL  222 (235)
                      +.+.+|.+|...+.. ....+.| |+|.||.+||.+-.
T Consensus       815 ep~d~C~~C~~~ll~-~pF~vf~-CgH~FH~~Cl~~~v  850 (911)
T KOG2034|consen  815 EPQDSCDHCGRPLLI-KPFYVFP-CGHCFHRDCLIRHV  850 (911)
T ss_pred             cCccchHHhcchhhc-Ccceeee-ccchHHHHHHHHHH
Confidence            345789999999875 4566778 99999999998765

>PRK10540 lipoprotein; Provisional

Probab=92.03  E-value=0.44  Score=34.39  Aligned_cols=35  Identities=31%  Similarity=0.482  Sum_probs=22.3

Q ss_pred             HHHHHHHHHHHHhhcccccccchhhhhhhhhHhhHHhhh
Q 026690           51 LVGTLLGAMTGALIGQETESGFVRGAAVGAISGAVFSIE   89 (235)
Q Consensus        51 ~~g~~~ga~~ga~~g~~~~~g~~~ga~~gai~gav~s~e   89 (235)
                      ..|+..|+++|+++|.    |=..|+.+||..|++..=+
T Consensus        35 ~~Ga~~Ga~~Ga~~g~----g~~~g~~~Ga~~G~~~G~~   69 (72)
T PRK10540         35 AIGAGAGALGGAVLTD----GSTLGTLGGAAVGGVIGHQ   69 (72)
T ss_pred             HHHHHHHHHHHHHhcC----CcHHHHHHHHHHHHHHhHh
Confidence            3566677777777653    2335777777777776543

>TIGR03789 pdsO proteobacterial sortase system OmpA family protein

Probab=91.91  E-value=0.12  Score=45.48  Aligned_cols=16  Identities=38%  Similarity=0.744  Sum_probs=8.8

Q ss_pred             hhhhhhhHhhHHhhhh
Q 026690           75 GAAVGAISGAVFSIEV   90 (235)
Q Consensus        75 ga~~gai~gav~s~e~   90 (235)
                      |+.+|++.|++++-++
T Consensus        62 G~~~G~~~G~~~g~~~   77 (239)
T TIGR03789        62 GAIIGGITGGLIGQAV   77 (239)
T ss_pred             HHHHHHHHHHHhhhhc
Confidence            5555555555555443

A newly defined histidine kinase (TIGR03785) and response regulator (TIGR03787) gene pair occurs exclusively in Proteobacteria, mostly of marine origin, nearly all of which contain a subfamily 6 sortase (TIGR03784) and its single dedicated target protein (TIGR03788) adjacent to to the sortase. This protein family shows up in only in those species with the histidine kinase/response regulator gene pair, and often adjacent to that pair. It belongs to the OmpA protein family (pfam00691). Its function is unknown. We assign the gene symbol pdsO, for Proteobacterial Dedicated Sortase system OmpA family protein.

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

Probab=91.80  E-value=0.1  Score=47.51  Aligned_cols=44  Identities=20%  Similarity=0.481  Sum_probs=32.4

Q ss_pred             CCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       186 e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      +-.+||||.+.+..  .+...+ =||+-|..|=.   +.++.||.||.++
T Consensus        47 ~lleCPvC~~~l~~--Pi~QC~-nGHlaCssC~~---~~~~~CP~Cr~~~   90 (299)
T KOG3002|consen   47 DLLDCPVCFNPLSP--PIFQCD-NGHLACSSCRT---KVSNKCPTCRLPI   90 (299)
T ss_pred             hhccCchhhccCcc--cceecC-CCcEehhhhhh---hhcccCCcccccc
Confidence            34689999999884  222222 25999988876   4788999999875

>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=90.91  E-value=0.13  Score=34.11  Aligned_cols=41  Identities=24%  Similarity=0.646  Sum_probs=24.8

Q ss_pred             cCccccccccCCCceeecCCCC-CcccHhhHHHHHhcCCCCCCccCCC
Q 026690          189 SCSVCLQDFQLGETARSLPHCH-HMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       189 ~C~ICle~f~~ge~v~~Lp~C~-H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      .|--|+...+.   ...   |+ |+.+..|+..-|.+...||+|..++
T Consensus         4 nCKsCWf~~k~---Li~---C~dHYLCl~CLt~ml~~s~~C~iC~~~L   45 (50)
T PF03854_consen    4 NCKSCWFANKG---LIK---CSDHYLCLNCLTLMLSRSDRCPICGKPL   45 (50)
T ss_dssp             ---SS-S--SS---EEE----SS-EEEHHHHHHT-SSSSEETTTTEE-
T ss_pred             cChhhhhcCCC---eee---ecchhHHHHHHHHHhccccCCCcccCcC
Confidence            35556554332   222   65 9999999999999999999998764

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.

>PF06897 DUF1269: Protein of unknown function (DUF1269); InterPro: IPR009200 There are currently no experimental data for members of this group or their homologues

Probab=90.86  E-value=0.24  Score=38.02  Aligned_cols=21  Identities=38%  Similarity=0.702  Sum_probs=11.0

Q ss_pred             HHHHHHHHHHHhhcccccccc
Q 026690           52 VGTLLGAMTGALIGQETESGF   72 (235)
Q Consensus        52 ~g~~~ga~~ga~~g~~~~~g~   72 (235)
                      +|+++||.+||++|-.++.|+
T Consensus        20 ~G~~~GA~~Gal~G~l~d~gI   40 (102)
T PF06897_consen   20 LGAAVGAAAGALAGALSDYGI   40 (102)
T ss_pred             HHHHHHHHHHHHHhHHhhCCC
Confidence            555555555555555554443

However, these proteins are predicted to contain two or more transmembrane segments.

>PF06897 DUF1269: Protein of unknown function (DUF1269); InterPro: IPR009200 There are currently no experimental data for members of this group or their homologues

Probab=90.35  E-value=0.15  Score=39.25  Aligned_cols=36  Identities=44%  Similarity=0.651  Sum_probs=22.9

Q ss_pred             HHHHHHHHHHHHHhhcccccccchhhhhhhhhHhhHH
Q 026690           50 ALVGTLLGAMTGALIGQETESGFVRGAAVGAISGAVF   86 (235)
Q Consensus        50 a~~g~~~ga~~ga~~g~~~~~g~~~ga~~gai~gav~   86 (235)
                      |+.|+++|.++|.+.+. ---|++=||+.||++|++.
T Consensus         1 A~~G~~~G~LiGll~~~-pl~G~~~GA~~Gal~G~l~   36 (102)
T PF06897_consen    1 ALSGALWGLLIGLLFGP-PLLGAAVGAAAGALAGALS   36 (102)
T ss_pred             CcchhHHHHHHHHHhhh-HHHHHHHHHHHHHHHhHHh
Confidence            35566666666666443 2235567888888888864

However, these proteins are predicted to contain two or more transmembrane segments.

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

Probab=90.24  E-value=0.2  Score=50.66  Aligned_cols=49  Identities=12%  Similarity=0.150  Sum_probs=35.9

Q ss_pred             CCccCccccccccCCC---ceeecCCCCCcccHhhHHHHHh------cCCCCCCccCC
Q 026690          186 ERVSCSVCLQDFQLGE---TARSLPHCHHMFHIPCIDKWLL------GHASCPLCRRD  234 (235)
Q Consensus       186 e~~~C~ICle~f~~ge---~v~~Lp~C~H~FH~~CI~~WL~------~~~sCPlCR~~  234 (235)
                      +...|.||.-++...+   ....+.+|.|.||..||..|+.      ++..|+.|..-
T Consensus        95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~C  152 (1134)
T KOG0825|consen   95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEEC  152 (1134)
T ss_pred             cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHH
Confidence            3468999988888632   2333347999999999999986      35568988653

>PLN02720 complex II

Probab=90.13  E-value=0.24  Score=39.59  Aligned_cols=58  Identities=26%  Similarity=0.328  Sum_probs=41.2

Q ss_pred             HHHHHHHHHHHHH-HHhhcccccc--cchhhhhhhhhHhhHHhhhhhcchhhhhccCCCCC
Q 026690           48 FFALVGTLLGAMT-GALIGQETES--GFVRGAAVGAISGAVFSIEVFESSLVLWQSDESGI  105 (235)
Q Consensus        48 ~fa~~g~~~ga~~-ga~~g~~~~~--g~~~ga~~gai~gav~s~e~~~s~~~~w~~d~~g~  105 (235)
                      -||++|+++||+- |+++=.-+.+  |.+-..+-|+|-|.+++-|+.+.-+.|++.|.-+.
T Consensus        67 ~fa~~Ga~vGa~~tag~a~kysk~phga~lsfl~G~~~G~~~G~EvAnh~lqLYk~d~m~a  127 (140)
T PLN02720         67 TFAVTGAAVGAVSTAGVAWKYSKSPHGAALAFLGGGVFGWAFGQEVANHWLQLYKFDTMAA  127 (140)
T ss_pred             HHHhhhhhhhhhhhhHHHHHhhcCCchHHHHHhccchhhhhHhHHHHHHHHHHHhccccch
Confidence            3889999999884 3333222333  44445566888999999999999998888886543

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

Probab=89.99  E-value=0.12  Score=47.14  Aligned_cols=41  Identities=29%  Similarity=0.763  Sum_probs=27.8

Q ss_pred             cCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCC
Q 026690          189 SCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD  234 (235)
Q Consensus       189 ~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~  234 (235)
                      .|--|--.+..  --|.+| |+|+||++|-..  ..-+.||.|-..
T Consensus        92 fCd~Cd~PI~I--YGRmIP-CkHvFCl~CAr~--~~dK~Cp~C~d~  132 (389)
T KOG2932|consen   92 FCDRCDFPIAI--YGRMIP-CKHVFCLECARS--DSDKICPLCDDR  132 (389)
T ss_pred             eecccCCccee--eecccc-cchhhhhhhhhc--CccccCcCcccH
Confidence            46666544432  236788 999999999763  235689999543

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

Probab=89.77  E-value=0.084  Score=55.76  Aligned_cols=44  Identities=25%  Similarity=0.746  Sum_probs=35.8

Q ss_pred             CccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccC
Q 026690          187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRR  233 (235)
Q Consensus       187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~  233 (235)
                      -..|.||++.+..-.   ....|+|.++..|+..|+..+..||+|+.
T Consensus      1153 ~~~c~ic~dil~~~~---~I~~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1153 HFVCEICLDILRNQG---GIAGCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred             ccchHHHHHHHHhcC---CeeeechhHhhhHHHHHHHHhccCcchhh
Confidence            348999999887311   12239999999999999999999999974

>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]

Probab=88.85  E-value=0.42  Score=42.70  Aligned_cols=47  Identities=26%  Similarity=0.677  Sum_probs=35.1

Q ss_pred             ccCccccccc-cCCCceee--cCCCCCcccHhhHHHHHh---------cCCCCCCccCC
Q 026690          188 VSCSVCLQDF-QLGETARS--LPHCHHMFHIPCIDKWLL---------GHASCPLCRRD  234 (235)
Q Consensus       188 ~~C~ICle~f-~~ge~v~~--Lp~C~H~FH~~CI~~WL~---------~~~sCPlCR~~  234 (235)
                      .+|.+|.+++ +.+.....  -|.|.-++|..|+..-+.         ....||.|++-
T Consensus       183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~  241 (276)
T KOG3005|consen  183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKF  241 (276)
T ss_pred             hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhce
Confidence            5899999999 54444433  347999999999999554         34579999863

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

Probab=88.71  E-value=0.25  Score=29.78  Aligned_cols=37  Identities=24%  Similarity=0.587  Sum_probs=25.3

Q ss_pred             cCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          189 SCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       189 ~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      .|..|.+.+..++......  ++.||.+|+.        |..|+.+|
T Consensus         1 ~C~~C~~~i~~~~~~~~~~--~~~~H~~Cf~--------C~~C~~~L   37 (39)
T smart00132        1 KCAGCGKPIRGGELVLRAL--GKVWHPECFK--------CSKCGKPL   37 (39)
T ss_pred             CccccCCcccCCcEEEEeC--CccccccCCC--------CcccCCcC
Confidence            3888988887764444333  7889988765        77776653

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

>PF05433 Rick_17kDa_Anti: Glycine zipper 2TM domain; InterPro: IPR008816 This domain includes a putative two transmembrane alpha-helical region that contains glycine zipper motifs []

Probab=88.16  E-value=0.5  Score=30.49  Aligned_cols=33  Identities=42%  Similarity=0.739  Sum_probs=15.4

Q ss_pred             HHHHHHHHHHHHhh--cccccccchhhhhhhhhHh
Q 026690           51 LVGTLLGAMTGALI--GQETESGFVRGAAVGAISG   83 (235)
Q Consensus        51 ~~g~~~ga~~ga~~--g~~~~~g~~~ga~~gai~g   83 (235)
                      ++|+++|+++|..+  +--+..+-+=|+.+|++.|
T Consensus         4 ~~Ga~~Ga~~G~~ig~~~g~~~g~~~Ga~~Ga~~G   38 (42)
T PF05433_consen    4 LIGAAVGAVAGSQIGGGNGRTLGAVAGAVAGALIG   38 (42)
T ss_pred             HHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHHHH
Confidence            34444444444444  4444444444555555444

The domain is found in several Rickettsia genus specific 17 kDa surface antigen proteins [].; GO: 0019867 outer membrane

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

Probab=88.13  E-value=0.42  Score=44.78  Aligned_cols=45  Identities=18%  Similarity=0.363  Sum_probs=38.7

Q ss_pred             CccCccccccccCCCceeecCCCCCcccHhhHHHHHhcC---CCCCCcc
Q 026690          187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGH---ASCPLCR  232 (235)
Q Consensus       187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~---~sCPlCR  232 (235)
                      ...|||=.|.-.+...+..|+ |||+...+-|.+--+..   -.||.|=
T Consensus       334 vF~CPVlKeqtsdeNPPm~L~-CGHVISkdAlnrLS~ng~~sfKCPYCP  381 (394)
T KOG2817|consen  334 VFICPVLKEQTSDENPPMMLI-CGHVISKDALNRLSKNGSQSFKCPYCP  381 (394)
T ss_pred             eeecccchhhccCCCCCeeee-ccceecHHHHHHHhhCCCeeeeCCCCC
Confidence            358999999999989999999 99999999999977643   3699994

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

Probab=87.65  E-value=0.29  Score=46.01  Aligned_cols=37  Identities=16%  Similarity=0.505  Sum_probs=28.0

Q ss_pred             CCccCccccccccCC-CceeecCCCCCcccHhhHHHHHh
Q 026690          186 ERVSCSVCLQDFQLG-ETARSLPHCHHMFHIPCIDKWLL  223 (235)
Q Consensus       186 e~~~C~ICle~f~~g-e~v~~Lp~C~H~FH~~CI~~WL~  223 (235)
                      ....|.||..+.... +... ..+|+|.||.+|+.+...
T Consensus       145 ~~~~C~iC~~e~~~~~~~f~-~~~C~H~fC~~C~k~~ie  182 (384)
T KOG1812|consen  145 PKEECGICFVEDPEAEDMFS-VLKCGHRFCKDCVKQHIE  182 (384)
T ss_pred             ccccCccCccccccHhhhHH-HhcccchhhhHHhHHHhh
Confidence            356899999554444 4555 556999999999998887

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

Probab=86.82  E-value=0.34  Score=47.41  Aligned_cols=41  Identities=39%  Similarity=0.990  Sum_probs=34.7

Q ss_pred             CCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCC
Q 026690          186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD  234 (235)
Q Consensus       186 e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~  234 (235)
                      ....|.||+++.    ..+..+ |.   |..|+.+|+..+..||+|+..
T Consensus       478 ~~~~~~~~~~~~----~~~~~~-~~---~~~~l~~~~~~~~~~pl~~~~  518 (543)
T KOG0802|consen  478 PNDVCAICYQEM----SARITP-CS---HALCLRKWLYVQEVCPLCHTY  518 (543)
T ss_pred             ccCcchHHHHHH----Hhcccc-cc---chhHHHhhhhhccccCCCchh
Confidence            346899999998    356666 88   999999999999999999764

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

Probab=86.69  E-value=0.91  Score=30.21  Aligned_cols=43  Identities=21%  Similarity=0.669  Sum_probs=19.2

Q ss_pred             ccCccccccccCCCceeecCCCCCcccHhhHHHHHh-----cCCCCCCccCC
Q 026690          188 VSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLL-----GHASCPLCRRD  234 (235)
Q Consensus       188 ~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~-----~~~sCPlCR~~  234 (235)
                      ..|||..+.++.  .+|-.. |.|.-+-+ ++.||.     ..-.||+|+++
T Consensus         3 L~CPls~~~i~~--P~Rg~~-C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~   50 (50)
T PF02891_consen    3 LRCPLSFQRIRI--PVRGKN-CKHLQCFD-LESFLESNQRTPKWKCPICNKP   50 (50)
T ss_dssp             SB-TTTSSB-SS--EEEETT---SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred             eeCCCCCCEEEe--CccCCc-CcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence            468998888764  445444 99984311 445664     22369999874

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.

>KOG3899 consensus Uncharacterized conserved protein [Function unknown]

Probab=86.58  E-value=0.38  Score=43.60  Aligned_cols=26  Identities=31%  Similarity=1.031  Sum_probs=21.1

Q ss_pred             CCCcccHhhHHHHHh-------------cCCCCCCccCC
Q 026690          209 CHHMFHIPCIDKWLL-------------GHASCPLCRRD  234 (235)
Q Consensus       209 C~H~FH~~CI~~WL~-------------~~~sCPlCR~~  234 (235)
                      |.-..|.+|+.+|+.             ++.+||+||+.
T Consensus       325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~  363 (381)
T KOG3899|consen  325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKN  363 (381)
T ss_pred             cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhc
Confidence            567889999999874             45589999975

>COG4803 Predicted membrane protein [Function unknown]

Probab=85.59  E-value=0.9  Score=37.40  Aligned_cols=37  Identities=30%  Similarity=0.514  Sum_probs=19.2

Q ss_pred             HHHHHHHHHHHHHHH---HHHHHHHHHHHHhhcccccccc
Q 026690           36 VIGNIFSAIFTFFFA---LVGTLLGAMTGALIGQETESGF   72 (235)
Q Consensus        36 ~~~~~~~~~~t~~fa---~~g~~~ga~~ga~~g~~~~~g~   72 (235)
                      .+.+.+=|.|.+++-   +.|..+||.+|||.|--++-|.
T Consensus        62 a~sGafWG~LiGllFl~Pl~G~avGAa~GAl~g~l~DvGI  101 (170)
T COG4803          62 AVSGAFWGMLIGLLFLNPLLGMAVGAASGALSGSLTDVGI  101 (170)
T ss_pred             cccccHHHHHHHHHHHhHHHHHHHHHhhhhhccceeecCc
Confidence            333444444444322   3666666666666666655443

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

Probab=85.16  E-value=0.3  Score=48.12  Aligned_cols=41  Identities=27%  Similarity=0.799  Sum_probs=27.9

Q ss_pred             CccCccccc-----cccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCc
Q 026690          187 RVSCSVCLQ-----DFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLC  231 (235)
Q Consensus       187 ~~~C~ICle-----~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlC  231 (235)
                      ...|.+|..     .|+ .+.++..-.|+++||..|...   ++..||-|
T Consensus       511 gfiCe~Cq~~~iiyPF~-~~~~~rC~~C~avfH~~C~~r---~s~~CPrC  556 (580)
T KOG1829|consen  511 GFICELCQHNDIIYPFE-TRNTRRCSTCLAVFHKKCLRR---KSPCCPRC  556 (580)
T ss_pred             eeeeeeccCCCcccccc-cccceeHHHHHHHHHHHHHhc---cCCCCCch
Confidence            457888843     233 233444445999999999875   56669999

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

Probab=84.99  E-value=0.51  Score=27.29  Aligned_cols=23  Identities=35%  Similarity=0.759  Sum_probs=17.0

Q ss_pred             cCccccccccCCCceeecCCCCCcc
Q 026690          189 SCSVCLQDFQLGETARSLPHCHHMF  213 (235)
Q Consensus       189 ~C~ICle~f~~ge~v~~Lp~C~H~F  213 (235)
                      .||-|...+.  ...+..|.|||.|
T Consensus         2 ~CP~C~~~V~--~~~~~Cp~CG~~F   24 (26)
T PF10571_consen    2 TCPECGAEVP--ESAKFCPHCGYDF   24 (26)
T ss_pred             cCCCCcCCch--hhcCcCCCCCCCC
Confidence            5888888765  3456678899988

Several members are annotated as putative helicases.

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

Probab=84.82  E-value=0.56  Score=47.46  Aligned_cols=23  Identities=30%  Similarity=0.831  Sum_probs=21.3

Q ss_pred             CCCCcccHhhHHHHHhcCCCCCC
Q 026690          208 HCHHMFHIPCIDKWLLGHASCPL  230 (235)
Q Consensus       208 ~C~H~FH~~CI~~WL~~~~sCPl  230 (235)
                      .|+|.-|.+|..+|++....||-
T Consensus      1047 ~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1047 TCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred             cccccccHHHHHHHHhcCCcCCC
Confidence            39999999999999999999984

>PF05818 TraT: Enterobacterial TraT complement resistance protein; InterPro: IPR008874 The traT gene is one of the F factor transfer genes and encodes an outer membrane protein which is involved in interactions between Escherichia coli and its surroundings []

Probab=84.80  E-value=0.74  Score=40.01  Aligned_cols=35  Identities=43%  Similarity=0.693  Sum_probs=18.6

Q ss_pred             HHHHHHHHHHHhhcccccccchhhhhhh-hhHhhHHhh
Q 026690           52 VGTLLGAMTGALIGQETESGFVRGAAVG-AISGAVFSI   88 (235)
Q Consensus        52 ~g~~~ga~~ga~~g~~~~~g~~~ga~~g-ai~gav~s~   88 (235)
                      .|++.||.+|+.+|-.+.+  -+|+.+| +++||+++.
T Consensus        88 gga~~Ga~~G~~~g~~~~~--~~g~~~G~GlaGalig~  123 (215)
T PF05818_consen   88 GGALAGAATGAAIGAYNSG--SAGAAIGAGLAGALIGM  123 (215)
T ss_pred             hhHHHHhHHhhhhccccCC--ccchhhhhhHHHhHHHH
Confidence            3556666666666644322  2355566 566655443

The protein plays a role in preventing unproductive conjugation between bacteria carrying like plasmids.; GO: 0046999 regulation of conjugation, 0019867 outer membrane

>PF13901 DUF4206: Domain of unknown function (DUF4206)

Probab=84.70  E-value=0.6  Score=39.98  Aligned_cols=40  Identities=40%  Similarity=0.984  Sum_probs=30.0

Q ss_pred             CccCcccccc-----ccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCcc
Q 026690          187 RVSCSVCLQD-----FQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCR  232 (235)
Q Consensus       187 ~~~C~ICle~-----f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR  232 (235)
                      ...|-||-++     |+. +.+...++|+-+||..|..+     ..||-|.
T Consensus       152 GfiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~~-----~~CpkC~  196 (202)
T PF13901_consen  152 GFICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFRK-----KSCPKCA  196 (202)
T ss_pred             CCCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcCC-----CCCCCcH
Confidence            3578888753     333 45666778999999999882     6799994

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

Probab=84.52  E-value=0.83  Score=36.81  Aligned_cols=48  Identities=15%  Similarity=0.361  Sum_probs=34.3

Q ss_pred             CccCccccccccCCCceeecCCCCCcccHhhHHHHHh---cCCCCCCccCC
Q 026690          187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLL---GHASCPLCRRD  234 (235)
Q Consensus       187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~---~~~sCPlCR~~  234 (235)
                      --+|.||.|.-.+..-..--.-||-..|..|-..-++   .++.||+|+.+
T Consensus        80 lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTS  130 (140)
T PF05290_consen   80 LYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTS  130 (140)
T ss_pred             ceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccc
Confidence            3589999988665443322224999999998665555   57889999975

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

Probab=83.48  E-value=0.33  Score=48.54  Aligned_cols=44  Identities=32%  Similarity=0.810  Sum_probs=34.4

Q ss_pred             CccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCC---CCCCccCC
Q 026690          187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHA---SCPLCRRD  234 (235)
Q Consensus       187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~---sCPlCR~~  234 (235)
                      ..+|+||++.+...    .+-+|.|.|+..|+..-+..++   .||+|+..
T Consensus        21 ~lEc~ic~~~~~~p----~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~   67 (684)
T KOG4362|consen   21 ILECPICLEHVKEP----SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSD   67 (684)
T ss_pred             hccCCceeEEeecc----chhhhhHHHHhhhhhceeeccCccccchhhhhh
Confidence            46899999998853    3345999999999887776544   69999853

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

Probab=83.44  E-value=0.85  Score=30.72  Aligned_cols=43  Identities=28%  Similarity=0.551  Sum_probs=22.2

Q ss_pred             CccccccccCC------CceeecCCCCCcccHhhHHHHHhcCCCCCCcc
Q 026690          190 CSVCLQDFQLG------ETARSLPHCHHMFHIPCIDKWLLGHASCPLCR  232 (235)
Q Consensus       190 C~ICle~f~~g------e~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR  232 (235)
                      |-=|+..|...      ......|+|++.|+.+|=.--=+.=.+||-|-
T Consensus         2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHE~LH~CPGC~   50 (51)
T PF07975_consen    2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDVFIHETLHNCPGCE   50 (51)
T ss_dssp             ETTTTEE-TTS-------EEE--TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred             CccCCCCCCCcccccccCCeEECCCCCCccccCcChhhhccccCCcCCC
Confidence            44566666654      24567888999999999443223445799884

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

>PF13719 zinc_ribbon_5: zinc-ribbon domain

Probab=82.34  E-value=0.78  Score=28.58  Aligned_cols=27  Identities=26%  Similarity=0.798  Sum_probs=19.4

Q ss_pred             ccCccccccccCCCc-------eeecCCCCCccc
Q 026690          188 VSCSVCLQDFQLGET-------ARSLPHCHHMFH  214 (235)
Q Consensus       188 ~~C~ICle~f~~ge~-------v~~Lp~C~H~FH  214 (235)
                      ..||=|...|+..+.       ....|+|+|+|+
T Consensus         3 i~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~f~   36 (37)
T PF13719_consen    3 ITCPNCQTRFRVPDDKLPAGGRKVRCPKCGHVFR   36 (37)
T ss_pred             EECCCCCceEEcCHHHcccCCcEEECCCCCcEee
Confidence            468889888886543       345677999885

>COG4803 Predicted membrane protein [Function unknown]

Probab=81.90  E-value=0.3  Score=40.11  Aligned_cols=38  Identities=39%  Similarity=0.581  Sum_probs=25.4

Q ss_pred             HHHHHHHHHHHhhccc---ccccchhhhhhhhhHhhHHhhh
Q 026690           52 VGTLLGAMTGALIGQE---TESGFVRGAAVGAISGAVFSIE   89 (235)
Q Consensus        52 ~g~~~ga~~ga~~g~~---~~~g~~~ga~~gai~gav~s~e   89 (235)
                      +|++-|++-|.++|+-   -=-|+.-||+.||++|++.=+-
T Consensus        60 aGa~sGafWG~LiGllFl~Pl~G~avGAa~GAl~g~l~DvG  100 (170)
T COG4803          60 AGAVSGAFWGMLIGLLFLNPLLGMAVGAASGALSGSLTDVG  100 (170)
T ss_pred             hccccccHHHHHHHHHHHhHHHHHHHHHhhhhhccceeecC
Confidence            3666677777777754   3346666788888888775443

>PRK11677 hypothetical protein; Provisional

Probab=81.30  E-value=1.2  Score=35.86  Aligned_cols=26  Identities=23%  Similarity=0.456  Sum_probs=22.1

Q ss_pred             HHHHHHHHHHHHHHHHhhcccccccc
Q 026690           47 FFFALVGTLLGAMTGALIGQETESGF   72 (235)
Q Consensus        47 ~~fa~~g~~~ga~~ga~~g~~~~~g~   72 (235)
                      -++|++|.++|+|+|+++++.+..+.
T Consensus         3 W~~a~i~livG~iiG~~~~R~~~~~~   28 (134)
T PRK11677          3 WEYALIGLVVGIIIGAVAMRFGNRKL   28 (134)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhccchh
Confidence            35788999999999999999877665

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	235
2ect_A	78	Solution Structure Of The Zinc Finger, C3hc4 Type (		1e-10
2l0b_A	91	Solution Nmr Structure Of Zinc Finger Domain Of E3		2e-10
1iym_A	55	Ring-H2 Finger Domain Of El5 Length = 55		9e-10
2kiz_A	69	Solution Structure Of Arkadia Ring-H2 Finger Domain		4e-09
1x4j_A	75	Solution Structure Of Ring Finger In Ring Finger Pr		7e-09
2ep4_A	74	Solution Structure Of Ring Finger From Human Ring F		1e-04

>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 = 62.8 bits (151), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 26/51 (50%), Positives = 34/51 (66%), Gaps = 1/51 (1%)
Query: 185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235
           G  + C VC +D+ LGE+ R LP C+H+FH  CI  WL  H SCP+CR+ L
Sbjct: 13  GSGLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSL 62

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

Iteration: 1
 Score = 62.8 bits (151), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 27/70 (38%), Positives = 43/70 (61%), Gaps = 3/70 (4%)
Query: 163 TGESVDKIPKITITDKNNIDASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWL 222
           + ES+D +P+I +T+ +   A G+ + C +C  ++  G+ A  LP CHH FH PC+  WL
Sbjct: 18  SKESIDALPEILVTEDHG--AVGQEMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWL 74
Query: 223 LGHASCPLCR 232
               +CP+CR
Sbjct: 75  QKSGTCPVCR 84

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

Iteration: 1
 Score = 60.5 bits (145), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 26/50 (52%), Positives = 33/50 (66%)
Query: 183 ASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCR 232
           A  + V C+VCL + + GE AR LP C H FH  C+D WL  H++CPLCR
Sbjct: 1   AMDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCR 50

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

Iteration: 1
 Score = 58.2 bits (139), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 21/46 (45%), Positives = 31/46 (67%), Gaps = 1/46 (2%)
Query: 190 CSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235
           C++CL   + GE  R LP C H+FH  C+D+WL+ +  CP+CR D+
Sbjct: 17  CTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDI 61

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

Iteration: 1
 Score = 57.4 bits (137), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 23/49 (46%), Positives = 32/49 (65%), Gaps = 1/49 (2%)
Query: 186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD 234
           E+  C VC+ DF+  +  R LP C+H FH  C+DKWL  + +CP+CR D
Sbjct: 22  EQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICRAD 69

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

Iteration: 1
 Score = 43.1 bits (100), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 19/42 (45%), Positives = 24/42 (57%), Gaps = 1/42 (2%)
Query: 190 CSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLC 231
           C+VCL+DF+  +     P C H FH  C+ KWL     CPLC
Sbjct: 18  CAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLC 58

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	235
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	1e-28
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	9e-27
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	8e-26
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	1e-24
2ect_A	78	Ring finger protein 126; metal binding protein, st	1e-23
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	5e-21
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	1e-17
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	2e-17
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	4e-16
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	3e-13
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	4e-13
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	4e-12
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	6e-12
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	7e-12
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	9e-12
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	2e-10
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	5e-09
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	2e-08
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	2e-08
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	3e-08
4epo_C	149	E3 ubiquitin-protein ligase RNF8; coiled-coil, E3	4e-08
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	4e-08
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	5e-08
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	2e-07
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	3e-07
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	3e-07
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	1e-06
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	3e-05
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	1e-06
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	5e-06
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	5e-06
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	2e-05
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	2e-05
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	3e-05
3nw0_A	238	Non-structural maintenance of chromosomes element	5e-05
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	5e-05
1z6u_A	150	NP95-like ring finger protein isoform B; structura	1e-04
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	1e-04
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	2e-04

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

 Score =  102 bits (257), Expect = 1e-28
 Identities = 27/84 (32%), Positives = 45/84 (53%), Gaps = 3/84 (3%)

Query: 152 NIFDTGLSKGLTGESVDKIPKITITDKNNIDASGERVSCSVCLQDFQLGETARSLPHCHH 211
           +      +   + ES+D +P+I +T+ +   A G+ + C +C  ++  G+ A  LP CHH
Sbjct: 7   HHSHMVANPPASKESIDALPEILVTEDH--GAVGQEMCCPICCSEYVKGDVATELP-CHH 63

Query: 212 MFHIPCIDKWLLGHASCPLCRRDL 235
            FH PC+  WL    +CP+CR   
Sbjct: 64  YFHKPCVSIWLQKSGTCPVCRCMF 87

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

 Score = 96.9 bits (242), Expect = 9e-27
 Identities = 26/53 (49%), Positives = 34/53 (64%)

Query: 183 ASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235
           A  + V C+VCL + + GE AR LP C H FH  C+D WL  H++CPLCR  +
Sbjct: 1   AMDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

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

 Score = 95.1 bits (237), Expect = 8e-26
 Identities = 25/73 (34%), Positives = 38/73 (52%), Gaps = 4/73 (5%)

Query: 163 TGESVDKIPKITITDKNNIDASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWL 222
           +  S  ++P          +   E+  C VC+ DF+  +  R LP C+H FH  C+DKWL
Sbjct: 2   SSGSSGQLPSYRFNPN---NHQSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWL 57

Query: 223 LGHASCPLCRRDL 235
             + +CP+CR D 
Sbjct: 58  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 = 91.7 bits (228), Expect = 1e-24
 Identities = 22/59 (37%), Positives = 32/59 (54%), Gaps = 1/59 (1%)

Query: 177 DKNNIDASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235
           D            C++CL   + GE  R LP C H+FH  C+D+WL+ +  CP+CR D+
Sbjct: 4   DGEEGTEEDTEEKCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDI 61

>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 = 89.4 bits (222), Expect = 1e-23
 Identities = 26/51 (50%), Positives = 34/51 (66%), Gaps = 1/51 (1%)

Query: 185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235
           G  + C VC +D+ LGE+ R LP C+H+FH  CI  WL  H SCP+CR+ L
Sbjct: 13  GSGLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSL 62

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

 Score = 82.5 bits (204), Expect = 5e-21
 Identities = 19/47 (40%), Positives = 25/47 (53%), Gaps = 1/47 (2%)

Query: 189 SCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235
            C+VCL+DF+  +     P C H FH  C+ KWL     CPLC   +
Sbjct: 17  LCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPV 62

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

 Score = 74.2 bits (182), Expect = 1e-17
 Identities = 13/46 (28%), Positives = 22/46 (47%)

Query: 190 CSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235
           C  C  + +  +       C+H FH  C+  W+  +  CPLC++D 
Sbjct: 29  CLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDW 74

>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 = 72.7 bits (179), Expect = 2e-17
 Identities = 14/53 (26%), Positives = 20/53 (37%)

Query: 183 ASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235
            S     C +CL+D         +  C H+ H  C ++ L     CPLC    
Sbjct: 1   GSSGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPS 53

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

 Score = 69.7 bits (171), Expect = 4e-16
 Identities = 17/56 (30%), Positives = 24/56 (42%), Gaps = 5/56 (8%)

Query: 180 NIDASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235
            +    +   C +C+           LP C H F   CIDKW   H +CP+CR  +
Sbjct: 8   RVKQLTDEEECCICMDGRAD----LILP-CAHSFCQKCIDKWSDRHRNCPICRLQM 58

>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 = 63.0 bits (153), Expect = 3e-13
 Identities = 19/60 (31%), Positives = 30/60 (50%), Gaps = 4/60 (6%)

Query: 177 DKNNIDASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLL-GHASCPLCRRDL 235
           D+ ++++  E   C +C++  +    AR  PHC  +    CI +WL    A CP CR  L
Sbjct: 12  DEQSVESIAEVFRCFICMEKLR---DARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPL 68

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

 Score = 61.7 bits (150), Expect = 4e-13
 Identities = 16/46 (34%), Positives = 26/46 (56%), Gaps = 3/46 (6%)

Query: 190 CSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235
           C +CL+D      + +LP C H F   CI +W+  + +CPLC+  +
Sbjct: 8   CPICLEDP--SNYSMALP-CLHAFCYVCITRWIRQNPTCPLCKVPV 50

>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 = 59.8 bits (144), Expect = 4e-12
 Identities = 14/45 (31%), Positives = 18/45 (40%)

Query: 190 CSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD 234
           C          E   +   C+H FH  CI +WL     CPL  R+
Sbjct: 54  CQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNRE 98

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

 Score = 58.2 bits (141), Expect = 6e-12
 Identities = 15/54 (27%), Positives = 23/54 (42%), Gaps = 3/54 (5%)

Query: 185 GERVSCSVCLQDFQLGETARSLP---HCHHMFHIPCIDKWLLGHASCPLCRRDL 235
           G  VSC +C+  +        L     C H+F   C+   L    +CP CR+ +
Sbjct: 1   GAMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 54

>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 = 59.5 bits (143), Expect = 7e-12
 Identities = 14/45 (31%), Positives = 18/45 (40%)

Query: 190 CSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD 234
           C          E   +   C+H FH  CI +WL     CPL  R+
Sbjct: 65  CQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNRE 109

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

 Score = 58.0 bits (140), Expect = 9e-12
 Identities = 16/52 (30%), Positives = 24/52 (46%), Gaps = 5/52 (9%)

Query: 188 VSCSVCLQDF----QLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235
           VSC +C+  +    Q G    S   C H+F   C+   L    +CP CR+ +
Sbjct: 16  VSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKI 66

>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 = 54.5 bits (131), Expect = 2e-10
 Identities = 16/52 (30%), Positives = 24/52 (46%), Gaps = 5/52 (9%)

Query: 188 VSCSVCLQDF----QLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235
           VSC +C+  +    Q G    S   C H+F   C+   L    +CP CR+ +
Sbjct: 11  VSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKI 61

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

 Score = 50.6 bits (121), Expect = 5e-09
 Identities = 17/57 (29%), Positives = 24/57 (42%), Gaps = 4/57 (7%)

Query: 179 NNIDASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235
            N   S     C++CLQ         SLP C H+F   C+         C LCR+++
Sbjct: 7   GNTAPSLTVPECAICLQTCV---HPVSLP-CKHVFCYLCVKGASWLGKRCALCRQEI 59

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

 Score = 49.8 bits (119), Expect = 2e-08
 Identities = 14/50 (28%), Positives = 22/50 (44%), Gaps = 3/50 (6%)

Query: 186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235
           + + C +C + F     A  +P C H +   CI K+L     CP C   +
Sbjct: 21  DLLRCGICFEYFN---IAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTV 67

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

 Score = 48.6 bits (116), Expect = 2e-08
 Identities = 12/50 (24%), Positives = 18/50 (36%), Gaps = 3/50 (6%)

Query: 186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235
             + CS+C         A ++  C H F   CI +       CP C   +
Sbjct: 14  PYILCSICKGYLI---DATTITECLHTFCKSCIVRHFYYSNRCPKCNIVV 60

>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 = 49.4 bits (118), Expect = 3e-08
 Identities = 13/50 (26%), Positives = 21/50 (42%), Gaps = 3/50 (6%)

Query: 186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235
             + C +C   F     A ++  C H F   CI ++L     CP+C   +
Sbjct: 14  PHLMCVLCGGYFI---DATTIIECLHSFCKTCIVRYLETSKYCPICDVQV 60

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

 Score = 50.0 bits (119), Expect = 4e-08
 Identities = 15/54 (27%), Positives = 25/54 (46%), Gaps = 4/54 (7%)

Query: 182 DASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235
           D     + C +C + F          +C H F   CI++W+     CP+CR+D+
Sbjct: 59  DVLENELQCIICSEYFIEA----VTLNCAHSFCSYCINEWMKRKIECPICRKDI 108

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

 Score = 48.0 bits (114), Expect = 4e-08
 Identities = 13/49 (26%), Positives = 20/49 (40%), Gaps = 5/49 (10%)

Query: 189 SCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHAS--CPLCRRDL 235
            C++C      G   +S   C    H+PC+ K+   +A   CP C    
Sbjct: 17  ICNICHSLLIQG---QSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYW 62

>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 = 51.7 bits (123), Expect = 5e-08
 Identities = 18/109 (16%), Positives = 34/109 (31%), Gaps = 7/109 (6%)

Query: 130 PAMLSAVQSQMGAVEVSFDEAPNIFDT--GLSKGLTGESVDKIPKITITDKNNIDASGER 187
           P      Q+ +      F   P+  +    L+        D I       +   +     
Sbjct: 273 PHNKPLFQALIDGFREGFYLFPDGRNQNPDLTGLCEPTPQDHIKVTQEQYELYCEMGSTF 332

Query: 188 VSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHA-SCPLCRRDL 235
             C +C ++ +     +  P C H+    C+  W       CP CR ++
Sbjct: 333 QLCKICAENDK---DVKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEI 377

>1v87_A Deltex protein 2; ring-H2 domain, zinc-binding domain, notch signaling, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: g.44.1.1 Length = 114

 Score = 47.5 bits (112), Expect = 2e-07
 Identities = 20/94 (21%), Positives = 29/94 (30%), Gaps = 24/94 (25%)

Query: 159 SKGLTGESVDKIPKITITDKNNIDASGERVSCSVCLQDFQLG--------------ETAR 204
           S G +GE    I K T   K   +       C +C++   +                   
Sbjct: 2   SSGSSGEPEQVIRKYTEELKVAPEED-----CIICMEKLAVASGYSDMTDSKALGPMVVG 56

Query: 205 SLPHCHHMFHIPCIDKWL-----LGHASCPLCRR 233
            L  C H FH+ C+          G   CP C+ 
Sbjct: 57  RLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKT 90

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

 Score = 46.0 bits (109), Expect = 3e-07
 Identities = 10/46 (21%), Positives = 15/46 (32%), Gaps = 4/46 (8%)

Query: 189 SCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD 234
            C +C Q F        +  C H F   C  +       C +C + 
Sbjct: 17  RCFICRQAF----QNPVVTKCRHYFCESCALEHFRATPRCYICDQP 58

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

 Score = 49.5 bits (117), Expect = 3e-07
 Identities = 15/85 (17%), Positives = 27/85 (31%), Gaps = 16/85 (18%)

Query: 167 VDKIPKITITDKNNIDA-SGERVSCSVCLQDFQLGETARSL----PHCHHMFHIPCIDKW 221
           +   P    +D   +D    E + C++C      G     +      C    H  C+++W
Sbjct: 287 LCYFPMPDWSDGPKLDEEDNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEW 346

Query: 222 L-----------LGHASCPLCRRDL 235
                       +    CP C+  L
Sbjct: 347 FKTLMDGKTFLEVSFGQCPFCKAKL 371

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

 Score = 45.5 bits (107), Expect = 1e-06
 Identities = 14/55 (25%), Positives = 22/55 (40%), Gaps = 3/55 (5%)

Query: 184 SGERVSCSVCLQDFQLGETARSLP---HCHHMFHIPCIDKWLLGHASCPLCRRDL 235
               VSC +C+  +        L     C H+F   C+   L    +CP CR+ +
Sbjct: 4   GSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 58

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

 Score = 41.7 bits (97), Expect = 3e-05
 Identities = 14/51 (27%), Positives = 21/51 (41%), Gaps = 3/51 (5%)

Query: 186 ERVSCSVCLQDFQLGETARSLPH---CHHMFHIPCIDKWLLGHASCPLCRR 233
             VSC +C+  +        L     C H+F   C+   L    +CP CR+
Sbjct: 71  GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRK 121

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

 Score = 44.0 bits (104), Expect = 1e-06
 Identities = 12/47 (25%), Positives = 18/47 (38%), Gaps = 5/47 (10%)

Query: 189 SCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLL--GHASCPLCRR 233
            C +C         A  +P C + +   CI   LL     +CP C +
Sbjct: 17  LCLICKDIMT---DAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQ 60

>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 = 43.8 bits (103), Expect = 5e-06
 Identities = 16/72 (22%), Positives = 23/72 (31%), Gaps = 5/72 (6%)

Query: 165 ESVDKIPKITITDKNNIDASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWL-L 223
            S+   P      +  +    E   C  C +         +   C H     C+D+    
Sbjct: 30  ASLKDRPASGSPFQLFLSKVEETFQCICCQELVF---RPITTV-CQHNVCKDCLDRSFRA 85

Query: 224 GHASCPLCRRDL 235
              SCP CR DL
Sbjct: 86  QVFSCPACRYDL 97

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

 Score = 43.4 bits (102), Expect = 5e-06
 Identities = 11/47 (23%), Positives = 18/47 (38%), Gaps = 5/47 (10%)

Query: 186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCR 232
           + + CS C    +       L  C H+F   C+   +     CP+C 
Sbjct: 21  KLLRCSRCTNILR---EPVCLGGCEHIFCSNCVSDCI--GTGCPVCY 62

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

 Score = 40.8 bits (96), Expect = 2e-05
 Identities = 17/57 (29%), Positives = 27/57 (47%), Gaps = 3/57 (5%)

Query: 180 NIDASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWL---LGHASCPLCRR 233
           N+DA  E + C +C++ F   +    L HC H     C++K L   +    CP C +
Sbjct: 8   NLDALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSK 64

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

 Score = 41.3 bits (97), Expect = 2e-05
 Identities = 12/50 (24%), Positives = 20/50 (40%), Gaps = 5/50 (10%)

Query: 186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLL--GHASCPLCRR 233
           + + C +C         A  +P C + +   CI   LL     +CP C +
Sbjct: 12  DELLCLICKDIMT---DAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQ 58

>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 = 3e-05
 Identities = 15/51 (29%), Positives = 21/51 (41%), Gaps = 4/51 (7%)

Query: 186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWL-LGHASCPLCRRDL 235
             + C +CL   +      +   C H F   CI   L  G+  CP CR+ L
Sbjct: 53  SELMCPICLDMLK---NTMTTKECLHRFCADCIITALRSGNKECPTCRKKL 100

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

 Score = 42.0 bits (98), Expect = 5e-05
 Identities = 12/48 (25%), Positives = 20/48 (41%), Gaps = 5/48 (10%)

Query: 190 CSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHAS--CPLCRRDL 235
           C++C      G++      C    H+PC+ K+   +A   CP C    
Sbjct: 183 CNICHSLLIQGQS---CETCGIRMHLPCVAKYFQSNAEPRCPHCNDYW 227

>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 = 40.7 bits (95), Expect = 5e-05
 Identities = 13/51 (25%), Positives = 20/51 (39%), Gaps = 5/51 (9%)

Query: 186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWL-LGHASCPLCRRDL 235
               C +C++         +LP C+H    PC    +      CP CRR +
Sbjct: 14  SECQCGICMEILV---EPVTLP-CNHTLCKPCFQSTVEKASLCCPFCRRRV 60

>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 = 1e-04
 Identities = 12/51 (23%), Positives = 17/51 (33%), Gaps = 5/51 (9%)

Query: 186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWL-LGHASCPLCRRDL 235
           +   C  C +         +   C H     C+ +       SCP CR DL
Sbjct: 77  QSFMCVCCQELVY---QPVTTE-CFHNVCKDCLQRSFKAQVFSCPACRHDL 123

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

 Score = 38.5 bits (89), Expect = 1e-04
 Identities = 11/54 (20%), Positives = 22/54 (40%), Gaps = 1/54 (1%)

Query: 182 DASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLL-GHASCPLCRRD 234
           DA  + V C +C++  ++ +       C +     C  +     +  CP CR+ 
Sbjct: 6   DAKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKP 59

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

 Score = 37.7 bits (88), Expect = 2e-04
 Identities = 10/50 (20%), Positives = 20/50 (40%), Gaps = 7/50 (14%)

Query: 186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235
           + + C  C  +    +  + LP C H     C++   +    CP+C+   
Sbjct: 5   QFLRCQQCQAEA---KCPKLLP-CLHTLCSGCLEASGM---QCPICQAPW 47

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	235
2l0b_A	91	E3 ubiquitin-protein ligase praja-1; zinc finger,	99.77
1x4j_A	75	Ring finger protein 38; structural genomics, NPPSF	99.72
1iym_A	55	EL5; ring-H2 finger, ubiquitin ligase, DNA binding	99.67
2kiz_A	69	E3 ubiquitin-protein ligase arkadia; ring-H2 finge	99.64
2ep4_A	74	Ring finger protein 24; zinc binding, ubiquitin, E	99.63
2ecl_A	81	Ring-box protein 2; RNF7, ring domian, zinc-bindin	99.61
2ect_A	78	Ring finger protein 126; metal binding protein, st	99.61
2ecm_A	55	Ring finger and CHY zinc finger domain- containing	99.55
2ea6_A	69	Ring finger protein 4; RNF4, RES4-26, ring domain,	99.53
3dpl_R	106	Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST	99.52
3ng2_A	71	RNF4, snurf, ring finger protein 4; ring domain, E	99.51
1v87_A	114	Deltex protein 2; ring-H2 domain, zinc-binding dom	99.5
2xeu_A	64	Ring finger protein 4; transcription, zinc-finger,	99.49
2d8t_A	71	Dactylidin, ring finger protein 146; RNF146, ring	99.48
4a0k_B	117	E3 ubiquitin-protein ligase RBX1; ligase-DNA-bindi	99.47
2d8s_A	80	Cellular modulator of immune recognition; C-MIR, m	99.46
2djb_A	72	Polycomb group ring finger protein 6; PCGF6, ring	99.46
1chc_A	68	Equine herpes virus-1 ring domain; viral protein;	99.46
2ecn_A	70	Ring finger protein 141; RNF141, ring domain, zinc	99.45
2ct2_A	88	Tripartite motif protein 32; zinc-finger protein H	99.44
2csy_A	81	Zinc finger protein 183-like 1; ring finger protei	99.43
2ysl_A	73	Tripartite motif-containing protein 31; ring-type	99.41
2yur_A	74	Retinoblastoma-binding protein 6; P53-associated c	99.39
2ecy_A	66	TNF receptor-associated factor 3; metal binding pr	99.39
4ayc_A	138	E3 ubiquitin-protein ligase RNF8; DNA damage, K63	99.39
1t1h_A	78	Gspef-atpub14, armadillo repeat containing protein	99.34
2ecw_A	85	Tripartite motif-containing protein 30; metal bind	99.33
2ysj_A	63	Tripartite motif-containing protein 31; ring-type	99.33
3lrq_A	100	E3 ubiquitin-protein ligase TRIM37; structural gen	99.32
2egp_A	79	Tripartite motif-containing protein 34; ZF-C3HC4 d	99.31
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.31
2ecv_A	85	Tripartite motif-containing protein 5; metal bindi	99.31
2y43_A	99	E3 ubiquitin-protein ligase RAD18; DNA repair, met	99.3
3ztg_A	92	E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mR	99.29
2ecj_A	58	Tripartite motif-containing protein 39; TRIM39, ri	99.29
2ckl_A	108	Polycomb group ring finger protein 4; BMI1, RING1B	99.27
1g25_A	65	CDK-activating kinase assembly factor MAT1; ring f	99.26
2ct0_A	74	Non-SMC element 1 homolog; ring domain, structural	99.26
3fl2_A	124	E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA	99.25
2ckl_B	165	Ubiquitin ligase protein RING2; BMI1, RING1B, poly	99.24
4ap4_A	133	E3 ubiquitin ligase RNF4; ligase-signalling protei	99.24
1jm7_A	112	BRCA1, breast cancer type 1 susceptibility protein	99.18
3hct_A	118	TNF receptor-associated factor 6; cross-brace, bet	99.18
3l11_A	115	E3 ubiquitin-protein ligase RNF168; E3 ligase, rin	99.17
2kr4_A	85	Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ri	99.15
2kre_A	100	Ubiquitin conjugation factor E4 B; U-box domain, E	99.15
1z6u_A	150	NP95-like ring finger protein isoform B; structura	99.14
1rmd_A	116	RAG1; V(D)J recombination, antibody, MAD, ring fin	99.13
2vje_A	64	E3 ubiquitin-protein ligase MDM2; proto-oncogene,	99.11
1wgm_A	98	Ubiquitin conjugation factor E4A; ubiquitinating e	99.1
1bor_A	56	Transcription factor PML; proto-oncogene, nuclear	99.08
2vje_B	63	MDM4 protein; proto-oncogene, phosphorylation, alt	99.06
1e4u_A	78	Transcriptional repressor NOT4; gene regulation, t	99.06
2y1n_A	389	E3 ubiquitin-protein ligase; ligase-transferase co	99.05
3knv_A	141	TNF receptor-associated factor 2; cross-brace, alt	99.04
1jm7_B	117	BARD1, BRCA1-associated ring domain protein 1; rin	98.99
3k1l_B	381	Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A	98.98
4ic3_A	74	E3 ubiquitin-protein ligase XIAP; ring domain, zin	98.96
3hcs_A	170	TNF receptor-associated factor 6; cross-brace, bet	98.91
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.91
2yu4_A	94	E3 SUMO-protein ligase NSE2; SP-ring domain, struc	98.89
1vyx_A	60	ORF K3, K3RING; zinc-binding protein, ring domain,	98.87
2ea5_A	68	Cell growth regulator with ring finger domain prot	98.8
2ecg_A	75	Baculoviral IAP repeat-containing protein 4; BIRC4	98.78
1wim_A	94	KIAA0161 protein; ring finger domain, UBCM4-intera	98.74
2f42_A	179	STIP1 homology and U-box containing protein 1; cha	98.73
2yho_A	79	E3 ubiquitin-protein ligase mylip; ligase, E2 liga	98.66
2bay_A	61	PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin l	98.59
3t6p_A	345	Baculoviral IAP repeat-containing protein 2; ring,	98.51
3htk_C	267	E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-	98.47
3vk6_A	101	E3 ubiquitin-protein ligase hakai; HYB, phosphotyr	98.3
3nw0_A	238	Non-structural maintenance of chromosomes element	98.08
2lri_C	66	Autoimmune regulator; Zn binding protein domain, a	95.74
2jun_A	101	Midline-1; B-BOX, TRIM, ring finger, alternative s	95.65
2ko5_A	99	Ring finger protein Z; lassa fever virus-Z, negati	95.64
1wil_A	89	KIAA1045 protein; ring finger domain, structural g	94.74
1we9_A	64	PHD finger family protein; structural genomics, PH	94.7
2l5u_A	61	Chromodomain-helicase-DNA-binding protein 4; CHD4,	94.35
1f62_A	51	Transcription factor WSTF; Zn-finger; NMR {Homo sa	93.01
1mm2_A	61	MI2-beta; PHD, zinc finger, protein scaffold, DNA	92.92
1wep_A	79	PHF8; structural genomics, PHD domain, riken struc	91.48
2k16_A	75	Transcription initiation factor TFIID subunit 3; p	91.26
2yql_A	56	PHD finger protein 21A; PHD domain, structural gen	91.21
2lv9_A	98	Histone-lysine N-methyltransferase MLL5; zinc fing	90.85
2kgg_A	52	Histone demethylase jarid1A; PHD finger, histone m	90.75
2vpb_A	65	Hpygo1, pygopus homolog 1; gene regulation, WNT si	90.62
2ysm_A	111	Myeloid/lymphoid or mixed-lineage leukemia protein	89.85
3o70_A	68	PHD finger protein 13; PHF13, structural genomics	89.39
2lbm_A	142	Transcriptional regulator ATRX; metal binding prot	88.95
1xwh_A	66	Autoimmune regulator; PHD domain, Zn binding domai	88.8
1fp0_A	88	KAP-1 corepressor; PHD domain, C3HC4 type zinc bin	88.24
2puy_A	60	PHD finger protein 21A; PHD finger, histone CODE,	88.04
2e6r_A	92	Jumonji/ARID domain-containing protein 1D; PHD dom	87.94
3m62_A	968	Ubiquitin conjugation factor E4; armadillo-like re	87.63
3v43_A	112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	87.47
1wen_A	71	Inhibitor of growth family, member 4; ING1-like pr	87.34
1wee_A	72	PHD finger family protein; structural genomics, PH	86.18
3v43_A	112	Histone acetyltransferase KAT6A; MOZ, PHD finger,	85.96
1weu_A	91	Inhibitor of growth family, member 4; structural g	85.84
3ql9_A	129	Transcriptional regulator ATRX; zinc finger, trans	85.73
1wem_A	76	Death associated transcription factor 1; structura	85.49
1wew_A	78	DNA-binding family protein; structural genomics, P	85.38
2ku3_A	71	Bromodomain-containing protein 1; PHD finger, chro	84.9
2l43_A	88	N-teminal domain from histone H3.3, linker, PHD1 f	84.81
2xb1_A	105	Pygopus homolog 2, B-cell CLL/lymphoma 9-like Pro;	84.8
2yt5_A	66	Metal-response element-binding transcription facto	83.01
2rsd_A	68	E3 SUMO-protein ligase SIZ1; E3 SUMO ligase, plant	82.85
3shb_A	77	E3 ubiquitin-protein ligase UHRF1; unmodified hist	82.65
2e6s_A	77	E3 ubiquitin-protein ligase UHRF2; PHD domain, str	82.46
1wev_A	88	Riken cDNA 1110020M19; structural genomics, PHD do	81.6
3asl_A	70	E3 ubiquitin-protein ligase UHRF1; histone reader	81.5
2cs3_A	93	Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, s	81.06
2kwj_A	114	Zinc finger protein DPF3; acetyl-lysine, transcrip	80.98
2jne_A	101	Hypothetical protein YFGJ; zinc fingers, two zinc,	80.22

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

Probab=99.77  E-value=5e-19  Score=131.59  Aligned_cols=80  Identities=34%  Similarity=0.819  Sum_probs=68.8

Q ss_pred             ccccCCCCCCCHHHHhcCCceeeccCCCcCCCCCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCcc
Q 026690          153 IFDTGLSKGLTGESVDKIPKITITDKNNIDASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCR  232 (235)
Q Consensus       153 ~~~~~~~~gls~~~i~~lp~~~~~~~~~~~~~~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR  232 (235)
                      .......++++++.++++|...++....  ..+++..|+||+++|..++.++.+| |+|.||..||++|++++.+||+||
T Consensus         8 ~~~~~~~~~~s~~~i~~lp~~~~~~~~~--~~~~~~~C~IC~~~~~~~~~~~~l~-C~H~Fh~~Ci~~wl~~~~~CP~Cr   84 (91)
T 2l0b_A            8 HSHMVANPPASKESIDALPEILVTEDHG--AVGQEMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGTCPVCR   84 (91)
T ss_dssp             SCCSSCCCCCCHHHHHTSCEEECCTTCS--SSSSCSEETTTTEECCTTCEEEEET-TTEEEEHHHHHHHHTTTCBCTTTC
T ss_pred             CCCCcCCCCCCHHHHHhCCCeeeccccc--ccCCCCCCcccChhhcCCCcEEecC-CCChHHHHHHHHHHHcCCcCcCcC
Confidence            3445678899999999999998876432  2345678999999999999999999 999999999999999999999999


Q ss_pred             CCC
Q 026690          233 RDL  235 (235)
Q Consensus       233 ~~v  235 (235)
                      +++
T Consensus        85 ~~~   87 (91)
T 2l0b_A           85 CMF   87 (91)
T ss_dssp             CBS
T ss_pred             ccC
Confidence            865

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

Probab=99.72  E-value=1.7e-18  Score=123.71  Aligned_cols=67  Identities=39%  Similarity=0.895  Sum_probs=56.9

Q ss_pred             HHHhcCCceeeccCCCcCCCCCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          165 ESVDKIPKITITDKNNIDASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       165 ~~i~~lp~~~~~~~~~~~~~~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      +.++++|..+++...   ...++..|+||+++|..++.++.+| |+|.||..||++|++++.+||+||+++
T Consensus         4 ~~i~~lp~~~~~~~~---~~~~~~~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~w~~~~~~CP~Cr~~~   70 (75)
T 1x4j_A            4 GSSGQLPSYRFNPNN---HQSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICRADS   70 (75)
T ss_dssp             CCCSSCCCEEBCSSS---CSSSCCEETTTTEECCBTCEEEEET-TTEEEETTHHHHHHHHCSSCTTTCCCC
T ss_pred             hhHhhCCcEEecCcc---ccCCCCCCeECCcccCCCCeEEEEC-CCCHhHHHHHHHHHHcCCcCcCcCCcC
Confidence            456678888876542   2345578999999999999999999 999999999999999999999999875

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

Probab=99.67  E-value=3.1e-17  Score=110.06  Aligned_cols=51  Identities=49%  Similarity=1.107  Sum_probs=46.8

Q ss_pred             CCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      +++.+|+||++++..++.+..+|.|+|.||..||.+|++++.+||+||+++
T Consensus         3 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Ci~~w~~~~~~CP~Cr~~~   53 (55)
T 1iym_A            3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV   53 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCS
T ss_pred             CCCCcCccCCccccCCCceEECCCCCCcccHHHHHHHHHcCCcCcCCCCEe
Confidence            345789999999999999999988999999999999999999999999875

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

Probab=99.64  E-value=1.9e-16  Score=111.10  Aligned_cols=51  Identities=41%  Similarity=1.094  Sum_probs=46.3

Q ss_pred             CCCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          184 SGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       184 ~~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      ..++..|+||++.|..++.++.+| |+|.||..||.+|++++.+||+||.++
T Consensus        11 ~~~~~~C~IC~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~   61 (69)
T 2kiz_A           11 EDTEEKCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDI   61 (69)
T ss_dssp             TTCCCSBTTTTBCCCSSSCEEECT-TSCEEEHHHHHHHHHHCSBCTTTCSBS
T ss_pred             CCCCCCCeeCCccccCCCcEEEeC-CCCHHHHHHHHHHHHcCCCCcCcCccc
Confidence            344578999999999888899999 999999999999999999999999864

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

Probab=99.63  E-value=2e-16  Score=112.37  Aligned_cols=50  Identities=38%  Similarity=0.858  Sum_probs=46.0

Q ss_pred             CCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      .++..|+||+++|..++.+..+| |+|.||..||.+|++++.+||+||+++
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~-C~H~f~~~Ci~~~~~~~~~CP~Cr~~~   62 (74)
T 2ep4_A           13 NLHELCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPV   62 (74)
T ss_dssp             CCSCBCSSSCCBCCSSSCEEEET-TTEEEEHHHHHHHHHHCSBCTTTCCBC
T ss_pred             CCCCCCcCCCcccCCCCcEEEcC-CCCEecHHHHHHHHHcCCcCCCcCccc
Confidence            44578999999999988898999 999999999999999999999999875

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

Probab=99.61  E-value=2.8e-16  Score=114.38  Aligned_cols=49  Identities=27%  Similarity=0.727  Sum_probs=40.6

Q ss_pred             CccCcccccccc-----------CCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          187 RVSCSVCLQDFQ-----------LGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       187 ~~~C~ICle~f~-----------~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      +..|+||+++|.           .++.++.+|.|+|.||..||++||+++++||+||+++
T Consensus        15 ~~~C~IC~~~~~~~C~iC~~~~~~~~~~~~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR~~~   74 (81)
T 2ecl_A           15 CDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDW   74 (81)
T ss_dssp             CSCBTTTTBCTTSCCTTHHHHTCTTTCCEEEETTSCEEEHHHHHHHTTTCCBCTTTCCBC
T ss_pred             CCCCcccChhhhccCcccccccCCCceEEEeCCCCCccChHHHHHHHHhCCCCCCcCCCc
Confidence            456777777775           4566777777999999999999999999999999874

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

Probab=99.61  E-value=4.4e-16  Score=111.69  Aligned_cols=51  Identities=51%  Similarity=1.206  Sum_probs=46.2

Q ss_pred             CCCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          184 SGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       184 ~~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      ..++..|+||++.|...+.+..+| |+|.||..||.+|++++.+||+||+++
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~   62 (78)
T 2ect_A           12 VGSGLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSL   62 (78)
T ss_dssp             SSSSCCCTTTTSCCCTTSCEEECT-TSCEEETTTTHHHHTTTCSCTTTCCCC
T ss_pred             CCCCCCCeeCCccccCCCCEEEeC-CCCeecHHHHHHHHHcCCcCcCcCCcc
Confidence            344678999999999888888899 999999999999999999999999875

>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=99.55  E-value=3.3e-15  Score=99.94  Aligned_cols=49  Identities=33%  Similarity=0.794  Sum_probs=42.5

Q ss_pred             CCccCccccccccCCC-ceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          186 ERVSCSVCLQDFQLGE-TARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       186 e~~~C~ICle~f~~ge-~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      ++..|+||++++..++ .+..+| |+|.||..||.+|++++.+||+||+++
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~   53 (55)
T 2ecm_A            4 GSSGCPICLEDIHTSRVVAHVLP-CGHLLHRTCYEEMLKEGYRCPLCSGPS   53 (55)
T ss_dssp             CCCSCTTTCCCCCTTTSCEEECT-TSCEEETTHHHHHHHHTCCCTTSCCSS
T ss_pred             CCCcCcccChhhcCCCcCeEecC-CCCcccHHHHHHHHHcCCcCCCCCCcC
Confidence            3568999999997554 567777 999999999999999999999999875

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

Probab=99.53  E-value=6.8e-15  Score=102.42  Aligned_cols=50  Identities=28%  Similarity=0.702  Sum_probs=42.7

Q ss_pred             CCCccCccccccccCC----CceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          185 GERVSCSVCLQDFQLG----ETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       185 ~e~~~C~ICle~f~~g----e~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      .++..|+||++.+...    +.+..++ |+|.||..||++|++++.+||+||+++
T Consensus        13 ~~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~   66 (69)
T 2ea6_A           13 SGTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKI   66 (69)
T ss_dssp             TCCCCCTTTCCCHHHHTTTTCCEEECS-SSCEEEHHHHHHHHHHCSSCTTTCCCC
T ss_pred             CCCCCCcccCccccccccccCCeEeCC-CCChhcHHHHHHHHHcCCCCCCCCCcc
Confidence            4457899999999853    3346777 999999999999999999999999875

>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=99.52  E-value=4e-15  Score=114.05  Aligned_cols=48  Identities=31%  Similarity=0.645  Sum_probs=41.1

Q ss_pred             CCccCccccccccCCC---------------ceeecCCCCCcccHhhHHHHHhcCCCCCCccCC
Q 026690          186 ERVSCSVCLQDFQLGE---------------TARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD  234 (235)
Q Consensus       186 e~~~C~ICle~f~~ge---------------~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~  234 (235)
                      ++..|+||+++|...-               .++.+| |+|.||..||++||.++.+||+||++
T Consensus        36 ~~d~CaIC~~~~~~~c~~C~~~~~~~~~~~~~~~~~~-C~H~FH~~Ci~~Wl~~~~~CP~Cr~~   98 (106)
T 3dpl_R           36 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNRE   98 (106)
T ss_dssp             CSCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEET-TSCEEEHHHHHHHHTTCSBCSSSCSB
T ss_pred             CCCCCccCChhHhCcCchhhccccccCCccceEeecc-cCcEECHHHHHHHHHcCCcCcCCCCc
Confidence            4568999999998541               255567 99999999999999999999999986

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

Probab=99.51  E-value=5.9e-15  Score=103.55  Aligned_cols=50  Identities=30%  Similarity=0.776  Sum_probs=42.6

Q ss_pred             CCCccCccccccccC----CCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          185 GERVSCSVCLQDFQL----GETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       185 ~e~~~C~ICle~f~~----ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      .++..|+||++.+..    ++.+..++ |+|.||..||++|++++.+||+||.++
T Consensus         8 ~~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~   61 (71)
T 3ng2_A            8 SGTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKI   61 (71)
T ss_dssp             TTCCBCTTTCCBHHHHHTTTCCEEECT-TSCEEEHHHHHHHHHHCSBCTTTCCBC
T ss_pred             CCCCCCcccChhhhccccccCCeEeCC-CCChHhHHHHHHHHHcCCCCCCCCCcc
Confidence            445789999999875    24456777 999999999999999999999999864

>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=99.50  E-value=1.3e-14  Score=111.19  Aligned_cols=48  Identities=25%  Similarity=0.704  Sum_probs=39.2

Q ss_pred             CccCccccccccCCC---------------ceeecCCCCCcccHhhHHHHH-----hcCCCCCCccCCC
Q 026690          187 RVSCSVCLQDFQLGE---------------TARSLPHCHHMFHIPCIDKWL-----LGHASCPLCRRDL  235 (235)
Q Consensus       187 ~~~C~ICle~f~~ge---------------~v~~Lp~C~H~FH~~CI~~WL-----~~~~sCPlCR~~v  235 (235)
                      +..|+||+++|....               .++.+| |+|.||..||++|+     ..+.+||+||..+
T Consensus        25 ~~~C~ICl~~~~~~~~~~~~~~~~~~~~~~~~~~~~-C~H~Fh~~Ci~~wl~~~~~~~~~~CP~CR~~~   92 (114)
T 1v87_A           25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTK-CSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIY   92 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESS-SCCEECHHHHHHHHHHTCCSSCCBCTTTCCBS
T ss_pred             CCcCccCChhhcCcccccccccccccCcccceecCC-CCCcccHHHHHHHHHcccCCCCCcCCCCCCcc
Confidence            458999999997643               233566 99999999999999     4577999999853

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

Probab=99.49  E-value=9.2e-15  Score=100.28  Aligned_cols=49  Identities=29%  Similarity=0.709  Sum_probs=42.0

Q ss_pred             CCccCccccccccCC----CceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          186 ERVSCSVCLQDFQLG----ETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       186 e~~~C~ICle~f~~g----e~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      ++..|+||++.+...    +.+..++ |+|.||..||.+|++++.+||+||.++
T Consensus         2 ~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~   54 (64)
T 2xeu_A            2 AMVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKI   54 (64)
T ss_dssp             CCCBCTTTCCBHHHHHHTTCCEEEET-TSCEEEHHHHHHHHHHCSBCTTTCCBC
T ss_pred             CCCCCCccChhhhCccccCCCEEeCC-CCCchhHHHHHHHHHcCCCCCCCCccC
Confidence            356899999999753    3456777 999999999999999999999999864

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

Probab=99.48  E-value=2.1e-14  Score=101.39  Aligned_cols=47  Identities=32%  Similarity=0.683  Sum_probs=41.5

Q ss_pred             CCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      .++..|+||++.+..   ...+| |+|.||..||.+|+.++.+||+||.++
T Consensus        13 ~~~~~C~IC~~~~~~---~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~   59 (71)
T 2d8t_A           13 LTVPECAICLQTCVH---PVSLP-CKHVFCYLCVKGASWLGKRCALCRQEI   59 (71)
T ss_dssp             SSCCBCSSSSSBCSS---EEEET-TTEEEEHHHHHHCTTCSSBCSSSCCBC
T ss_pred             CCCCCCccCCcccCC---CEEcc-CCCHHHHHHHHHHHHCCCcCcCcCchh
Confidence            445789999999875   56778 999999999999999999999999875

>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=99.47  E-value=2.5e-15  Score=117.20  Aligned_cols=48  Identities=33%  Similarity=0.691  Sum_probs=1.0

Q ss_pred             CCccCccccccccCC-------------C--ceeecCCCCCcccHhhHHHHHhcCCCCCCccCC
Q 026690          186 ERVSCSVCLQDFQLG-------------E--TARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD  234 (235)
Q Consensus       186 e~~~C~ICle~f~~g-------------e--~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~  234 (235)
                      ++..|+||+++|+..             +  .+..++ |+|.||..||++||+++.+||+||++
T Consensus        47 ~~d~CaICl~~~~~~c~~C~~~~~~~~~~~~~v~~~~-C~H~FH~~CI~~Wl~~~~~CP~Cr~~  109 (117)
T 4a0k_B           47 VVDNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNRE  109 (117)
T ss_dssp             CC--------------------------------------------------------------
T ss_pred             CCCcCeECChhhcCcChhhhcccccccccccccccCC-cCceEcHHHHHHHHHcCCcCCCCCCe
Confidence            456899999999752             2  222345 99999999999999999999999986

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

Probab=99.46  E-value=3.3e-14  Score=103.64  Aligned_cols=49  Identities=24%  Similarity=0.743  Sum_probs=41.6

Q ss_pred             CCCccCccccccccCCCceeecCCCC-----CcccHhhHHHHHhcC--CCCCCccCCC
Q 026690          185 GERVSCSVCLQDFQLGETARSLPHCH-----HMFHIPCIDKWLLGH--ASCPLCRRDL  235 (235)
Q Consensus       185 ~e~~~C~ICle~f~~ge~v~~Lp~C~-----H~FH~~CI~~WL~~~--~sCPlCR~~v  235 (235)
                      .++..|+||+++++.++.+ ++| |+     |.||..||++||..+  .+||+||+++
T Consensus        13 ~~~~~C~IC~~~~~~~~~l-~~p-C~C~Gs~h~fH~~Cl~~Wl~~~~~~~CplCr~~~   68 (80)
T 2d8s_A           13 SSQDICRICHCEGDDESPL-ITP-CHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEF   68 (80)
T ss_dssp             TTSCCCSSSCCCCCSSSCE-ECS-SSCCSSSCCEETTHHHHHHHHHCCSBCSSSCCBC
T ss_pred             CCCCCCeEcCccccCCCee-Eec-cccCCcCCeeCHHHHHHHHhhCCCCCCCCCCCee
Confidence            4456899999999877765 588 86     999999999999876  4899999864

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

Probab=99.46  E-value=5e-14  Score=99.65  Aligned_cols=48  Identities=25%  Similarity=0.529  Sum_probs=41.1

Q ss_pred             CCCCccCccccccccCCCceeec-CCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          184 SGERVSCSVCLQDFQLGETARSL-PHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       184 ~~e~~~C~ICle~f~~ge~v~~L-p~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      ..++..|+||++.+..   ...+ + |+|.||..||.+|++.+.+||+||+++
T Consensus        12 ~~~~~~C~IC~~~~~~---p~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~   60 (72)
T 2djb_A           12 LTPYILCSICKGYLID---ATTITE-CLHTFCKSCIVRHFYYSNRCPKCNIVV   60 (72)
T ss_dssp             CCGGGSCTTTSSCCSS---CEECSS-SCCEECHHHHHHHHHHCSSCTTTCCCC
T ss_pred             cCCCCCCCCCChHHHC---cCEECC-CCCHHHHHHHHHHHHcCCcCCCcCccc
Confidence            3446789999999885   4455 6 999999999999999999999999875

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

Probab=99.46  E-value=3.8e-14  Score=98.80  Aligned_cols=47  Identities=34%  Similarity=0.889  Sum_probs=41.0

Q ss_pred             CCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       186 e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      ++..|+||++.+..  .+..+| |+|.||..||.+|++++.+||+||.++
T Consensus         4 ~~~~C~IC~~~~~~--~~~~~~-C~H~fc~~Ci~~~~~~~~~CP~Cr~~~   50 (68)
T 1chc_A            4 VAERCPICLEDPSN--YSMALP-CLHAFCYVCITRWIRQNPTCPLCKVPV   50 (68)
T ss_dssp             CCCCCSSCCSCCCS--CEEETT-TTEEESTTHHHHHHHHSCSTTTTCCCC
T ss_pred             CCCCCeeCCccccC--CcEecC-CCCeeHHHHHHHHHhCcCcCcCCChhh
Confidence            45689999999863  457788 999999999999999999999999864

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

Probab=99.45  E-value=1.6e-14  Score=101.34  Aligned_cols=46  Identities=37%  Similarity=0.908  Sum_probs=40.8

Q ss_pred             CCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      .++..|+||++.+..    ..+| |+|.||..||.+|+.++.+||+||+++
T Consensus        13 ~~~~~C~IC~~~~~~----~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~   58 (70)
T 2ecn_A           13 TDEEECCICMDGRAD----LILP-CAHSFCQKCIDKWSDRHRNCPICRLQM   58 (70)
T ss_dssp             CCCCCCSSSCCSCCS----EEET-TTEEECHHHHHHSSCCCSSCHHHHHCT
T ss_pred             CCCCCCeeCCcCccC----cccC-CCCcccHHHHHHHHHCcCcCCCcCCcc
Confidence            446789999999875    6678 999999999999999999999999864

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

Probab=99.44  E-value=9.1e-14  Score=101.22  Aligned_cols=51  Identities=25%  Similarity=0.684  Sum_probs=43.6

Q ss_pred             CCCCccCccccccccCCCc-eeecCCCCCcccHhhHHHHHhcC---CCCCCccCCC
Q 026690          184 SGERVSCSVCLQDFQLGET-ARSLPHCHHMFHIPCIDKWLLGH---ASCPLCRRDL  235 (235)
Q Consensus       184 ~~e~~~C~ICle~f~~ge~-v~~Lp~C~H~FH~~CI~~WL~~~---~sCPlCR~~v  235 (235)
                      ..+...|+||++.|..++. +..+| |+|.||..||.+|++.+   .+||+||+++
T Consensus        12 ~~~~~~C~IC~~~~~~~~~~~~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~   66 (88)
T 2ct2_A           12 LREVLECPICMESFTEEQLRPKLLH-CGHTICRQCLEKLLASSINGVRCPFCSKIT   66 (88)
T ss_dssp             CCSCCBCTTTCCBCCTTSSCEEECS-SSCEEEHHHHHHHHHHCSSCBCCTTTCCCB
T ss_pred             ccCCCCCccCCccccccCCCeEECC-CCChhhHHHHHHHHHcCCCCcCCCCCCCcc
Confidence            3456789999999997765 67788 99999999999999976   7899999863

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

Probab=99.43  E-value=1.1e-13  Score=99.86  Aligned_cols=48  Identities=23%  Similarity=0.499  Sum_probs=41.6

Q ss_pred             CCCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          184 SGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       184 ~~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      ..+...|+||++.+..   ...+| |+|+||..||.+|+..+.+||+||.++
T Consensus        12 ~~~~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~   59 (81)
T 2csy_A           12 EEIPFRCFICRQAFQN---PVVTK-CRHYFCESCALEHFRATPRCYICDQPT   59 (81)
T ss_dssp             CCCCSBCSSSCSBCCS---EEECT-TSCEEEHHHHHHHHHHCSBCSSSCCBC
T ss_pred             CCCCCCCcCCCchhcC---eeEcc-CCCHhHHHHHHHHHHCCCcCCCcCccc
Confidence            3445789999999975   55678 999999999999999999999999864

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

Probab=99.41  E-value=2.7e-13  Score=95.60  Aligned_cols=48  Identities=33%  Similarity=0.751  Sum_probs=40.5

Q ss_pred             CCCCccCccccccccCCCceeecCCCCCcccHhhHHHHHh---cCCCCCCccCCC
Q 026690          184 SGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLL---GHASCPLCRRDL  235 (235)
Q Consensus       184 ~~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~---~~~sCPlCR~~v  235 (235)
                      ..++..|+||++.+..   ...+| |+|.||..||.+|++   .+.+||+||+++
T Consensus        17 ~~~~~~C~IC~~~~~~---~~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~   67 (73)
T 2ysl_A           17 LQEEVICPICLDILQK---PVTID-CGHNFCLKCITQIGETSCGFFKCPLCKTSV   67 (73)
T ss_dssp             CCCCCBCTTTCSBCSS---EEECT-TCCEEEHHHHHHHCSSSCSCCCCSSSCCCC
T ss_pred             CccCCEeccCCcccCC---eEEcC-CCChhhHHHHHHHHHcCCCCCCCCCCCCcC
Confidence            3456799999999885   66677 999999999999997   466899999875

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

Probab=99.39  E-value=2.1e-13  Score=97.07  Aligned_cols=48  Identities=25%  Similarity=0.604  Sum_probs=40.8

Q ss_pred             CCCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcC--CCCCCccCC
Q 026690          184 SGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGH--ASCPLCRRD  234 (235)
Q Consensus       184 ~~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~--~sCPlCR~~  234 (235)
                      ..++..|+||++.|..   ...+|.|+|.||..||.+|++.+  .+||+||++
T Consensus        12 ~~~~~~C~IC~~~~~~---p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~   61 (74)
T 2yur_A           12 IPDELLCLICKDIMTD---AVVIPCCGNSYCDECIRTALLESDEHTCPTCHQN   61 (74)
T ss_dssp             SCGGGSCSSSCCCCTT---CEECSSSCCEECTTHHHHHHHHSSSSCCSSSCCS
T ss_pred             CCCCCCCcCCChHHhC---CeEcCCCCCHHHHHHHHHHHHhcCCCcCCCCCCc
Confidence            3446789999999985   55677799999999999999866  689999986

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

Probab=99.39  E-value=2.7e-13  Score=94.17  Aligned_cols=47  Identities=19%  Similarity=0.551  Sum_probs=39.5

Q ss_pred             CCCccCccccccccCCCceeecCCCCCcccHhhHHHHHh-cCCCCCCccCCC
Q 026690          185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLL-GHASCPLCRRDL  235 (235)
Q Consensus       185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~-~~~sCPlCR~~v  235 (235)
                      .++..|+||++.+..   ...++ |+|.||..||.+|+. .+.+||+||+++
T Consensus        13 ~~~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~   60 (66)
T 2ecy_A           13 EDKYKCEKCHLVLCS---PKQTE-CGHRFCESCMAALLSSSSPKCTACQESI   60 (66)
T ss_dssp             CCCEECTTTCCEESS---CCCCS-SSCCCCHHHHHHHHTTSSCCCTTTCCCC
T ss_pred             CcCCCCCCCChHhcC---eeECC-CCCHHHHHHHHHHHHhCcCCCCCCCcCC
Confidence            446789999999975   34467 999999999999995 667999999875

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

Probab=99.39  E-value=9.6e-14  Score=110.31  Aligned_cols=45  Identities=36%  Similarity=0.947  Sum_probs=40.6

Q ss_pred             CccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      +..|+||++.|..   +..+| |||.||..||.+|+..+.+||+||.++
T Consensus        53 ~~~C~iC~~~~~~---~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~   97 (138)
T 4ayc_A           53 ELQCIICSEYFIE---AVTLN-CAHSFCSYCINEWMKRKIECPICRKDI   97 (138)
T ss_dssp             HSBCTTTCSBCSS---EEEET-TSCEEEHHHHHHHTTTCSBCTTTCCBC
T ss_pred             cCCCcccCcccCC---ceECC-CCCCccHHHHHHHHHcCCcCCCCCCcC
Confidence            4579999999975   67788 999999999999999999999999875

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

Probab=99.34  E-value=7.6e-13  Score=94.62  Aligned_cols=47  Identities=23%  Similarity=0.497  Sum_probs=41.0

Q ss_pred             CCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhc-CCCCCCccCCC
Q 026690          185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG-HASCPLCRRDL  235 (235)
Q Consensus       185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~-~~sCPlCR~~v  235 (235)
                      .++..|+||++.|..   ...+| |||.||..||.+|+.+ +.+||+||.++
T Consensus         6 ~~~~~C~IC~~~~~~---Pv~~~-CgH~fc~~Ci~~~~~~~~~~CP~C~~~~   53 (78)
T 1t1h_A            6 PEYFRCPISLELMKD---PVIVS-TGQTYERSSIQKWLDAGHKTCPKSQETL   53 (78)
T ss_dssp             SSSSSCTTTSCCCSS---EEEET-TTEEEEHHHHHHHHTTTCCBCTTTCCBC
T ss_pred             cccCCCCCccccccC---CEEcC-CCCeecHHHHHHHHHHCcCCCCCCcCCC
Confidence            446799999999975   66678 9999999999999997 78999999864

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

Probab=99.33  E-value=1.2e-12  Score=94.17  Aligned_cols=47  Identities=32%  Similarity=0.709  Sum_probs=40.4

Q ss_pred             CCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhc------CCCCCCccCCC
Q 026690          185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG------HASCPLCRRDL  235 (235)
Q Consensus       185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~------~~sCPlCR~~v  235 (235)
                      .++..|+||++.+..   ...+| |+|.||..||.+|+..      +..||+||.++
T Consensus        17 ~~~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~   69 (85)
T 2ecw_A           17 KEEVTCPICLELLKE---PVSAD-CNHSFCRACITLNYESNRNTDGKGNCPVCRVPY   69 (85)
T ss_dssp             CTTTSCTTTCSCCSS---CEECT-TSCCBCHHHHHHHHHHSBCTTSCBCCTTTCCCC
T ss_pred             ccCCCCcCCChhhCc---ceeCC-CCCHHHHHHHHHHHHhccCCCCCCCCCCCCCcC
Confidence            446789999999875   45678 9999999999999987      67899999864

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

Probab=99.33  E-value=1.5e-12  Score=89.43  Aligned_cols=44  Identities=36%  Similarity=0.782  Sum_probs=37.5

Q ss_pred             CCCCccCccccccccCCCceeecCCCCCcccHhhHHHHHh---cCCCCCCc
Q 026690          184 SGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLL---GHASCPLC  231 (235)
Q Consensus       184 ~~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~---~~~sCPlC  231 (235)
                      ..++..|+||++.+..   ...+| |+|.||..||.+|++   .+.+||+|
T Consensus        17 ~~~~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~C   63 (63)
T 2ysj_A           17 LQEEVICPICLDILQK---PVTID-CGHNFCLKCITQIGETSCGFFKCPLC   63 (63)
T ss_dssp             CCCCCBCTTTCSBCSS---CEECT-TSSEECHHHHHHHHHHCSSCCCCSCC
T ss_pred             CccCCCCCcCCchhCC---eEEeC-CCCcchHHHHHHHHHcCCCCCcCcCC
Confidence            3456789999999985   56677 999999999999998   45689998

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

Probab=99.32  E-value=5.5e-13  Score=100.40  Aligned_cols=46  Identities=35%  Similarity=0.860  Sum_probs=39.8

Q ss_pred             CCccCccccccccCCCceee-cCCCCCcccHhhHHHHHhcC-CCCCCccCCC
Q 026690          186 ERVSCSVCLQDFQLGETARS-LPHCHHMFHIPCIDKWLLGH-ASCPLCRRDL  235 (235)
Q Consensus       186 e~~~C~ICle~f~~ge~v~~-Lp~C~H~FH~~CI~~WL~~~-~sCPlCR~~v  235 (235)
                      ++..|+||++.|..   ... ++ |+|.||..||.+|+..+ .+||+||.++
T Consensus        21 ~~~~C~IC~~~~~~---p~~~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~   68 (100)
T 3lrq_A           21 EVFRCFICMEKLRD---ARLCPH-CSKLCCFSCIRRWLTEQRAQCPHCRAPL   68 (100)
T ss_dssp             HHTBCTTTCSBCSS---EEECTT-TCCEEEHHHHHHHHHHTCSBCTTTCCBC
T ss_pred             CCCCCccCCccccC---ccccCC-CCChhhHHHHHHHHHHCcCCCCCCCCcC
Confidence            35689999999974   555 77 99999999999999987 6999999864

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

Probab=99.31  E-value=3.8e-13  Score=96.10  Aligned_cols=48  Identities=31%  Similarity=0.620  Sum_probs=40.7

Q ss_pred             CCCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhc-------CCCCCCccCCC
Q 026690          184 SGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG-------HASCPLCRRDL  235 (235)
Q Consensus       184 ~~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~-------~~sCPlCR~~v  235 (235)
                      ..++..|+||++.|..   ...+| |+|.||..||.+|+..       +.+||+||.++
T Consensus         9 ~~~~~~C~IC~~~~~~---p~~l~-CgH~fC~~Ci~~~~~~~~~~~~~~~~CP~Cr~~~   63 (79)
T 2egp_A            9 VQEEVTCPICLELLTE---PLSLD-CGHSLCRACITVSNKEAVTSMGGKSSCPVCGISY   63 (79)
T ss_dssp             CCCCCEETTTTEECSS---CCCCS-SSCCCCHHHHSCCCCCCSSSCCCCCCCSSSCCCC
T ss_pred             cccCCCCcCCCcccCC---eeECC-CCCHHHHHHHHHHHHhcccCCCCCCcCCCCCCcC
Confidence            3456789999999975   55678 9999999999999986       67899999864

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

Probab=99.31  E-value=7e-13  Score=102.93  Aligned_cols=49  Identities=29%  Similarity=0.714  Sum_probs=42.3

Q ss_pred             CCccCccccccccCC----CceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          186 ERVSCSVCLQDFQLG----ETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       186 e~~~C~ICle~f~~g----e~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      ++..|+||++.|...    +.+..++ |||.||..||++|++++.+||+||+.+
T Consensus         6 ~~~~C~IC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~   58 (133)
T 4ap4_A            6 GTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKI   58 (133)
T ss_dssp             CSCBCTTTCCBHHHHHHTTCCEEEET-TCCEEEHHHHHHHHTTCSBCTTTCCBC
T ss_pred             CCCCCcccChhhhCccccccCeEecC-CCChhhHHHHHHHHHhCCCCCCCCCcC
Confidence            457899999999753    4457777 999999999999999999999999864

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

Probab=99.31  E-value=1.5e-12  Score=93.78  Aligned_cols=47  Identities=34%  Similarity=0.730  Sum_probs=40.5

Q ss_pred             CCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhc------CCCCCCccCCC
Q 026690          185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG------HASCPLCRRDL  235 (235)
Q Consensus       185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~------~~sCPlCR~~v  235 (235)
                      .++..|+||++.+..   ...+| |+|.||..||.+|+..      +..||+||.++
T Consensus        17 ~~~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~~~~~~CP~Cr~~~   69 (85)
T 2ecv_A           17 KEEVTCPICLELLTQ---PLSLD-CGHSFCQACLTANHKKSMLDKGESSCPVCRISY   69 (85)
T ss_dssp             CCCCCCTTTCSCCSS---CBCCS-SSCCBCTTHHHHHHHHHHHTTSCCCCTTTCCSS
T ss_pred             cCCCCCCCCCcccCC---ceeCC-CCCHHHHHHHHHHHHHhhcCCCCCcCCCCCCcc
Confidence            445789999999975   55678 9999999999999987      78999999864

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

Probab=99.30  E-value=9.5e-13  Score=98.46  Aligned_cols=46  Identities=30%  Similarity=0.803  Sum_probs=39.6

Q ss_pred             CccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      ...|+||++.|..   ...++.|||.||..||.+|+..+.+||+||.++
T Consensus        22 ~~~C~IC~~~~~~---p~~~~~CgH~fC~~Ci~~~~~~~~~CP~Cr~~~   67 (99)
T 2y43_A           22 LLRCGICFEYFNI---AMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTV   67 (99)
T ss_dssp             HTBCTTTCSBCSS---EEECTTTCCEEEHHHHHHHHTTCCBCTTTCCBC
T ss_pred             CCCcccCChhhCC---cCEECCCCCHhhHHHHHHHHHCCCCCCCCCCcC
Confidence            4689999999985   555523999999999999999999999999864

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

Probab=99.29  E-value=2.1e-12  Score=95.08  Aligned_cols=49  Identities=24%  Similarity=0.565  Sum_probs=40.9

Q ss_pred             CCCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcC--CCCCCccCCC
Q 026690          184 SGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGH--ASCPLCRRDL  235 (235)
Q Consensus       184 ~~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~--~sCPlCR~~v  235 (235)
                      ..++..|+||++.|..   ...+|.|||.||..||.+|+..+  .+||+||.++
T Consensus        10 ~~~~~~C~IC~~~~~~---p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~   60 (92)
T 3ztg_A           10 IPDELLCLICKDIMTD---AVVIPCCGNSYCDECIRTALLESDEHTCPTCHQND   60 (92)
T ss_dssp             CCTTTEETTTTEECSS---CEECTTTCCEECHHHHHHHHHHCTTCCCTTTCCSS
T ss_pred             CCcCCCCCCCChhhcC---ceECCCCCCHHHHHHHHHHHHhcCCCcCcCCCCcC
Confidence            4456899999999985   56677799999999999999754  5899999863

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

Probab=99.29  E-value=2.4e-12  Score=86.55  Aligned_cols=44  Identities=34%  Similarity=0.797  Sum_probs=36.7

Q ss_pred             CCCCccCccccccccCCCceeecCCCCCcccHhhHHHHH---hcCCCCCCc
Q 026690          184 SGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWL---LGHASCPLC  231 (235)
Q Consensus       184 ~~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL---~~~~sCPlC  231 (235)
                      ..++..|+||++.+..   ...+| |+|.||..||.+|+   .++.+||+|
T Consensus        12 ~~~~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~C   58 (58)
T 2ecj_A           12 LQVEASCSVCLEYLKE---PVIIE-CGHNFCKACITRWWEDLERDFPCPVC   58 (58)
T ss_dssp             SCCCCBCSSSCCBCSS---CCCCS-SCCCCCHHHHHHHTTSSCCSCCCSCC
T ss_pred             cccCCCCccCCcccCc---cEeCC-CCCccCHHHHHHHHHhcCCCCCCCCC
Confidence            3456789999999986   45578 99999999999995   456789998

>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=99.27  E-value=1.9e-12  Score=98.34  Aligned_cols=46  Identities=28%  Similarity=0.666  Sum_probs=40.2

Q ss_pred             CCccCccccccccCCCceeec-CCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          186 ERVSCSVCLQDFQLGETARSL-PHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       186 e~~~C~ICle~f~~ge~v~~L-p~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      ++..|+||++.+..   ...+ | |||.||..||.+|+..+.+||+||.++
T Consensus        14 ~~~~C~IC~~~~~~---p~~~~~-CgH~fC~~Ci~~~~~~~~~CP~Cr~~~   60 (108)
T 2ckl_A           14 PHLMCVLCGGYFID---ATTIIE-CLHSFCKTCIVRYLETSKYCPICDVQV   60 (108)
T ss_dssp             GGTBCTTTSSBCSS---EEEETT-TCCEEEHHHHHHHHTSCSBCTTTCCBS
T ss_pred             CcCCCccCChHHhC---cCEeCC-CCChhhHHHHHHHHHhCCcCcCCCccc
Confidence            45789999999975   5555 7 999999999999999999999999864

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

Probab=99.26  E-value=3.3e-12  Score=88.36  Aligned_cols=48  Identities=21%  Similarity=0.522  Sum_probs=38.2

Q ss_pred             CccCccccc-cccCCCce-eecCCCCCcccHhhHHHHHhc-CCCCCCccCCC
Q 026690          187 RVSCSVCLQ-DFQLGETA-RSLPHCHHMFHIPCIDKWLLG-HASCPLCRRDL  235 (235)
Q Consensus       187 ~~~C~ICle-~f~~ge~v-~~Lp~C~H~FH~~CI~~WL~~-~~sCPlCR~~v  235 (235)
                      +..|+||++ .+...... ..++ |||.||..||++|+.+ +.+||+||.++
T Consensus         3 ~~~C~IC~~~~~~~~~~~~~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~   53 (65)
T 1g25_A            3 DQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGAGNCPECGTPL   53 (65)
T ss_dssp             TTCCSTTTTHHHHCSSCCEEECT-TCCCEEHHHHHHHHHTTSSSCTTTCCCC
T ss_pred             CCcCCcCCCCccCCCccCeecCC-CCCHhHHHHHHHHHHcCCCcCCCCCCcc
Confidence            468999999 77654433 3466 9999999999999764 56899999864

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

Probab=99.26  E-value=4.4e-12  Score=91.10  Aligned_cols=47  Identities=23%  Similarity=0.693  Sum_probs=39.6

Q ss_pred             CCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcC--CCCCCccCC
Q 026690          185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGH--ASCPLCRRD  234 (235)
Q Consensus       185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~--~sCPlCR~~  234 (235)
                      +....|+||++.+..++.-   +.|+|.||..||.+||+++  .+||+||++
T Consensus        13 ~~i~~C~IC~~~i~~g~~C---~~C~h~fH~~Ci~kWl~~~~~~~CP~Cr~~   61 (74)
T 2ct0_A           13 DAVKICNICHSLLIQGQSC---ETCGIRMHLPCVAKYFQSNAEPRCPHCNDY   61 (74)
T ss_dssp             SSSCBCSSSCCBCSSSEEC---SSSCCEECHHHHHHHSTTCSSCCCTTTCSC
T ss_pred             CCCCcCcchhhHcccCCcc---CCCCchhhHHHHHHHHHhcCCCCCCCCcCc
Confidence            3457899999999875433   2599999999999999987  899999986

>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=99.25  E-value=2.1e-12  Score=100.51  Aligned_cols=45  Identities=29%  Similarity=0.628  Sum_probs=39.0

Q ss_pred             CccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCC-CCCCccCCC
Q 026690          187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHA-SCPLCRRDL  235 (235)
Q Consensus       187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~-sCPlCR~~v  235 (235)
                      +..|+||++.|..   +..+| |||.||..||.+|+..+. +||+||.++
T Consensus        52 ~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~   97 (124)
T 3fl2_A           52 TFQCICCQELVFR---PITTV-CQHNVCKDCLDRSFRAQVFSCPACRYDL   97 (124)
T ss_dssp             HTBCTTTSSBCSS---EEECT-TSCEEEHHHHHHHHHTTCCBCTTTCCBC
T ss_pred             CCCCCcCChHHcC---cEEee-CCCcccHHHHHHHHhHCcCCCCCCCccC
Confidence            4689999999985   66678 999999999999998554 999999864

>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=99.24  E-value=8.9e-12  Score=101.47  Aligned_cols=45  Identities=31%  Similarity=0.733  Sum_probs=38.8

Q ss_pred             CccCccccccccCCCceeec-CCCCCcccHhhHHHHHhc-CCCCCCccCCC
Q 026690          187 RVSCSVCLQDFQLGETARSL-PHCHHMFHIPCIDKWLLG-HASCPLCRRDL  235 (235)
Q Consensus       187 ~~~C~ICle~f~~ge~v~~L-p~C~H~FH~~CI~~WL~~-~~sCPlCR~~v  235 (235)
                      ...|+||++.|..   ...+ | |+|.||..||.+|+.. +.+||+||.++
T Consensus        54 ~~~C~IC~~~~~~---p~~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~  100 (165)
T 2ckl_B           54 ELMCPICLDMLKN---TMTTKE-CLHRFCADCIITALRSGNKECPTCRKKL  100 (165)
T ss_dssp             HHBCTTTSSBCSS---EEEETT-TCCEEEHHHHHHHHHTTCCBCTTTCCBC
T ss_pred             CCCCcccChHhhC---cCEeCC-CCChhHHHHHHHHHHhCcCCCCCCCCcC
Confidence            4689999999985   4444 7 9999999999999997 78999999864

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

Probab=99.24  E-value=3.6e-12  Score=98.90  Aligned_cols=50  Identities=28%  Similarity=0.702  Sum_probs=42.1

Q ss_pred             CCCccCccccccccCC----CceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          185 GERVSCSVCLQDFQLG----ETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       185 ~e~~~C~ICle~f~~g----e~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      ++...|+||++.++..    .....++ |+|.||..||++|++.+.+||+||.++
T Consensus        70 ~~~~~C~iC~~~~~~~~~~~~~~~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~  123 (133)
T 4ap4_A           70 SGTVSCPICMDGYSEIVQNGRLIVSTE-CGHVFCSQCLRDSLKNANTCPTCRKKI  123 (133)
T ss_dssp             SSSCBCTTTCCBHHHHHHTTCCEEEET-TSBEEEHHHHHHHHHHCSBCTTTCCBC
T ss_pred             CCCCCCCCCCCccccccccCcceEeCC-CCChhhHHHHHHHHHcCCCCCCCCCcC
Confidence            3457899999999852    3346667 999999999999999999999999875

>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=1e-11  Score=94.25  Aligned_cols=45  Identities=33%  Similarity=0.772  Sum_probs=38.4

Q ss_pred             CccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCC---CCCCccCCC
Q 026690          187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHA---SCPLCRRDL  235 (235)
Q Consensus       187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~---sCPlCR~~v  235 (235)
                      ...|+||++.+..   ...+| |+|.||..||.+|+..+.   +||+||.++
T Consensus        21 ~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~   68 (112)
T 1jm7_A           21 ILECPICLELIKE---PVSTK-CDHIFCKFCMLKLLNQKKGPSQCPLCKNDI   68 (112)
T ss_dssp             HTSCSSSCCCCSS---CCBCT-TSCCCCSHHHHHHHHSSSSSCCCTTTSCCC
T ss_pred             CCCCcccChhhcC---eEECC-CCCHHHHHHHHHHHHhCCCCCCCcCCCCcC
Confidence            4689999999875   45578 999999999999998764   899999864

>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=99.18  E-value=9.9e-12  Score=95.99  Aligned_cols=48  Identities=29%  Similarity=0.590  Sum_probs=40.8

Q ss_pred             CCCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCC-CCCCccCCC
Q 026690          184 SGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHA-SCPLCRRDL  235 (235)
Q Consensus       184 ~~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~-sCPlCR~~v  235 (235)
                      ..++..|+||++.+..   ...++ |+|.||..||.+|+..+. +||+||.++
T Consensus        15 ~~~~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~   63 (118)
T 3hct_A           15 LESKYECPICLMALRE---AVQTP-CGHRFCKACIIKSIRDAGHKCPVDNEIL   63 (118)
T ss_dssp             CCGGGBCTTTCSBCSS---EEECT-TSCEEEHHHHHHHHHHHCSBCTTTCCBC
T ss_pred             CCCCCCCCcCChhhcC---eEECC-cCChhhHHHHHHHHhhCCCCCCCCCCCc
Confidence            3445799999999975   56678 999999999999998765 999999864

>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=99.17  E-value=2.8e-12  Score=98.43  Aligned_cols=46  Identities=28%  Similarity=0.808  Sum_probs=39.8

Q ss_pred             CCccCccccccccCCCceeecCCCCCcccHhhHHHHHhc-CCCCCCccCCC
Q 026690          186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG-HASCPLCRRDL  235 (235)
Q Consensus       186 e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~-~~sCPlCR~~v  235 (235)
                      ++..|+||++.+..   ...+| |+|.||..||.+|+.+ +.+||+||.++
T Consensus        14 ~~~~C~iC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~   60 (115)
T 3l11_A           14 SECQCGICMEILVE---PVTLP-CNHTLCKPCFQSTVEKASLCCPFCRRRV   60 (115)
T ss_dssp             HHHBCTTTCSBCSS---CEECT-TSCEECHHHHCCCCCTTTSBCTTTCCBC
T ss_pred             CCCCCccCCcccCc---eeEcC-CCCHHhHHHHHHHHhHCcCCCCCCCccc
Confidence            35789999999975   66678 9999999999999986 67899999864

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

Probab=99.15  E-value=3.3e-11  Score=88.28  Aligned_cols=47  Identities=17%  Similarity=0.154  Sum_probs=42.5

Q ss_pred             CCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      .+...|+||++-|++   ..++| |||+|+..||.+|+..+.+||+||.++
T Consensus        12 p~~~~CpI~~~~m~d---PV~~~-cGhtf~r~~I~~~l~~~~~cP~~~~~l   58 (85)
T 2kr4_A           12 PDEFRDPLMDTLMTD---PVRLP-SGTVMDRSIILRHLLNSPTDPFNRQML   58 (85)
T ss_dssp             CTTTBCTTTCSBCSS---EEECT-TSCEEEHHHHHHHHHHCSBCTTTCCBC
T ss_pred             chheECcccCchhcC---CeECC-CCCEECHHHHHHHHhcCCCCCCCcCCC
Confidence            456899999999986   77888 999999999999999999999999864

>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=99.15  E-value=2.5e-11  Score=91.78  Aligned_cols=47  Identities=17%  Similarity=0.181  Sum_probs=42.5

Q ss_pred             CCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      .+...||||++-|++   +..+| |||+|+..||.+|+..+.+||+||.++
T Consensus        27 p~~~~CpI~~~~m~d---PV~~~-cGhtf~r~~I~~~l~~~~~cP~~~~~l   73 (100)
T 2kre_A           27 PDEFRDPLMDTLMTD---PVRLP-SGTIMDRSIILRHLLNSPTDPFNRQTL   73 (100)
T ss_dssp             STTTBCTTTCSBCSS---EEEET-TTEEEEHHHHHHHTTSCSBCSSSCCBC
T ss_pred             cHhhCCcCccCcccC---CeECC-CCCEEchHHHHHHHHcCCCCCCCCCCC
Confidence            456799999999986   77889 999999999999999999999999864

>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=99.14  E-value=2.4e-11  Score=98.07  Aligned_cols=45  Identities=27%  Similarity=0.626  Sum_probs=39.2

Q ss_pred             CccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCC-CCCCccCCC
Q 026690          187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHA-SCPLCRRDL  235 (235)
Q Consensus       187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~-sCPlCR~~v  235 (235)
                      ...|+||++.|..   ...+| |+|.||..||.+|+..+. +||+||.++
T Consensus        78 ~~~C~IC~~~~~~---pv~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~  123 (150)
T 1z6u_A           78 SFMCVCCQELVYQ---PVTTE-CFHNVCKDCLQRSFKAQVFSCPACRHDL  123 (150)
T ss_dssp             HTBCTTTSSBCSS---EEECT-TSCEEEHHHHHHHHHTTCCBCTTTCCBC
T ss_pred             CCEeecCChhhcC---CEEcC-CCCchhHHHHHHHHHhCCCcCCCCCccC
Confidence            4689999999975   56688 999999999999999765 899999864

>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=99.13  E-value=1.6e-11  Score=94.24  Aligned_cols=45  Identities=29%  Similarity=0.606  Sum_probs=39.4

Q ss_pred             CccCccccccccCCCceeecCCCCCcccHhhHHHHHhc-CCCCCCccCCC
Q 026690          187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG-HASCPLCRRDL  235 (235)
Q Consensus       187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~-~~sCPlCR~~v  235 (235)
                      +..|+||++.+..   +..+| |||.||..||.+|+.. +.+||+||.++
T Consensus        23 ~~~C~IC~~~~~~---p~~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~   68 (116)
T 1rmd_A           23 SISCQICEHILAD---PVETS-CKHLFCRICILRCLKVMGSYCPSCRYPC   68 (116)
T ss_dssp             HTBCTTTCSBCSS---EEECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBC
T ss_pred             CCCCCCCCcHhcC---cEEcC-CCCcccHHHHHHHHhHCcCcCCCCCCCC
Confidence            4689999999975   55578 9999999999999997 77999999864

>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=99.11  E-value=2.6e-11  Score=84.27  Aligned_cols=46  Identities=20%  Similarity=0.476  Sum_probs=39.1

Q ss_pred             CCccCccccccccCCCceeec--CCCCCc-ccHhhHHHHHhcCCCCCCccCCC
Q 026690          186 ERVSCSVCLQDFQLGETARSL--PHCHHM-FHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       186 e~~~C~ICle~f~~ge~v~~L--p~C~H~-FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      ++..|+||++....   +..+  | |||. |+.+|+.+|.+++..||+||+++
T Consensus         7 ~~~~C~IC~~~~~~---~~~~~~p-CgH~~~C~~C~~~~~~~~~~CPiCR~~i   55 (64)
T 2vje_A            7 AIEPCVICQGRPKN---GCIVHGK-TGHLMACFTCAKKLKKRNKPCPVCRQPI   55 (64)
T ss_dssp             GGSCCTTTSSSCSC---EEEEETT-EEEEEECHHHHHHHHHTTCCCTTTCCCC
T ss_pred             CcCCCCcCCCCCCC---EEEECCC-CCChhhHHHHHHHHHHcCCcCCCcCcch
Confidence            34689999998764   4444  8 9999 89999999999999999999875

>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=99.10  E-value=7.7e-11  Score=88.74  Aligned_cols=47  Identities=17%  Similarity=0.143  Sum_probs=42.1

Q ss_pred             CCCccCccccccccCCCceeecCCCC-CcccHhhHHHHHhcCCCCCCccCCC
Q 026690          185 GERVSCSVCLQDFQLGETARSLPHCH-HMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       185 ~e~~~C~ICle~f~~ge~v~~Lp~C~-H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      .+...||||++-|++   +.++| || |+|+..||.+|+..+.+||+||.++
T Consensus        20 p~~~~CpI~~~~m~d---PV~~~-cG~htf~r~cI~~~l~~~~~cP~~~~~l   67 (98)
T 1wgm_A           20 CDEFLDPIMSTLMCD---PVVLP-SSRVTVDRSTIARHLLSDQTDPFNRSPL   67 (98)
T ss_dssp             CTTTBCTTTCSBCSS---EEECT-TTCCEEEHHHHHHHTTTSCBCTTTCSBC
T ss_pred             cHhcCCcCccccccC---CeECC-CCCeEECHHHHHHHHHhCCCCCCCCCCC
Confidence            446799999999986   77788 99 9999999999999999999999864

>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=2.7e-11  Score=81.80  Aligned_cols=44  Identities=23%  Similarity=0.639  Sum_probs=37.6

Q ss_pred             CCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      .+...|+||++.|..   ...+| |+|.||..||.+|   +.+||+||+++
T Consensus         4 ~~~~~C~IC~~~~~~---p~~l~-CgH~fC~~Ci~~~---~~~CP~Cr~~~   47 (56)
T 1bor_A            4 FQFLRCQQCQAEAKC---PKLLP-CLHTLCSGCLEAS---GMQCPICQAPW   47 (56)
T ss_dssp             CCCSSCSSSCSSCBC---CSCST-TSCCSBTTTCSSS---SSSCSSCCSSS
T ss_pred             ccCCCceEeCCccCC---eEEcC-CCCcccHHHHccC---CCCCCcCCcEe
Confidence            456789999999985   67788 9999999999884   67899999864

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

Probab=99.06  E-value=5.3e-11  Score=82.41  Aligned_cols=46  Identities=22%  Similarity=0.531  Sum_probs=38.7

Q ss_pred             CCccCccccccccCCCceeec--CCCCCc-ccHhhHHHHHhcCCCCCCccCCC
Q 026690          186 ERVSCSVCLQDFQLGETARSL--PHCHHM-FHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       186 e~~~C~ICle~f~~ge~v~~L--p~C~H~-FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      .+..|+||++....   ...+  | |||. |+..|+.+|.+++..||+||+++
T Consensus         6 ~~~~C~IC~~~~~~---~~~~~~p-CgH~~~C~~C~~~~~~~~~~CPiCR~~i   54 (63)
T 2vje_B            6 LLKPCSLCEKRPRD---GNIIHGR-TGHLVTCFHCARRLKKAGASCPICKKEI   54 (63)
T ss_dssp             GGSBCTTTSSSBSC---EEEEETT-EEEEEECHHHHHHHHHTTCBCTTTCCBC
T ss_pred             cCCCCcccCCcCCC---eEEEecC-CCCHhHHHHHHHHHHHhCCcCCCcCchh
Confidence            34689999998654   3344  8 9999 99999999999889999999875

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

Probab=99.06  E-value=1.4e-10  Score=83.77  Aligned_cols=50  Identities=18%  Similarity=0.538  Sum_probs=38.8

Q ss_pred             CCCccCccccccccCCCce-eecCCCCCcccHhhHHHHHh-cCCCCCCccCCC
Q 026690          185 GERVSCSVCLQDFQLGETA-RSLPHCHHMFHIPCIDKWLL-GHASCPLCRRDL  235 (235)
Q Consensus       185 ~e~~~C~ICle~f~~ge~v-~~Lp~C~H~FH~~CI~~WL~-~~~sCPlCR~~v  235 (235)
                      .++..|+||++.+...+.. .-++ |||.||..|+.+|+. .+..||+||+++
T Consensus         9 ~~~~~CpICle~~~~~d~~~~p~~-CGH~fC~~Cl~~~~~~~~~~CP~CR~~~   60 (78)
T 1e4u_A            9 EDPVECPLCMEPLEIDDINFFPCT-CGYQICRFCWHRIRTDENGLCPACRKPY   60 (78)
T ss_dssp             CCCCBCTTTCCBCCTTTTTCCSST-TSCCCCHHHHHHHTTSSCSBCTTTCCBC
T ss_pred             ccCCcCCccCccCccccccccccC-CCCCcCHHHHHHHHhcCCCCCCCCCCcc
Confidence            4567899999998654332 2245 999999999999985 467899999864

>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=99.05  E-value=9.5e-11  Score=107.91  Aligned_cols=45  Identities=24%  Similarity=0.761  Sum_probs=40.1

Q ss_pred             CccCccccccccCCCceeecCCCCCcccHhhHHHHHh-cCCCCCCccCCC
Q 026690          187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLL-GHASCPLCRRDL  235 (235)
Q Consensus       187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~-~~~sCPlCR~~v  235 (235)
                      ...|+||++.+..   +..+| |||.||..||.+|+. .+.+||+||.++
T Consensus       332 ~~~C~ICle~~~~---pv~lp-CGH~FC~~Ci~~wl~~~~~~CP~CR~~i  377 (389)
T 2y1n_A          332 FQLCKICAENDKD---VKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEI  377 (389)
T ss_dssp             SSBCTTTSSSBCC---EEEET-TCCEECHHHHHHHHHHTCSBCTTTCCBC
T ss_pred             CCCCCccCcCCCC---eEEeC-CCChhhHHHHHHHHhcCCCCCCCCCCcc
Confidence            3689999999865   77788 999999999999999 788999999875

>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=99.04  E-value=5.4e-11  Score=95.12  Aligned_cols=47  Identities=19%  Similarity=0.463  Sum_probs=39.9

Q ss_pred             CCCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCC-CCCCccCC
Q 026690          184 SGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHA-SCPLCRRD  234 (235)
Q Consensus       184 ~~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~-sCPlCR~~  234 (235)
                      ..++..|+||++.+..   ...++ |||.||..||.+|+..+. +||+||.+
T Consensus        28 l~~~~~C~IC~~~~~~---pv~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~~   75 (141)
T 3knv_A           28 LEAKYLCSACRNVLRR---PFQAQ-CGHRYCSFCLASILSSGPQNCAACVHE   75 (141)
T ss_dssp             CCGGGBCTTTCSBCSS---EEECT-TSCEEEHHHHHHHGGGSCEECHHHHHT
T ss_pred             CCcCcCCCCCChhhcC---cEECC-CCCccCHHHHHHHHhcCCCCCCCCCCc
Confidence            3456799999999985   45577 999999999999998665 89999975

>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=98.99  E-value=6.2e-11  Score=91.34  Aligned_cols=43  Identities=26%  Similarity=0.664  Sum_probs=37.6

Q ss_pred             CccCccccccccCCCceeec-CCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          187 RVSCSVCLQDFQLGETARSL-PHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       187 ~~~C~ICle~f~~ge~v~~L-p~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      ...|+||++.|..   +..+ | |||.||..||..|+.  ..||+||.++
T Consensus        22 ~~~C~IC~~~~~~---pv~~~~-CgH~fC~~Ci~~~~~--~~CP~Cr~~~   65 (117)
T 1jm7_B           22 LLRCSRCTNILRE---PVCLGG-CEHIFCSNCVSDCIG--TGCPVCYTPA   65 (117)
T ss_dssp             TTSCSSSCSCCSS---CBCCCS-SSCCBCTTTGGGGTT--TBCSSSCCBC
T ss_pred             CCCCCCCChHhhC---ccEeCC-CCCHHHHHHHHHHhc--CCCcCCCCcC
Confidence            5789999999975   5666 7 999999999999987  8899999864

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

Probab=98.98  E-value=1.1e-10  Score=105.52  Aligned_cols=51  Identities=25%  Similarity=0.705  Sum_probs=39.7

Q ss_pred             CCCccCccccccccC-CCce---eecCCCCCcccHhhHHHHHhcC-----------CCCCCccCCC
Q 026690          185 GERVSCSVCLQDFQL-GETA---RSLPHCHHMFHIPCIDKWLLGH-----------ASCPLCRRDL  235 (235)
Q Consensus       185 ~e~~~C~ICle~f~~-ge~v---~~Lp~C~H~FH~~CI~~WL~~~-----------~sCPlCR~~v  235 (235)
                      ++..+|+||++.+.. ++.+   ...++|+|.||..||.+||+..           ++||.||++|
T Consensus       306 e~~~ECaICys~~l~~g~lPdk~C~n~~C~h~FH~~CL~kWLrs~~~sRqSFnvi~G~CPyCr~pI  371 (381)
T 3k1l_B          306 NEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAKL  371 (381)
T ss_dssp             CSCCSCSSSCCSSCTTCCCCCBCCSCTTCCCCBCSGGGHHHHHHHHSSSCTTTCCEEECTTTCCEE
T ss_pred             cCCccCcccceeecCCCCCccccccCCccCCccchHHHHHHHHhCCCccccccccCCCCCCCCCcC
Confidence            456789999999987 3332   2234699999999999999842           4799999864

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

Probab=98.96  E-value=1.3e-10  Score=82.83  Aligned_cols=41  Identities=22%  Similarity=0.638  Sum_probs=36.3

Q ss_pred             CccCccccccccCCCceeecCCCCCc-ccHhhHHHHHhcCCCCCCccCCC
Q 026690          187 RVSCSVCLQDFQLGETARSLPHCHHM-FHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       187 ~~~C~ICle~f~~ge~v~~Lp~C~H~-FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      +..|+||++.+..   +..+| |+|. ||..|+.+|    ..||+||.++
T Consensus        24 ~~~C~iC~~~~~~---~~~~p-CgH~~~C~~C~~~~----~~CP~Cr~~i   65 (74)
T 4ic3_A           24 EKLCKICMDRNIA---IVFVP-CGHLVTCKQCAEAV----DKCPMCYTVI   65 (74)
T ss_dssp             HTBCTTTSSSBCC---EEEET-TCCBCCCHHHHTTC----SBCTTTCCBC
T ss_pred             CCCCCCCCCCCCC---EEEcC-CCChhHHHHhhhcC----ccCCCcCcCc
Confidence            4689999999875   67788 9999 999999999    8999999875

>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=98.91  E-value=5.7e-10  Score=91.00  Aligned_cols=48  Identities=29%  Similarity=0.581  Sum_probs=40.5

Q ss_pred             CCCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcC-CCCCCccCCC
Q 026690          184 SGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGH-ASCPLCRRDL  235 (235)
Q Consensus       184 ~~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~-~sCPlCR~~v  235 (235)
                      ..++..|+||++.+..   +..++ |||+||..||.+|+..+ .+||+||.++
T Consensus        15 ~~~~~~C~IC~~~~~~---pv~~~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~   63 (170)
T 3hcs_A           15 LESKYECPICLMALRE---AVQTP-CGHRFCKACIIKSIRDAGHKCPVDNEIL   63 (170)
T ss_dssp             CCGGGBCTTTCSBCSS---EEECT-TSCEEEHHHHHHHHHHHCSBCTTTCCBC
T ss_pred             CCCCCCCCCCChhhcC---cEECC-CCCHHHHHHHHHHHHhCCCCCCCCccCc
Confidence            3456799999999985   56677 99999999999999865 4999999864

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

Probab=98.91  E-value=8.9e-10  Score=95.28  Aligned_cols=47  Identities=13%  Similarity=0.130  Sum_probs=40.7

Q ss_pred             CCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcC-CCCCCccCCC
Q 026690          185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGH-ASCPLCRRDL  235 (235)
Q Consensus       185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~-~sCPlCR~~v  235 (235)
                      .+...||||++-|.+   +.++| |||+||..||.+|+..+ .+||+||.++
T Consensus       206 ~~~~~c~i~~~~~~d---Pv~~~-~gh~f~~~~i~~~~~~~~~~cP~~~~~~  253 (281)
T 2c2l_A          206 PDYLCGKISFELMRE---PCITP-SGITYDRKDIEEHLQRVGHFNPVTRSPL  253 (281)
T ss_dssp             CSTTBCTTTCSBCSS---EEECS-SCCEEETTHHHHHHHHTCSSCTTTCCCC
T ss_pred             CcccCCcCcCCHhcC---CeECC-CCCEECHHHHHHHHHHCCCCCcCCCCCC
Confidence            456789999999986   77789 99999999999999864 4599999875

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

Probab=98.89  E-value=7.3e-10  Score=82.43  Aligned_cols=46  Identities=17%  Similarity=0.459  Sum_probs=38.6

Q ss_pred             CCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcC------CCCCC--ccCC
Q 026690          186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGH------ASCPL--CRRD  234 (235)
Q Consensus       186 e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~------~sCPl--CR~~  234 (235)
                      +...||||++.|++   +.++|.|||+|+..||.+|+..+      .+||+  |+..
T Consensus         6 ~~~~CPI~~~~~~d---PV~~~~cGh~f~r~cI~~~l~~~~~~~~~~~CP~tgc~~~   59 (94)
T 2yu4_A            6 SGFTCPITKEEMKK---PVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHT   59 (94)
T ss_dssp             SCCBCTTTCSBCSS---EEEESSSCCEEEHHHHHHHHHHHHTTTCCBCCCSTTCCCC
T ss_pred             cEeECcCcCchhcC---CEEcCCCCCeecHHHHHHHHHHccCcCCCCCCCcCcCccc
Confidence            45789999999985   66675599999999999999864      48999  9853

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

Probab=98.87  E-value=1.3e-09  Score=74.96  Aligned_cols=46  Identities=24%  Similarity=0.667  Sum_probs=35.9

Q ss_pred             CCccCccccccccCCCceeecCCCC--C---cccHhhHHHHHhc--CCCCCCccCCC
Q 026690          186 ERVSCSVCLQDFQLGETARSLPHCH--H---MFHIPCIDKWLLG--HASCPLCRRDL  235 (235)
Q Consensus       186 e~~~C~ICle~f~~ge~v~~Lp~C~--H---~FH~~CI~~WL~~--~~sCPlCR~~v  235 (235)
                      +...|.||+++.  ++. ..+| |.  |   .||..||++|+..  +.+||+||.++
T Consensus         5 ~~~~CrIC~~~~--~~~-l~~P-C~C~gs~~~~H~~Cl~~W~~~~~~~~C~~C~~~~   57 (60)
T 1vyx_A            5 DVPVCWICNEEL--GNE-RFRA-CGCTGELENVHRSCLSTWLTISRNTACQICGVVY   57 (60)
T ss_dssp             SCCEETTTTEEC--SCC-CCCS-CCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBC
T ss_pred             CCCEeEEeecCC--CCc-eecC-cCCCCchhhhHHHHHHHHHHhCCCCccCCCCCee
Confidence            456899999983  333 3578 55  4   9999999999974  67899999864

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

Probab=98.80  E-value=4.4e-09  Score=73.84  Aligned_cols=43  Identities=28%  Similarity=0.644  Sum_probs=36.3

Q ss_pred             CCCccCccccccccCCCceeecCCCCCc-ccHhhHHHHHhcCCCCCCccCCC
Q 026690          185 GERVSCSVCLQDFQLGETARSLPHCHHM-FHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~-FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      .++..|.||++....   +..+| |+|. |+..|+..    ...||+||.++
T Consensus        13 ~~~~~C~IC~~~~~~---~v~~p-CgH~~~C~~C~~~----~~~CP~CR~~i   56 (68)
T 2ea5_A           13 ENSKDCVVCQNGTVN---WVLLP-CRHTCLCDGCVKY----FQQCPMCRQFV   56 (68)
T ss_dssp             CCSSCCSSSSSSCCC---CEETT-TTBCCSCTTHHHH----CSSCTTTCCCC
T ss_pred             CCCCCCCCcCcCCCC---EEEEC-CCChhhhHHHHhc----CCCCCCCCcch
Confidence            345789999998764   77889 9999 99999983    57999999875

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

Probab=98.78  E-value=2.6e-09  Score=76.01  Aligned_cols=41  Identities=22%  Similarity=0.643  Sum_probs=34.6

Q ss_pred             CccCccccccccCCCceeecCCCCCc-ccHhhHHHHHhcCCCCCCccCCC
Q 026690          187 RVSCSVCLQDFQLGETARSLPHCHHM-FHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       187 ~~~C~ICle~f~~ge~v~~Lp~C~H~-FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      +..|+||++.+..   +..+| |+|. ||..|+.+    ...||+||.++
T Consensus        25 ~~~C~IC~~~~~~---~~~~p-CgH~~~C~~C~~~----~~~CP~Cr~~i   66 (75)
T 2ecg_A           25 EKLCKICMDRNIA---IVFVP-CGHLVTCKQCAEA----VDKCPMCYTVI   66 (75)
T ss_dssp             HHSCSSSCSSCCC---BCCSS-SCCCCBCHHHHHH----CSBCTTTCCBC
T ss_pred             CCCCCcCCCCCCC---EEEec-CCCHHHHHHHhhC----CCCCccCCcee
Confidence            4589999999865   66788 9999 99999964    48899999864

>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=98.74  E-value=3.9e-09  Score=78.12  Aligned_cols=48  Identities=21%  Similarity=0.659  Sum_probs=38.9

Q ss_pred             CCccCccccccccCCCceeecCCCCCcccHhhHHHHHhc--------CCCCCC--ccCC
Q 026690          186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG--------HASCPL--CRRD  234 (235)
Q Consensus       186 e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~--------~~sCPl--CR~~  234 (235)
                      +..+|+||++++...+.+...+ |+|.||.+|+..++..        ..+||.  ||..
T Consensus         4 ~~~~C~IC~~~~~~~~~~~l~~-CgH~FC~~Cl~~~~~~~i~~g~~~~i~CP~~~C~~~   61 (94)
T 1wim_A            4 GSSGCKLCLGEYPVEQMTTIAQ-CQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQ   61 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETT-TTEEEEHHHHHHHHHHHHHHCSCCCEECSCTTCSSC
T ss_pred             CCcCCcccCcccccccceEcCC-CCCcccHHHHHHHHHHHhhcCCcccccCccccCCCC
Confidence            4568999999998655555556 9999999999999873        237999  9875

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

Probab=98.73  E-value=6.5e-09  Score=86.35  Aligned_cols=48  Identities=13%  Similarity=0.106  Sum_probs=41.1

Q ss_pred             CCCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcC-CCCCCccCCC
Q 026690          184 SGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGH-ASCPLCRRDL  235 (235)
Q Consensus       184 ~~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~-~sCPlCR~~v  235 (235)
                      ..+...||||++-|.+   +.++| |||+|+..||.+|+..+ .+||+||.++
T Consensus       103 ip~~f~CPI~~elm~D---PV~~~-~Ghtfer~~I~~~l~~~~~tcP~t~~~l  151 (179)
T 2f42_A          103 IPDYLCGKISFELMRE---PCITP-SGITYDRKDIEEHLQRVGHFDPVTRSPL  151 (179)
T ss_dssp             CCGGGBCTTTCSBCSS---EEECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBC
T ss_pred             CcHhhcccCccccCCC---CeECC-CCCEECHHHHHHHHHhCCCCCCCCcCCC
Confidence            3456899999999986   77778 99999999999999864 4799999864

>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=98.66  E-value=3.8e-09  Score=76.26  Aligned_cols=41  Identities=29%  Similarity=0.690  Sum_probs=35.4

Q ss_pred             CccCccccccccCCCceeecCCCCCc-ccHhhHHHHHhcCCCCCCccCCC
Q 026690          187 RVSCSVCLQDFQLGETARSLPHCHHM-FHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       187 ~~~C~ICle~f~~ge~v~~Lp~C~H~-FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      +..|+||++.+..   +..+| |||. |+..|+..|    ..||+||.++
T Consensus        18 ~~~C~IC~~~~~~---~v~~p-CgH~~~C~~C~~~~----~~CP~Cr~~i   59 (79)
T 2yho_A           18 AMLCMVCCEEEIN---STFCP-CGHTVCCESCAAQL----QSCPVCRSRV   59 (79)
T ss_dssp             HTBCTTTSSSBCC---EEEET-TCBCCBCHHHHTTC----SBCTTTCCBC
T ss_pred             CCEeEEeCcccCc---EEEEC-CCCHHHHHHHHHhc----CcCCCCCchh
Confidence            4589999998775   77789 9999 999999987    3999999875

>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=98.59  E-value=2.2e-08  Score=68.88  Aligned_cols=45  Identities=11%  Similarity=0.276  Sum_probs=39.0

Q ss_pred             ccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          188 VSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       188 ~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      ..|+||++.+++   ...++.|||+|.+.||++|++++.+||+++.++
T Consensus         4 ~~CpIs~~~m~d---PV~~~~sG~~yer~~I~~~l~~~~~cP~t~~~L   48 (61)
T 2bay_A            4 MLCAISGKVPRR---PVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPL   48 (61)
T ss_dssp             CCCTTTCSCCSS---EEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBC
T ss_pred             EEecCCCCCCCC---CEEeCCCCcEEcHHHHHHHHHhCCCCcCCcCCC
Confidence            579999999985   555633999999999999999999999999865

>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=2.1e-08  Score=91.11  Aligned_cols=42  Identities=29%  Similarity=0.736  Sum_probs=37.0

Q ss_pred             CCccCccccccccCCCceeecCCCCCc-ccHhhHHHHHhcCCCCCCccCCC
Q 026690          186 ERVSCSVCLQDFQLGETARSLPHCHHM-FHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       186 e~~~C~ICle~f~~ge~v~~Lp~C~H~-FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      ++..|+||++.+..   +..+| |||. ||..|+..|    ..||+||.++
T Consensus       294 ~~~~C~IC~~~~~~---~v~lp-CgH~~fC~~C~~~~----~~CP~CR~~i  336 (345)
T 3t6p_A          294 EERTCKVCMDKEVS---VVFIP-CGHLVVCQECAPSL----RKCPICRGII  336 (345)
T ss_dssp             TTCBCTTTSSSBCC---EEEET-TCCEEECTTTGGGC----SBCTTTCCBC
T ss_pred             CCCCCCccCCcCCc---eEEcC-CCChhHhHHHHhcC----CcCCCCCCCc
Confidence            45789999999875   77789 9999 999999998    7899999875

>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=98.47  E-value=5.4e-08  Score=85.11  Aligned_cols=46  Identities=24%  Similarity=0.600  Sum_probs=37.6

Q ss_pred             CCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcC--CCCCC--ccCC
Q 026690          186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGH--ASCPL--CRRD  234 (235)
Q Consensus       186 e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~--~sCPl--CR~~  234 (235)
                      ....||||++.|+.  .|+... |||+|+..||.+|+..+  .+||+  ||+.
T Consensus       180 ~el~CPIcl~~f~D--PVts~~-CGHsFcR~cI~~~~~~~~~~~CPvtGCr~~  229 (267)
T 3htk_C          180 IELTCPITCKPYEA--PLISRK-CNHVFDRDGIQNYLQGYTTRDCPQAACSQV  229 (267)
T ss_dssp             CCSBCTTTSSBCSS--EEEESS-SCCEEEHHHHHHHSTTCSCEECSGGGCSCE
T ss_pred             eeeECcCccCcccC--CeeeCC-CCCcccHHHHHHHHHhCCCCCCCcccccCc
Confidence            45689999999974  444345 99999999999999864  47999  9975

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

Probab=98.30  E-value=4.4e-07  Score=68.14  Aligned_cols=44  Identities=27%  Similarity=0.609  Sum_probs=36.7

Q ss_pred             cCccccccccCCCceeecCCCCCcccHhhHHHHHh-cCCCCCCccCCC
Q 026690          189 SCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLL-GHASCPLCRRDL  235 (235)
Q Consensus       189 ~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~-~~~sCPlCR~~v  235 (235)
                      -|++|--.+.  ...|..| |+|.||.+|+..|.+ +.++||+||.+|
T Consensus         3 fC~~C~~Pi~--iygRmIP-CkHvFCydCa~~~~~~~~k~Cp~C~~~V   47 (101)
T 3vk6_A            3 FCDKCGLPIK--VYGRMIP-CKHVFCYDCAILHEKKGDKMCPGCSDPV   47 (101)
T ss_dssp             BCTTTCSBCS--EEEEEET-TCCEEEHHHHHHHHHTTCCBCTTTCCBC
T ss_pred             ecCccCCCeE--EEeeecc-ccccHHHHHHHHHHhccCCCCcCcCCee
Confidence            4788877766  3568889 999999999999986 468999999875

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

Probab=98.08  E-value=2.4e-06  Score=73.80  Aligned_cols=45  Identities=29%  Similarity=0.727  Sum_probs=37.7

Q ss_pred             CccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCC--CCCCccCC
Q 026690          187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHA--SCPLCRRD  234 (235)
Q Consensus       187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~--sCPlCR~~  234 (235)
                      ...|.||.+-...|   ...++|+|.||..|+.+|++.+.  +||.|+.+
T Consensus       180 i~~C~iC~~iv~~g---~~C~~C~~~~H~~C~~~~~~~~~~~~CP~C~~~  226 (238)
T 3nw0_A          180 VKICNICHSLLIQG---QSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDY  226 (238)
T ss_dssp             CCBCTTTCSBCSSC---EECSSSCCEECHHHHHHHTTTCSSCBCTTTCCB
T ss_pred             CCcCcchhhHHhCC---cccCccChHHHHHHHHHHHHhCCCCCCCCCCCC
Confidence            56899999998864   44556999999999999998654  89999874

>2lri_C Autoimmune regulator; Zn binding protein domain, apeced, transcription; NMR {Homo sapiens}

Probab=95.74  E-value=0.0073  Score=41.76  Aligned_cols=45  Identities=24%  Similarity=0.469  Sum_probs=33.4

Q ss_pred             CCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcC----CCCCCccCC
Q 026690          186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGH----ASCPLCRRD  234 (235)
Q Consensus       186 e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~----~sCPlCR~~  234 (235)
                      ....|.||.+.   ++ +...-.|...||..|+++.|...    -.||.|+..
T Consensus        11 ~~~~C~vC~~~---~~-ll~Cd~C~~~~H~~Cl~P~l~~~P~g~W~C~~C~~~   59 (66)
T 2lri_C           11 PGARCGVCGDG---TD-VLRCTHCAAAFHWRCHFPAGTSRPGTGLRCRSCSGD   59 (66)
T ss_dssp             TTCCCTTTSCC---TT-CEECSSSCCEECHHHHCTTTCCCCSSSCCCTTTTTC
T ss_pred             CCCCcCCCCCC---Ce-EEECCCCCCceecccCCCccCcCCCCCEECccccCC
Confidence            34679999753   34 44455699999999999988743    369999753

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

Probab=95.65  E-value=0.0075  Score=44.23  Aligned_cols=36  Identities=22%  Similarity=0.459  Sum_probs=26.5

Q ss_pred             CCccCccccccccCCCceeecCCCCCcccHhhHHH-HH
Q 026690          186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDK-WL  222 (235)
Q Consensus       186 e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~-WL  222 (235)
                      ++..|+||.+++...-....++ |+|.|+..|+.. |.
T Consensus         2 ee~~C~~C~~~~~~~av~~C~~-C~~~~C~~Cl~~~h~   38 (101)
T 2jun_A            2 EKVLCQFCDQDPAQDAVKTCVT-CEVSYCDECLKATHP   38 (101)
T ss_dssp             CCCBCTTCCSSSCCBCCEEETT-TTEEECHHHHHHHSC
T ss_pred             CCCCCcCCCCCCCCCceEECCc-CChHHhHHHCHHHhc
Confidence            3578999998754322333377 999999999998 53

>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=94.74  E-value=0.035  Score=40.22  Aligned_cols=36  Identities=19%  Similarity=0.411  Sum_probs=25.1

Q ss_pred             CCCCccCccccccccCCCceeecCCCCCcccHhhHHHH
Q 026690          184 SGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKW  221 (235)
Q Consensus       184 ~~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~W  221 (235)
                      ...|..|.||- .|..++....-- |+-+||..|+.+-
T Consensus        12 ~~~D~~C~VC~-~~t~~~l~pCRv-C~RvfH~~CL~r~   47 (89)
T 1wil_A           12 VVNDEMCDVCE-VWTAESLFPCRV-CTRVFHDGCLRRM   47 (89)
T ss_dssp             CCCSCCCTTTC-CCCSSCCSSCSS-SSSCCCHHHHHHH
T ss_pred             CCCCcccCccc-cccccceecccc-ccccccHhhcccc
Confidence            34567899995 344444433333 9999999999996

>1we9_A PHD finger family protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: g.50.1.2

Probab=94.70  E-value=0.0057  Score=41.58  Aligned_cols=49  Identities=22%  Similarity=0.478  Sum_probs=35.7

Q ss_pred             CCCccCccccccccCCCceeecCCCCCcccHhhHHHHHh-----cCCCCCCccC
Q 026690          185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLL-----GHASCPLCRR  233 (235)
Q Consensus       185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~-----~~~sCPlCR~  233 (235)
                      ++...|+||...+..++.....-.|..-||..|+.--..     .+-.||.|+.
T Consensus         4 ~e~~~C~~C~~~~~~~~~mI~Cd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~   57 (64)
T 1we9_A            4 GSSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSN   57 (64)
T ss_dssp             SSCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHT
T ss_pred             CCCCCCCCCCCccCCCCCEEEccCCCCCCCccccCcChhHhcCCCcEECCCCcC
Confidence            445689999999876555555556999999999864322     3457999964

>2l5u_A Chromodomain-helicase-DNA-binding protein 4; CHD4, MI2B, MI2-beta, PHD, protein binding, peptide binding metal binding protein; NMR {Homo sapiens}

Probab=94.35  E-value=0.025  Score=38.20  Aligned_cols=45  Identities=31%  Similarity=0.686  Sum_probs=32.9

Q ss_pred             CCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhc----CCCCCCccC
Q 026690          185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG----HASCPLCRR  233 (235)
Q Consensus       185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~----~~sCPlCR~  233 (235)
                      .++..|.||.+.   ++ +.....|...||..|+..-+..    +-.||.|+.
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---GE-IILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEK   57 (61)
T ss_dssp             CCCSSCTTTSCC---SS-EEECSSSSCEEEHHHHCTTCCSCCCSSCCCTTGGG
T ss_pred             CCCCCCccCCCC---Cc-EEECCCCChhhhhhccCCCCCCCCCCceECccccc
Confidence            445689999873   33 4445569999999999986643    336999975

>1f62_A Transcription factor WSTF; Zn-finger; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=93.01  E-value=0.046  Score=35.26  Aligned_cols=45  Identities=24%  Similarity=0.569  Sum_probs=31.5

Q ss_pred             cCccccccccCCCceeecCCCCCcccHhhHHHHHhc----CCCCCCccCC
Q 026690          189 SCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG----HASCPLCRRD  234 (235)
Q Consensus       189 ~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~----~~sCPlCR~~  234 (235)
                      .|.||.+.-..++ +.....|...||..|+++=|.+    .-.||.|+..
T Consensus         2 ~C~vC~~~~~~~~-ll~Cd~C~~~~H~~Cl~p~l~~~P~g~W~C~~C~~~   50 (51)
T 1f62_A            2 RCKVCRKKGEDDK-LILCDECNKAFHLFCLRPALYEVPDGEWQCPACQPA   50 (51)
T ss_dssp             CCTTTCCSSCCSC-CEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSCC
T ss_pred             CCCCCCCCCCCCC-EEECCCCChhhCcccCCCCcCCCCCCcEECcCcccc
Confidence            5899987644333 4444569999999999865543    3359999753

>1mm2_A MI2-beta; PHD, zinc finger, protein scaffold, DNA binding protein; NMR {Homo sapiens} SCOP: g.50.1.2 PDB: 2l75_A* 1mm3_A

Probab=92.92  E-value=0.024  Score=38.27  Aligned_cols=45  Identities=29%  Similarity=0.579  Sum_probs=32.0

Q ss_pred             CCccCccccccccCCCceeecCCCCCcccHhhHHHHHhc----CCCCCCccCC
Q 026690          186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG----HASCPLCRRD  234 (235)
Q Consensus       186 e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~----~~sCPlCR~~  234 (235)
                      ++..|.||.+.   ++ +.....|...||..|+.+-|..    .-.||.|+..
T Consensus         8 ~~~~C~vC~~~---g~-ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~~   56 (61)
T 1mm2_A            8 HMEFCRVCKDG---GE-LLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCP   56 (61)
T ss_dssp             SCSSCTTTCCC---SS-CBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTT
T ss_pred             CCCcCCCCCCC---CC-EEEcCCCCHHHcccccCCCcCcCCCCccCChhhcCc
Confidence            35679999862   33 4444459999999999976553    3359999754

>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=91.48  E-value=0.17  Score=35.65  Aligned_cols=48  Identities=23%  Similarity=0.448  Sum_probs=33.0

Q ss_pred             CCccCccccccccCCCceeecCCCCCcccHhhHHHHHh-----cCCCCCCccCC
Q 026690          186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLL-----GHASCPLCRRD  234 (235)
Q Consensus       186 e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~-----~~~sCPlCR~~  234 (235)
                      +..-| ||...+..+......-.|..-||..|+.---.     .+-.||.|+..
T Consensus        11 ~~~~C-~C~~~~d~~~~MIqCd~C~~WfH~~Cvgl~~~~~~~~~~~~C~~C~~~   63 (79)
T 1wep_A           11 VPVYC-LCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAV   63 (79)
T ss_dssp             CCCCS-TTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTTT
T ss_pred             CccEE-EcCCccCCCCceEEcCCCCCcEEeeecCcccccccCCCeEECCCcccc
Confidence            34456 99998864555555556999999999853211     34579999753

>2k16_A Transcription initiation factor TFIID subunit 3; protein, alternative splicing, metal-binding, nucleus, phosphoprotein, transcription regulation; NMR {Mus musculus} PDB: 2k17_A*

Probab=91.26  E-value=0.059  Score=37.56  Aligned_cols=48  Identities=21%  Similarity=0.479  Sum_probs=34.2

Q ss_pred             CCCccCccccccccCCCceeecCCCCCcccHhhHHHHHh----cCCCCCCccC
Q 026690          185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLL----GHASCPLCRR  233 (235)
Q Consensus       185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~----~~~sCPlCR~  233 (235)
                      .+...|+||..... ++.....-.|...||..|+..-+.    .+-.||.|+.
T Consensus        16 ~~~~~C~~C~~~~~-~~~mi~CD~C~~wfH~~Cv~~~~~~~~~~~w~C~~C~~   67 (75)
T 2k16_A           16 NQIWICPGCNKPDD-GSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKCAN   67 (75)
T ss_dssp             CEEECBTTTTBCCS-SCCEEECSSSSSEEEHHHHTCSSCCCSSSCCCCTTTHH
T ss_pred             CCCcCCCCCCCCCC-CCCEEEcCCCCcccccccCCCCccCCCCCCEEChhccC
Confidence            34457999988754 444445556999999999986554    2446999964

>2yql_A PHD finger protein 21A; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=91.21  E-value=0.022  Score=37.71  Aligned_cols=45  Identities=31%  Similarity=0.703  Sum_probs=32.3

Q ss_pred             CCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhc----CCCCCCccC
Q 026690          185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG----HASCPLCRR  233 (235)
Q Consensus       185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~----~~sCPlCR~  233 (235)
                      .++..|.||.+.   ++ +.....|...||..|+.+-|..    .-.||.|+.
T Consensus         7 ~~~~~C~vC~~~---g~-ll~Cd~C~~~~H~~Cl~ppl~~~p~g~W~C~~C~~   55 (56)
T 2yql_A            7 GHEDFCSVCRKS---GQ-LLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQD   55 (56)
T ss_dssp             SSCCSCSSSCCS---SC-CEECSSSSCEECSSSSSSCCCSCCCSSCCCHHHHC
T ss_pred             CCCCCCccCCCC---Ce-EEEcCCCCcceECccCCCCcCCCCCCceEChhhhC
Confidence            445689999874   34 4444569999999999976653    235999864

>2lv9_A Histone-lysine N-methyltransferase MLL5; zinc finger, transcription, protein binding, NESG, northeast structural genomics consortium, SGC; NMR {Homo sapiens}

Probab=90.85  E-value=0.09  Score=38.84  Aligned_cols=46  Identities=20%  Similarity=0.360  Sum_probs=31.9

Q ss_pred             CCccCccccccccCCCceeecCCCCCcccHhhHHHHHh---cCCCCCCccC
Q 026690          186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLL---GHASCPLCRR  233 (235)
Q Consensus       186 e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~---~~~sCPlCR~  233 (235)
                      +...| ||-.....+..+. ...|...||..|+..=+.   ..-.||.|+.
T Consensus        27 d~vrC-iC~~~~~~~~mi~-Cd~C~~w~H~~C~~~~~~~~p~~w~C~~C~~   75 (98)
T 2lv9_A           27 DVTRC-ICGFTHDDGYMIC-CDKCSVWQHIDCMGIDRQHIPDTYLCERCQP   75 (98)
T ss_dssp             CBCCC-TTSCCSCSSCEEE-BTTTCBEEETTTTTCCTTSCCSSBCCTTTSS
T ss_pred             CCEEe-ECCCccCCCcEEE-cCCCCCcCcCcCCCCCccCCCCCEECCCCcC
Confidence            33567 8988776555444 445999999999875332   2346999974

>2kgg_A Histone demethylase jarid1A; PHD finger, histone modification, leukemia, alternative splicing, chromatin regulator, developmental protein; NMR {Homo sapiens} PDB: 2kgi_A* 3gl6_A*

Probab=90.75  E-value=0.085  Score=34.33  Aligned_cols=44  Identities=16%  Similarity=0.243  Sum_probs=32.3

Q ss_pred             cCccccccccCCCceeecC-CCCCcccHhhHHHH----HhcCCCCCCcc
Q 026690          189 SCSVCLQDFQLGETARSLP-HCHHMFHIPCIDKW----LLGHASCPLCR  232 (235)
Q Consensus       189 ~C~ICle~f~~ge~v~~Lp-~C~H~FH~~CI~~W----L~~~~sCPlCR  232 (235)
                      .|.+|...+..++.....- .|..-||..|+.--    ...+-.||.|+
T Consensus         4 ~cc~C~~p~~~~~~mI~Cd~~C~~WfH~~Cvgl~~~~~~~~~~~C~~C~   52 (52)
T 2kgg_A            4 AAQNCQRPCKDKVDWVQCDGGCDEWFHQVCVGVSPEMAENEDYICINCA   52 (52)
T ss_dssp             SCTTCCCCCCTTCCEEECTTTTCCEEETTTTTCCHHHHHHSCCCCSCC-
T ss_pred             cCCCCcCccCCCCcEEEeCCCCCccCcccccCCCccccCCCCEECCCCC
Confidence            5889999987666555555 69999999996522    13567899996

>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=90.62  E-value=0.19  Score=34.36  Aligned_cols=49  Identities=18%  Similarity=0.383  Sum_probs=34.0

Q ss_pred             CCCccCccccccccCCCceeecC-CCCCcccHhhHHHHH------h----cCCCCCCccC
Q 026690          185 GERVSCSVCLQDFQLGETARSLP-HCHHMFHIPCIDKWL------L----GHASCPLCRR  233 (235)
Q Consensus       185 ~e~~~C~ICle~f~~ge~v~~Lp-~C~H~FH~~CI~~WL------~----~~~sCPlCR~  233 (235)
                      +....|++|.+.+..++.....- .|.--||..|+.---      .    .+-.||.|++
T Consensus         6 ~~~~~C~~C~~p~~~~~~mI~CD~~C~~WfH~~Cvglt~~~~~~l~~e~~~~w~C~~C~~   65 (65)
T 2vpb_A            6 DPVYPCGICTNEVNDDQDAILCEASCQKWFHRICTGMTETAYGLLTAEASAVWGCDTCMA   65 (65)
T ss_dssp             ---CBCTTTCSBCCTTSCEEEBTTTTCCEEEHHHHTCCHHHHHHHHHCTTEEECCHHHHC
T ss_pred             CCcCcCccCCCccCCCCCeEecccCccccCchhccCCCHHHHHHhhccCCCcEECcCccC
Confidence            34568999999998777776666 799999999975221      1    1446888853

>2ysm_A Myeloid/lymphoid or mixed-lineage leukemia protein 3 homolog; PHD domain, histone-lysine N-methyltransferase, H3 lysine-4 specific MLL3; NMR {Homo sapiens}

Probab=89.85  E-value=0.095  Score=39.21  Aligned_cols=47  Identities=23%  Similarity=0.472  Sum_probs=31.1

Q ss_pred             CCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhc----CCCCCCcc
Q 026690          185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG----HASCPLCR  232 (235)
Q Consensus       185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~----~~sCPlCR  232 (235)
                      .++..|.||.+.=+..+.+. ...|...||..|+...+..    .-.||.|+
T Consensus         5 ~~~~~C~~C~~~g~~~~ll~-C~~C~~~~H~~Cl~~~~~~~~~~~W~C~~C~   55 (111)
T 2ysm_A            5 SSGANCAVCDSPGDLLDQFF-CTTCGQHYHGMCLDIAVTPLKRAGWQCPECK   55 (111)
T ss_dssp             CCCSCBTTTCCCCCTTTSEE-CSSSCCEECTTTTTCCCCTTTSTTCCCTTTC
T ss_pred             CCCCCCcCCCCCCCCcCCeE-CCCCCCCcChHHhCCccccccccCccCCcCC
Confidence            34568999988643322344 4559999999999987642    23466553

>3o70_A PHD finger protein 13; PHF13, structural genomics consortium, SGC, structural genom type zinc finger, protein binding, zinc ION binding; 1.85A {Homo sapiens}

Probab=89.39  E-value=0.074  Score=36.76  Aligned_cols=51  Identities=24%  Similarity=0.503  Sum_probs=34.3

Q ss_pred             CCCCCCccCccccccccCCCceeecCCCCCcccHhhHHHHHh---cCCCCCCccCC
Q 026690          182 DASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLL---GHASCPLCRRD  234 (235)
Q Consensus       182 ~~~~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~---~~~sCPlCR~~  234 (235)
                      +...+...| ||..... ++.....-.|..-||..|+.---.   .+-.||.|+..
T Consensus        14 ~~~~~~~~C-iC~~~~~-~~~MIqCd~C~~WfH~~Cvgi~~~~~~~~~~C~~C~~s   67 (68)
T 3o70_A           14 LYFQGLVTC-FCMKPFA-GRPMIECNECHTWIHLSCAKIRKSNVPEVFVCQKCRDS   67 (68)
T ss_dssp             CTTTTCCCS-TTCCCCT-TCCEEECTTTCCEEETTTTTCCTTSCCSSCCCHHHHTC
T ss_pred             CCCCCceEe-ECCCcCC-CCCEEECCCCCccccccccCcCcccCCCcEECCCCCCC
Confidence            334455678 9998776 444444556999999999864221   34579999753

>2lbm_A Transcriptional regulator ATRX; metal binding protein-structural protein compl; HET: M3L; NMR {Homo sapiens} PDB: 2ld1_A

Probab=88.95  E-value=0.55  Score=37.07  Aligned_cols=46  Identities=26%  Similarity=0.546  Sum_probs=33.3

Q ss_pred             CCCCccCccccccccCCCceeecCCCCCcccHhhHHHHHh-----------cCCCCCCccC
Q 026690          184 SGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLL-----------GHASCPLCRR  233 (235)
Q Consensus       184 ~~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~-----------~~~sCPlCR~  233 (235)
                      ...+..|.||.+.   |+ +...-.|...||..||++-+.           ..-.||+|+.
T Consensus        60 Dg~~d~C~vC~~G---G~-LlcCD~Cpr~Fh~~Cl~p~l~~~~l~~i~~p~~~W~C~~C~~  116 (142)
T 2lbm_A           60 DGMDEQCRWCAEG---GN-LICCDFCHNAFCKKCILRNLGRKELSTIMDENNQWYCYICHP  116 (142)
T ss_dssp             TSCBCSCSSSCCC---SS-EEECSSSCCEEEHHHHHHHTCHHHHHHHHTSTTCCCCTTTCC
T ss_pred             CCCCCeecccCCC---Cc-EEeCCCCCCeeeHhhcCCCCChhhhhhcccCCCCCEeecccC
Confidence            3445789999874   33 444556999999999997663           2346999974

>1xwh_A Autoimmune regulator; PHD domain, Zn binding domain, apeced, nucleosome, E3 ligase, transcription; NMR {Homo sapiens} PDB: 2ke1_A 2kft_A

Probab=88.80  E-value=0.045  Score=37.45  Aligned_cols=44  Identities=27%  Similarity=0.615  Sum_probs=31.6

Q ss_pred             CCccCccccccccCCCceeecCCCCCcccHhhHHHHHhc----CCCCCCccC
Q 026690          186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG----HASCPLCRR  233 (235)
Q Consensus       186 e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~----~~sCPlCR~  233 (235)
                      ++..|.||.+.   ++ +.....|...||..|+.+-|..    .-.||.|+.
T Consensus         7 ~~~~C~vC~~~---g~-ll~CD~C~~~fH~~Cl~ppl~~~P~g~W~C~~C~~   54 (66)
T 1xwh_A            7 NEDECAVCRDG---GE-LICCDGCPRAFHLACLSPPLREIPSGTWRCSSCLQ   54 (66)
T ss_dssp             CCCSBSSSSCC---SS-CEECSSCCCEECTTTSSSCCSSCCSSCCCCHHHHH
T ss_pred             CCCCCccCCCC---CC-EEEcCCCChhhcccccCCCcCcCCCCCeECccccC
Confidence            45689999864   34 4444569999999999976553    335999854

>1fp0_A KAP-1 corepressor; PHD domain, C3HC4 type zinc binding domain, -structure, transcription; NMR {Homo sapiens} SCOP: g.50.1.2

Probab=88.24  E-value=0.19  Score=36.64  Aligned_cols=45  Identities=29%  Similarity=0.603  Sum_probs=32.7

Q ss_pred             CCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhc----CCCCCCccC
Q 026690          185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG----HASCPLCRR  233 (235)
Q Consensus       185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~----~~sCPlCR~  233 (235)
                      ..+..|.+|.+.   ++ +.....|.-.||..|+++=|..    .-.||.|+.
T Consensus        23 ~n~~~C~vC~~~---g~-LL~CD~C~~~fH~~Cl~PpL~~~P~g~W~C~~C~~   71 (88)
T 1fp0_A           23 DSATICRVCQKP---GD-LVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHV   71 (88)
T ss_dssp             SSSSCCSSSCSS---SC-CEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCC
T ss_pred             CCCCcCcCcCCC---CC-EEECCCCCCceecccCCCCCCCCcCCCcCCccccC
Confidence            345689999864   34 4445569999999999887653    335999974

>2puy_A PHD finger protein 21A; PHD finger, histone CODE, BRAF-HDAC complex, transcription; 1.43A {Homo sapiens}

Probab=88.04  E-value=0.069  Score=35.73  Aligned_cols=44  Identities=30%  Similarity=0.669  Sum_probs=31.4

Q ss_pred             CCccCccccccccCCCceeecCCCCCcccHhhHHHHHhc----CCCCCCccC
Q 026690          186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG----HASCPLCRR  233 (235)
Q Consensus       186 e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~----~~sCPlCR~  233 (235)
                      .+..|.||.+.   ++ +.....|...||..|+.+-+..    .-.||.|+.
T Consensus         4 ~~~~C~vC~~~---g~-ll~Cd~C~~~fH~~Cl~ppl~~~p~g~W~C~~C~~   51 (60)
T 2puy_A            4 HEDFCSVCRKS---GQ-LLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQD   51 (60)
T ss_dssp             CCSSCTTTCCC---SS-CEECSSSSCEECGGGSSSCCSSCCCSCCCCHHHHH
T ss_pred             CCCCCcCCCCC---Cc-EEEcCCCCcCEECCcCCCCcCCCCCCceEChhccC
Confidence            34689999874   44 4444569999999999976553    335998854

>2e6r_A Jumonji/ARID domain-containing protein 1D; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=87.94  E-value=0.064  Score=39.24  Aligned_cols=48  Identities=23%  Similarity=0.364  Sum_probs=33.1

Q ss_pred             CCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhc----CCCCCCccC
Q 026690          185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG----HASCPLCRR  233 (235)
Q Consensus       185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~----~~sCPlCR~  233 (235)
                      .++..|.||.+.-.. +.+...-.|...||..|+.+=|..    .-.||.|+.
T Consensus        14 ~~~~~C~vC~~~~~~-~~ll~CD~C~~~~H~~Cl~Ppl~~~P~g~W~C~~C~~   65 (92)
T 2e6r_A           14 IDSYICQVCSRGDED-DKLLFCDGCDDNYHIFCLLPPLPEIPRGIWRCPKCIL   65 (92)
T ss_dssp             CCCCCCSSSCCSGGG-GGCEECTTTCCEECSSSSSSCCSSCCSSCCCCHHHHH
T ss_pred             cCCCCCccCCCcCCC-CCEEEcCCCCchhccccCCCCcccCCCCCcCCccCcC
Confidence            345689999987543 334445569999999999865543    335999863

>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=87.63  E-value=0.47  Score=48.09  Aligned_cols=48  Identities=17%  Similarity=0.150  Sum_probs=41.0

Q ss_pred             CCCCccCccccccccCCCceeecCCCC-CcccHhhHHHHHhcCCCCCCccCCC
Q 026690          184 SGERVSCSVCLQDFQLGETARSLPHCH-HMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       184 ~~e~~~C~ICle~f~~ge~v~~Lp~C~-H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      ..+...|||-++-+.+   +.++| -| |+|-+.+|++||..+.+||+=|+++
T Consensus       888 iP~~F~cPIs~~lM~D---PVilp-sG~~TydR~~I~~wl~~~~tdP~Tr~~L  936 (968)
T 3m62_A          888 VPDEFLDPLMYTIMKD---PVILP-ASKMNIDRSTIKAHLLSDSTDPFNRMPL  936 (968)
T ss_dssp             SCGGGBCTTTCSBCSS---EEECT-TTCCEEEHHHHHHHHTTCCBCTTTCCBC
T ss_pred             CcHHhCCcchhhHHhC---CeEcC-CCCEEECHHHHHHHHhcCCCCCCCCCCC
Confidence            4456789999999886   78888 76 6999999999999999999987764

>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A

Probab=87.47  E-value=0.16  Score=38.17  Aligned_cols=45  Identities=27%  Similarity=0.535  Sum_probs=31.8

Q ss_pred             cCccccccccCCCceeecCCCCCcccHhhHHHHHhc----CCCCCCccC
Q 026690          189 SCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG----HASCPLCRR  233 (235)
Q Consensus       189 ~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~----~~sCPlCR~  233 (235)
                      .|.||.+.-..++.+.....|...||..|+++-|..    .-.||.||.
T Consensus        63 ~C~vC~~~~~~~~~ll~Cd~C~~~yH~~Cl~p~l~~~P~~~W~C~~C~~  111 (112)
T 3v43_A           63 TCSSCRDQGKNADNMLFCDSCDRGFHMECCDPPLTRMPKGMWICQICRP  111 (112)
T ss_dssp             CBTTTCCCCCTTCCCEECTTTCCEECGGGCSSCCSSCCSSCCCCTTTSC
T ss_pred             ccccccCcCCCccceEEcCCCCCeeecccCCCCCCCCCCCCeECCCCCC
Confidence            588888653333445555569999999999876653    336999985

>1wen_A Inhibitor of growth family, member 4; ING1-like protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: g.50.1.2 PDB: 1wes_A

Probab=87.34  E-value=0.44  Score=33.06  Aligned_cols=44  Identities=32%  Similarity=0.708  Sum_probs=28.9

Q ss_pred             CCccCccccccccCCCceeecCC--CC-CcccHhhHHHHHhc----CCCCCCccCC
Q 026690          186 ERVSCSVCLQDFQLGETARSLPH--CH-HMFHIPCIDKWLLG----HASCPLCRRD  234 (235)
Q Consensus       186 e~~~C~ICle~f~~ge~v~~Lp~--C~-H~FH~~CI~~WL~~----~~sCPlCR~~  234 (235)
                      +..-| ||.+... ++ ....-+  |. ..||..|+.  |..    +-.||.|+..
T Consensus        15 ~~~~C-~C~~~~~-g~-MI~CD~~~C~~~wfH~~Cvg--l~~~p~g~w~Cp~C~~~   65 (71)
T 1wen_A           15 EPTYC-LCHQVSY-GE-MIGCDNPDCSIEWFHFACVG--LTTKPRGKWFCPRCSQE   65 (71)
T ss_dssp             SCCCS-TTCCCSC-SS-EECCSCSSCSCCCEETTTTT--CSSCCSSCCCCTTTSSC
T ss_pred             CCCEE-ECCCCCC-CC-EeEeeCCCCCCccEecccCC--cCcCCCCCEECCCCCcc
Confidence            34567 8988643 43 333445  66 699999998  443    3469999753

>1wee_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=86.18  E-value=0.11  Score=36.04  Aligned_cols=47  Identities=23%  Similarity=0.316  Sum_probs=33.0

Q ss_pred             CCccCccccccccCCCceeecCCCCCcccHhhHHHHH----hcCCCCCCccC
Q 026690          186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWL----LGHASCPLCRR  233 (235)
Q Consensus       186 e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL----~~~~sCPlCR~  233 (235)
                      +...| ||......++.....-.|..-||..|+.---    ..+..||.|+.
T Consensus        15 ~~~~C-~C~~~~~~g~~mI~Cd~C~~W~H~~Cvg~~~~~~~~~~~~C~~C~~   65 (72)
T 1wee_A           15 WKVDC-KCGTKDDDGERMLACDGCGVWHHTRCIGINNADALPSKFLCFRCIE   65 (72)
T ss_dssp             SEECC-TTCCCSCCSSCEEECSSSCEEEETTTTTCCTTSCCCSCCCCHHHHH
T ss_pred             cceEe-eCCCccCCCCcEEECCCCCCccCCeeeccCccccCCCcEECCCccC
Confidence            34568 7998876665555555699999999986431    23456999964

>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger, transferase-structural protein; 1.47A {Homo sapiens} PDB: 2ln0_A

Probab=85.96  E-value=1.1  Score=33.40  Aligned_cols=33  Identities=27%  Similarity=0.419  Sum_probs=23.5

Q ss_pred             CccCccccccc-----cCCCceeecCCCCCcccHhhHH
Q 026690          187 RVSCSVCLQDF-----QLGETARSLPHCHHMFHIPCID  219 (235)
Q Consensus       187 ~~~C~ICle~f-----~~ge~v~~Lp~C~H~FH~~CI~  219 (235)
                      ...|.+|+..=     ..++....-..|+..||..|+.
T Consensus         5 ~~~C~~C~~~~~~~~~g~~~~Ll~C~~C~~~~H~~Cl~   42 (112)
T 3v43_A            5 IPICSFCLGTKEQNREKKPEELISCADCGNSGHPSCLK   42 (112)
T ss_dssp             CSSBTTTCCCTTCCTTSCCCCCEECTTTCCEECHHHHT
T ss_pred             CccccccCCchhhCcCCCchhceEhhhcCCCCCCchhc
Confidence            46799998753     1233455555699999999995

>1weu_A Inhibitor of growth family, member 4; structural genomics, PHD domain, ING1-like protein, DNA binding protein, NPPSFA; NMR {Mus musculus} SCOP: g.50.1.2

Probab=85.84  E-value=0.48  Score=34.61  Aligned_cols=44  Identities=32%  Similarity=0.708  Sum_probs=29.0

Q ss_pred             CCccCccccccccCCCceeecCC--CC-CcccHhhHHHHHhc----CCCCCCccCC
Q 026690          186 ERVSCSVCLQDFQLGETARSLPH--CH-HMFHIPCIDKWLLG----HASCPLCRRD  234 (235)
Q Consensus       186 e~~~C~ICle~f~~ge~v~~Lp~--C~-H~FH~~CI~~WL~~----~~sCPlCR~~  234 (235)
                      +..-| ||.+... ++ ....-+  |. ..||..|+.  |..    +-.||.|+..
T Consensus        35 e~~yC-iC~~~~~-g~-MI~CD~~dC~~~WfH~~CVg--l~~~p~g~W~Cp~C~~~   85 (91)
T 1weu_A           35 EPTYC-LCHQVSY-GE-MIGCDNPDCSIEWFHFACVG--LTTKPRGKWFCPRCSQE   85 (91)
T ss_dssp             CCBCS-TTCCBCC-SC-CCCCSCSSCSCCCCCSTTTT--CSSCCCSSCCCTTTCCC
T ss_pred             CCcEE-ECCCCCC-CC-EeEecCCCCCCCCEecccCC--cCcCCCCCEECcCccCc
Confidence            44567 9998653 44 333444  65 689999998  442    3469999753

>3ql9_A Transcriptional regulator ATRX; zinc finger, transcription, lysine trimethylation, protein, histone-binding protein, transcription-structural complex; HET: M3L; 0.93A {Homo sapiens} PDB: 3qla_A* 3qlc_A 3qln_A 2jm1_A

Probab=85.73  E-value=0.97  Score=35.08  Aligned_cols=46  Identities=24%  Similarity=0.507  Sum_probs=32.5

Q ss_pred             CCCCccCccccccccCCCceeecCCCCCcccHhhHHHHH-----h------cCCCCCCccC
Q 026690          184 SGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWL-----L------GHASCPLCRR  233 (235)
Q Consensus       184 ~~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL-----~------~~~sCPlCR~  233 (235)
                      ...+..|.||-+.    ..+.....|...||..||.+-+     .      ..-.|++|+.
T Consensus        54 Dg~~~~C~vC~dG----G~LlcCd~Cpr~Fc~~Cl~~~lg~~~l~~i~~~~~~W~C~~C~~  110 (129)
T 3ql9_A           54 DGMDEQCRWCAEG----GNLICCDFCHNAFCKKCILRNLGRRELSTIMDENNQWYCYICHP  110 (129)
T ss_dssp             TSCBSSCTTTCCC----SEEEECSSSSCEEEHHHHHHHTCHHHHHHHTCTTSCCCCTTTCC
T ss_pred             CCCCCcCeecCCC----CeeEecCCCchhhhHHHhCCCcchhHHHHhccCCCCeEcCCcCC
Confidence            4455679999864    3344455699999999999752     1      2246999974

>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=85.49  E-value=0.33  Score=33.81  Aligned_cols=44  Identities=23%  Similarity=0.418  Sum_probs=30.2

Q ss_pred             ccCccccccccCCCceeecCCCCCcccHhhHHHHH---------hcCCCCCCccC
Q 026690          188 VSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWL---------LGHASCPLCRR  233 (235)
Q Consensus       188 ~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL---------~~~~sCPlCR~  233 (235)
                      .-| ||......+..+. .-.|..-||..|+.--.         ..+..||.|+.
T Consensus        17 ~~C-~C~~~~~~~~MI~-Cd~C~~WfH~~Cvgl~~~~~~~l~~~~~~~~C~~C~~   69 (76)
T 1wem_A           17 LYC-ICRQPHNNRFMIC-CDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCTI   69 (76)
T ss_dssp             CCS-TTCCCCCSSCEEE-CSSSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHH
T ss_pred             CEE-ECCCccCCCCEEE-eCCCCCcEeCeEEccchhhhhhccCCCCeEECcCCcC
Confidence            456 9998876434444 44699999999985211         24678999964

>1wew_A DNA-binding family protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: g.50.1.2

Probab=85.38  E-value=0.23  Score=34.98  Aligned_cols=47  Identities=26%  Similarity=0.526  Sum_probs=31.2

Q ss_pred             CCccCccccccccCCCceeec-CCCCCcccHhhHHHHH---------hcCCCCCCccC
Q 026690          186 ERVSCSVCLQDFQLGETARSL-PHCHHMFHIPCIDKWL---------LGHASCPLCRR  233 (235)
Q Consensus       186 e~~~C~ICle~f~~ge~v~~L-p~C~H~FH~~CI~~WL---------~~~~sCPlCR~  233 (235)
                      +...| ||.+....+..+..- +.|..-||..|+.---         ..+..||.|+.
T Consensus        15 ~~~~C-iC~~~~~~g~MI~CD~~~C~~W~H~~CVgi~~~~~~~~~~~~~~~~C~~C~~   71 (78)
T 1wew_A           15 IKVRC-VCGNSLETDSMIQCEDPRCHVWQHVGCVILPDKPMDGNPPLPESFYCEICRL   71 (78)
T ss_dssp             CCCCC-SSCCCCCCSCEEECSSTTTCCEEEHHHHSCCCTTTCSCSCSCSSCCCHHHHH
T ss_pred             CCEEe-ECCCcCCCCCEEEECCccCCccccCEEEccccccccccccCCCCEECCCCCc
Confidence            44567 899885555444433 1599999999986321         13557999964

>2ku3_A Bromodomain-containing protein 1; PHD finger, chromatin regulator, metal-binding, finger, signaling protein; NMR {Homo sapiens}

Probab=84.90  E-value=0.28  Score=34.06  Aligned_cols=49  Identities=22%  Similarity=0.442  Sum_probs=33.5

Q ss_pred             CCCccCccccccc-cCCCceeecCCCCCcccHhhHHHHHh--cCCCCCCccC
Q 026690          185 GERVSCSVCLQDF-QLGETARSLPHCHHMFHIPCIDKWLL--GHASCPLCRR  233 (235)
Q Consensus       185 ~e~~~C~ICle~f-~~ge~v~~Lp~C~H~FH~~CI~~WL~--~~~sCPlCR~  233 (235)
                      .++..|.||.+.- ..++.....-.|.-.||..|+..-..  ..-.||.|+.
T Consensus        14 ~~~~~C~vC~~~~s~~~~~ll~CD~C~~~~H~~Cl~~~~vP~g~W~C~~C~~   65 (71)
T 2ku3_A           14 DEDAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRHCLQ   65 (71)
T ss_dssp             CSSCSCSSSCCCCCCSSSCEEECSSSCCEEEHHHHTCSSCCSSCCCCHHHHH
T ss_pred             CCCCCCCCCCCCCCCCCCCEEECCCCCCccccccCCCCcCCCCCcCCccCcC
Confidence            4457899998763 33345555567999999999985432  2335988863

>2l43_A N-teminal domain from histone H3.3, linker, PHD1 from bromodomain-containing protein...; PHD finger, histone CODE, transcription; NMR {Homo sapiens}

Probab=84.81  E-value=0.28  Score=35.50  Aligned_cols=49  Identities=22%  Similarity=0.442  Sum_probs=33.4

Q ss_pred             CCCccCccccccc-cCCCceeecCCCCCcccHhhHHHHHh--cCCCCCCccC
Q 026690          185 GERVSCSVCLQDF-QLGETARSLPHCHHMFHIPCIDKWLL--GHASCPLCRR  233 (235)
Q Consensus       185 ~e~~~C~ICle~f-~~ge~v~~Lp~C~H~FH~~CI~~WL~--~~~sCPlCR~  233 (235)
                      +++..|.||.+.- ..++.+.....|.-.||..|+..-+.  ..-.||.|+.
T Consensus        23 ~~~~~C~vC~~~~s~~~~~ll~CD~C~~~fH~~Cl~p~~vP~g~W~C~~C~~   74 (88)
T 2l43_A           23 DEDAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRHCLQ   74 (88)
T ss_dssp             CCCCCCSSCCSSSSCSEEEEEECSSSCCCCCHHHHTCSSCCSSCCCCHHHHH
T ss_pred             CCCCcCCcCCCCCCCCCCCEEECCCCCchhhcccCCCCccCCCceECccccC
Confidence            4557899998753 23334555567999999999986432  2335988853

>2xb1_A Pygopus homolog 2, B-cell CLL/lymphoma 9-like Pro; fusion protein, signal transduction, transcription, metal BI WNT proteins; 1.90A {Homo sapiens}

Probab=84.80  E-value=0.52  Score=35.13  Aligned_cols=47  Identities=23%  Similarity=0.490  Sum_probs=33.4

Q ss_pred             CccCccccccccCCCceeecC-CCCCcccHhhHHHH------H----hcCCCCCCccC
Q 026690          187 RVSCSVCLQDFQLGETARSLP-HCHHMFHIPCIDKW------L----LGHASCPLCRR  233 (235)
Q Consensus       187 ~~~C~ICle~f~~ge~v~~Lp-~C~H~FH~~CI~~W------L----~~~~sCPlCR~  233 (235)
                      ...|+||.+.+..+......- .|..-||..|+.-=      +    ..+-.||.|+.
T Consensus         3 ~~~C~iC~~p~~~~~~mi~Cdd~C~~WfH~~CVglt~~~~~~i~~~~~~~~~Cp~C~~   60 (105)
T 2xb1_A            3 VYPCGACRSEVNDDQDAILCEASCQKWFHRECTGMTESAYGLLTTEASAVWACDLCLK   60 (105)
T ss_dssp             CCBCTTTCSBCCTTSCEEECTTTTCCEEEGGGTTCCHHHHHHHHHCTTEEECCHHHHH
T ss_pred             cCCCCCCCCccCCCCCEEEecCCcccccccccCCcCHHHHHhhccCCCCCEECccccC
Confidence            357999999987665555553 69999999997521      1    03446999964

>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=83.01  E-value=0.62  Score=31.32  Aligned_cols=49  Identities=16%  Similarity=0.414  Sum_probs=34.4

Q ss_pred             CCCccCcccccccc-CCCceeecCCCCCcccHhhHHHHHh-------cCCCCCCccC
Q 026690          185 GERVSCSVCLQDFQ-LGETARSLPHCHHMFHIPCIDKWLL-------GHASCPLCRR  233 (235)
Q Consensus       185 ~e~~~C~ICle~f~-~ge~v~~Lp~C~H~FH~~CI~~WL~-------~~~sCPlCR~  233 (235)
                      .++..|.||..... .++.+.....|...||..|+.+-+.       ..-.||.|+.
T Consensus         4 ~~~~~C~vC~~~~~~~~~~ll~Cd~C~~~~H~~C~~p~l~~~~~~p~~~W~C~~C~~   60 (66)
T 2yt5_A            4 GSSGVCTICQEEYSEAPNEMVICDKCGQGYHQLCHTPHIDSSVIDSDEKWLCRQCVF   60 (66)
T ss_dssp             CCCCCBSSSCCCCCBTTBCEEECSSSCCEEETTTSSSCCCHHHHHSSCCCCCHHHHH
T ss_pred             CCCCCCCCCCCCCCCCCCCEEECCCCChHHHhhhCCCcccccccCCCCCEECCCCcC
Confidence            45678999998643 2344555667999999999886442       2346998864

>2rsd_A E3 SUMO-protein ligase SIZ1; E3 SUMO ligase, plant homeodomain (PHD), histone binding; NMR {Oryza sativa japonica group}

Probab=82.85  E-value=0.12  Score=35.52  Aligned_cols=47  Identities=21%  Similarity=0.411  Sum_probs=30.2

Q ss_pred             CCccCccccccccCCCceeec-CCCCCcccHhhHHHH---Hh-----cCCCCCCccC
Q 026690          186 ERVSCSVCLQDFQLGETARSL-PHCHHMFHIPCIDKW---LL-----GHASCPLCRR  233 (235)
Q Consensus       186 e~~~C~ICle~f~~ge~v~~L-p~C~H~FH~~CI~~W---L~-----~~~sCPlCR~  233 (235)
                      +...| ||......+..+..- +.|..-||..|+.--   ..     .+-.||.||.
T Consensus         9 ~~v~C-~C~~~~~~g~mI~CD~~~C~~W~H~~Cvgi~~~~~~~~~~p~~~~C~~Cr~   64 (68)
T 2rsd_A            9 AKVRC-ICSSTMVNDSMIQCEDQRCQVWQHLNCVLIPDKPGESAEVPPVFYCELCRL   64 (68)
T ss_dssp             CEECC-TTCCCSCCSCEEECSCTTTCEEEETTTSCCCSSTTSCCCCCSSCCCHHHHH
T ss_pred             CCEEe-ECCCCcCCCCEEEECCCCCCCeEchhhCCCCcccccccCCCCcEECcCccC
Confidence            34567 897776655555443 259999999998421   01     1356999974

>3shb_A E3 ubiquitin-protein ligase UHRF1; unmodified histone, methylation, UHRF1, PHD, ligase-NUCL protein complex; 1.80A {Homo sapiens}

Probab=82.65  E-value=0.18  Score=35.64  Aligned_cols=45  Identities=31%  Similarity=0.631  Sum_probs=29.2

Q ss_pred             cCccccccccCCCceeecCCCCCcccHhhHHHHHhc----C-CCCCCccCC
Q 026690          189 SCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG----H-ASCPLCRRD  234 (235)
Q Consensus       189 ~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~----~-~sCPlCR~~  234 (235)
                      .|.||.+.-.. +.+...-.|...||..|+++-|..    . -.||.|+.+
T Consensus        28 ~C~vC~~~~d~-~~ll~CD~C~~~yH~~Cl~PpL~~~P~g~~W~C~~C~~d   77 (77)
T 3shb_A           28 ACHLCGGRQDP-DKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPECRND   77 (77)
T ss_dssp             SBTTTCCCSCG-GGEEECTTTCCEEETTTSSSCCSSCCSSSCCCCTTTC--
T ss_pred             cCCccCCCCCC-cceeEeCCCCCccCcccCCCcccCCCCCCceECcCcccc
Confidence            46666655333 334444469999999999977653    2 469999863

>2e6s_A E3 ubiquitin-protein ligase UHRF2; PHD domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=82.46  E-value=0.27  Score=34.76  Aligned_cols=45  Identities=29%  Similarity=0.564  Sum_probs=31.6

Q ss_pred             cCccccccccCCCceeecCCCCCcccHhhHHHHHhc-----CCCCCCccCC
Q 026690          189 SCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG-----HASCPLCRRD  234 (235)
Q Consensus       189 ~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~-----~~sCPlCR~~  234 (235)
                      .|.||.+.-..+ .+...-.|...||..|+++=|..     .-.||.|+.+
T Consensus        28 ~C~vC~~~~~~~-~ll~CD~C~~~yH~~Cl~Ppl~~~P~g~~W~C~~C~~d   77 (77)
T 2e6s_A           28 SCRVCGGKHEPN-MQLLCDECNVAYHIYCLNPPLDKVPEEEYWYCPSCKTD   77 (77)
T ss_dssp             SCSSSCCCCCST-TEEECSSSCCEEETTSSSSCCSSCCCSSCCCCTTTCCC
T ss_pred             CCcCcCCcCCCC-CEEEcCCCCccccccccCCCccCCCCCCCcCCcCccCc
Confidence            788998753333 34445569999999999966542     3469999753

>1wev_A Riken cDNA 1110020M19; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, gene regulation; NMR {Mus musculus} SCOP: g.50.1.2

Probab=81.60  E-value=0.11  Score=37.66  Aligned_cols=47  Identities=26%  Similarity=0.524  Sum_probs=33.1

Q ss_pred             CccCccccccccC-CCceeecCCCCCcccHhhHHHHHh--------cCCCCCCccC
Q 026690          187 RVSCSVCLQDFQL-GETARSLPHCHHMFHIPCIDKWLL--------GHASCPLCRR  233 (235)
Q Consensus       187 ~~~C~ICle~f~~-ge~v~~Lp~C~H~FH~~CI~~WL~--------~~~sCPlCR~  233 (235)
                      +..|.||...-.. ++.+...-.|...||..|+.+-|.        ..-.||.|+.
T Consensus        16 ~~~C~vC~~~~~~~~~~ll~CD~C~~~yH~~Cl~Ppl~~~~~~~p~g~W~C~~C~~   71 (88)
T 1wev_A           16 GLACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTR   71 (88)
T ss_dssp             CCSCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHHH
T ss_pred             CCcCCCCCCCCCCCCCceEECCCCCCeEcCccCCCcccccccCCCCCCeeCccccc
Confidence            4689999976432 234555567999999999987654        2335998853

>3asl_A E3 ubiquitin-protein ligase UHRF1; histone reader module, epigenetic regulation, LI binding protein complex; 1.41A {Homo sapiens} PDB: 3sou_A 3sow_A* 3sox_A 3zvy_A 2lgg_A 2lgk_A* 2lgl_A 3t6r_A 3zvz_B

Probab=81.50  E-value=0.3  Score=33.78  Aligned_cols=45  Identities=31%  Similarity=0.631  Sum_probs=30.2

Q ss_pred             cCccccccccCCCceeecCCCCCcccHhhHHHHHhc-----CCCCCCccCC
Q 026690          189 SCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG-----HASCPLCRRD  234 (235)
Q Consensus       189 ~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~-----~~sCPlCR~~  234 (235)
                      .|.||.+.-.. +.+...-.|...||..|+++=|.+     .-.||.|+.+
T Consensus        20 ~C~~C~~~~~~-~~ll~CD~C~~~yH~~Cl~Ppl~~~P~g~~W~C~~C~~~   69 (70)
T 3asl_A           20 ACHLCGGRQDP-DKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPECRND   69 (70)
T ss_dssp             SBTTTCCCSCG-GGEEECTTTCCEEEGGGSSSCCSSCCSSSCCCCTTTSCC
T ss_pred             CCcCCCCcCCC-CCEEEcCCCCCceecccCCCCcCCCCCCCCcCCcCccCc
Confidence            45677754322 334445569999999999966553     3469999864

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

Probab=81.06  E-value=1.8  Score=31.04  Aligned_cols=40  Identities=15%  Similarity=0.388  Sum_probs=30.9

Q ss_pred             CCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhc
Q 026690          185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG  224 (235)
Q Consensus       185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~  224 (235)
                      .....|.+|.+.+++..-|..-..=+|.||-.|-...+++
T Consensus        13 ~a~l~CtlC~erLEdtHFVQCPsv~~HkFCFpCsr~sIk~   52 (93)
T 2cs3_A           13 SGPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIKA   52 (93)
T ss_dssp             CCSCCCSSSCSCCSSTTSEECSSCSSCEECHHHHHHHHHH
T ss_pred             CCeeEeecchhhhccCceeeCCCccCCeeeccccHHHHHh
Confidence            3457899999999876655543344699999999999874

>2kwj_A Zinc finger protein DPF3; acetyl-lysine, transcription regulation, nucleus, metal BIND protein; HET: ALY; NMR {Homo sapiens} PDB: 2kwk_A 2kwn_A* 2kwo_A*

Probab=80.98  E-value=0.55  Score=35.34  Aligned_cols=34  Identities=24%  Similarity=0.399  Sum_probs=23.6

Q ss_pred             ccCccccccccC------CCceeecCCCCCcccHhhHHHH
Q 026690          188 VSCSVCLQDFQL------GETARSLPHCHHMFHIPCIDKW  221 (235)
Q Consensus       188 ~~C~ICle~f~~------ge~v~~Lp~C~H~FH~~CI~~W  221 (235)
                      ..|.||+..-..      ++.......|+..||..|+..+
T Consensus         2 ~~C~~C~~~~~~n~k~g~~~~Li~C~~C~~~~H~~Cl~~~   41 (114)
T 2kwj_A            2 SYCDFCLGGSNMNKKSGRPEELVSCADCGRSGHPTCLQFT   41 (114)
T ss_dssp             CCCSSSCCBTTBCTTTCCCCCCEECSSSCCEECTTTTTCC
T ss_pred             CcCccCCCCccccccCCCCCCCeEeCCCCCccchhhCCCh
Confidence            469999876421      2344444559999999999865

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

Probab=80.22  E-value=0.57  Score=34.66  Aligned_cols=39  Identities=21%  Similarity=0.487  Sum_probs=26.8

Q ss_pred             ccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          188 VSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       188 ~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      ..||+|.++++........+.|.-.|         +++.-||-|.++|
T Consensus        33 ~~CP~Cq~eL~~~g~~~hC~~C~~~f---------~~~a~CPdC~q~L   71 (101)
T 2jne_A           33 LHCPQCQHVLDQDNGHARCRSCGEFI---------EMKALCPDCHQPL   71 (101)
T ss_dssp             CBCSSSCSBEEEETTEEEETTTCCEE---------EEEEECTTTCSBC
T ss_pred             ccCccCCCcceecCCEEECccccchh---------hccccCcchhhHH
Confidence            68999999876433333344466654         4677899998875

---

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	235
d1iyma_	55	g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sati	6e-19
d1chca_	68	g.44.1.1 (A:) Immediate early protein, IEEHV {Equi	2e-12
d3dplr1	88	g.44.1.1 (R:19-106) RIGG-box protein 1 (RBX1) of S	3e-11
d1ur6b_	52	g.44.1.1 (B:) Not-4 N-terminal RING finger domain	5e-11
d1g25a_	65	g.44.1.1 (A:) TFIIH Mat1 subunit {Human (Homo sapi	1e-10
d1fbva4	79	g.44.1.1 (A:356-434) CBL {Human (Homo sapiens) [Ta	2e-10
d1bora_	56	g.44.1.1 (A:) Acute promyelocytic leukaemia proto-	2e-09
d1v87a_	114	g.44.1.1 (A:) Deltex protein 2 RING-H2 domain {Mou	3e-08
d1jm7a_	103	g.44.1.1 (A:) brca1 RING domain {Human (Homo sapie	4e-08
d1vyxa_	60	g.44.1.3 (A:) IE1B protein (ORF K3), N-terminal do	3e-07
d1rmda2	86	g.44.1.1 (A:1-86) V(D)J recombination activating p	1e-06
d1jm7b_	97	g.44.1.1 (B:) bard1 RING domain {Human (Homo sapie	3e-06
d1wima_	94	g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA016	1e-04
d2baya1	56	g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {	7e-04

>d1iyma_ g.44.1.1 (A:) EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 4530]} Length = 55

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: EL5 RING-H2 domain
species: Rice (Oryza sativa) [TaxId: 4530]

 Score = 75.3 bits (185), Expect = 6e-19
 Identities = 25/50 (50%), Positives = 33/50 (66%)

Query: 186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235
           + V C+VCL + + GE AR LP C H FH  C+D WL  H++CPLCR  +
Sbjct: 4   DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53

>d1chca_ g.44.1.1 (A:) Immediate early protein, IEEHV {Equine herpesvirus 1 [TaxId: 10326]} Length = 68

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: Immediate early protein, IEEHV
species: Equine herpesvirus 1 [TaxId: 10326]

 Score = 58.4 bits (141), Expect = 2e-12
 Identities = 16/46 (34%), Positives = 26/46 (56%), Gaps = 3/46 (6%)

Query: 190 CSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235
           C +CL+D      + +LP C H F   CI +W+  + +CPLC+  +
Sbjct: 8   CPICLEDPS--NYSMALP-CLHAFCYVCITRWIRQNPTCPLCKVPV 50

>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 = 55.9 bits (134), Expect = 3e-11
 Identities = 14/45 (31%), Positives = 18/45 (40%)

Query: 190 CSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD 234
           C          E   +   C+H FH  CI +WL     CPL  R+
Sbjct: 38  CQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNRE 82

>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 = 54.3 bits (130), Expect = 5e-11
 Identities = 9/49 (18%), Positives = 19/49 (38%), Gaps = 1/49 (2%)

Query: 188 VSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWL-LGHASCPLCRRDL 235
           V C +C++  ++ +       C +     C  +     +  CP CR+  
Sbjct: 1   VECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPY 49

>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 = 53.6 bits (128), Expect = 1e-10
 Identities = 11/52 (21%), Positives = 17/52 (32%), Gaps = 2/52 (3%)

Query: 186 ERVSCSVCLQDFQLGETARSLP-HCHHMFHIPCIDKWL-LGHASCPLCRRDL 235
           +   C  C        + + +   C H     C+D     G  +CP C   L
Sbjct: 2   DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPL 53

>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 = 53.5 bits (128), Expect = 2e-10
 Identities = 11/47 (23%), Positives = 20/47 (42%), Gaps = 5/47 (10%)

Query: 190 CSVCLQDFQLGETARSLPHCHHMFHIPCIDKWL-LGHASCPLCRRDL 235
           C +C ++    +  +  P C H+    C+  W       CP CR ++
Sbjct: 26  CKICAEND---KDVKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEI 68

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

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

 Score = 49.9 bits (119), Expect = 2e-09
 Identities = 10/46 (21%), Positives = 17/46 (36%), Gaps = 7/46 (15%)

Query: 190 CSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235
           C  C  +    +  + LP C H     C++        CP+C+   
Sbjct: 9   CQQCQAEA---KCPKLLP-CLHTLCSGCLEAS---GMQCPICQAPW 47

>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 = 48.1 bits (113), Expect = 3e-08
 Identities = 20/93 (21%), Positives = 29/93 (31%), Gaps = 24/93 (25%)

Query: 159 SKGLTGESVDKIPKITITDKNNIDASGERVSCSVCLQDFQL--------------GETAR 204
           S G +GE    I K T   K   +       C +C++   +                   
Sbjct: 2   SSGSSGEPEQVIRKYTEELKVAPE-----EDCIICMEKLAVASGYSDMTDSKALGPMVVG 56

Query: 205 SLPHCHHMFHIPCIDKWL-----LGHASCPLCR 232
            L  C H FH+ C+          G   CP C+
Sbjct: 57  RLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCK 89

>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 = 47.8 bits (113), Expect = 4e-08
 Identities = 19/70 (27%), Positives = 35/70 (50%), Gaps = 8/70 (11%)

Query: 170 IPKITITD-KNNIDASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWL---LGH 225
           +  + + + +N I+A  + + C +CL+     +   S   C H+F   C+ K L    G 
Sbjct: 3   LSALRVEEVQNVINAMQKILECPICLELI---KEPVSTK-CDHIFCKFCMLKLLNQKKGP 58

Query: 226 ASCPLCRRDL 235
           + CPLC+ D+
Sbjct: 59  SQCPLCKNDI 68

>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 = 44.5 bits (104), Expect = 3e-07
 Identities = 9/46 (19%), Positives = 16/46 (34%), Gaps = 3/46 (6%)

Query: 190 CSVCLQDFQ-LGETARSLPHCHHMFHIPCIDKWL--LGHASCPLCR 232
           C +C ++       A          H  C+  WL    + +C +C 
Sbjct: 9   CWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICG 54

>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 = 43.0 bits (101), Expect = 1e-06
 Identities = 13/49 (26%), Positives = 19/49 (38%), Gaps = 5/49 (10%)

Query: 188 VSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWL-LGHASCPLCRRDL 235
           +SC +C               C H+F   CI + L +  + CP CR   
Sbjct: 24  ISCQICEHIL----ADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPC 68

>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 = 42.5 bits (99), Expect = 3e-06
 Identities = 11/50 (22%), Positives = 18/50 (36%), Gaps = 5/50 (10%)

Query: 186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235
           + + CS C    +       L  C H+F   C+   +     CP+C    
Sbjct: 21  KLLRCSRCTNILREPVC---LGGCEHIFCSNCVSDCI--GTGCPVCYTPA 65

>d1wima_ g.44.1.1 (A:) UbcM4-interacting protein 4 (KIAA0161) {Human (Homo sapiens) [TaxId: 9606]} Length = 94

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: RING finger domain, C3HC4
domain: UbcM4-interacting protein 4 (KIAA0161)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.1 bits (88), Expect = 1e-04
 Identities = 10/57 (17%), Positives = 21/57 (36%), Gaps = 9/57 (15%)

Query: 184 SGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHA--------SCPLCR 232
           S     C +CL ++ + +    +  C  +F   C+ +++            SCP   
Sbjct: 2   SSGSSGCKLCLGEYPVEQMTT-IAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAA 57

>d2baya1 g.44.1.2 (A:1-56) Pre-mRNA splicing factor Prp19 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 56

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]

 Score = 34.7 bits (79), Expect = 7e-04
 Identities = 5/46 (10%), Positives = 16/46 (34%), Gaps = 3/46 (6%)

Query: 190 CSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235
           C++  +           P    +F    +++++    + P+    L
Sbjct: 3   CAISGKVP---RRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPL 45

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	235
d1iyma_	55	EL5 RING-H2 domain {Rice (Oryza sativa) [TaxId: 45	99.78
d1chca_	68	Immediate early protein, IEEHV {Equine herpesvirus	99.58
d1ur6b_	52	Not-4 N-terminal RING finger domain {Human (Homo s	99.53
d3dplr1	88	RIGG-box protein 1 (RBX1) of SCF ubiquitin ligase	99.53
d1v87a_	114	Deltex protein 2 RING-H2 domain {Mouse (Mus muscul	99.49
d1g25a_	65	TFIIH Mat1 subunit {Human (Homo sapiens) [TaxId: 9	99.48
d1fbva4	79	CBL {Human (Homo sapiens) [TaxId: 9606]}	99.48
d2baya1	56	Pre-mRNA splicing factor Prp19 {Baker's yeast (Sac	99.41
d1bora_	56	Acute promyelocytic leukaemia proto-oncoprotein PM	99.3
d1rmda2	86	V(D)J recombination activating protein 1 (RAG1), d	99.28
d1jm7a_	103	brca1 RING domain {Human (Homo sapiens) [TaxId: 96	99.27
d1vyxa_	60	IE1B protein (ORF K3), N-terminal domain {Kaposi's	99.22
d1jm7b_	97	bard1 RING domain {Human (Homo sapiens) [TaxId: 96	99.12
d2c2la2	80	STIP1 homology and U box-containing protein 1, STU	99.08
d1t1ha_	78	E3 ubiquitin ligase PUB14 {Thale-cress (Arabidopsi	99.07
d1wgma_	98	Ubiquitin conjugation factor E4A {Human (Homo sapi	99.04
d1wima_	94	UbcM4-interacting protein 4 (KIAA0161) {Human (Hom	98.72
d1f62a_	51	Williams-Beuren syndrome transcription factor, WST	95.57
d1we9a_	64	PHD finger protein At5g26210 {Thale cress (Arabido	95.45
d1wila_	89	Hypothetical protein KIAA1045 {Human (Homo sapiens	92.9
d1fp0a1	70	Nuclear corepressor KAP-1 (TIF-1beta) {Human (Homo	92.41
d1mm2a_	61	Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606	92.22
d1wepa_	79	PHD finger protein 8 {Mouse (Mus musculus) [TaxId:	91.07
d1wesa_	71	PHD Inhibitor of growth protein 2, Ing2 {Mouse (Mu	90.05
d1weva_	88	PHD finger protein 22 {Mouse (Mus musculus) [TaxId	89.8
d1weea_	72	PHD finger protein At1g33420 {Thale cress (Arabido	88.22
d1rutx3	31	LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10	87.99
d1z60a1	59	TFIIH p44 subunit cysteine-rich domain {Human (Hom	87.87
d1wema_	76	Death associated transcription factor 1, Datf1 (DI	87.8
d1y02a2	51	Rififylin (FYVE-RING finger protein Sakura) {Human	84.71
d2jnea1	71	Hypothetical protein YfgJ {Escherichia coli [TaxId	84.58
d1wewa_	78	Sumoylation ligase E3, SIZ1 {Thale cress (Arabidop	84.21
d2cs3a1	80	Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [	82.43

>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=99.78  E-value=4.9e-20  Score=123.89  Aligned_cols=51  Identities=49%  Similarity=1.107  Sum_probs=47.0

Q ss_pred             CCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      +++.+|+||+++|+.++.+..+|.|+|.||..||.+|++++++||+||++|
T Consensus         3 ed~~~C~ICl~~~~~~~~~~~l~~C~H~Fh~~Ci~~Wl~~~~~CP~CR~~i   53 (55)
T d1iyma_           3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV   53 (55)
T ss_dssp             CCSCCCTTTCCCCCTTSCCEECSSSCCEECTTHHHHTTTTCCSCSSSCCCS
T ss_pred             CCCCCCeEECccccCCCEEEEeCCCCCcccHHHHHHHHHhCCcCCCCCCEe
Confidence            345689999999999999999888999999999999999999999999976

>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=99.58  E-value=3.9e-16  Score=108.61  Aligned_cols=46  Identities=35%  Similarity=0.922  Sum_probs=40.6

Q ss_pred             CccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      ..+|+||++.+..  .++.+| |+|.||..||.+|++++++||+||+++
T Consensus         5 ~d~C~IC~~~~~~--~~~~~~-C~H~Fc~~Ci~~w~~~~~~CP~CR~~i   50 (68)
T d1chca_           5 AERCPICLEDPSN--YSMALP-CLHAFCYVCITRWIRQNPTCPLCKVPV   50 (68)
T ss_dssp             CCCCSSCCSCCCS--CEEETT-TTEEESTTHHHHHHHHSCSTTTTCCCC
T ss_pred             CCCCccCCcCccC--CcEEeC-CCCcCcHHHHHHHHHhCCcCCCCCcch
Confidence            3579999999963  466678 999999999999999999999999875

>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=99.53  E-value=1e-15  Score=101.15  Aligned_cols=46  Identities=17%  Similarity=0.559  Sum_probs=39.1

Q ss_pred             cCccccccccCCCcee-ecCCCCCcccHhhHHHHHhc-CCCCCCccCCC
Q 026690          189 SCSVCLQDFQLGETAR-SLPHCHHMFHIPCIDKWLLG-HASCPLCRRDL  235 (235)
Q Consensus       189 ~C~ICle~f~~ge~v~-~Lp~C~H~FH~~CI~~WL~~-~~sCPlCR~~v  235 (235)
                      +|+||+++|..++... .++ |+|.||..||++|++. +.+||+||+++
T Consensus         2 eCpICl~~~~~~~~~~~~~~-CgH~~c~~C~~~w~~~~~~~CP~CR~~~   49 (52)
T d1ur6b_           2 ECPLCMEPLEIDDINFFPCT-CGYQICRFCWHRIRTDENGLCPACRKPY   49 (52)
T ss_dssp             EETTTTEECCGGGTTCCSSS-SSCCCCHHHHHHHTTTSCCBCTTTCCBC
T ss_pred             CCcCCChhhhCCCceEEecC-CCCccchHHHHHHHhhcCCCCCccCCcC
Confidence            6999999998776654 456 9999999999999985 55799999875

>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=99.53  E-value=1.7e-15  Score=110.45  Aligned_cols=48  Identities=31%  Similarity=0.654  Sum_probs=40.2

Q ss_pred             CccCccccccccCCC---------------ceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          187 RVSCSVCLQDFQLGE---------------TARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       187 ~~~C~ICle~f~~ge---------------~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      +..|+||++++....               .+..++ |+|.||..||++||+.+++||+||++.
T Consensus        21 ~d~C~IC~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR~~~   83 (88)
T d3dplr1          21 VDNCAICRNHIMDLCIECQANQASATSEECTVAWGV-CNHAFHFHCISRWLKTRQVCPLDNREW   83 (88)
T ss_dssp             SCCCSSSCSCTTSCCTTHHHHTTCC---CCCEEEET-TSCEEEHHHHHHHHTTCSBCSSSCSBC
T ss_pred             CCcCEEccchhhCccccccccccccccccCCeEEcc-ccCcccHHHHHHHHHHCCcCCCCCCcc
Confidence            456999999887533               245567 999999999999999999999999863

>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=99.49  E-value=5.3e-15  Score=112.15  Aligned_cols=47  Identities=23%  Similarity=0.670  Sum_probs=37.2

Q ss_pred             CccCccccccccCC---------------CceeecCCCCCcccHhhHHHHHhcC-----CCCCCccCC
Q 026690          187 RVSCSVCLQDFQLG---------------ETARSLPHCHHMFHIPCIDKWLLGH-----ASCPLCRRD  234 (235)
Q Consensus       187 ~~~C~ICle~f~~g---------------e~v~~Lp~C~H~FH~~CI~~WL~~~-----~sCPlCR~~  234 (235)
                      +..|+||++++...               ..+..++ |+|+||..||++||+.+     .+||+||..
T Consensus        25 ~~~C~IC~e~l~~~~~~~~~~~~~~~~~~~~~~~~~-CgH~FH~~Ci~~Wl~~~~~~~~~~CP~CR~~   91 (114)
T d1v87a_          25 EEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTK-CSHAFHLLCLLAMYCNGNKDGSLQCPSCKTI   91 (114)
T ss_dssp             SCEETTTTEETTSCCSTTTTCCCSSSCSSCCEEESS-SCCEECHHHHHHHHHHTCCSSCCBCTTTCCB
T ss_pred             cccccchhheecccccccccccccccccccceEECC-CCChhhHHHHHHHHHhcCcCCCCccccccch
Confidence            45799999998642               2345566 99999999999999853     489999975

>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=99.48  E-value=9.4e-15  Score=100.68  Aligned_cols=49  Identities=20%  Similarity=0.461  Sum_probs=38.6

Q ss_pred             CCccCccccccccCC-Cc-eeecCCCCCcccHhhHHHHHhc-CCCCCCccCCC
Q 026690          186 ERVSCSVCLQDFQLG-ET-ARSLPHCHHMFHIPCIDKWLLG-HASCPLCRRDL  235 (235)
Q Consensus       186 e~~~C~ICle~f~~g-e~-v~~Lp~C~H~FH~~CI~~WL~~-~~sCPlCR~~v  235 (235)
                      ++..||||++++... +. +..++ |+|.||..||.+|+.+ +.+||+||+++
T Consensus         2 dd~~CpIC~~~~~~~~~~~~~~~~-C~H~fc~~Ci~~~~~~~~~~CP~CR~~i   53 (65)
T d1g25a_           2 DDQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGAGNCPECGTPL   53 (65)
T ss_dssp             CTTCCSTTTTHHHHCSSCCEEECT-TCCCEEHHHHHHHHHTTSSSCTTTCCCC
T ss_pred             CCCCCCcCCceeecCCceEEEeCc-cChHhhHHHHHHHhCcCcCCCCCCCcCc
Confidence            356899999986543 33 34456 9999999999999965 56899999875

>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=1.3e-14  Score=103.64  Aligned_cols=45  Identities=24%  Similarity=0.761  Sum_probs=39.1

Q ss_pred             CccCccccccccCCCceeecCCCCCcccHhhHHHHHh-cCCCCCCccCCC
Q 026690          187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLL-GHASCPLCRRDL  235 (235)
Q Consensus       187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~-~~~sCPlCR~~v  235 (235)
                      ...|+||++.+..   ++.+| |||.||.+||.+|++ ++++||+||.+|
T Consensus        23 ~~~C~IC~~~~~~---~~~~~-CgH~fC~~Ci~~wl~~~~~~CP~Cr~~i   68 (79)
T d1fbva4          23 FQLCKICAENDKD---VKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEI   68 (79)
T ss_dssp             TTBCTTTSSSBCC---EECSS-SCCEECHHHHHHHHHTTCCSCTTTCCCC
T ss_pred             CCCCccCCCcCCC---eEEeC-CCCeeeHHHHHHHHHHCcCcCCCCCcCc
Confidence            3469999999875   77888 999999999999998 457899999875

>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=99.41  E-value=3.3e-14  Score=95.13  Aligned_cols=44  Identities=11%  Similarity=0.270  Sum_probs=39.6

Q ss_pred             cCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          189 SCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       189 ~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      .|+||++.+++   ...++.|||+||.+||.+||+++++||+||+++
T Consensus         2 ~C~Ic~~~~~~---Pv~~~~cGh~fc~~cI~~~l~~~~~CP~c~~~l   45 (56)
T d2baya1           2 LCAISGKVPRR---PVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPL   45 (56)
T ss_dssp             CCTTTCSCCSS---EEEETTTTEEEEHHHHHHHHHHHSBCTTTCCBC
T ss_pred             CCccCCchHHh---cCccCCCCCcccHHHHHHHHhhccCCCccCCcC
Confidence            59999999975   666767999999999999999999999999875

>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=99.30  E-value=1.6e-13  Score=91.81  Aligned_cols=43  Identities=23%  Similarity=0.694  Sum_probs=37.1

Q ss_pred             CCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       186 e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      +...|+||++.|..   ++.+| |+|+||..||++|   +.+||+||+++
T Consensus         5 ~~l~C~IC~~~~~~---p~~lp-CgH~fC~~Ci~~~---~~~CP~Cr~~~   47 (56)
T d1bora_           5 QFLRCQQCQAEAKC---PKLLP-CLHTLCSGCLEAS---GMQCPICQAPW   47 (56)
T ss_dssp             CCSSCSSSCSSCBC---CSCST-TSCCSBTTTCSSS---SSSCSSCCSSS
T ss_pred             CCCCCcccCcccCC---CEEec-CCCHHhHHHHHcC---CCcCcCCCCcc
Confidence            34689999999975   67788 9999999999875   67899999875

>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=99.28  E-value=9.6e-13  Score=95.41  Aligned_cols=45  Identities=29%  Similarity=0.606  Sum_probs=39.0

Q ss_pred             CccCccccccccCCCceeecCCCCCcccHhhHHHHHhc-CCCCCCccCCC
Q 026690          187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG-HASCPLCRRDL  235 (235)
Q Consensus       187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~-~~sCPlCR~~v  235 (235)
                      ...|+||++.++.   +..+| |||+||..||.+|++. +.+||+||.++
T Consensus        23 ~l~C~IC~~~~~~---pv~~~-CgH~FC~~Ci~~~~~~~~~~CP~Cr~p~   68 (86)
T d1rmda2          23 SISCQICEHILAD---PVETS-CKHLFCRICILRCLKVMGSYCPSCRYPC   68 (86)
T ss_dssp             HTBCTTTCSBCSS---EEECT-TSCEEEHHHHHHHHHHTCSBCTTTCCBC
T ss_pred             CcCCccCCcchhc---ceecC-CCChhhHHHHHHHHhhCCCcCcccCCCC
Confidence            3689999999975   77788 9999999999999974 56899999864

>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=99.27  E-value=9.7e-13  Score=97.93  Aligned_cols=45  Identities=33%  Similarity=0.783  Sum_probs=38.4

Q ss_pred             CccCccccccccCCCceeecCCCCCcccHhhHHHHHhcC---CCCCCccCCC
Q 026690          187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGH---ASCPLCRRDL  235 (235)
Q Consensus       187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~---~sCPlCR~~v  235 (235)
                      ...|+||++.|+.   +..+| |||+||..||.+|+.++   .+||+||.++
T Consensus        21 ~l~CpIC~~~~~~---pv~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~   68 (103)
T d1jm7a_          21 ILECPICLELIKE---PVSTK-CDHIFCKFCMLKLLNQKKGPSQCPLCKNDI   68 (103)
T ss_dssp             HTSCSSSCCCCSS---CCBCT-TSCCCCSHHHHHHHHSSSSSCCCTTTSCCC
T ss_pred             CcCCCccCchhCC---eEEcC-CCCchhhHHHHHHHHHCCCCCcCcCCCCcC
Confidence            3679999999975   56688 99999999999999765   3799999864

>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=99.22  E-value=2.9e-12  Score=86.41  Aligned_cols=51  Identities=16%  Similarity=0.419  Sum_probs=37.0

Q ss_pred             CCCccCccccccccCCCcee-ecCCCCCcccHhhHHHHHh--cCCCCCCccCCC
Q 026690          185 GERVSCSVCLQDFQLGETAR-SLPHCHHMFHIPCIDKWLL--GHASCPLCRRDL  235 (235)
Q Consensus       185 ~e~~~C~ICle~f~~ge~v~-~Lp~C~H~FH~~CI~~WL~--~~~sCPlCR~~v  235 (235)
                      ++...|+||++++....... ....|+|+||..||.+|+.  ++.+||+||++.
T Consensus         4 ed~~~C~IC~~~~~~~~~~~c~c~~c~h~~H~~Cl~~W~~~~~~~~CP~Cr~~~   57 (60)
T d1vyxa_           4 EDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVVY   57 (60)
T ss_dssp             CSCCEETTTTEECSCCCCCSCCCSSGGGSCCHHHHHHHHHHHTCSBCTTTCCBC
T ss_pred             CCCCCCccCCccCCCceeEecccCCCCCEEcHHHHHHHHhhCCCCCCcccCCee
Confidence            34568999999986532211 1123569999999999996  456899999863

>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=99.12  E-value=4.2e-12  Score=93.42  Aligned_cols=44  Identities=25%  Similarity=0.638  Sum_probs=35.5

Q ss_pred             CccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      ...|+||++.|..   ...++.|||.||..||.+|+.  .+||.||.++
T Consensus        22 ~l~C~IC~~~~~~---pv~~~~CgH~fC~~Ci~~~~~--~~CP~Cr~~~   65 (97)
T d1jm7b_          22 LLRCSRCTNILRE---PVCLGGCEHIFCSNCVSDCIG--TGCPVCYTPA   65 (97)
T ss_dssp             TTSCSSSCSCCSS---CBCCCSSSCCBCTTTGGGGTT--TBCSSSCCBC
T ss_pred             cCCCccCCchhhc---CceeCCCCCchhHHHHHHHHh--ccccccCCcC
Confidence            4689999999974   344433999999999999984  4699999764

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

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

Probab=99.08  E-value=4e-11  Score=85.08  Aligned_cols=47  Identities=13%  Similarity=0.135  Sum_probs=40.5

Q ss_pred             CCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhc-CCCCCCccCCC
Q 026690          185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG-HASCPLCRRDL  235 (235)
Q Consensus       185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~-~~sCPlCR~~v  235 (235)
                      .++..|+||++-|.+   +..+| |||+|+..||.+|+.+ +.+||+||.++
T Consensus         5 P~~l~CpIc~~l~~d---Pv~~~-cGhtfc~~ci~~~l~~~~~~cP~c~~~l   52 (80)
T d2c2la2           5 PDYLCGKISFELMRE---PCITP-SGITYDRKDIEEHLQRVGHFNPVTRSPL   52 (80)
T ss_dssp             CSTTBCTTTCSBCSS---EEECS-SCCEEETTHHHHHHHHTCSSCTTTCCCC
T ss_pred             CccccCcCcCchhhh---hcccC-CcCeecHHHHHHHHhcCCccCCCccccc
Confidence            456899999999986   66788 9999999999999975 55799999864

>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=99.07  E-value=5.1e-11  Score=84.06  Aligned_cols=47  Identities=21%  Similarity=0.444  Sum_probs=40.5

Q ss_pred             CCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcC-CCCCCccCCC
Q 026690          185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGH-ASCPLCRRDL  235 (235)
Q Consensus       185 ~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~-~sCPlCR~~v  235 (235)
                      .++..|+||++.|.+   ..+++ |||.|++.||.+|++.+ .+||.||.++
T Consensus         6 P~~l~CpIc~~~m~d---PV~~~-cgh~fc~~ci~~~~~~~~~~cP~~~~~l   53 (78)
T d1t1ha_           6 PEYFRCPISLELMKD---PVIVS-TGQTYERSSIQKWLDAGHKTCPKSQETL   53 (78)
T ss_dssp             SSSSSCTTTSCCCSS---EEEET-TTEEEEHHHHHHHHTTTCCBCTTTCCBC
T ss_pred             CccCCCcCcCchhhC---ceEcc-CCCcchHHHHHHHHHHCCCCCCcccccC
Confidence            356899999999986   66788 99999999999999864 5799999864

>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=99.04  E-value=1.1e-10  Score=86.16  Aligned_cols=49  Identities=16%  Similarity=0.149  Sum_probs=42.7

Q ss_pred             CCCCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          184 SGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       184 ~~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      ..++..||||++-|.+   +.++|.|+|.|+..||.+||+++.+||+||.++
T Consensus        19 ~P~~f~CPI~~~lm~d---PV~~~~~~~ty~r~~I~~~l~~~~~~P~~~~~l   67 (98)
T d1wgma_          19 ACDEFLDPIMSTLMCD---PVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPL   67 (98)
T ss_dssp             CCTTTBCTTTCSBCSS---EEECTTTCCEEEHHHHHHHTTTSCBCTTTCSBC
T ss_pred             CcHHhCCcCchhHHHH---HHhcccccchhhHHHHHHHHHhcCCcccccccc
Confidence            3456899999999997   778885667999999999999999999999875

>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=98.72  E-value=2.4e-09  Score=77.54  Aligned_cols=46  Identities=20%  Similarity=0.576  Sum_probs=36.6

Q ss_pred             CCccCccccccccCCCceeecCCCCCcccHhhHHHHHhcC--------CCCCCcc
Q 026690          186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGH--------ASCPLCR  232 (235)
Q Consensus       186 e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~--------~sCPlCR  232 (235)
                      ...+|+||++++...+.+..++ |+|.||.+|+..|++.+        -+||.|+
T Consensus         4 ~~~~C~IC~~~~~~~~~~~~~~-C~H~fC~~Cl~~~~~~~i~~~~~~~i~CP~~~   57 (94)
T d1wima_           4 GSSGCKLCLGEYPVEQMTTIAQ-CQCIFCTLCLKQYVELLIKEGLETAISCPDAA   57 (94)
T ss_dssp             SBCCCSSSCCCCBGGGEEEETT-TTEEEEHHHHHHHHHHHHHHCSCCCEECSCTT
T ss_pred             CCCcCccCCCcccCCceEEECC-CCCEeCCcCHHHHHHHHHhcCCccccCCcCCC
Confidence            3468999999998766666666 99999999999999621        2599853

>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=95.57  E-value=0.0026  Score=39.81  Aligned_cols=44  Identities=25%  Similarity=0.566  Sum_probs=32.4

Q ss_pred             cCccccccccCCCceeecCCCCCcccHhhHHHHHhcC----CCCCCccC
Q 026690          189 SCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGH----ASCPLCRR  233 (235)
Q Consensus       189 ~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~----~sCPlCR~  233 (235)
                      .|.||...-..++ +..-..|...||..|+++-+...    -.||.||.
T Consensus         2 ~C~vC~~~~~~~~-~i~Cd~C~~~~H~~C~~p~~~~~p~~~W~C~~C~~   49 (51)
T d1f62a_           2 RCKVCRKKGEDDK-LILCDECNKAFHLFCLRPALYEVPDGEWQCPACQP   49 (51)
T ss_dssp             CCTTTCCSSCCSC-CEECTTTCCEECHHHHCTTCCSCCSSCCSCTTTSC
T ss_pred             CCcCcCCCCCCCC-EEEcCCCCCCCCCCCCCCCCCcCCCCCEECcCCcC
Confidence            5889977654433 44455699999999999877532    35999986

>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=95.45  E-value=0.0012  Score=43.40  Aligned_cols=48  Identities=21%  Similarity=0.442  Sum_probs=35.9

Q ss_pred             CCccCccccccccCCCceeecCCCCCcccHhhHHHHHh-----cCCCCCCccC
Q 026690          186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLL-----GHASCPLCRR  233 (235)
Q Consensus       186 e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~-----~~~sCPlCR~  233 (235)
                      ....|.+|.+....++.......|+..||..|+..=..     .+-.||.|+.
T Consensus         5 ~~~~C~~C~~~~~~~~~~I~Cd~C~~w~H~~C~~~~~~~~~~~~~w~C~~C~~   57 (64)
T d1we9a_           5 SSGQCGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSN   57 (64)
T ss_dssp             SCCCCSSSCCCCCSSSCEEECSSSCCEEETTTTTCCTTGGGGCSSCCCHHHHT
T ss_pred             CCCcCcCcCCCCCCCCCEEEcCCCCccCCcccCCcChHHCCCCCeEECcCCcC
Confidence            45689999998877776566667999999999863211     3457999965

>d1wila_ g.50.1.3 (A:) Hypothetical protein KIAA1045 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: variant PHD-like domain
domain: Hypothetical protein KIAA1045
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.90  E-value=0.046  Score=37.63  Aligned_cols=36  Identities=19%  Similarity=0.451  Sum_probs=27.3

Q ss_pred             CCCCccCccccccccCCCceeecCCCCCcccHhhHHHH
Q 026690          184 SGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKW  221 (235)
Q Consensus       184 ~~e~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~W  221 (235)
                      ...|..|.|| +.|...+..-.- .|+.+||..|+.+-
T Consensus        12 v~~D~mC~vC-~v~t~~~l~pCR-vCtRv~H~~CL~r~   47 (89)
T d1wila_          12 VVNDEMCDVC-EVWTAESLFPCR-VCTRVFHDGCLRRM   47 (89)
T ss_dssp             CCCSCCCTTT-CCCCSSCCSSCS-SSSSCCCHHHHHHH
T ss_pred             CCcCcccccc-Ccccccceecce-eecchhhHHHHHHh
Confidence            4456789999 778765554322 38999999999986

>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=92.41  E-value=0.017  Score=38.41  Aligned_cols=42  Identities=31%  Similarity=0.617  Sum_probs=29.9

Q ss_pred             ccCccccccccCCCceeecCCCCCcccHhhHHHHHhcC----CCCCCccC
Q 026690          188 VSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGH----ASCPLCRR  233 (235)
Q Consensus       188 ~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~----~sCPlCR~  233 (235)
                      ..|.||.+   .++ +...-.|...||..|+.+.+...    -.||.|+.
T Consensus         8 ~~C~~C~~---~~~-ll~Cd~C~~~~H~~C~~p~l~~~p~~~W~C~~C~~   53 (70)
T d1fp0a1           8 TICRVCQK---PGD-LVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHV   53 (70)
T ss_dssp             SCCSSSCS---SSC-CEECTTSSCEECTTSSSTTCCCCCSSSCCCCSCCC
T ss_pred             CCCCCCCC---cCE-EEECCCCChhhccccCCCCcCcCCCCCEECcCCcC
Confidence            45777754   344 44445699999999999887643    35999975

>d1mm2a_ g.50.1.2 (A:) Mi2-beta (CHD4) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: Mi2-beta (CHD4)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.22  E-value=0.016  Score=37.39  Aligned_cols=44  Identities=30%  Similarity=0.555  Sum_probs=31.3

Q ss_pred             CccCccccccccCCCceeecCCCCCcccHhhHHHHHhc----CCCCCCccCC
Q 026690          187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG----HASCPLCRRD  234 (235)
Q Consensus       187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~----~~sCPlCR~~  234 (235)
                      +.-|.+|.+   .++ +.....|.-.||..|+...+..    +-.||.|+..
T Consensus         9 ~~~C~~C~~---~g~-lv~Cd~C~~~~H~~C~~~~~~~~~~~~W~C~~C~~~   56 (61)
T d1mm2a_           9 MEFCRVCKD---GGE-LLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTCP   56 (61)
T ss_dssp             CSSCTTTCC---CSS-CBCCSSSCCCBCSSSSSSCCSSCCSSCCCCTTTTTT
T ss_pred             cCCCcCCCC---CCe-EEEeCCCCccCchhhcCCCcCcCCCCcEECCCCcCc
Confidence            346999975   344 4444569999999999876653    3369999753

>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=91.07  E-value=0.14  Score=34.38  Aligned_cols=46  Identities=20%  Similarity=0.425  Sum_probs=33.0

Q ss_pred             ccCccccccccCCCceeecCCCCCcccHhhHH--HHHh---cCCCCCCccC
Q 026690          188 VSCSVCLQDFQLGETARSLPHCHHMFHIPCID--KWLL---GHASCPLCRR  233 (235)
Q Consensus       188 ~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~--~WL~---~~~sCPlCR~  233 (235)
                      ..|.||.+.+..++.......|.--||..|+.  ..-.   .+-.||.|+.
T Consensus        12 pv~CiC~~~~~~~~~mI~Cd~C~~W~H~~C~g~~~~~~~~~~~~~C~~C~~   62 (79)
T d1wepa_          12 PVYCLCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEA   62 (79)
T ss_dssp             CCCSTTSCSCCSSSCEEEBTTTCCEEEHHHHTCCHHHHTTCSBBCCTTTTT
T ss_pred             CeEeECCCccCCCCcEEECCCCCCcEeccccCcchhcCCCCCEEECccCcC
Confidence            34559998877666566666799999999985  2222   2357999986

>d1wesa_ g.50.1.2 (A:) PHD Inhibitor of growth protein 2, Ing2 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: PHD domain
domain: PHD Inhibitor of growth protein 2, Ing2
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=90.05  E-value=0.084  Score=35.12  Aligned_cols=43  Identities=33%  Similarity=0.638  Sum_probs=26.1

Q ss_pred             cCccccccccCCCceee-cCCCC-CcccHhhHHHHHhc----CCCCCCccCC
Q 026690          189 SCSVCLQDFQLGETARS-LPHCH-HMFHIPCIDKWLLG----HASCPLCRRD  234 (235)
Q Consensus       189 ~C~ICle~f~~ge~v~~-Lp~C~-H~FH~~CI~~WL~~----~~sCPlCR~~  234 (235)
                      .+.||.+... ++.+.. -.+|. .-||..|+.  |..    +-.||.||..
T Consensus        17 ~~CiC~~~~~-~~~i~c~~~~C~~~wfH~~Cvg--l~~~p~~~w~C~~C~~~   65 (71)
T d1wesa_          17 TYCLCNQVSY-GEMIGCDNEQCPIEWFHFSCVS--LTYKPKGKWYCPKCRGD   65 (71)
T ss_dssp             CCSTTCCCCC-SSEECCSCTTCSCCCEETTTTT--CSSCCSSCCCCTTTSSC
T ss_pred             CEEEeCCCCC-CCEEEEECCCCCCcCccCccCC--CCcCCCCcEECcCCccc
Confidence            3449997643 333333 22455 469999985  332    3369999863

>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=89.80  E-value=0.019  Score=39.66  Aligned_cols=47  Identities=26%  Similarity=0.558  Sum_probs=32.0

Q ss_pred             CccCccccccccC-CCceeecCCCCCcccHhhHHHHHh----c----CCCCCCccC
Q 026690          187 RVSCSVCLQDFQL-GETARSLPHCHHMFHIPCIDKWLL----G----HASCPLCRR  233 (235)
Q Consensus       187 ~~~C~ICle~f~~-ge~v~~Lp~C~H~FH~~CI~~WL~----~----~~sCPlCR~  233 (235)
                      ...|.||...... +..+.....|...||..|+.+.+.    .    .-.||.|+.
T Consensus        16 ~~~C~iC~~~~~~~~~~~v~Cd~C~~~~H~~C~~p~~~~~~~~~~~~~W~C~~C~~   71 (88)
T d1weva_          16 GLACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTR   71 (88)
T ss_dssp             CCSCSSSCCCCCCTTCCEEECSSSCCEEETTTSSSCCCHHHHHCTTCCCCCHHHHH
T ss_pred             cCCccCCCCccCCCCCeEEEcCCCCCccccccCCCcccccccccCCCeEECcccCc
Confidence            4579999875443 234555566999999999875432    1    346999953

>d1weea_ g.50.1.2 (A:) PHD finger protein At1g33420 {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 At1g33420
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=88.22  E-value=0.033  Score=36.91  Aligned_cols=45  Identities=24%  Similarity=0.350  Sum_probs=32.4

Q ss_pred             ccCccccccccCCCceeecCCCCCcccHhhHHHHHh----cCCCCCCccC
Q 026690          188 VSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLL----GHASCPLCRR  233 (235)
Q Consensus       188 ~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~----~~~sCPlCR~  233 (235)
                      ..| ||......++.......|...||..|+..-..    ..-.||.|+.
T Consensus        17 ~~C-~C~~~~~~~~~mv~Cd~C~~w~H~~C~g~~~~~~~~~~~~C~~C~~   65 (72)
T d1weea_          17 VDC-KCGTKDDDGERMLACDGCGVWHHTRCIGINNADALPSKFLCFRCIE   65 (72)
T ss_dssp             ECC-TTCCCSCCSSCEEECSSSCEEEETTTTTCCTTSCCCSCCCCHHHHH
T ss_pred             EEe-eCCCCcCCCCeEEEeCCCCCcCchhhcCCccccCCCCcEECcCCcC
Confidence            457 89887777766666677999999999864222    3446999864

>d1rutx3 g.39.1.3 (X:83-113) LIM only 4 (Lmo4) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Glucocorticoid receptor-like (DNA-binding domain)
superfamily: Glucocorticoid receptor-like (DNA-binding domain)
family: LIM domain
domain: LIM only 4 (Lmo4)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=87.99  E-value=0.11  Score=29.07  Aligned_cols=29  Identities=24%  Similarity=0.555  Sum_probs=25.4

Q ss_pred             ccCccccccccCCCceeecCCCCCcccHhhH
Q 026690          188 VSCSVCLQDFQLGETARSLPHCHHMFHIPCI  218 (235)
Q Consensus       188 ~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI  218 (235)
                      ..|+-|.+.+...|-|+.--  +++||..|.
T Consensus         3 g~Ca~C~~~I~~~e~VmRA~--~~VyHl~CF   31 (31)
T d1rutx3           3 GACSACGQSIPASELVMRAQ--GNVYHLKCF   31 (31)
T ss_dssp             EECTTTCCEECTTSEEEEET--TEEECGGGC
T ss_pred             cccccccCcCChhHhheecc--cceeeeccC
Confidence            36999999999999998875  899999983

>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=87.87  E-value=0.16  Score=32.56  Aligned_cols=44  Identities=20%  Similarity=0.389  Sum_probs=32.6

Q ss_pred             CccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCc
Q 026690          187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLC  231 (235)
Q Consensus       187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlC  231 (235)
                      ...|-=|+..+.. +.+...|+|++.|+.+|=.---+.-.+||-|
T Consensus        15 ~~~C~gC~~~l~~-~~~y~C~~C~~~FC~dCD~fiHe~lh~CpgC   58 (59)
T d1z60a1          15 ERFCYGCQGELKD-QHVYVCAVCQNVFCVDCDVFVHDSLHSCPGC   58 (59)
T ss_dssp             CCEETTTTEECTT-SEEECCTTTTCCBCHHHHHTTTTTSCSSSTT
T ss_pred             CCCccCCCCcCCC-CceEECcCCCCccccccchhhhhhhcCCCCC
Confidence            3579999998864 4556688899999999954333345679988

>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=87.80  E-value=0.25  Score=32.53  Aligned_cols=44  Identities=25%  Similarity=0.505  Sum_probs=29.5

Q ss_pred             ccCccccccccCCCceeecCCCCCcccHhhHH----HH--H---hcCCCCCCccC
Q 026690          188 VSCSVCLQDFQLGETARSLPHCHHMFHIPCID----KW--L---LGHASCPLCRR  233 (235)
Q Consensus       188 ~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~----~W--L---~~~~sCPlCR~  233 (235)
                      ..| ||.+....+. ......|.-.||..|+.    ..  .   ..+-.||.|+.
T Consensus        17 ~~C-iC~~~~~~~~-mi~Cd~C~~w~H~~Cvg~~~~~~~~~~~~~~~w~C~~C~~   69 (76)
T d1wema_          17 LYC-ICRQPHNNRF-MICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCTI   69 (76)
T ss_dssp             CCS-TTCCCCCSSC-EEECSSSCCEEEHHHHSCCHHHHHHHHHHTCCCCCHHHHH
T ss_pred             CEE-ECCCccCCCe-EEEECCCCCcCCccccCCCcccccccCCCCCcEECCCCcC
Confidence            457 8987765444 44455699999999982    11  1   23468999963

>d1y02a2 g.50.1.1 (A:20-70) Rififylin (FYVE-RING finger protein Sakura) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: FYVE/PHD zinc finger
superfamily: FYVE/PHD zinc finger
family: FYVE, a phosphatidylinositol-3-phosphate binding domain
domain: Rififylin (FYVE-RING finger protein Sakura)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.71  E-value=0.038  Score=34.58  Aligned_cols=44  Identities=25%  Similarity=0.541  Sum_probs=30.9

Q ss_pred             cCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCcc
Q 026690          189 SCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCR  232 (235)
Q Consensus       189 ~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR  232 (235)
                      .|.+|...|..-..-..-..||++|+..|..+.-.....|..|.
T Consensus         2 ~C~~C~~~F~~~~rkhhCr~CG~~fC~~Cs~~~~~~~RvC~~C~   45 (51)
T d1y02a2           2 SCKSCGAHFANTARKQTCLDCKKNFCMTCSSQVGNGPRLCLLCQ   45 (51)
T ss_dssp             CCTTTCCCCSSGGGCEECTTTCCEECGGGEEC----CCEEHHHH
T ss_pred             CccccCCcccCCccCcccccCCcccCccccCCCCCCCeECHhHh
Confidence            58999999986555555567999999999776555555677764

>d2jnea1 g.41.18.1 (A:1-71) Hypothetical protein YfgJ {Escherichia coli [TaxId: 562]}

class: Small proteins
fold: Rubredoxin-like
superfamily: YfgJ-like
family: YfgJ-like
domain: Hypothetical protein YfgJ
species: Escherichia coli [TaxId: 562]

Probab=84.58  E-value=0.16  Score=33.72  Aligned_cols=39  Identities=21%  Similarity=0.487  Sum_probs=26.7

Q ss_pred             ccCccccccccCCCceeecCCCCCcccHhhHHHHHhcCCCCCCccCCC
Q 026690          188 VSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL  235 (235)
Q Consensus       188 ~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~~~sCPlCR~~v  235 (235)
                      ..||.|..+++..........|...|         +.+..||-|+++|
T Consensus         3 ~~CP~C~~eL~~~~~~~~C~~C~~~~---------~~~a~CPdC~~~L   41 (71)
T d2jnea1           3 LHCPQCQHVLDQDNGHARCRSCGEFI---------EMKALCPDCHQPL   41 (71)
T ss_dssp             CBCSSSCSBEEEETTEEEETTTCCEE---------EEEEECTTTCSBC
T ss_pred             CcCCCccCcccccCCCEehhhhhhhh---------eeEEeCCccccHH
Confidence            57999998887643344444577666         3566788888765

>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=84.21  E-value=0.5  Score=31.35  Aligned_cols=46  Identities=26%  Similarity=0.571  Sum_probs=30.5

Q ss_pred             CccCccccccccCCCceeec-CCCCCcccHhhHHH----HHh-----cCCCCCCccC
Q 026690          187 RVSCSVCLQDFQLGETARSL-PHCHHMFHIPCIDK----WLL-----GHASCPLCRR  233 (235)
Q Consensus       187 ~~~C~ICle~f~~ge~v~~L-p~C~H~FH~~CI~~----WL~-----~~~sCPlCR~  233 (235)
                      ...| ||.+....+..+..- ..|..-||..|+.-    .-.     .+-.||.|+.
T Consensus        16 ~~~C-~C~~~~~~~~~i~c~c~~C~~W~H~~Cvgi~~~~~~~~~~~~~~~~C~~C~~   71 (78)
T d1wewa_          16 KVRC-VCGNSLETDSMIQCEDPRCHVWQHVGCVILPDKPMDGNPPLPESFYCEICRL   71 (78)
T ss_dssp             CCCC-SSCCCCCCSCEEECSSTTTCCEEEHHHHSCCCTTTCSCSCSCSSCCCHHHHH
T ss_pred             ccEe-ECCCccCCCcEEEEeCCCCCcCCCccccCccccccccccCCCCEEECCCCcC
Confidence            4567 999887655544432 25999999999842    111     1357999964

>d2cs3a1 g.44.1.3 (A:8-87) Protein c14orf4 (KIAA1865) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: RING/U-box
superfamily: RING/U-box
family: Variant RING domain
domain: Protein c14orf4 (KIAA1865)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.43  E-value=0.52  Score=31.24  Aligned_cols=38  Identities=16%  Similarity=0.411  Sum_probs=29.9

Q ss_pred             CccCccccccccCCCceeecCCCCCcccHhhHHHHHhc
Q 026690          187 RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLG  224 (235)
Q Consensus       187 ~~~C~ICle~f~~ge~v~~Lp~C~H~FH~~CI~~WL~~  224 (235)
                      ...|.+|.+.+++..-|..-..=+|.||-.|-...+++
T Consensus         8 ~l~CtlC~erLEdtHFVQCPsv~~HkFCFpCsr~sik~   45 (80)
T d2cs3a1           8 PLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIKA   45 (80)
T ss_dssp             SCCCSSSCSCCSSTTSEECSSCSSCEECHHHHHHHHHH
T ss_pred             ceeeeeehhhhcCCceEeCCCCcCCceeccccHHHHHh
Confidence            47899999999876655543344699999999999874